Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 41 of 93
Found at i:5040206 original size:65 final size:65
Alignment explanation
Indices: 5040131--5040262 Score: 183
Period size: 65 Copynumber: 2.0 Consensus size: 65
5040121 TTTTAAAAAT
* * ** * *
5040131 AAATTCTTCAATAATTTAATAAGATTTTTTAAATTTAATTTTAAAAATTATTTTTAAATTCATAA
1 AAATTCTTCAATAATTTAATAAAATTTTATAAATTTAACCTCAAAAATTATTTTTAAACTCATAA
* * *
5040196 AAATTCTTCAATAATTTGATAAAATTTTATGAATTTAACCTCAAAAATTATTTTTAAGCTCATAA
1 AAATTCTTCAATAATTTAATAAAATTTTATAAATTTAACCTCAAAAATTATTTTTAAACTCATAA
5040261 AA
1 AA
5040263 TTTTCCACTA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.45
Consensus pattern (65 bp):
AAATTCTTCAATAATTTAATAAAATTTTATAAATTTAACCTCAAAAATTATTTTTAAACTCATAA
Found at i:5040625 original size:15 final size:15
Alignment explanation
Indices: 5040609--5040637 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5040599 TTAAAATTAT
5040609 TTTCAAAA-AATAAA
1 TTTCAAAACAATAAA
5040623 TTTCAAAACAATAAA
1 TTTCAAAACAATAAA
5040638 ATTCTCTATA
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:0.10, G:0.00, T:0.28
Consensus pattern (15 bp):
TTTCAAAACAATAAA
Found at i:5042531 original size:21 final size:20
Alignment explanation
Indices: 5042506--5042546 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
5042496 AGAATACTAG
*
5042506 GAATAGTGGGAATAGTTGTGA
1 GAATACTGGGAATAG-TGTGA
5042527 GAATACTGGGAATAGTGTGA
1 GAATACTGGGAATAGTGTGA
5042547 ATAGTTATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.34, C:0.02, G:0.37, T:0.27
Consensus pattern (20 bp):
GAATACTGGGAATAGTGTGA
Found at i:5042531 original size:30 final size:30
Alignment explanation
Indices: 5042496--5042552 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
5042486 GAGTGATAGT
5042496 AGAATACTAGGAATAGTGGGAATAGTTGTG
1 AGAATACTAGGAATAGTGGGAATAGTTGTG
* *
5042526 AGAATACTGGGAATAGTGTGAATAGTT
1 AGAATACTAGGAATAGTGGGAATAGTT
5042553 ATACGATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.32, T:0.28
Consensus pattern (30 bp):
AGAATACTAGGAATAGTGGGAATAGTTGTG
Found at i:5052873 original size:51 final size:52
Alignment explanation
Indices: 5052818--5052941 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 52
5052808 ATCTTAATAA
*
5052818 GAATTAATTCTGAAATTAAATTTAAAAAATCTCTC-AACATCATTTTAATGT
1 GAATTGATTCTGAAATTAAATTTAAAAAATCTCTCAAACATCATTTTAATGT
* * **
5052869 GAATTGACTATGTGATTAAATTTAAAAAATCTCTCAAACATCATTTTAATGT
1 GAATTGATTCTGAAATTAAATTTAAAAAATCTCTCAAACATCATTTTAATGT
5052921 GAATTGATTCTGAAATTAAAT
1 GAATTGATTCTGAAATTAAAT
5052942 CCTTTTACTA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
51 30 0.48
52 33 0.52
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (52 bp):
GAATTGATTCTGAAATTAAATTTAAAAAATCTCTCAAACATCATTTTAATGT
Found at i:5053046 original size:3 final size:3
Alignment explanation
Indices: 5053038--5053227 Score: 144
Period size: 3 Copynumber: 64.7 Consensus size: 3
5053028 AAAAGAAAAT
*
5053038 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA TAA AAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* * * *
5053083 TAA T-A TAA T-A TAA TACT TGA TAA T-A TTA TAA TAA TAA TAA -GA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
5053125 TAA T-A TAA TAA TAA TAA T-A TAA TAA TATA TTA TAC T-A TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* ** * * *
5053168 TATA TAC TTG TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA AAA CAA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
5053214 TGA TAA CAA TAA TA
1 TAA TAA TAA TAA TA
5053228 TAAAAATTGA
Statistics
Matches: 146, Mismatches: 29, Indels: 24
0.73 0.15 0.12
Matches are distributed among these distances:
2 14 0.10
3 123 0.84
4 9 0.06
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5053542 original size:56 final size:55
Alignment explanation
Indices: 5053405--5053544 Score: 147
Period size: 55 Copynumber: 2.5 Consensus size: 55
5053395 AGGTGATCTG
* * * * *
5053405 GACCAAGCCGAGATTGAACAACCTA-GATTAAATCGTAAGTTTGGAAAATGATATG
1 GACCAAGCCGAGATTGAACGACC-AGGATTAAACCGCAAGTTTGAAAAATGATATA
** * * *
5053460 GACCAAGCCGTTATCGAACGATCAGGATTAAACCGCGAGTTTGAAAAATTGATATA
1 GACCAAGCCGAGATTGAACGACCAGGATTAAACCGCAAGTTTGAAAAA-TGATATA
* *
5053516 GACTAAGCTGAGATTGAACGACCAGGATT
1 GACCAAGCCGAGATTGAACGACCAGGATT
5053545 GAATTGCAAG
Statistics
Matches: 67, Mismatches: 16, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
54 1 0.01
55 37 0.55
56 29 0.43
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (55 bp):
GACCAAGCCGAGATTGAACGACCAGGATTAAACCGCAAGTTTGAAAAATGATATA
Found at i:5053942 original size:60 final size:60
Alignment explanation
Indices: 5053816--5053952 Score: 168
Period size: 60 Copynumber: 2.3 Consensus size: 60
5053806 GAATGACCAT
** * * **
5053816 GATTGAACCATGAGTCAGAAAGATGATCTGGATTGAGTCGAGATCAAAACAAGTGGTCGG
1 GATTGAACCGCGAGTCAGAAAGATGATCTGAATTGAGTCGAGATCAAAACAAGTGCTCAA
* * * *
5053876 GGTTGAATCGCGAGTCAGAAAGATGATCTGAATTGAGTTGAGATCAAAACGAGTAGCT-AA
1 GATTGAACCGCGAGTCAGAAAGATGATCTGAATTGAGTCGAGATCAAAACAAGT-GCTCAA
5053936 GATTGAACCGCGAGTCA
1 GATTGAACCGCGAGTCA
5053953 AAAAATAAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 62 0.97
61 2 0.03
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (60 bp):
GATTGAACCGCGAGTCAGAAAGATGATCTGAATTGAGTCGAGATCAAAACAAGTGCTCAA
Found at i:5054293 original size:86 final size:86
Alignment explanation
Indices: 5054163--5054322 Score: 250
Period size: 86 Copynumber: 1.9 Consensus size: 86
5054153 TTTAGATTCA
*
5054163 CAAGGACTTTCAGATTCGCAAGAATGGAAGGTTCGCAAGATTTCAAGTTTCACAAAGGTTCTAGA
1 CAAGGACTTTCAGATTCGCAAGAATGGAAGGTTCGCAAAATTTCAAGTTTCACAAAGGTTCTAGA
*
5054228 TTCGTAAAGGTTTCAAGTTCG
66 TTCGCAAAGGTTTCAAGTTCG
* * * *
5054249 CAAGGACTTTCATATTTGCAAGAATGGAAGGTTTG-AAAATTTTCAAGTTTCGCAAAGGTTCTAG
1 CAAGGACTTTCAGATTCGCAAGAATGGAAGGTTCGCAAAA-TTTCAAGTTTCACAAAGGTTCTAG
5054313 ATTCGCAAAG
65 ATTCGCAAAG
5054323 AACTTTTAGA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
85 3 0.04
86 64 0.96
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (86 bp):
CAAGGACTTTCAGATTCGCAAGAATGGAAGGTTCGCAAAATTTCAAGTTTCACAAAGGTTCTAGA
TTCGCAAAGGTTTCAAGTTCG
Found at i:5054390 original size:17 final size:17
Alignment explanation
Indices: 5054297--5054410 Score: 63
Period size: 17 Copynumber: 6.6 Consensus size: 17
5054287 ATTTTCAAGT
* *
5054297 TTCGCAAAGGTTCTAGA
1 TTCGCAAAGATTCGAGA
**
5054314 TTCGCAAAGAACTTTTAGA
1 TTCGCAAAG-A-TTCGAGA
* *
5054333 TTCGC-AAGAATAGAAGA
1 TTCGCAAAGATTCG-AGA
* *
5054350 TTCGC-AAGATTTTGAGT
1 TTCGCAAAGA-TTCGAGA
*
5054367 TTTGCAAAGATTCGAGA
1 TTCGCAAAGATTCGAGA
*
5054384 TTCGCAAAGGTTTC-AGA
1 TTCGCAAA-GATTCGAGA
*
5054401 TTCACAAAGA
1 TTCGCAAAGA
5054411 CTTTAAAGAT
Statistics
Matches: 76, Mismatches: 15, Indels: 13
0.73 0.14 0.12
Matches are distributed among these distances:
16 2 0.03
17 50 0.66
18 13 0.17
19 11 0.14
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (17 bp):
TTCGCAAAGATTCGAGA
Found at i:5059301 original size:49 final size:49
Alignment explanation
Indices: 5059217--5059341 Score: 150
Period size: 49 Copynumber: 2.6 Consensus size: 49
5059207 TTGATTTATG
* * *
5059217 AAATTCTCCAATAGTTTGGTA-GATTC-CACAAAATTTAAA-TCTATAAA
1 AAATTCTTCAATAGTTTGGTAGGATTCATAAAAAATTTAAATTC-ATAAA
* *
5059264 AAATTCTTAAATAGTTTGGTAGGATTCATAAAAAATTTAAATTCATGAA
1 AAATTCTTCAATAGTTTGGTAGGATTCATAAAAAATTTAAATTCATAAA
*
5059313 CAA-TCTTCCAATAGTTTGGTAGGATTCAT
1 AAATTCTT-CAATAGTTTGGTAGGATTCAT
5059342 GAATTTACTC
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
47 19 0.28
48 9 0.13
49 37 0.55
50 2 0.03
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (49 bp):
AAATTCTTCAATAGTTTGGTAGGATTCATAAAAAATTTAAATTCATAAA
Found at i:5059526 original size:25 final size:25
Alignment explanation
Indices: 5059498--5059555 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
5059488 TTAAAAATCT
* *
5059498 AAAAATAAAATGAAAAT-AAAATAGA
1 AAAAAGAAAAT-AAAATCAAAACAGA
5059523 AAAAAGAAAATAAAATCAAAACAGA
1 AAAAAGAAAATAAAATCAAAACAGA
*
5059548 AAATAGAA
1 AAAAAGAA
5059556 TGAAAAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (25 bp):
AAAAAGAAAATAAAATCAAAACAGA
Found at i:5059543 original size:18 final size:18
Alignment explanation
Indices: 5059504--5059567 Score: 83
Period size: 18 Copynumber: 3.5 Consensus size: 18
5059494 ATCTAAAAAT
*
5059504 AAAATGAAAATAAAATAGA
1 AAAAAGAAAATAAAAT-GA
*
5059523 AAAAAGAAAATAAAATCA
1 AAAAAGAAAATAAAATGA
* *
5059541 AAACAGAAAATAGAATGA
1 AAAAAGAAAATAAAATGA
5059559 AAAAAGAAA
1 AAAAAGAAA
5059568 TGAAAACCTG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
18 24 0.62
19 15 0.38
ACGTcount: A:0.75, C:0.03, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAAAGAAAATAAAATGA
Found at i:5059562 original size:25 final size:24
Alignment explanation
Indices: 5059499--5059562 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 24
5059489 TAAAAATCTA
* *
5059499 AAAATAAAATG-AAAATAAAATAG
1 AAAATAGAATGAAAAATAAAACAG
* *
5059522 AAAAAAGAA-AATAAAATCAAAACAG
1 AAAATAGAATGA-AAAAT-AAAACAG
5059547 AAAATAGAATGAAAAA
1 AAAATAGAATGAAAAA
5059563 AGAAATGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
23 7 0.23
24 5 0.16
25 18 0.58
26 1 0.03
ACGTcount: A:0.75, C:0.03, G:0.09, T:0.12
Consensus pattern (24 bp):
AAAATAGAATGAAAAATAAAACAG
Found at i:5060830 original size:22 final size:23
Alignment explanation
Indices: 5060805--5060855 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
5060795 TTAATATGAA
*
5060805 TTGATTATG-GAATTAAATACCT
1 TTGATTATGCAAATTAAATACCT
* * *
5060827 TTGATCATGCAAATTAGATTCCT
1 TTGATTATGCAAATTAAATACCT
5060850 TTGATT
1 TTGATT
5060856 CGGCTGATTG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (23 bp):
TTGATTATGCAAATTAAATACCT
Found at i:5060945 original size:3 final size:3
Alignment explanation
Indices: 5060939--5061042 Score: 95
Period size: 3 Copynumber: 35.0 Consensus size: 3
5060929 ATACTATACT
*
5060939 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TATT ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* ** * * * * * *
5060985 CT- ATA GCA AT- ATA ATA CTA GTA ACA ATA CTA ATA ATA AAA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5061031 ATA ATA ATA ATA
1 ATA ATA ATA ATA
5061043 TAAAAATCGA
Statistics
Matches: 79, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
2 3 0.04
3 74 0.94
4 2 0.03
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5061001 original size:16 final size:17
Alignment explanation
Indices: 5060977--5061018 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
5060967 TAATAATAAT
* *
5060977 ATATTATACTA-TAGCA
1 ATATAATACTAGTAACA
5060993 ATATAATACTAGTAACA
1 ATATAATACTAGTAACA
5061010 ATACTAATA
1 ATA-TAATA
5061019 ATAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 10 0.45
17 7 0.32
18 5 0.23
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (17 bp):
ATATAATACTAGTAACA
Found at i:5061334 original size:12 final size:12
Alignment explanation
Indices: 5061317--5061346 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
5061307 ATTATTCATG
5061317 CTCGAACTGAAA
1 CTCGAACTGAAA
5061329 CTCGAACTGAAA
1 CTCGAACTGAAA
5061341 CTCGAA
1 CTCGAA
5061347 ATATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.40, C:0.27, G:0.17, T:0.17
Consensus pattern (12 bp):
CTCGAACTGAAA
Found at i:5067129 original size:61 final size:61
Alignment explanation
Indices: 5067052--5067172 Score: 188
Period size: 61 Copynumber: 2.0 Consensus size: 61
5067042 TAGTAAAATT
* *
5067052 TCACAAATTTTGACCATAAATAATGGAATTATAAAATACATAAAACTTAGTAAACTAAAAC
1 TCACAAATTCTCACCATAAATAATGGAATTATAAAATACATAAAACTTAGTAAACTAAAAC
* * * *
5067113 TCACAAATTCTCACCATAGATGATGGAATTATGAAATATATAAAACTTAGTAAACTAAAA
1 TCACAAATTCTCACCATAAATAATGGAATTATAAAATACATAAAACTTAGTAAACTAAAA
5067173 TTCAAACATC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.28
Consensus pattern (61 bp):
TCACAAATTCTCACCATAAATAATGGAATTATAAAATACATAAAACTTAGTAAACTAAAAC
Found at i:5067430 original size:17 final size:18
Alignment explanation
Indices: 5067399--5067448 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
5067389 AATAAAACAA
*
5067399 TAAAATGAATAAATAAATC
1 TAAAAAGAAT-AATAAATC
* *
5067418 TAAAAA-AATAATATATT
1 TAAAAAGAATAATAAATC
5067435 TAAAAAGAATAATA
1 TAAAAAGAATAATA
5067449 TAAAAAATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 12 0.44
18 10 0.37
19 5 0.19
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (18 bp):
TAAAAAGAATAATAAATC
Found at i:5067455 original size:31 final size:30
Alignment explanation
Indices: 5067420--5067479 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
5067410 AATAAATCTA
*
5067420 AAAAAAT-AATATA-TTTAAAAAGAATAATAT
1 AAAAAATGAAT-TAGTTAAAAAAG-ATAATAT
5067450 AAAAAATGAATTAGTTAAAAAAGATAATAT
1 AAAAAATGAATTAGTTAAAAAAGATAATAT
5067480 TAATTACCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (30 bp):
AAAAAATGAATTAGTTAAAAAAGATAATAT
Found at i:5073732 original size:29 final size:26
Alignment explanation
Indices: 5073677--5073733 Score: 69
Period size: 29 Copynumber: 2.1 Consensus size: 26
5073667 TAAAAAATTA
**
5073677 TTAAAAATATTATTTATAATTTAAAT
1 TTAAAAATATTATTTATAATAAAAAT
5073703 TTAAAGAATATTGATTTAATAATAAAAAT
1 TTAAA-AATATT-ATTT-ATAATAAAAAT
5073732 TT
1 TT
5073734 TATTAACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 5 0.19
27 6 0.23
28 4 0.15
29 11 0.42
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (26 bp):
TTAAAAATATTATTTATAATAAAAAT
Found at i:5073767 original size:14 final size:13
Alignment explanation
Indices: 5073725--5073771 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 13
5073715 GATTTAATAA
5073725 TAAAAAT-TTTAT
1 TAAAAATATTTAT
* *
5073737 T-AACATTTTTAT
1 TAAAAATATTTAT
5073749 TAAAAATATTTATT
1 TAAAAATATTTA-T
5073763 TAAAAATAT
1 TAAAAATAT
5073772 ATATCAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 4 0.14
12 7 0.24
13 8 0.28
14 10 0.34
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (13 bp):
TAAAAATATTTAT
Found at i:5074110 original size:30 final size:30
Alignment explanation
Indices: 5074076--5074170 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
5074066 TTTATTGCAA
*
5074076 TCAATTATAATCTTAAATATTTATTTTCAT
1 TCAATTATAATTTTAAATATTTATTTTCAT
* * * *
5074106 TCAATTA-AGTTTTTAAACATATATTTTCAC
1 TCAATTATA-ATTTTAAATATTTATTTTCAT
* *
5074136 TCAATTAT-CTTTTAAATATTTATTTTTAT
1 TCAATTATAATTTTAAATATTTATTTTCAT
5074165 TCAATT
1 TCAATT
5074171 GAACCTTTCA
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
29 23 0.43
30 30 0.57
ACGTcount: A:0.35, C:0.11, G:0.01, T:0.54
Consensus pattern (30 bp):
TCAATTATAATTTTAAATATTTATTTTCAT
Found at i:5074159 original size:29 final size:30
Alignment explanation
Indices: 5074088--5074170 Score: 107
Period size: 29 Copynumber: 2.8 Consensus size: 30
5074078 AATTATAATC
5074088 TTAAATATTTATTTTCATTCAATTAAGTTT
1 TTAAATATTTATTTTCATTCAATTAAGTTT
* * *
5074118 TTAAACATATATTTTCACTCAATT-A-TCTT
1 TTAAATATTTATTTTCATTCAATTAAGT-TT
*
5074147 TTAAATATTTATTTTTATTCAATT
1 TTAAATATTTATTTTCATTCAATT
5074171 GAACCTTTCA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
28 1 0.02
29 23 0.51
30 21 0.47
ACGTcount: A:0.34, C:0.10, G:0.01, T:0.55
Consensus pattern (30 bp):
TTAAATATTTATTTTCATTCAATTAAGTTT
Found at i:5074700 original size:9 final size:9
Alignment explanation
Indices: 5074688--5074719 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
5074678 CCAATTGGCC
5074688 TTTATTTTT
1 TTTATTTTT
5074697 TTTATTTTTT
1 TTTA-TTTTT
5074707 TTTATTTTT
1 TTTATTTTT
5074716 TTTA
1 TTTA
5074720 GTTGATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTATTTTT
Found at i:5074707 original size:10 final size:10
Alignment explanation
Indices: 5074688--5074718 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
5074678 CCAATTGGCC
5074688 TTTA-TTTTT
1 TTTATTTTTT
5074697 TTTATTTTTT
1 TTTATTTTTT
5074707 TTTATTTTTT
1 TTTATTTTTT
5074717 TT
1 TT
5074719 AGTTGATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.19
10 17 0.81
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:5076367 original size:59 final size:57
Alignment explanation
Indices: 5076300--5076647 Score: 263
Period size: 58 Copynumber: 5.9 Consensus size: 57
5076290 AAATAAAATG
* *
5076300 ATAAAATTTTTAAAAAAATTATTTTATGGAAAAGTTAAAATTATTAATTTTTCTTG-AA
1 ATAAAATTTTTAAAAAAA-TATTTT-TGGAAAAGTTAAAAGTATTAATTTTCCTTGAAA
*
5076358 ATACAAATTTTAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATTAATTTTCCTTGAAA
1 ATA-AAATTTTTAAAAAAATATTTTT--GGAAAAGTTAAAAGTATTAATTTTCCTTGAAA
* * * *
5076418 ATAAACTTTCTAAAAATAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCC-TGAAAA
1 ATAAAATTTTTAAAAA-AATATTTTTG-G-AAAAGTTAAAAGTATTAATTTTCCTTG-AAA
** * * * *
5076478 ATAAGCTTTCT-AAAAAATATTTTTGAGAAAAAGTTGAAAGTGTTAATTTTCCTTAAAA
1 ATAAAATTTTTAAAAAAATATTTTTG-G-AAAAGTTAAAAGTATTAATTTTCCTTGAAA
* * * * * * * * *
5076536 AT-AAGTTTTCAAAAATAGATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTCGAAA
1 ATAAAATTTTTAAAAAAATATTTTT--GGAAAAGTTAAAAGTATTAATTTTCCTTGAAA
* ** * *
5076594 TTAAAAGTTTCAAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 ATAAAA-TTT-TTAAAAAA-ATATTTTT--GGAAAAGTTAAAAGTATTAATTTT
5076648 TCCTGTACAA
Statistics
Matches: 242, Mismatches: 32, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
57 5 0.02
58 86 0.36
59 62 0.26
60 53 0.22
61 5 0.02
62 31 0.13
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.38
Consensus pattern (57 bp):
ATAAAATTTTTAAAAAAATATTTTTGGAAAAGTTAAAAGTATTAATTTTCCTTGAAA
Found at i:5076441 original size:118 final size:117
Alignment explanation
Indices: 5076300--5076647 Score: 359
Period size: 118 Copynumber: 2.9 Consensus size: 117
5076290 AAATAAAATG
* * * *
5076300 ATAAAATTTTTAAAAA-AATTATTTTATGGAAAAGTTAAAATTATTAATTTTTCTTGAAATACAA
1 ATAAAATTTCTAAAAATAA-TATTTTATGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATA-AA
* *
5076364 ATTTTAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATTAATTTTCCTTGAAA
64 ATTTTAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTAAAA
* *
5076418 ATAAACTTTCTAAAAATAATATTTT-TGAGAAAAAGTTGAAAGTATCAA-TTTTCCTGAAA-AAT
1 ATAAAATTTCTAAAAATAATATTTTATG-G-AAAAGTTGAAAGTATCAATTTTTCTTGAAATAA-
* ** * *
5076480 AAGCTTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTGTTAATTTTCCTTAAAA
63 AA-TTTTAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTAAAA
** * *
5076536 ATAAGTTTTC-AAAAATAGAT-TTTTGA-GGAAAAATTGAAAGTATCAATTTTTCTCGAAATTAA
1 ATAAAATTTCTAAAAATA-ATATTTT-ATGGAAAAGTTGAAAGTATCAATTTTTCTTGAAA-TAA
* * *
5076598 AAGTTTCAAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
63 AA-TTT-TAAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATTAATTTT
5076648 TCCTGTACAA
Statistics
Matches: 191, Mismatches: 26, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
116 18 0.09
117 26 0.14
118 93 0.49
119 24 0.13
120 30 0.16
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.38
Consensus pattern (117 bp):
ATAAAATTTCTAAAAATAATATTTTATGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATAAAAT
TTTAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTAAAA
Found at i:5076526 original size:58 final size:58
Alignment explanation
Indices: 5076371--5076652 Score: 304
Period size: 58 Copynumber: 4.7 Consensus size: 58
5076361 CAAATTTTAA
* * * *
5076371 AAAAAATATTTTTGAGGAAAAGTTAAAAGTATTAATTTTCCTTG-AAAATAAACTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCC-TGAAAAATAAGCTTTCT
5076429 AAAAATAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTGAAAAATAAGCTTTCT
1 -AAAA-AATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTGAAAAATAAGCTTTCT
* * * *
5076489 AAAAAATATTTTTGAGAAAAAGTTGAAAGTGTTAATTTTCCTTAAAAATAAGTTTTC-
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTGAAAAATAAGCTTTCT
* * *
5076546 AAAAATAGATTTTTGAGGAAAAA-TTGAAAGTATCAATTTTTCTCGAAATTAA-AAG-TTTCAAA
1 AAAAA-ATATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTCCT-GAAA--AATAAGCTTTC--T
* *
5076608 AAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCCTG
1 AAAAA-ATATTTTTGAGAAAAAGTTGAAAGTATCAA-TTTTCCTG
5076653 TACAAAAGCA
Statistics
Matches: 194, Mismatches: 17, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
57 5 0.03
58 75 0.39
59 23 0.12
60 50 0.26
61 7 0.04
62 28 0.14
63 6 0.03
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.37
Consensus pattern (58 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTGAAAAATAAGCTTTCT
Found at i:5077665 original size:58 final size:58
Alignment explanation
Indices: 5077596--5077804 Score: 283
Period size: 58 Copynumber: 3.6 Consensus size: 58
5077586 TTGTATAGGA
* *
5077596 AAAATTGATACTTTCAACTTTTCCTCAAAAATTCACTTTTGAAAACTTGTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTCATTTTTGAAAACTTATTTTTAAGG
* *
5077654 AAAATTAATACTTTCAACTTTTCCTCAAAAATCCATTTTTGAAAACTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTCATTTTTGAAAACTTATTTTTAAGG
** ** * *
5077712 AAAATTGATACTTTCAACTTTTTCCAAAAAATATTTGTTTTTAGAAAGCTTATTTTTAAGA
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAA-ATTCATTTTT-GAAAACTTATTTTTAAGG
* *
5077773 AAAATTGATACTCTCAACTTGTCCTCAAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT
5077805 ATTTTTTTGA
Statistics
Matches: 132, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
58 71 0.54
59 12 0.09
60 16 0.12
61 33 0.25
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATTCATTTTTGAAAACTTATTTTTAAGG
Found at i:5077812 original size:119 final size:116
Alignment explanation
Indices: 5077596--5077815 Score: 287
Period size: 119 Copynumber: 1.9 Consensus size: 116
5077586 TTGTATAGGA
** * *
5077596 AAAATTGATACTTTCAACTTTTCCTCAAAAATTCACTTTTGAAAACTTGTTTTTAAGGAAAATTA
1 AAAATTGATACTTTCAACTTTTCCAAAAAAATTCACTTTTGAAAACTTATTTTTAAGAAAAATTA
* * *
5077661 ATACTTTCAACTTTTCCTCAAAAATCCATTTTTGAAAACTTATTTTTAAGG
66 ATACTCTCAACTTGTCCTCAAAAATACATTTTTGAAAACTTATTTTTAAGG
*** *
5077712 AAAATTGATACTTTCAACTTTTTCCAAAAAATATTTGTTTTTAGAAAGCTTATTTTTAAGAAAAA
1 AAAATTGATACTTTCAAC-TTTTCCAAAAAA-ATTCACTTTT-GAAAACTTATTTTTAAGAAAAA
* **
5077777 TTGATACTCTCAACTTGTCCTCAAAAATATTTTTTTGAA
63 TTAATACTCTCAACTTGTCCTCAAAAATACATTTTTGAA
5077816 TTTTATTTGA
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
116 18 0.21
117 10 0.11
118 7 0.08
119 52 0.60
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (116 bp):
AAAATTGATACTTTCAACTTTTCCAAAAAAATTCACTTTTGAAAACTTATTTTTAAGAAAAATTA
ATACTCTCAACTTGTCCTCAAAAATACATTTTTGAAAACTTATTTTTAAGG
Found at i:5077846 original size:13 final size:13
Alignment explanation
Indices: 5077828--5077852 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5077818 TTATTTGAAG
5077828 AAAATAAAATAAT
1 AAAATAAAATAAT
5077841 AAAATAAAATAA
1 AAAATAAAATAA
5077853 AAATGAAAGT
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:5078107 original size:8 final size:8
Alignment explanation
Indices: 5078094--5078126 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
5078084 CGTTCCCGGT
5078094 TTTTTTTA
1 TTTTTTTA
5078102 TTTTTTTA
1 TTTTTTTA
*
5078110 -TTATTTA
1 TTTTTTTA
5078117 TTTTTTTA
1 TTTTTTTA
5078125 TT
1 TT
5078127 ATTATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTTA
Found at i:5078118 original size:15 final size:15
Alignment explanation
Indices: 5078098--5078143 Score: 67
Period size: 15 Copynumber: 3.0 Consensus size: 15
5078088 CCCGGTTTTT
5078098 TTTATTTTTTTATTA
1 TTTATTTTTTTATTA
5078113 TTTATTTTTTTATTA
1 TTTATTTTTTTATTA
5078128 -TTATTATTATTTATTA
1 TTTATT-TT-TTTATTA
5078144 ATTAGATTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
14 5 0.17
15 17 0.59
16 7 0.24
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTTTTTATTA
Found at i:5078194 original size:17 final size:16
Alignment explanation
Indices: 5078168--5078226 Score: 65
Period size: 13 Copynumber: 3.9 Consensus size: 16
5078158 GTTTAATATT
5078168 TTTTTATTTT-TCTTTA
1 TTTTTATTTTAT-TTTA
5078184 TTTTTACTTTTATTTTA
1 TTTTTA-TTTTATTTTA
5078201 -TTTTATTTTA--TTA
1 TTTTTATTTTATTTTA
5078214 -TTTTATTTTATTT
1 TTTTTATTTTATTT
5078227 AAATAAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
13 13 0.33
15 6 0.15
16 11 0.28
17 8 0.21
18 1 0.03
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTATTTTATTTTA
Found at i:5078201 original size:5 final size:5
Alignment explanation
Indices: 5078169--5078226 Score: 68
Period size: 5 Copynumber: 11.6 Consensus size: 5
5078159 TTTAATATTT
5078169 TTTTA TTTT- TCTTTA TTTTTA CTTTTA TTTTA TTTTA TTTTA --TTA
1 TTTTA TTTTA T-TTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA
5078214 TTTTA TTTTA TTT
1 TTTTA TTTTA TTT
5078227 AAATAAAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
3 3 0.06
4 1 0.02
5 33 0.70
6 9 0.19
7 1 0.02
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:5078366 original size:58 final size:58
Alignment explanation
Indices: 5078239--5078398 Score: 191
Period size: 58 Copynumber: 2.8 Consensus size: 58
5078229 ATAAAATTCA
* * *
5078239 AAAAAATATTTTTGAGGAAAAGCTGAAAGTATTAATTTTCCTTGAAAATAAACTATCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCCTGAAAATAAACTATCT
* *
5078297 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCCT-AAAA-ACAAGT-TTT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCCTGAAAATA-AACTATCT
* * * *
5078353 CAAAAGTGAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCCTG
1 AAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCCTG
5078399 TACAAAAACA
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
56 8 0.09
57 7 0.08
58 74 0.83
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCCTGAAAATAAACTATCT
Found at i:5082424 original size:12 final size:12
Alignment explanation
Indices: 5082406--5082467 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 12
5082396 AGAAGATGAT
*
5082406 GAAAAAAATAAA
1 GAAAAAAAAAAA
*
5082418 TAAAAAAAAAAA
1 GAAAAAAAAAAA
* *
5082430 GAAAAAATAGAA
1 GAAAAAAAAAAA
5082442 GAAAGAAGAAAGAAA
1 GAAA-AA-AAA-AAA
5082457 GAAGAAAAAAA
1 GAA-AAAAAAA
5082468 TGAGAAAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
12 23 0.59
13 3 0.08
14 5 0.13
15 7 0.18
16 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.05
Consensus pattern (12 bp):
GAAAAAAAAAAA
Found at i:5083246 original size:63 final size:63
Alignment explanation
Indices: 5083168--5083298 Score: 190
Period size: 63 Copynumber: 2.1 Consensus size: 63
5083158 ATAGATGAAA
* **
5083168 CTAGTGTTGAAAAGCTTATGAACAATGACCAAGTGACAGATGATGAAATTTATTTTAAAATGG
1 CTAGTATTGAAAAGCTTATGAACAATGACCAAGTGACAGAACATGAAATTTATTTTAAAATGG
* ** *
5083231 CTAGTATTGAGAAGCTTATGAACGGTGACCAAGTGACAGAACATGAAATTTATTTTGAAATGG
1 CTAGTATTGAAAAGCTTATGAACAATGACCAAGTGACAGAACATGAAATTTATTTTAAAATGG
*
5083294 TTAGT
1 CTAGT
5083299 GCTGATAAGC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (63 bp):
CTAGTATTGAAAAGCTTATGAACAATGACCAAGTGACAGAACATGAAATTTATTTTAAAATGG
Found at i:5084158 original size:41 final size:40
Alignment explanation
Indices: 5084096--5084172 Score: 136
Period size: 41 Copynumber: 1.9 Consensus size: 40
5084086 TATTTAAAGG
*
5084096 TGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTA
1 TGGTACCTCTATTTAGAGGAGCAATTTA-TTTTCAAAGTTA
5084137 TGGTACCTCTATTTAGAGGAGCAATTTATTTTCAAA
1 TGGTACCTCTATTTAGAGGAGCAATTTATTTTCAAA
5084173 AGCTGTTGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 8 0.23
41 27 0.77
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (40 bp):
TGGTACCTCTATTTAGAGGAGCAATTTATTTTCAAAGTTA
Found at i:5084290 original size:45 final size:45
Alignment explanation
Indices: 5084181--5084292 Score: 170
Period size: 45 Copynumber: 2.5 Consensus size: 45
5084171 AAAGCTGTTG
* * *
5084181 AGCCTCTGATTATAGGAGCCTTATTTATGTTTCTCAAAGTCGTTA
1 AGCCTCTGATTAGAGGAGCTTTATTTATGTTTCTCAAAATCGTTA
* *
5084226 AGCTTCTTATTAGAGGAGCTTTATTTATGTTTCTCAAAATCGTTA
1 AGCCTCTGATTAGAGGAGCTTTATTTATGTTTCTCAAAATCGTTA
*
5084271 AGCCTCTGCTTAGAGGAGCTTT
1 AGCCTCTGATTAGAGGAGCTTT
5084293 GATCAAAATT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (45 bp):
AGCCTCTGATTAGAGGAGCTTTATTTATGTTTCTCAAAATCGTTA
Found at i:5084314 original size:1 final size:1
Alignment explanation
Indices: 5084308--5084351 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
5084298 AAATTTTAAC
* * * *
5084308 AAAAAAAAAAAAAAAAACAAAACAAAAAAATAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
5084352 GTGTCAAGTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.91, C:0.07, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:5084329 original size:14 final size:14
Alignment explanation
Indices: 5084308--5084351 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
5084298 AAATTTTAAC
5084308 AAAAAAAAA-AAAA
1 AAAAAAAAACAAAA
*
5084321 AAAACAAAACAAAA
1 AAAAAAAAACAAAA
*
5084335 AAATAAAAACAAAA
1 AAAAAAAAACAAAA
5084349 AAA
1 AAA
5084352 GTGTCAAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 8 0.30
14 19 0.70
ACGTcount: A:0.91, C:0.07, G:0.00, T:0.02
Consensus pattern (14 bp):
AAAAAAAAACAAAA
Found at i:5084334 original size:19 final size:18
Alignment explanation
Indices: 5084305--5084351 Score: 76
Period size: 19 Copynumber: 2.6 Consensus size: 18
5084295 TCAAAATTTT
5084305 AACAAAAAAAAAAAAAAA
1 AACAAAAAAAAAAAAAAA
*
5084323 AACAAAACAAAAAAATAAA
1 AACAAAA-AAAAAAAAAAA
5084342 AACAAAAAAA
1 AACAAAAAAA
5084352 GTGTCAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (18 bp):
AACAAAAAAAAAAAAAAA
Found at i:5086259 original size:16 final size:18
Alignment explanation
Indices: 5086219--5086259 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
5086209 TAAAATTATT
5086219 AATTTTTCTTGAAATAAA
1 AATTTTTCTTGAAATAAA
5086237 AATTTTT-TT-AAA-AAA
1 AATTTTTCTTGAAATAAA
5086252 ATATTTTT
1 A-ATTTTT
5086260 GAGGAAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 9 0.41
17 2 0.09
18 7 0.32
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
AATTTTTCTTGAAATAAA
Found at i:5086479 original size:57 final size:58
Alignment explanation
Indices: 5086254--5086640 Score: 408
Period size: 57 Copynumber: 6.6 Consensus size: 58
5086244 TTAAAAAAAT
* * * * * *
5086254 ATTTTTGAGGAAAAGTTGAAAAGTATCAATTTTCTTTGAAAATAAACTTTCTAAAAAACAT
1 ATTTTTGAGGAAAAGTTG-AAAGTATCAATTTTCCTTAAAAAT-AAGTTT-TCAAAAATAG
* * * *
5086315 ATTTTTGAGAAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAGCTTTCTAAAAA-AT
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTC-AAAAATAG
* **
5086373 ATTTTT-AGGGAAAAGTTGAAAGTGTCAATTTTTTTTAAAAATAAGTTTTCAAAAATAG
1 ATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAATAG
*
5086431 ATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTT-AAAATAAGTTTTCAAAAATAG
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAATAG
* * * *
5086488 ATTTTTGAGAAAAAGTTGAAAGTATTAATTTT-CTTTAAAATAAGTTTTCAAAAATGG
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAATAG
* * * *
5086545 ATTTTTGAGGAAAAGTTGAAAGTATCATTTTTTCTCGAAATTAA-AAG-TTTCAAAAAATATAT
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TAAA--AATAAGTTTTC--AAAA-ATAG
** *
5086607 ATTTTTGAAAAAAAGTTGAAAGTATTAATTTTCC
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
5086641 ATGCACAAAA
Statistics
Matches: 282, Mismatches: 32, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
56 3 0.01
57 107 0.38
58 78 0.28
59 16 0.06
60 24 0.09
61 23 0.08
62 31 0.11
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.39
Consensus pattern (58 bp):
ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAATAG
Found at i:5092158 original size:14 final size:12
Alignment explanation
Indices: 5092116--5092158 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
5092106 TATTTAACGA
*
5092116 TAAAACTTTTAT
1 TAAAATTTTTAT
*
5092128 TAATATTTTTAT
1 TAAAATTTTTAT
5092140 TAAAATTATTTATT
1 TAAAATT-TTTA-T
5092154 TAAAA
1 TAAAA
5092159 ATATATATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 16 0.62
13 4 0.15
14 6 0.23
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (12 bp):
TAAAATTTTTAT
Found at i:5092551 original size:29 final size:30
Alignment explanation
Indices: 5092480--5092562 Score: 123
Period size: 30 Copynumber: 2.8 Consensus size: 30
5092470 AATTATAATC
5092480 TTAAATATATATTTTCATTCAATTAAGTTT
1 TTAAATATATATTTTCATTCAATTAAGTTT
* *
5092510 TTAAACATATATTTTCACTCAATTAA-TTT
1 TTAAATATATATTTTCATTCAATTAAGTTT
* *
5092539 TTAAATATTTATTTTTATTCAATT
1 TTAAATATATATTTTCATTCAATT
5092563 GAATCTTTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 23 0.49
30 24 0.51
ACGTcount: A:0.36, C:0.08, G:0.01, T:0.54
Consensus pattern (30 bp):
TTAAATATATATTTTCATTCAATTAAGTTT
Found at i:5092610 original size:15 final size:15
Alignment explanation
Indices: 5092587--5092637 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
5092577 ACAATCAATT
*
5092587 TTTATTTAATAAAAA
1 TTTAATTAATAAAAA
*
5092602 TTTAATTAATGAAAA
1 TTTAATTAATAAAAA
*
5092617 TATATATT--TAAAAA
1 TTTA-ATTAATAAAAA
5092631 TTTAATT
1 TTTAATT
5092638 GATTGTAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 3 0.10
14 8 0.27
15 16 0.53
16 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
TTTAATTAATAAAAA
Found at i:5094955 original size:12 final size:12
Alignment explanation
Indices: 5094938--5094964 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5094928 ACCCCACCTC
5094938 AATATGAATTAT
1 AATATGAATTAT
5094950 AATATGAATTAT
1 AATATGAATTAT
5094962 AAT
1 AAT
5094965 TTGATGATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (12 bp):
AATATGAATTAT
Found at i:5098686 original size:81 final size:81
Alignment explanation
Indices: 5098477--5098689 Score: 223
Period size: 82 Copynumber: 2.6 Consensus size: 81
5098467 ATAGTGAATG
* * * * * * * * * *
5098477 GTTATGGATGGTATGTGTCAAATGGCTAATGATGCGTGTTTATGTCTAATGATACATGTATGCAT
1 GTTATGGATGTTGTGTGTCAAATGGCTGATGGTGAGTGCTTATGTTTGATAATACATGCATGCAT
** *
5098542 GTGTCAAATGGCTGGT
66 CAGTCAAATGGCTGAT
* * *
5098558 GTTTATGGATGTTGTGTGTCAAATAGCTGATGGGGCA-TACTTATGTTTGATAATA-AGTGCATG
1 G-TTATGGATGTTGTGTGTCAAATGGCTGATGGTG-AGTGCTTATGTTTGATAATACA-TGCATG
*
5098621 CATCAGTCAAATGGTTGAT
63 CATCAGTCAAATGGCTGAT
*
5098640 GTTATGGATGTTGTGTGTCAAATGGCTGATGGTGAGTGCTTGTGTTTGAT
1 GTTATGGATGTTGTGTGTCAAATGGCTGATGGTGAGTGCTTATGTTTGAT
5098690 GATGCATGTG
Statistics
Matches: 107, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
80 1 0.01
81 45 0.42
82 61 0.57
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.38
Consensus pattern (81 bp):
GTTATGGATGTTGTGTGTCAAATGGCTGATGGTGAGTGCTTATGTTTGATAATACATGCATGCAT
CAGTCAAATGGCTGAT
Found at i:5102305 original size:13 final size:14
Alignment explanation
Indices: 5102287--5102315 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5102277 TCTTGTTTAC
5102287 TATGTA-TTGCATA
1 TATGTATTTGCATA
5102300 TATGTATTTGCATA
1 TATGTATTTGCATA
5102314 TA
1 TA
5102316 CATTTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (14 bp):
TATGTATTTGCATA
Found at i:5105380 original size:22 final size:22
Alignment explanation
Indices: 5105326--5105381 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
5105316 AAACTATAAG
*
5105326 ACCTCAAGGCATGATTTAAAAA
1 ACCTTAAGGCATGATTTAAAAA
** *
5105348 ACCTTCGGGCATGATTTAAAAG
1 ACCTTAAGGCATGATTTAAAAA
*
5105370 ACTTTAAGGCAT
1 ACCTTAAGGCAT
5105382 AATCTATAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (22 bp):
ACCTTAAGGCATGATTTAAAAA
Found at i:5105392 original size:24 final size:23
Alignment explanation
Indices: 5105364--5105414 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
5105354 GGGCATGATT
5105364 TAAAAGACTTTAAGGCATAATCTA
1 TAAAA-ACTTTAAGGCATAATCTA
* * *
5105388 T-AAAACTTTAGGGTATAATCTC
1 TAAAAACTTTAAGGCATAATCTA
5105410 TAAAA
1 TAAAA
5105415 CCTCCAAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.70
23 6 0.26
24 1 0.04
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (23 bp):
TAAAAACTTTAAGGCATAATCTA
Found at i:5105395 original size:22 final size:22
Alignment explanation
Indices: 5105370--5105415 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
5105360 GATTTAAAAG
5105370 ACTTTAAGGCATAATCTATAAA
1 ACTTTAAGGCATAATCTATAAA
* * *
5105392 ACTTTAGGGTATAATCTCTAAA
1 ACTTTAAGGCATAATCTATAAA
5105414 AC
1 AC
5105416 CTCCAAGTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (22 bp):
ACTTTAAGGCATAATCTATAAA
Found at i:5105689 original size:21 final size:21
Alignment explanation
Indices: 5105665--5105735 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 21
5105655 GGCATGATCC
5105665 TTAAAACTTCTAAGTGTATTT
1 TTAAAACTTCTAAGTGTATTT
* * * * *
5105686 TTAAAACCTCCAGGTATCATCT
1 TTAAAACTTCTAAGTGT-ATTT
* *
5105708 TTAAAACTTCTTAGTGTCTTT
1 TTAAAACTTCTAAGTGTATTT
5105729 TTGAAAA
1 TT-AAAA
5105736 ACCTTCGAGT
Statistics
Matches: 36, Mismatches: 12, Indels: 3
0.71 0.24 0.06
Matches are distributed among these distances:
21 17 0.47
22 19 0.53
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.42
Consensus pattern (21 bp):
TTAAAACTTCTAAGTGTATTT
Found at i:5105712 original size:43 final size:44
Alignment explanation
Indices: 5105665--5105759 Score: 122
Period size: 45 Copynumber: 2.2 Consensus size: 44
5105655 GGCATGATCC
5105665 TTAAAACTTCTAAGTGTATTTTT-AAAACCTCC-AGGTATCATCT
1 TTAAAACTTCTAAGTGTATTTTTAAAAACCTCCGA-GTATCATCT
* * * *
5105708 TTAAAACTTCTTAGTGTCTTTTTGAAAAACCTTCGAGTATCATTT
1 TTAAAACTTCTAAGTGTATTTTT-AAAAACCTCCGAGTATCATCT
5105753 TTAAAAC
1 TTAAAAC
5105760 CTTCAGGTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
43 21 0.47
45 23 0.51
46 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (44 bp):
TTAAAACTTCTAAGTGTATTTTTAAAAACCTCCGAGTATCATCT
Found at i:5105753 original size:23 final size:22
Alignment explanation
Indices: 5105682--5106065 Score: 82
Period size: 22 Copynumber: 17.4 Consensus size: 22
5105672 TTCTAAGTGT
* *
5105682 ATTTTTAAAACCTCCAGGTATC
1 ATTTTAAAAACCTTCAGGTATC
*
5105704 ATCTTT-AAAA-CTTCTTA-GTGTC
1 AT-TTTAAAAACCTTC--AGGTATC
*
5105726 TTTTTGAAAAACCTTC-GAGTATC
1 ATTTT-AAAAACCTTCAG-GTATC
*
5105749 ATTTTTAAAACCTTCAGGTATC
1 ATTTTAAAAACCTTCAGGTATC
** *
5105771 ATCTATT-AAAA-CTTTTGAGTATT
1 AT-T-TTAAAAACCTTCAG-GTATC
* * *
5105794 TTTTTAAAAACCTCTGAAG-ATC
1 ATTTTAAAAACCT-TCAGGTATC
* * *
5105816 ATCTTT-AAAGCTTTGA-GTATC
1 AT-TTTAAAAACCTTCAGGTATC
* * ** *
5105837 TTTTTAAAACCCTTTTGATATC
1 ATTTTAAAAACCTTCAGGTATC
*
5105859 ATCTTT-AAAA-CTTCGGGGTATC
1 AT-TTTAAAAACCTTC-AGGTATC
* * *
5105881 -TTTTACAAACC-TCTAGATATT
1 ATTTTAAAAACCTTC-AGGTATC
* *
5105902 ATCTTT-AAAACCTCCGGGTATC
1 AT-TTTAAAAACCTTCAGGTATC
* * *
5105924 GTTCTAAAAA-CTTGCAGGAATC
1 ATTTTAAAAACCTT-CAGGTATC
* * *
5105946 ATTTTCAAAATCTAT-GGGTATC
1 ATTTTAAAAACCT-TCAGGTATC
* * * *
5105968 ATTTTCAAAATCTACGGGTATC
1 ATTTTAAAAACCTTCAGGTATC
* * * * *
5105990 ATTTTCACAATCTCCAAGTATC
1 ATTTTAAAAACCTTCAGGTATC
* * *
5106012 ATTTTCAAAACCTCCGGGTATC
1 ATTTTAAAAACCTTCAGGTATC
* *
5106034 ATCTTTAAAAA-CTCCAGGTGTC
1 AT-TTTAAAAACCTTCAGGTATC
5106056 ATCTTTAAAA
1 AT-TTTAAAA
5106066 CTTTAGGGTA
Statistics
Matches: 270, Mismatches: 60, Indels: 64
0.69 0.15 0.16
Matches are distributed among these distances:
20 7 0.03
21 38 0.14
22 168 0.62
23 49 0.18
24 8 0.03
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.39
Consensus pattern (22 bp):
ATTTTAAAAACCTTCAGGTATC
Found at i:5105753 original size:24 final size:22
Alignment explanation
Indices: 5105733--5106091 Score: 96
Period size: 22 Copynumber: 16.4 Consensus size: 22
5105723 GTCTTTTTGA
5105733 AAAACCTTC-GAGTATCATTTTT
1 AAAACCTTCAG-GTATCATTTTT
*
5105755 AAAACCTTCAGGTATCATCTATT
1 AAAACCTTCAGGTATCAT-TTTT
** *
5105778 AAAA-CTTTTGAGTAT-TTTTTT
1 AAAACCTTCAG-GTATCATTTTT
* * *
5105799 AAAAACCTCTGAAG-ATCATCTTT
1 -AAAACCT-TCAGGTATCATTTTT
* * *
5105822 AAAGCTTTGA-GTATC-TTTTT
1 AAAACCTTCAGGTATCATTTTT
** * *
5105842 AAAACCCTTTTGATATCATCTTT
1 AAAA-CCTTCAGGTATCATTTTT
*
5105865 AAAA-CTTCGGGGTATC--TTTT
1 AAAACCTTC-AGGTATCATTTTT
* * *
5105885 ACAAACC-TCTAGATATTATCTTT
1 A-AAACCTTC-AGGTATCATTTTT
* * * *
5105908 AAAACCTCCGGGTATC-GTTCT
1 AAAACCTTCAGGTATCATTTTT
* * *
5105929 AAAAACTTGCAGGAATCATTTTC
1 AAAACCTT-CAGGTATCATTTTT
* * *
5105952 AAAATCTAT-GGGTATCATTTTC
1 AAAACCT-TCAGGTATCATTTTT
* * * *
5105974 AAAATCTACGGGTATCATTTTC
1 AAAACCTTCAGGTATCATTTTT
* * * * *
5105996 ACAATCTCCAAGTATCATTTTC
1 AAAACCTTCAGGTATCATTTTT
* * *
5106018 AAAACCTCCGGGTATCATCTTT
1 AAAACCTTCAGGTATCATTTTT
* * * *
5106040 AAAAACTCCAGGTGTCATCTTT
1 AAAACCTTCAGGTATCATTTTT
* **
5106062 AAAA-CTTTAGGGTATCATCCTT
1 AAAACCTTCA-GGTATCATTTTT
5106084 AAAACCTT
1 AAAACCTT
5106092 TGGTTATCTA
Statistics
Matches: 251, Mismatches: 63, Indels: 45
0.70 0.18 0.13
Matches are distributed among these distances:
20 12 0.05
21 35 0.14
22 159 0.63
23 43 0.17
24 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (22 bp):
AAAACCTTCAGGTATCATTTTT
Found at i:5105823 original size:67 final size:67
Alignment explanation
Indices: 5105685--5105824 Score: 180
Period size: 67 Copynumber: 2.1 Consensus size: 67
5105675 TAAGTGTATT
*
5105685 TTTAAAACCTCCAGGTATCATCTTTAAAACTTCTTAGTGTCTTTTTGAAAAACCTTCGAGTATCA
1 TTTAAAACCTCCAGGTATCATCTTTAAAACTTCTTAGTATCTTTTTGAAAAACCTTCGAGTATCA
*
5105750 TT
66 TC
* *
5105752 TTTAAAACCTTCAGGTATCATCTATTAAAACTT-TTGAGTAT-TTTTTTAAAAACC-TCTGAAG-
1 TTTAAAACCTCCAGGTATCATCT-TTAAAACTTCTT-AGTATCTTTTTGAAAAACCTTC-G-AGT
5105813 ATCATC
62 ATCATC
5105819 TTTAAA
1 TTTAAA
5105825 GCTTTGAGTA
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
66 2 0.03
67 48 0.74
68 15 0.23
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (67 bp):
TTTAAAACCTCCAGGTATCATCTTTAAAACTTCTTAGTATCTTTTTGAAAAACCTTCGAGTATCA
TC
Found at i:5105882 original size:44 final size:43
Alignment explanation
Indices: 5105733--5105912 Score: 154
Period size: 43 Copynumber: 4.1 Consensus size: 43
5105723 GTCTTTTTGA
*
5105733 AAAACCTTC-GAGTATCATTTTTAAAACCTTCAGGTATCATCTATT
1 AAAA-CTTCTGAGTATC-TTTTTAAAACCTTCAGATATCATCT-TT
* * * *
5105778 AAAACTTTTGAGTATTTTTTTAAAAACC-TCTGAAGATCATCTTT
1 AAAACTTCTGAGTATCTTTTT-AAAACCTTCAG-ATATCATCTTT
* **
5105822 AAAGCTT-TGAGTATCTTTTTAAAACCCTTTTGATATCATCTTT
1 AAAACTTCTGAGTATCTTTTTAAAA-CCTTCAGATATCATCTTT
* * *
5105865 AAAACTTCGGGGTATC-TTTTACAAACC-TCTAGATATTATCTTT
1 AAAACTTCTGAGTATCTTTTTA-AAACCTTC-AGATATCATCTTT
5105908 AAAAC
1 AAAAC
5105913 CTCCGGGTAT
Statistics
Matches: 112, Mismatches: 15, Indels: 18
0.77 0.10 0.12
Matches are distributed among these distances:
42 5 0.04
43 53 0.47
44 31 0.28
45 23 0.21
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (43 bp):
AAAACTTCTGAGTATCTTTTTAAAACCTTCAGATATCATCTTT
Found at i:5105991 original size:44 final size:44
Alignment explanation
Indices: 5105943--5106044 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 44
5105933 ACTTGCAGGA
*** *
5105943 ATCATTTTCAAAATCTATGGGTATCATTTTCAAAATCTACGGGT
1 ATCATTTTCAAAATCTACAAGTATCATTTTCAAAACCTACGGGT
* * *
5105987 ATCATTTTCACAATCTCCAAGTATCATTTTCAAAACCTCCGGGT
1 ATCATTTTCAAAATCTACAAGTATCATTTTCAAAACCTACGGGT
*
5106031 ATCATCTTTAAAAA
1 ATCAT-TTTCAAAA
5106045 CTCCAGGTGT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
44 42 0.88
45 6 0.12
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (44 bp):
ATCATTTTCAAAATCTACAAGTATCATTTTCAAAACCTACGGGT
Found at i:5106026 original size:22 final size:22
Alignment explanation
Indices: 5105875--5106066 Score: 106
Period size: 22 Copynumber: 8.8 Consensus size: 22
5105865 AAAACTTCGG
*
5105875 GGTATC-TTTT-ACAAACCTCTA
1 GGTATCATTTTCA-AAACCTCCA
* * *
5105896 GATATTATCTTT-AAAACCTCCG
1 GGTATCAT-TTTCAAAACCTCCA
* * * * *
5105918 GGTATCGTTCTAAAAACTTGCA
1 GGTATCATTTTCAAAACCTCCA
* * ***
5105940 GGAATCATTTTCAAAATCTATG
1 GGTATCATTTTCAAAACCTCCA
* * *
5105962 GGTATCATTTTCAAAATCTACG
1 GGTATCATTTTCAAAACCTCCA
* *
5105984 GGTATCATTTTCACAATCTCCA
1 GGTATCATTTTCAAAACCTCCA
* *
5106006 AGTATCATTTTCAAAACCTCCG
1 GGTATCATTTTCAAAACCTCCA
*
5106028 GGTATCATCTTT-AAAAACTCCA
1 GGTATCAT-TTTCAAAACCTCCA
*
5106050 GGTGTCATCTTT-AAAAC
1 GGTATCAT-TTTCAAAAC
5106067 TTTAGGGTAT
Statistics
Matches: 133, Mismatches: 34, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
21 6 0.05
22 120 0.90
23 7 0.05
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (22 bp):
GGTATCATTTTCAAAACCTCCA
Found at i:5106049 original size:44 final size:44
Alignment explanation
Indices: 5105963--5106087 Score: 130
Period size: 44 Copynumber: 2.8 Consensus size: 44
5105953 AAATCTATGG
* * *
5105963 GTATCATTTTCAAAATCTACGGGTATCAT-TTTCACAATCTCCAA
1 GTATCATTTTCAAAACCTACGGGTATCATCTTT-AAAAACTCCAA
* *
5106007 GTATCATTTTCAAAACCTCCGGGTATCATCTTTAAAAACTCCAG
1 GTATCATTTTCAAAACCTACGGGTATCATCTTTAAAAACTCCAA
* * *
5106051 GTGTCATCTTT-AAAACTTTA-GGGTATCATCCTTAAAA
1 GTATCAT-TTTCAAAAC-CTACGGGTATCATCTTTAAAA
5106088 CCTTTGGTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
44 62 0.90
45 7 0.10
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (44 bp):
GTATCATTTTCAAAACCTACGGGTATCATCTTTAAAAACTCCAA
Found at i:5106876 original size:20 final size:21
Alignment explanation
Indices: 5106840--5106882 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
5106830 GGAGAGATCA
5106840 CAAGAACAATCAATAATTCAG
1 CAAGAACAATCAATAATTCAG
*
5106861 CAAG-ACAA-CAAGTAATTGAG
1 CAAGAACAATCAA-TAATTCAG
5106881 CA
1 CA
5106883 GCAAACAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 3 0.15
20 13 0.65
21 4 0.20
ACGTcount: A:0.51, C:0.19, G:0.14, T:0.16
Consensus pattern (21 bp):
CAAGAACAATCAATAATTCAG
Found at i:5107166 original size:11 final size:11
Alignment explanation
Indices: 5107137--5107178 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
5107127 TACATACTTG
*
5107137 TTTATTTTTATA
1 TTTATTTAT-TA
5107149 TTTATTTATTCA
1 TTTATTTATT-A
5107161 -TTATTTATTA
1 TTTATTTATTA
5107171 TTTATTTA
1 TTTATTTA
5107179 GGTTTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 1 0.04
11 17 0.63
12 9 0.33
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:5110715 original size:155 final size:154
Alignment explanation
Indices: 5110374--5110736 Score: 410
Period size: 158 Copynumber: 2.3 Consensus size: 154
5110364 GTTGCCTTGT
* *
5110374 TTTATTGAACTAGATAATGTT-TTGTGTGTATTAAGATGCAATGGCTTTGTGAAAGGTGAAAATT
1 TTTATTGAACTAGAT-AT-TTATTGTGTGTATTAAGATGCAATGACTTTGTGAAAGGTGAAAACT
* * *
5110438 GTAGCGTATTTTGCTTTGTAATTCTTATTGTGCATTGTGCTTGTTGATAAACTACTTTTATAGCA
64 GTAGCGTATTTTGCTTTGT-ATTCTCATTGTGCATTATGCTTGTTG--AAACTACTTTTATAACA
* * *
5110503 TTTCAAAGCATAACACTTATTGGAAATTC
126 ATTCAAAGCATAAAACTTATAGGAAATTC
* * **
5110532 TTTATTAAACTAGATATTGTATTGTGTGTCTTGTGATGCAATGACTTT-TAGAAAGGTGAAAACT
1 TTTATTGAACTAGATATT-TATTGTGTGTATTAAGATGCAATGACTTTGT-GAAAGGTGAAAACT
* * * * * *
5110596 GTTGCTTTTTTTTCATTTTGT-TTCTCATTGTGTATTATGCTTGTTG-AACTACTTTTATAATAA
64 GTAGCGTATTTTGC--TTTGTATTCTCATTGTGCATTATGCTTGTTGAAACTACTTTTATAACAA
* * *
5110659 TTCAAAGCCTAAAATTTGTAGGAAATTC
127 TTCAAAGCATAAAACTTATAGGAAATTC
*
5110687 TTTATTGAACTAGATAGTTTATTATGTGTATTAAGATGCAATGACTTTGT
1 TTTATTGAACTAGATA-TTTATTGTGTGTATTAAGATGCAATGACTTTGT
5110737 AAAATATGAA
Statistics
Matches: 172, Mismatches: 26, Indels: 16
0.80 0.12 0.07
Matches are distributed among these distances:
155 77 0.45
156 4 0.02
157 4 0.02
158 82 0.48
160 5 0.03
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (154 bp):
TTTATTGAACTAGATATTTATTGTGTGTATTAAGATGCAATGACTTTGTGAAAGGTGAAAACTGT
AGCGTATTTTGCTTTGTATTCTCATTGTGCATTATGCTTGTTGAAACTACTTTTATAACAATTCA
AAGCATAAAACTTATAGGAAATTC
Found at i:5111684 original size:22 final size:22
Alignment explanation
Indices: 5111659--5111721 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
5111649 AAACTACTTG
*
5111659 TGGATTATCTATAGATTACCGA
1 TGGATTATCTATAGATTACCAA
*
5111681 TGGATTATTTATAGATTACCAA
1 TGGATTATCTATAGATTACCAA
*
5111703 TGGATTACCTATAGATTAC
1 TGGATTATCTATAGATTAC
5111722 ATGAAATCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (22 bp):
TGGATTATCTATAGATTACCAA
Found at i:5111686 original size:11 final size:11
Alignment explanation
Indices: 5111661--5111721 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
5111651 ACTACTTGTG
*
5111661 GATTATCTATA
1 GATTACCTATA
* *
5111672 GATTACCGATG
1 GATTACCTATA
**
5111683 GATTATTTATA
1 GATTACCTATA
* *
5111694 GATTACCAATG
1 GATTACCTATA
5111705 GATTACCTATA
1 GATTACCTATA
5111716 GATTAC
1 GATTAC
5111722 ATGAAATCAA
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 37 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (11 bp):
GATTACCTATA
Found at i:5112573 original size:3 final size:3
Alignment explanation
Indices: 5112529--5112558 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
5112519 TTTTAAAAAT
5112529 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5112559 AAACACTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5114912 original size:17 final size:18
Alignment explanation
Indices: 5114892--5114925 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5114882 TCTAGTTCTC
5114892 AATCATTT-ATTTTTTTT
1 AATCATTTCATTTTTTTT
*
5114909 AATCTTTTCATTTTTTT
1 AATCATTTCATTTTTTT
5114926 CATTTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (18 bp):
AATCATTTCATTTTTTTT
Found at i:5117162 original size:14 final size:14
Alignment explanation
Indices: 5117145--5117173 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5117135 TTATATAAAA
5117145 AAAAAATTATATAT
1 AAAAAATTATATAT
5117159 AAAAAATTATATAT
1 AAAAAATTATATAT
5117173 A
1 A
5117174 CAAAGACAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAAAATTATATAT
Found at i:5117171 original size:16 final size:16
Alignment explanation
Indices: 5117134--5117173 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
5117124 ATTGATTGTT
*
5117134 ATTATATAAAAAAAAA
1 ATTATATATAAAAAAA
5117150 ATTATATAT--AAAAA
1 ATTATATATAAAAAAA
5117164 ATTATATATA
1 ATTATATATA
5117174 CAAAGACAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 14 0.64
16 8 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTATATATAAAAAAA
Found at i:5118965 original size:19 final size:20
Alignment explanation
Indices: 5118941--5118982 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
5118931 ATTTAAAATT
* *
5118941 TAAAAC-AATTTTGTATGAA
1 TAAAACTAATCTTATATGAA
5118960 TAAAACTAATCTTATATGAA
1 TAAAACTAATCTTATATGAA
5118980 TAA
1 TAA
5118983 TCCATAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (20 bp):
TAAAACTAATCTTATATGAA
Found at i:5131698 original size:21 final size:21
Alignment explanation
Indices: 5131649--5131689 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
5131639 TTTAATACAT
*
5131649 TCTTCTTCAATTCTAGCATGC
1 TCTTATTCAATTCTAGCATGC
5131670 TCTTATTCAATTCTAGCATG
1 TCTTATTCAATTCTAGCATG
5131690 TTTATATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.44
Consensus pattern (21 bp):
TCTTATTCAATTCTAGCATGC
Found at i:5137015 original size:11 final size:11
Alignment explanation
Indices: 5136995--5137038 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
5136985 TCATAATAAT
5136995 TTAATA-CAAA
1 TTAATATCAAA
5137005 TTAATATCAAA
1 TTAATATCAAA
5137016 TTAA-AT---A
1 TTAATATCAAA
5137023 TTAATATCAAA
1 TTAATATCAAA
5137034 TTAAT
1 TTAAT
5137039 CATATTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
7 5 0.17
8 2 0.07
10 8 0.28
11 14 0.48
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (11 bp):
TTAATATCAAA
Found at i:5137046 original size:27 final size:28
Alignment explanation
Indices: 5136995--5137053 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 28
5136985 TCATAATAAT
5136995 TTAATACAAATTAATATCAAATTAAATA
1 TTAATACAAATTAATATCAAATTAAATA
*
5137023 TTAATATCAAATT-A-ATCATATTAAATA
1 TTAATA-CAAATTAATATCAAATTAAATA
5137050 TTAA
1 TTAA
5137054 AATTTAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 16 0.55
28 7 0.24
29 6 0.21
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (28 bp):
TTAATACAAATTAATATCAAATTAAATA
Found at i:5137062 original size:27 final size:27
Alignment explanation
Indices: 5137001--5137065 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
5136991 TAATTTAATA
*
5137001 CAAATTAATATCAAATTAAATATTAATAT
1 CAAATT-A-ATCAAATTAAATATTAAAAT
*
5137030 CAAATTAATCATATTAAATATTAAAAT
1 CAAATTAATCAAATTAAATATTAAAAT
**
5137057 TTAATTAAT
1 CAAATTAAT
5137066 ATTAATTCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 25 0.78
28 1 0.03
29 6 0.19
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (27 bp):
CAAATTAATCAAATTAAATATTAAAAT
Found at i:5137115 original size:21 final size:21
Alignment explanation
Indices: 5137063--5137115 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
5137053 AAATTTAATT
** *
5137063 AATATTAATTCCATAATATTA
1 AATATTAATTTAATAATACTA
*
5137084 AATGTTAATTTAATAATACTA
1 AATATTAATTTAATAATACTA
5137105 AATATTAATTT
1 AATATTAATTT
5137116 CAAATTATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (21 bp):
AATATTAATTTAATAATACTA
Found at i:5137156 original size:20 final size:20
Alignment explanation
Indices: 5137131--5137212 Score: 67
Period size: 21 Copynumber: 4.0 Consensus size: 20
5137121 TATTTCCAAT
5137131 TATTAAATATT-TTATAATAA
1 TATTAAATATTATT-TAATAA
5137151 TATTAAATATTATTTAATAA
1 TATTAAATATTATTTAATAA
* ** * **
5137171 CATTTCACATTAAAGTAATAA
1 TATTAAATATT-ATTTAATAA
*
5137192 TATTTAATATTAATTTAATAA
1 TATTAAATATT-ATTTAATAA
5137213 GATTTATAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
20 24 0.49
21 25 0.51
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (20 bp):
TATTAAATATTATTTAATAA
Found at i:5137203 original size:21 final size:21
Alignment explanation
Indices: 5137145--5137244 Score: 78
Period size: 21 Copynumber: 4.8 Consensus size: 21
5137135 AAATATTTTA
*
5137145 TAATAATATTAAATATT-ATT
1 TAATAATATTTAATATTAATT
* * * **
5137165 TAATAACATTTCACATTAAAG
1 TAATAATATTTAATATTAATT
5137186 TAATAATATTTAATATTAATT
1 TAATAATATTTAATATTAATT
* * *
5137207 TAATAAGATTT-ATAAATATTT
1 TAATAATATTTAAT-ATTAATT
*
5137228 TCATAATATTTTAATAT
1 TAATAATA-TTTAATAT
5137245 CATATATTCA
Statistics
Matches: 59, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
20 15 0.25
21 38 0.64
22 4 0.07
23 2 0.03
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (21 bp):
TAATAATATTTAATATTAATT
Found at i:5137277 original size:9 final size:10
Alignment explanation
Indices: 5137145--5137301 Score: 69
Period size: 10 Copynumber: 15.5 Consensus size: 10
5137135 AAATATTTTA
5137145 TAATAATATT
1 TAATAATATT
* *
5137155 AAATATTATT
1 TAATAATATT
*
5137165 TAATAACATT
1 TAATAATATT
*
5137175 TCACATTAA-A-G
1 T-A-A-TAATATT
5137186 TAATAATATT
1 TAATAATATT
*
5137196 TAATATTAATT
1 TAATAAT-ATT
*
5137207 TAATAAGATT
1 TAATAATATT
5137217 T-ATAAATATTT
1 TAAT-AATA-TT
*
5137228 TCATAATATT
1 TAATAATATT
5137238 T--TAATA-T
1 TAATAATATT
* *
5137245 CATATATTCATT
1 TA-ATAAT-ATT
5137257 TAATAATA-T
1 TAATAATATT
5137266 TAA-AATATT
1 TAATAATATT
*
5137275 TAATATTATTT
1 TAATAATA-TT
*
5137286 TCATAATATT
1 TAATAATATT
5137296 CTAATA
1 -TAATA
5137302 TTAATGTAGT
Statistics
Matches: 110, Mismatches: 19, Indels: 35
0.67 0.12 0.21
Matches are distributed among these distances:
7 1 0.01
8 12 0.11
9 12 0.11
10 42 0.38
11 34 0.31
12 6 0.05
13 3 0.03
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (10 bp):
TAATAATATT
Found at i:5137301 original size:29 final size:30
Alignment explanation
Indices: 5137223--5137303 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 30
5137213 GATTTATAAA
*
5137223 TATTTTCATAATATTTTAATA-TCATATAT
1 TATTTTCATAATATTATAATATTCATATAT
* * *
5137252 TCA-TTTAATAATATTAAAATATTTA-ATAT
1 T-ATTTTCATAATATTATAATATTCATATAT
*
5137281 TATTTTCATAATATTCTAATATT
1 TATTTTCATAATATTATAATATT
5137304 AATGTAGTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
28 1 0.02
29 38 0.90
30 3 0.07
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (30 bp):
TATTTTCATAATATTATAATATTCATATAT
Found at i:5137390 original size:28 final size:29
Alignment explanation
Indices: 5137324--5137403 Score: 80
Period size: 28 Copynumber: 2.9 Consensus size: 29
5137314 TAAATAGTAA
5137324 ATTA-TAATAATATTTTAATA-T-TGACT
1 ATTATTAATAATATTTTAATATTATGACT
*
5137350 ATTAATTAGTAATATTTTAATATTATGA-T
1 ATT-ATTAATAATATTTTAATATTATGACT
**
5137379 GATT-TTAATAATATTCAAATATTAT
1 -ATTATTAATAATATTTTAATATTAT
5137404 TATAATATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
26 3 0.07
27 1 0.02
28 33 0.73
29 2 0.04
30 6 0.13
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (29 bp):
ATTATTAATAATATTTTAATATTATGACT
Found at i:5137468 original size:29 final size:29
Alignment explanation
Indices: 5137387--5137634 Score: 125
Period size: 29 Copynumber: 8.3 Consensus size: 29
5137377 ATGATTTTAA
5137387 TAATATTCAAATATT-A-TT-ATAATA-TT
1 TAATATT-AAATATTAATTTAATAATATTT
* * *
5137413 AAATATTAAATAAGTAATTTTACAATATTATTT
1 TAATATTAAAT-ATTAA-TTT--AATAATATTT
*
5137446 TAATATTAAACATTAATTTAATAATA-TT
1 TAATATTAAATATTAATTTAATAATATTT
* *
5137474 TATGTATTAAATATTAATTT-AT-ATATCT
1 TA-ATATTAAATATTAATTTAATAATATTT
* * * *
5137502 TAAAATTTAATATTATTTTAAAAATATTT
1 TAATATTAAATATTAATTTAATAATATTT
* * *
5137531 TAATGATTTCTTAATATTAAATATAATTTGAAAATTTT
1 TAAT-A--T-TAAATATT-AATTTAA--T-AATA-TTT
* *
5137569 TAATATTAAATATTAATTGAATAATAATT
1 TAATATTAAATATTAATTTAATAATATTT
* * * *
5137598 TAATA-TATTATATTAATTTTATTATATTG
1 TAATATTA-AATATTAATTTAATAATATTT
5137627 TAATATTA
1 TAATATTA
5137635 GTTTTTATTA
Statistics
Matches: 167, Mismatches: 32, Indels: 42
0.69 0.13 0.17
Matches are distributed among these distances:
25 4 0.02
26 8 0.05
27 17 0.10
28 12 0.07
29 58 0.35
30 6 0.04
31 4 0.02
32 10 0.06
33 24 0.14
34 12 0.07
35 1 0.01
37 4 0.02
38 7 0.04
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (29 bp):
TAATATTAAATATTAATTTAATAATATTT
Found at i:5137482 original size:40 final size:40
Alignment explanation
Indices: 5137382--5137475 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
5137372 TTATGATGAT
* *
5137382 TTTAATAATATTCAAATATTATTATAATATTAAATATTAA
1 TTTAATAATATTTAAATATTATTATAATATTAAACATTAA
* *
5137422 -ATAAGTAAT-TTTACAATATTATTTTAATATTAAACATTAA
1 TTTAA-TAATATTTA-AATATTATTATAATATTAAACATTAA
5137462 TTTAATAATATTTA
1 TTTAATAATATTTA
5137476 TGTATTAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
39 6 0.13
40 32 0.71
41 7 0.16
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (40 bp):
TTTAATAATATTTAAATATTATTATAATATTAAACATTAA
Found at i:5137576 original size:27 final size:28
Alignment explanation
Indices: 5137536--5137603 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 28
5137526 TATTTTAATG
5137536 ATTTCTTAATATTAAATA-TAATTTGAA-A
1 ATTT-TTAATATTAAATATTAA-TTGAATA
5137564 ATTTTTAATATTAAATATTAATTGAATA
1 ATTTTTAATATTAAATATTAATTGAATA
*
5137592 ATAATTTAATAT
1 AT-TTTTAATAT
5137604 ATTATATTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 18 0.50
28 10 0.28
29 8 0.22
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (28 bp):
ATTTTTAATATTAAATATTAATTGAATA
Found at i:5137697 original size:72 final size:70
Alignment explanation
Indices: 5137565--5137705 Score: 167
Period size: 72 Copynumber: 2.0 Consensus size: 70
5137555 AATTTGAAAA
* * * *
5137565 TTTTTAATATTAAATATTAATTGAATAATAATTTAATATATTATATTAATTTTATTATATTGTAA
1 TTTTTAATATCAAATATTAATTGAATAAGAATTTAATATAGTATATTAATTTTATAATATT-TAA
5137630 TATTAG
65 TATTAG
* * * * *
5137636 TTTTTATTATCAAATATTTATTTTAATAAGATTTTAATATAGTATATT-ATTTTAATAATATTTT
1 TTTTTAATATCAAATA-TTAATTGAATAAGAATTTAATATAGTATATTAATTTT-ATAATATTTA
5137700 ATATTA
64 ATATTA
5137706 AATATTAATT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
71 26 0.44
72 33 0.56
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (70 bp):
TTTTTAATATCAAATATTAATTGAATAAGAATTTAATATAGTATATTAATTTTATAATATTTAAT
ATTAG
Found at i:5137712 original size:28 final size:29
Alignment explanation
Indices: 5137637--5137743 Score: 112
Period size: 29 Copynumber: 3.7 Consensus size: 29
5137627 TAATATTAGT
* * *
5137637 TTTTATTATCAAATATTTATTTTAATAAGA
1 TTTTAGTATTAAATA-TTATTTTAATAATA
* *
5137667 TTTTAATA-TAGTATATTATTTTAATAATA
1 TTTTAGTATTA-AATATTATTTTAATAATA
*
5137696 TTTTA-TATTAAATATTA-ATTAATAATA
1 TTTTAGTATTAAATATTATTTTAATAATA
*
5137723 TTTTAGTATTCAATATTATTT
1 TTTTAGTATTAAATATTATTT
5137744 AACTATATGA
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
27 14 0.22
28 19 0.29
29 22 0.34
30 10 0.15
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (29 bp):
TTTTAGTATTAAATATTATTTTAATAATA
Found at i:5137751 original size:28 final size:27
Alignment explanation
Indices: 5137637--5137745 Score: 103
Period size: 28 Copynumber: 3.8 Consensus size: 27
5137627 TAATATTAGT
* *
5137637 TTTTATTATCAAATATTTATTTTAATAAGA
1 TTTTA-TATTAAATA-TTA-TTTAATAATA
*
5137667 TTTTA-ATATAGTATATTATTTTAATAATA
1 TTTTATAT-TA-AATATTA-TTTAATAATA
*
5137696 TTTTATATTAAATATTAATTAATAATA
1 TTTTATATTAAATATTATTTAATAATA
*
5137723 TTTTAGTATTCAATATTATTTAA
1 TTTTA-TATTAAATATTATTTAA
5137746 CTATATGAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
27 14 0.21
28 23 0.34
29 21 0.31
30 10 0.15
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (27 bp):
TTTTATATTAAATATTATTTAATAATA
Found at i:5137810 original size:14 final size:15
Alignment explanation
Indices: 5137760--5137814 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 15
5137750 ATGAAAGTAA
5137760 TATAATTAATTATTTAT
1 TATAATTAA-TA-TTAT
*
5137777 CA-AATTAA-A-TAT
1 TATAATTAATATTAT
5137789 TATAATTAATATTAT
1 TATAATTAATATTAT
5137804 T-TAATTAATAT
1 TATAATTAATAT
5137815 AAATAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
12 4 0.12
13 6 0.18
14 12 0.36
15 4 0.12
16 6 0.18
17 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
TATAATTAATATTAT
Found at i:5138235 original size:49 final size:49
Alignment explanation
Indices: 5138163--5138256 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
5138153 CATCAAGTCT
* * * *
5138163 TTGATTTCTAGGAAACGTGGTCCATAACATTGATTACAAATTTTGAGAC
1 TTGATTTCTAGGAAACATGGTCCAAAACATTGAGTACAAAATTTGAGAC
* *
5138212 TTGATTTTTGGGAAACATGGTCCAAAACATTGAGTACAAAATTTG
1 TTGATTTCTAGGAAACATGGTCCAAAACATTGAGTACAAAATTTG
5138257 TGTGGGAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (49 bp):
TTGATTTCTAGGAAACATGGTCCAAAACATTGAGTACAAAATTTGAGAC
Found at i:5143640 original size:48 final size:48
Alignment explanation
Indices: 5143588--5144022 Score: 489
Period size: 49 Copynumber: 8.9 Consensus size: 48
5143578 ACTTGAAAAA
* * *
5143588 CTCCTATAAAGTTAGGCTAAGAAACTTTTAAAATTTCATTTTGAAAGG
1 CTCCTATAAAGATAGGCTAAGAAACTTTAAAAATCTCATTTTGAAAGG
* *
5143636 CTCCTATAAAGATAGGCTAAAAAATTTTAAAAATCTCAATTTTGAAAGG
1 CTCCTATAAAGATAGGCTAAGAAACTTTAAAAATCTC-ATTTTGAAAGG
* * * * *
5143685 CTTCTATAAATATAGGGTAAGAAACTTTTAAAAATCTAAATTTTGAAAAG
1 CTCCTATAAAGATAGGCTAAGAAAC-TTTAAAAATCT-CATTTTGAAAGG
* * *
5143735 CTTAC-ATAAAAATAGGCCAAGAAACTTTAAAAATCTCATTTTGAAAGG
1 C-TCCTATAAAGATAGGCTAAGAAACTTTAAAAATCTCATTTTGAAAGG
* *
5143783 CTCCTATAAAGATAGGATAAGAAACCTTAAAAATCTCATTTTGAAAGG
1 CTCCTATAAAGATAGGCTAAGAAACTTTAAAAATCTCATTTTGAAAGG
* * *
5143831 CTCTTATAAATATAGGCTAAGAAACTTTAAAAAATTTCATTTTGAAAAAGGG
1 CTCCTATAAAGATAGGCTAAGAAACTTT-AAAAATCTCATTTTG--AAA-GG
* * * *
5143883 CTCCTATAAAAATAGGCTAAGGAA--TTAGAAAATTCTCAATTCTGAAAAG
1 CTCCTATAAAGATAGGCTAAGAAACTTTA-AAAA-TCTC-ATTTTGAAAGG
* *
5143932 CTCCTATAAAGATAGGCTAAGAAATTTTAAAAATCTCATTTTGAAAAAG
1 CTCCTATAAAGATAGGCTAAGAAACTTTAAAAATCTCATTTTG-AAAGG
* * * *
5143981 CTTCTATAAAGATAGGCTAGGGAACTTTAAAAATATCATTTT
1 CTCCTATAAAGATAGGCTAAGAAACTTTAAAAATCTCATTTT
5144023 AAAATTTTTT
Statistics
Matches: 330, Mismatches: 42, Indels: 29
0.82 0.10 0.07
Matches are distributed among these distances:
47 2 0.01
48 111 0.34
49 126 0.38
50 52 0.16
51 11 0.03
52 28 0.08
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.31
Consensus pattern (48 bp):
CTCCTATAAAGATAGGCTAAGAAACTTTAAAAATCTCATTTTGAAAGG
Found at i:5144586 original size:15 final size:16
Alignment explanation
Indices: 5144568--5144608 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
5144558 CATTCATCCA
5144568 TTCATCATTTC-ATTT
1 TTCATCATTTCAATTT
5144583 TTCATCATTTTCAATTT
1 TTCATCA-TTTCAATTT
*
5144600 TCCATCATT
1 TTCATCATT
5144609 ATTGTCATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 7 0.30
16 6 0.26
17 10 0.43
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (16 bp):
TTCATCATTTCAATTT
Found at i:5146110 original size:21 final size:21
Alignment explanation
Indices: 5146081--5146135 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
5146071 GGTAAGGAGA
*
5146081 GGATCGATCCCTTCCCTTAAG
1 GGATTGATCCCTTCCCTTAAG
*
5146102 GGATTGATCCCTTCCCTTAGG
1 GGATTGATCCCTTCCCTTAAG
5146123 GGATTGATCCCTT
1 GGATTGATCCCTT
5146136 TTATCAAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.16, C:0.29, G:0.22, T:0.33
Consensus pattern (21 bp):
GGATTGATCCCTTCCCTTAAG
Found at i:5159366 original size:3 final size:3
Alignment explanation
Indices: 5159358--5159406 Score: 55
Period size: 3 Copynumber: 15.7 Consensus size: 3
5159348 CCATTAAAAT
*
5159358 TTA TTA TTA TTA TTA TTTA TTA CTTA GTTA TTA TT- TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA
5159405 TT
1 TT
5159407 TAATAATTCC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
2 2 0.05
3 29 0.73
4 9 0.22
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5164136 original size:21 final size:21
Alignment explanation
Indices: 5164110--5164150 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
5164100 TCAAATTCAC
5164110 ATATATATAAATTATATATAT
1 ATATATATAAATTATATATAT
*
5164131 ATATATATGAATTATATATA
1 ATATATATAAATTATATATA
5164151 AATTATTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
ATATATATAAATTATATATAT
Found at i:5164185 original size:33 final size:32
Alignment explanation
Indices: 5164116--5164194 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
5164106 TCACATATAT
* * * *
5164116 ATAAATTATATATATATATATATGAATTATAT
1 ATAAATTATATACATATATATATAAATTAAAA
*
5164148 ATAAATTATTTCACATATATATATAAATTAAAA
1 ATAAATTATAT-ACATATATATATAAATTAAAA
5164181 ATAAAAATTATATA
1 AT--AAATTATATA
5164195 TCTTATTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
32 10 0.26
33 19 0.50
34 1 0.03
35 8 0.21
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (32 bp):
ATAAATTATATACATATATATATAAATTAAAA
Found at i:5164228 original size:19 final size:19
Alignment explanation
Indices: 5164204--5164243 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
5164194 ATCTTATTAA
*
5164204 ATTTATTTTTAATTTTTAT
1 ATTTATTTTTAATTTGTAT
5164223 ATTTATTTTTAATTTGTAT
1 ATTTATTTTTAATTTGTAT
5164242 AT
1 AT
5164244 ATATATGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (19 bp):
ATTTATTTTTAATTTGTAT
Found at i:5174204 original size:25 final size:24
Alignment explanation
Indices: 5174160--5174220 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
5174150 GAGTGAATAT
*
5174160 AATATATATATATGAGAAATTATTA
1 AATATATAAATATGAGAAATT-TTA
5174185 AATATATAAATAATGA-AAATTTTA
1 AATATATAAAT-ATGAGAAATTTTA
*
5174209 AATTTTATAAAT
1 AA-TATATAAAT
5174221 TAAATTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 5 0.16
25 23 0.72
26 4 0.12
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (24 bp):
AATATATAAATATGAGAAATTTTA
Found at i:5180035 original size:24 final size:24
Alignment explanation
Indices: 5180000--5180054 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
5179990 ACCATGTCAG
* *
5180000 AAGTTTAACCCTATTTTCTACAGA
1 AAGTTTTACCCTATTTTCCACAGA
*
5180024 AATTTTTACCCTATTTTCCACAGA
1 AAGTTTTACCCTATTTTCCACAGA
5180048 AAGTTTT
1 AAGTTTT
5180055 GAAGAAGTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (24 bp):
AAGTTTTACCCTATTTTCCACAGA
Found at i:5183811 original size:45 final size:45
Alignment explanation
Indices: 5183721--5183811 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 45
5183711 AATATTTTAA
* ** *
5183721 TTTAAAATATTAGTTTTATTTATATATAATTAAAATATAATTTAT
1 TTTAAAATAATAGTTTTATGCATATATAATTAAAATATAAATTAT
* * *
5183766 TTTAAAATAATATTTTTATGCATATA-AATATTAAATTTAAATTAT
1 TTTAAAATAATAGTTTTATGCATATATAAT-TAAAATATAAATTAT
5183811 T
1 T
5183812 AAATTAATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 3 0.08
45 35 0.92
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (45 bp):
TTTAAAATAATAGTTTTATGCATATATAATTAAAATATAAATTAT
Found at i:5192512 original size:3 final size:3
Alignment explanation
Indices: 5192504--5192532 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
5192494 TTCAAAAATT
5192504 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5192533 TAAACTAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5192873 original size:8 final size:8
Alignment explanation
Indices: 5192860--5192888 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
5192850 CATATTTCTC
5192860 TCTCTTTT
1 TCTCTTTT
5192868 TCTCTTTT
1 TCTCTTTT
5192876 TCTCTTTT
1 TCTCTTTT
5192884 TCTCT
1 TCTCT
5192889 CTCTAACTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (8 bp):
TCTCTTTT
Found at i:5194189 original size:14 final size:14
Alignment explanation
Indices: 5194148--5194201 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
5194138 ACCTCATGTT
* *
5194148 TGCAATGTATGTAA
1 TGCAATGCATGAAA
5194162 TG-AATGTCAT-AAA
1 TGCAATG-CATGAAA
5194175 TGCAATGCATGAAA
1 TGCAATGCATGAAA
*
5194189 TGCAATGAATGAA
1 TGCAATGCATGAA
5194202 TCCATAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 11 0.32
14 23 0.68
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (14 bp):
TGCAATGCATGAAA
Found at i:5194904 original size:23 final size:22
Alignment explanation
Indices: 5194866--5194909 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
5194856 CCTATTTTAG
5194866 TTTTTTCTTTTCTTATTTTTCA
1 TTTTTTCTTTTCTTATTTTTCA
5194888 TTTTTTCATTGTT-TTATTTTTC
1 TTTTTTC-TT-TTCTTATTTTTC
5194910 CTTGTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 11 0.55
24 2 0.10
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTTTTCTTTTCTTATTTTTCA
Found at i:5199081 original size:98 final size:95
Alignment explanation
Indices: 5198972--5199159 Score: 259
Period size: 98 Copynumber: 1.9 Consensus size: 95
5198962 GGAGATTTAA
* ** ** **
5198972 ATCCTCTAATCATTTGGTAGGATAACAAAATTATTTTTTTTTTAAATTCATTATGAAATTCTTTG
1 ATCCTCAAATCATTAAGTAGGATAACAAAATTA--TTTTTTCAAAATTCATTATGAAATTC-TCA
5199037 ATCATTTGGTAGAATTCATAATTCAAAATATAG
63 ATCATTTGGTAGAATTCATAATTCAAAATATAG
*
5199070 ATCCTCAAATCATTAAGTAGGATTACAAAATTATTTTTTCAAAATTCATTATGAAATTCTCAATC
1 ATCCTCAAATCATTAAGTAGGATAACAAAATTATTTTTTCAAAATTCATTATGAAATTCTCAATC
* *
5199135 GTTTGGTAGAATTCATAATTTAAAA
66 ATTTGGTAGAATTCATAATTCAAAA
5199160 ATTTTTAAAC
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
95 27 0.34
96 24 0.30
98 29 0.36
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (95 bp):
ATCCTCAAATCATTAAGTAGGATAACAAAATTATTTTTTCAAAATTCATTATGAAATTCTCAATC
ATTTGGTAGAATTCATAATTCAAAATATAG
Found at i:5200497 original size:17 final size:19
Alignment explanation
Indices: 5200461--5200498 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
5200451 AATTGAGGCT
*
5200461 TTTGACTGTTGATTGCTTC
1 TTTGACTGTTGATTGATTC
5200480 TTTGACT-TTG-TTGATTC
1 TTTGACTGTTGATTGATTC
5200497 TT
1 TT
5200499 GGATTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 3 0.17
19 7 0.39
ACGTcount: A:0.11, C:0.13, G:0.18, T:0.58
Consensus pattern (19 bp):
TTTGACTGTTGATTGATTC
Found at i:5201121 original size:18 final size:18
Alignment explanation
Indices: 5201098--5201145 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
5201088 TTATTTCAAT
5201098 TTAAAA-TCAATAGCATAA
1 TTAAAACTCAATAGCA-AA
* *
5201116 TTAAAAGTCCAATATCAAA
1 TTAAAACT-CAATAGCAAA
5201135 TTAAAACTCAA
1 TTAAAACTCAA
5201146 AGTCCAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 9 0.35
19 10 0.38
20 7 0.27
ACGTcount: A:0.54, C:0.15, G:0.04, T:0.27
Consensus pattern (18 bp):
TTAAAACTCAATAGCAAA
Found at i:5201136 original size:19 final size:17
Alignment explanation
Indices: 5201093--5201145 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
5201083 TTGTTTTATT
*
5201093 TCAATTTAAAATCAATA
1 TCAAATTAAAATCAATA
*
5201110 GCATAATTAAAAGTCCAATA
1 TCA-AATTAAAA-T-CAATA
5201130 TCAAATTAAAACTCAA
1 TCAAATTAAAA-TCAA
5201146 AGTCCAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 2 0.07
18 10 0.34
19 10 0.34
20 7 0.24
ACGTcount: A:0.53, C:0.15, G:0.04, T:0.28
Consensus pattern (17 bp):
TCAAATTAAAATCAATA
Found at i:5204323 original size:13 final size:13
Alignment explanation
Indices: 5204301--5204330 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5204291 TCGATTCACT
*
5204301 TTTTTCGTTTTAA
1 TTTTTAGTTTTAA
5204314 TTTTTAGTTTTAA
1 TTTTTAGTTTTAA
5204327 TTTT
1 TTTT
5204331 GTGTATGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.73
Consensus pattern (13 bp):
TTTTTAGTTTTAA
Found at i:5208854 original size:21 final size:21
Alignment explanation
Indices: 5208828--5208869 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
5208818 ACAGTCCTGT
5208828 GTTCTGGTGGTAAAGTTTTAA
1 GTTCTGGTGGTAAAGTTTTAA
* *
5208849 GTTCTGTTGGTAGAGTTTTAA
1 GTTCTGGTGGTAAAGTTTTAA
5208870 ATGTGGTCCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.29, T:0.45
Consensus pattern (21 bp):
GTTCTGGTGGTAAAGTTTTAA
Found at i:5209986 original size:20 final size:20
Alignment explanation
Indices: 5209933--5209986 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
5209923 ATATGTTTGG
5209933 CAAAAAATTA-ATTGGTCAA
1 CAAAAAATTATATTGGTCAA
*
5209952 CAAAAAATATTTATTGAG-CAA
1 CAAAAAAT-TATATTG-GTCAA
*
5209973 TAAAAAATTATATT
1 CAAAAAATTATATT
5209987 TCTTTTATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 8 0.28
20 6 0.21
21 14 0.48
22 1 0.03
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.31
Consensus pattern (20 bp):
CAAAAAATTATATTGGTCAA
Found at i:5210018 original size:20 final size:20
Alignment explanation
Indices: 5209971--5210019 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
5209961 TTTATTGAGC
*
5209971 AATAAAAAATTATATTTCTT
1 AATAGAAAATTATATTTCTT
* *
5209991 -TTATGAAAATTATCTTTCTT
1 AATA-GAAAATTATATTTCTT
5210011 AATAGAAAA
1 AATAGAAAA
5210020 AGAAAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
19 2 0.09
20 19 0.83
21 2 0.09
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (20 bp):
AATAGAAAATTATATTTCTT
Found at i:5210706 original size:17 final size:17
Alignment explanation
Indices: 5210681--5210714 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5210671 TTTATAATGA
*
5210681 CTCAGTAAAAAAACAAG
1 CTCAATAAAAAAACAAG
*
5210698 CTCAATAAAAAATCAAG
1 CTCAATAAAAAAACAAG
5210715 AAAAAATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.18, G:0.09, T:0.15
Consensus pattern (17 bp):
CTCAATAAAAAAACAAG
Found at i:5214708 original size:87 final size:88
Alignment explanation
Indices: 5214576--5214739 Score: 217
Period size: 87 Copynumber: 1.9 Consensus size: 88
5214566 ACTCTATAAA
* * *
5214576 CAGAGGCTTCACAACTTTTGAGAAATAAATAAAGCTCATCTAAGTAGATGTTTAACGATTTTTGA
1 CAGAGGCTTCACAACTTTTGAGAAATAAATAAAGCTCATCTAAGTAGAAGCTTAACGACTTTTGA
5214641 AAAATAAATAAGGTTCATTTAAG
66 AAAATAAATAAGGTTCATTTAAG
* * * *
5214664 CAGAGGC-TCACCAAC-TTTGA-AAACTAAATAAGGTTCCTCTAAGTAGAAGCTTAATGACTTTT
1 CAGAGGCTTCA-CAACTTTTGAGAAA-TAAATAAAGCTCATCTAAGTAGAAGCTTAACGACTTTT
*
5214726 GAAAAGTAAATAAG
64 GAAAAATAAATAAG
5214740 ACTCCTCTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
86 3 0.05
87 52 0.79
88 11 0.17
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.29
Consensus pattern (88 bp):
CAGAGGCTTCACAACTTTTGAGAAATAAATAAAGCTCATCTAAGTAGAAGCTTAACGACTTTTGA
AAAATAAATAAGGTTCATTTAAG
Found at i:5214724 original size:43 final size:42
Alignment explanation
Indices: 5214592--5214772 Score: 112
Period size: 44 Copynumber: 4.2 Consensus size: 42
5214582 CTTCACAACT
* * * * *
5214592 TTTGAGAAATAAATAAAGCTCATCTAAGTAGATGTTTAACGATT
1 TTTGA-AAATAAATAAGGCTCATCTAAGTAGAAGCTCAACGA-C
* * * * * *
5214636 TTTGAAAAATAAATAAGGTTCATTTAAGCAGAGGCTCACCAAC
1 TTTG-AAAATAAATAAGGCTCATCTAAGTAGAAGCTCAACGAC
* * * *
5214679 TTTGAAAACTAAATAAGGTTCCTCTAAGTAGAAGCTTAATGAC
1 TTTGAAAA-TAAATAAGGCTCATCTAAGTAGAAGCTCAACGAC
* * * * *
5214722 TTTTGAAAAGTAAATAAGACTCCTCTAAATAG-AGGTCAATGAC
1 -TTTGAAAA-TAAATAAGGCTCATCTAAGTAGAAGCTCAACGAC
*
5214765 TTTTAAAA
1 TTTGAAAA
5214773 AGTAAATCAA
Statistics
Matches: 109, Mismatches: 25, Indels: 8
0.77 0.18 0.06
Matches are distributed among these distances:
42 11 0.10
43 39 0.36
44 58 0.53
45 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.30
Consensus pattern (42 bp):
TTTGAAAATAAATAAGGCTCATCTAAGTAGAAGCTCAACGAC
Found at i:5214746 original size:44 final size:43
Alignment explanation
Indices: 5214679--5214825 Score: 163
Period size: 44 Copynumber: 3.4 Consensus size: 43
5214669 GCTCACCAAC
* * *
5214679 TTTGAAAACTAAATAAGGTTCCTCTAAGTAGAAGCTTAATGACT
1 TTTGAAAAGTAAATAA-GTTCCTCTAAATAGAAGCTCAATGACT
* *
5214723 TTTGAAAAGTAAATAAGACTCCTCTAAATAG-AGGTCAATGACT
1 TTTGAAAAGTAAATAAG-TTCCTCTAAATAGAAGCTCAATGACT
* * * *
5214766 TTTAAAAAGTAAATCAAGTTCCTTTAAACA-AAGGCTCAATAACT
1 TTTGAAAAGTAAAT-AAGTTCCTCTAAATAGAA-GCTCAATGACT
5214810 TTTGAAAAGTAAATAA
1 TTTGAAAAGTAAATAA
5214826 AGCTCTTTGA
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
43 36 0.41
44 51 0.59
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.30
Consensus pattern (43 bp):
TTTGAAAAGTAAATAAGTTCCTCTAAATAGAAGCTCAATGACT
Found at i:5214756 original size:87 final size:85
Alignment explanation
Indices: 5214572--5214825 Score: 210
Period size: 87 Copynumber: 2.9 Consensus size: 85
5214562 AAAAACTCTA
* * * * * *
5214572 TAAACAGAGGCTTCACAACTTTTGAGAAATAAATAAAGCTCATCTAAGTAGATGTTTAACGATTT
1 TAAACAGAGGC-TCACAACTTTTGA-AAATAAAT-AAGTTCCTCTAAGTAGAAGCTTAATGACTT
* ** *
5214637 TTGAAAAATAAATAAGGTTCATT
63 TTGAAAAGTAAATAAGACTCATC
*
5214660 TAAGCAGAGGCTCACCAAC-TTTGAAAACTAAATAAGGTTCCTCTAAGTAGAAGCTTAATGACTT
1 TAAACAGAGGCTCA-CAACTTTTGAAAA-TAAATAA-GTTCCTCTAAGTAGAAGCTTAATGACTT
*
5214724 TTGAAAAGTAAATAAGACTCCTC
63 TTGAAAAGTAAATAAGACTCATC
* * * ** * *
5214747 TAAATAGAGG-TCA-ATGACTTTTAAAAAGTAAATCAAGTTCCTTTAAACA-AAGGCTCAATAAC
1 TAAACAGAGGCTCACA--ACTTTTGAAAA-TAAAT-AAGTTCCTCTAAGTAGAA-GCTTAATGAC
5214809 TTTTGAAAAGTAAATAA
61 TTTTGAAAAGTAAATAA
5214826 AGCTCTTTGA
Statistics
Matches: 137, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
84 1 0.01
86 12 0.09
87 108 0.79
88 16 0.12
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.29
Consensus pattern (85 bp):
TAAACAGAGGCTCACAACTTTTGAAAATAAATAAGTTCCTCTAAGTAGAAGCTTAATGACTTTTG
AAAAGTAAATAAGACTCATC
Done.