Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 13 of 444
Found at i:3887540 original size:18 final size:18
Alignment explanation
Indices: 3887491--3887540 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
3887481 ATACTAGTTT
3887491 TTTTTATTTCTTA-TATTA
1 TTTTTATTT-TTATTATTA
*
3887509 TTTTTATTTCTATTATTA
1 TTTTTATTTTTATTATTA
3887527 -TTTTATTATTTATT
1 TTTTTATT-TTTATT
3887541 GTCTATTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTATTTTTATTATTA
Found at i:3887553 original size:25 final size:23
Alignment explanation
Indices: 3887506--3887559 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 23
3887496 ATTTCTTATA
*
3887506 TTATTTTTATTTCTATTATTATT
1 TTATTTTTATTTCTATTAGTATT
3887529 TTATTATTTATTGTCTATTAGTATT
1 TTATT-TTTATT-TCTATTAGTATT
*
3887554 TAATTT
1 TTATTT
3887560 AAAATTTCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 5 0.19
24 7 0.26
25 15 0.56
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.69
Consensus pattern (23 bp):
TTATTTTTATTTCTATTAGTATT
Found at i:3894569 original size:26 final size:25
Alignment explanation
Indices: 3894506--3894579 Score: 60
Period size: 26 Copynumber: 2.9 Consensus size: 25
3894496 TAAACAATTG
*
3894506 TTTTTAATCATTATTTAAATTTTAA
1 TTTTTTATCATTATTTAAATTTTAA
* * * *
3894531 ATCTTTCTAATTATTTTGAAA-TTTAA
1 TTTTTTATCATTA-TTT-AAATTTTAA
*
3894557 TTTTTTATCATTAAATTAAATTT
1 TTTTTTATCATT-ATTTAAATTT
3894580 CTTTTAAATT
Statistics
Matches: 35, Mismatches: 10, Indels: 7
0.67 0.19 0.13
Matches are distributed among these distances:
25 11 0.31
26 20 0.57
27 4 0.11
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.58
Consensus pattern (25 bp):
TTTTTTATCATTATTTAAATTTTAA
Found at i:3895528 original size:13 final size:13
Alignment explanation
Indices: 3895510--3895534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3895500 ACTTTTGTTA
3895510 TACTAAAAATTTC
1 TACTAAAAATTTC
3895523 TACTAAAAATTT
1 TACTAAAAATTT
3895535 TACAATATAA
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:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
TACTAAAAATTTC
Found at i:3896311 original size:24 final size:23
Alignment explanation
Indices: 3896281--3896330 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
3896271 AATAAAGTAT
*
3896281 AAAAATCATTTTTAAAAAAATAAA
1 AAAAATC-GTTTTAAAAAAATAAA
*
3896305 AAAAATCGTTTTAAAAAAATAGA
1 AAAAATCGTTTTAAAAAAATAAA
3896328 AAA
1 AAA
3896331 TAATAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (23 bp):
AAAAATCGTTTTAAAAAAATAAA
Found at i:3902604 original size:17 final size:16
Alignment explanation
Indices: 3902582--3902623 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
3902572 CACGTTAATA
*
3902582 AAAAATTTAAAAATATT
1 AAAAATTTAAAAA-AAT
3902599 AAAAATATTAAAAAAAT
1 AAAAAT-TTAAAAAAAT
3902616 AAAAATTT
1 AAAAATTT
3902624 CCCACAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 2 0.09
17 14 0.61
18 7 0.30
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAAATTTAAAAAAAT
Found at i:3902615 original size:11 final size:9
Alignment explanation
Indices: 3902582--3902621 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
3902572 CACGTTAATA
3902582 AAAAAT-TT
1 AAAAATATT
3902590 AAAAATATT
1 AAAAATATT
3902599 AAAAATATT
1 AAAAATATT
*
3902608 AAAAA-AAT
1 AAAAATATT
3902616 AAAAAT
1 AAAAAT
3902622 TTCCCACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 13 0.45
9 16 0.55
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAATATT
Found at i:3902751 original size:19 final size:18
Alignment explanation
Indices: 3902727--3902773 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
3902717 TAAAGGATTT
3902727 AAAATTAAATTTAACTATAA
1 AAAATTAAATTTAA-TA-AA
*
3902747 AAATTTAAA-TTAATAAA
1 AAAATTAAATTTAATAAA
3902764 AAAATTAAAT
1 AAAATTAAAT
3902774 ATTTGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 10 0.42
18 2 0.08
19 4 0.17
20 8 0.33
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATTAAATTTAATAAA
Found at i:3903849 original size:2 final size:2
Alignment explanation
Indices: 3903844--3903877 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3903834 ATATATATAT
3903844 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3903878 TACTCCTCTT
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3909017 original size:14 final size:14
Alignment explanation
Indices: 3908998--3909027 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3908988 TATCTTATAA
3908998 ATATGCGTGAATCT
1 ATATGCGTGAATCT
*
3909012 ATATGCGTTAATCT
1 ATATGCGTGAATCT
3909026 AT
1 AT
3909028 CTTGAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (14 bp):
ATATGCGTGAATCT
Found at i:3909800 original size:51 final size:51
Alignment explanation
Indices: 3909717--3909830 Score: 133
Period size: 51 Copynumber: 2.2 Consensus size: 51
3909707 AAATGTCGAT
* *
3909717 AGAATATGTAAATATTACAAGTTAAATATGTTAAATC-ATGATCAAATTGACG
1 AGAATGTGTAAATATTACAAGTTAAATATGTTAAATCAAT-ACCAAATTGA-G
** * * *
3909769 A-AATGTGTAAATATTGTAGGTTAAATTTGTTAAATCAATACCAAATTGAT
1 AGAATGTGTAAATATTACAAGTTAAATATGTTAAATCAATACCAAATTGAG
3909819 AGAATGTGTAAA
1 AGAATGTGTAAA
3909831 CTTTGAGAGC
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
50 1 0.02
51 49 0.92
52 3 0.06
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (51 bp):
AGAATGTGTAAATATTACAAGTTAAATATGTTAAATCAATACCAAATTGAG
Found at i:3909845 original size:51 final size:51
Alignment explanation
Indices: 3909739--3909847 Score: 118
Period size: 51 Copynumber: 2.1 Consensus size: 51
3909729 TATTACAAGT
* * * *
3909739 TAAATATGTTAAATCATGATCAAATTGACGAAATGTGTAAATATTGTAGGT
1 TAAATTTGTTAAATCATGACCAAATTGAAGAAATGTGTAAATATTGTAGGC
3909790 TAAATTTGTTAAATCAAT-ACCAAATTGATAG-AATGTGTAAACT-TTG-AGAGC
1 TAAATTTGTTAAATC-ATGACCAAATTGA-AGAAATGTGTAAA-TATTGTAG-GC
3909841 TAAATTT
1 TAAATTT
3909848 ATTATTATAC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
50 2 0.04
51 44 0.88
52 4 0.08
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (51 bp):
TAAATTTGTTAAATCATGACCAAATTGAAGAAATGTGTAAATATTGTAGGC
Found at i:3919433 original size:42 final size:42
Alignment explanation
Indices: 3919350--3919438 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
3919340 ATTTTATTAT
*
3919350 TTATTGTCTATTAGTATTTAATTTAAAACTTCTCTTGAATTC
1 TTATTGTCTATTAGTATTTAATTTAAAACTTCTCTTCAATTC
* * ***
3919392 TTATTGTTTATTAGTATTTCACTTTAAGTTTTC-CTTCAATTC
1 TTATTGTCTATTAGTATTT-AATTTAAAACTTCTCTTCAATTC
3919434 TTATT
1 TTATT
3919439 TTATATATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
42 31 0.77
43 9 0.22
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.56
Consensus pattern (42 bp):
TTATTGTCTATTAGTATTTAATTTAAAACTTCTCTTCAATTC
Found at i:3921838 original size:20 final size:17
Alignment explanation
Indices: 3921809--3921848 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
3921799 TTGCTTTTAA
3921809 AAATTGAAAAAATAATTAT
1 AAATTGAAAAAA-AATT-T
3921828 AAATGTGAAAAAAAATTT
1 AAAT-TGAAAAAAAATTT
3921846 AAA
1 AAA
3921849 AAAATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 8 0.40
20 8 0.40
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (17 bp):
AAATTGAAAAAAAATTT
Found at i:3923360 original size:605 final size:592
Alignment explanation
Indices: 3922223--3923421 Score: 2094
Period size: 605 Copynumber: 2.0 Consensus size: 592
3922213 GGCTGCTCCA
* *
3922223 CCACTCCTTCCCCTTTCAATACAATATCTTCTACTCCACAACCTCTGATGCATATTTCTTCAAGC
1 CCACTCCTTCCCCTTTCAATACAATATCTTCCACTCCACAACCTATGATGCATATTTCTTCAAGC
*
3922288 TGTGGAAGATCTTTGGCTATTGAAACTGGAAATAGATTTTTCAGGCTCCAACACCAGCACAGACT
66 TGTGGAAGATCTTTGGCTATTGAAACTGGAAATAGATTTTTCAGGCTCCAACACCACCACAGACT
3922353 TATTTTTCGTAGATTTTGAAAGGAACCTGGTGCTAGGTCATTATAAAATATCATCTTCAAATTCA
131 TATTTTTCGTAGATTTTGAAAGGAACCTGGTGCTAGGTCATTATAAAATATCATCTTCAAATTCA
*
3922418 ACTCAGAGATATTCATGTCTTCCAAGCTAGGAACTGCAACCTATTCGTGTATATATATAATCCAT
196 ACCCAGAGATATTCATGTCTTCCAAGCTAGGAACTGCAACCTATTCGTGTATATATATAATCCAT
3922483 AACCATAATAAGGTTAGCTCAAACAATGAAGGTAGAAAAAAAAATCAAGGACAAATCAATATTTT
261 AACCATAATAAGGTTAGCTCAAACAATGAAGGTAGAAAAAAAAATCAAGGACAAATCAATATTTT
3922548 TATGTAAGAGTGTAAGACTAATGAAATAAATCACCTTCTCACTGAAGAGAGCGTGCATGCCGGAC
326 TATGTAAGAGTGTAAGACTAATGAAATAAATCACCTTCTCACTGAAGAGAGCGTGCATGCCGGAC
* *
3922613 TGATTACTACTCTGACTAATGAATCCTATTAACTTGGGGCAACGCTTAATCGTTAGCTGTTTCAA
391 TGATTACTACTCTGACTAACGAATCCTATTAACTTGGGGCAACGCTGAATCGTTAGCTGTTTCAA
3922678 CAATGGGAACTCGATATTCTGGTTTCCTGAGCTGAAGAAGATGAGGTTTGAAAGACCTTCTATAT
456 CAATGGGAACTCGATATTCTGGTTTCCTGAGCTGAAGAAGATGAGGTTTGAAAGACCTTCTATAT
* *
3922743 ACAGGGAGTTTAATCGATGGAAACAAATCACATCTTTCGTTTCTTCTTCAATTTCCTCTGCAAGT
521 ACAGGGAGTTTAATCGATGGAAACAAATCACATCTTTCCTTTCTTCTTCAATTTCCTCCGCAAGT
3922808 ATTATGT
586 ATTATGT
* * * *
3922815 CCACTCCTTCCCCTTTCGATACAATATCTTCCACTCCACAATCTATGATGCGTATTTCTTCAAGT
1 CCACTCCTTCCCCTTTCAATACAATATCTTCCACTCCACAACCTATGATGCATATTTCTTCAAGC
* *
3922880 TGTGGAAGATCTTTGGCTATTGAAACTGGAAATAGATTTTTCAGGCTCCCACACCACCGCAGACT
66 TGTGGAAGATCTTTGGCTATTGAAACTGGAAATAGATTTTTCAGGCTCCAACACCACCACAGACT
3922945 TATTTTTCGTAGATTTTGAAAGGAACCTGGTGCTAGGTCATTATAAAATATCATCTTCAAATTAC
131 TATTTTTCGTAGATTTTGAAAGGAACCTGGTGCTAGGTCATTATAAAATATCATCTTCAAA-T--
*
3923010 TCAACCCAGAGATATTCATGTCTTCCAAGCTAGGAACTGCAACCTTTTCGTGTATATATATATAT
193 TCAACCCAGAGATATTCATGTCTTCCAAGCTAGGAACTGCAACCTATTCGTG--------TATAT
* *
3923075 ATATAATATTCCATACCCATAATAAGGTTAGCTCAAATAATGAAGGTAGAAAAAAAAA-CAAGGA
250 ATAT-A-A-TCCATAACCATAATAAGGTTAGCTCAAACAATGAAGGTAGAAAAAAAAATCAAGGA
3923139 CAAATCAATATTTTTATGTAAGAGTGTAAGACTAATGAAATAAATCACCTTCTCACTGAAGAGAG
312 CAAATCAATATTTTTATGTAAGAGTGTAAGACTAATGAAATAAATCACCTTCTCACTGAAGAGAG
*
3923204 CGTGCATGCCGGACTGATTACTACTCTGACTAACGAATCCTATTAACTTGGGGCAACGCTGAATT
377 CGTGCATGCCGGACTGATTACTACTCTGACTAACGAATCCTATTAACTTGGGGCAACGCTGAATC
3923269 GTTAGCTGTTTCAACAATGGGAACTCGATATTCTGGTTTCCTGAGCTGAAGAAGATGAGGTTTGA
442 GTTAGCTGTTTCAACAATGGGAACTCGATATTCTGGTTTCCTGAGCTGAAGAAGATGAGGTTTGA
*
3923334 AAGACCTTCTATATACAGGGAGTTTAATTGATGGAAACAAATCACATCTTTCCTTTCTTCTTCAA
507 AAGACCTTCTATATACAGGGAGTTTAATCGATGGAAACAAATCACATCTTTCCTTTCTTCTTCAA
3923399 TTTCCTCCGCAAGTATTATGT
572 TTTCCTCCGCAAGTATTATGT
3923420 CC
1 CC
3923422 CTTAACGCAT
Statistics
Matches: 574, Mismatches: 19, Indels: 15
0.94 0.03 0.02
Matches are distributed among these distances:
592 182 0.32
593 1 0.00
595 50 0.09
603 9 0.02
604 1 0.00
605 284 0.49
606 47 0.08
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (592 bp):
CCACTCCTTCCCCTTTCAATACAATATCTTCCACTCCACAACCTATGATGCATATTTCTTCAAGC
TGTGGAAGATCTTTGGCTATTGAAACTGGAAATAGATTTTTCAGGCTCCAACACCACCACAGACT
TATTTTTCGTAGATTTTGAAAGGAACCTGGTGCTAGGTCATTATAAAATATCATCTTCAAATTCA
ACCCAGAGATATTCATGTCTTCCAAGCTAGGAACTGCAACCTATTCGTGTATATATATAATCCAT
AACCATAATAAGGTTAGCTCAAACAATGAAGGTAGAAAAAAAAATCAAGGACAAATCAATATTTT
TATGTAAGAGTGTAAGACTAATGAAATAAATCACCTTCTCACTGAAGAGAGCGTGCATGCCGGAC
TGATTACTACTCTGACTAACGAATCCTATTAACTTGGGGCAACGCTGAATCGTTAGCTGTTTCAA
CAATGGGAACTCGATATTCTGGTTTCCTGAGCTGAAGAAGATGAGGTTTGAAAGACCTTCTATAT
ACAGGGAGTTTAATCGATGGAAACAAATCACATCTTTCCTTTCTTCTTCAATTTCCTCCGCAAGT
ATTATGT
Found at i:3926969 original size:15 final size:15
Alignment explanation
Indices: 3926950--3926986 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
3926940 TTTTCCTTGA
3926950 TTTATTTTA-AAATT
1 TTTATTTTATAAATT
3926964 TATTA-TTTATAAATT
1 T-TTATTTTATAAATT
3926979 TTTATTTT
1 TTTATTTT
3926987 TAATAGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTATTTTATAAATT
Found at i:3927074 original size:25 final size:27
Alignment explanation
Indices: 3927046--3927103 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
3927036 ATTTGCATAA
3927046 TATTTTTAAAAAAT-AAT-TTTCTAAT
1 TATTTTTAAAAAATAAATCTTTCTAAT
**
3927071 TATTATTTAAAATTTAAATCTTTCTAAT
1 TATT-TTTAAAAAATAAATCTTTCTAAT
3927099 TATTT
1 TATTT
3927104 GAAATTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.14
26 8 0.29
27 4 0.14
28 12 0.43
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (27 bp):
TATTTTTAAAAAATAAATCTTTCTAAT
Found at i:3928351 original size:16 final size:17
Alignment explanation
Indices: 3928322--3928355 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
3928312 TTTTTTTGAG
3928322 AAATAAAATAAATTATT
1 AAATAAAATAAATTATT
*
3928339 AAAT-AAATGAATTATT
1 AAATAAAATAAATTATT
3928355 A
1 A
3928356 GGTATCCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
AAATAAAATAAATTATT
Found at i:3930633 original size:2 final size:2
Alignment explanation
Indices: 3930590--3930623 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3930580 TTAACATTAG
3930590 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
3930624 GCTTATATAT
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:3931227 original size:16 final size:16
Alignment explanation
Indices: 3931193--3931231 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3931183 TTGAGAAACA
3931193 AAATAAATTATTAAAT
1 AAATAAATTATTAAAT
* * *
3931209 AAATGAATTATTCATT
1 AAATAAATTATTAAAT
3931225 AAATAAA
1 AAATAAA
3931232 GAAGGTATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (16 bp):
AAATAAATTATTAAAT
Found at i:3931240 original size:20 final size:20
Alignment explanation
Indices: 3931202--3931240 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3931192 AAAATAAATT
*
3931202 ATTAAATAAATGAATTATTC
1 ATTAAATAAATGAAGTATTC
3931222 ATTAAATAAA-GAAGGTATT
1 ATTAAATAAATGAA-GTATT
3931241 TCTTTTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (20 bp):
ATTAAATAAATGAAGTATTC
Found at i:3937193 original size:23 final size:23
Alignment explanation
Indices: 3937159--3937204 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
3937149 TATATATATG
* *
3937159 TATTTGTATTTAGTTTTTTTATT
1 TATTTGTATTTAATATTTTTATT
3937182 TATTT-TATTTTAATATTTTTATT
1 TATTTGTA-TTTAATATTTTTATT
3937205 GCTATACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (23 bp):
TATTTGTATTTAATATTTTTATT
Found at i:3937778 original size:26 final size:25
Alignment explanation
Indices: 3937723--3937779 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
3937713 ATTATATGTG
* *
3937723 TATATATTATGTAAATGTTTTAATA
1 TATATATTATATAAACGTTTTAATA
*
3937748 T-TATATTATATATACGTTTTATATA
1 TATATATTATATAAACGTTTTA-ATA
3937773 TATATAT
1 TATATAT
3937780 ATTATGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 17 0.63
25 5 0.19
26 5 0.19
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (25 bp):
TATATATTATATAAACGTTTTAATA
Found at i:3939531 original size:26 final size:26
Alignment explanation
Indices: 3939494--3939577 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
3939484 TGATACAAAT
* *
3939494 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
3939520 TGATAATGGGTTAGGTAAATGTTTAA
1 TGATAATGGGTTAGGTAAATGTTTCA
3939546 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
3939572 TGATAA
1 TGATAA
3939578 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:3945017 original size:23 final size:23
Alignment explanation
Indices: 3944991--3945043 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
3944981 TGATACATGC
3944991 ATGCATGCGATTTAATTCAATAT
1 ATGCATGCGATTTAATTCAATAT
3945014 ATGCATGCGATTTAATTCAATAT
1 ATGCATGCGATTTAATTCAATAT
*
3945037 AGGCATG
1 ATGCATG
3945044 GCATTGGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (23 bp):
ATGCATGCGATTTAATTCAATAT
Found at i:3952085 original size:19 final size:19
Alignment explanation
Indices: 3952039--3952086 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
3952029 GTATATATTT
3952039 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
3952057 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
3952076 TAAGTTTTATT
1 TAAATTTTATT
3952087 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:3952162 original size:42 final size:42
Alignment explanation
Indices: 3952103--3952191 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
3952093 CTAGGAATAT
* * *
3952103 TTTTATTTTATCTTTTAGTAGTTTATTAGAATAATGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
3952145 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
3952187 TTTTC
1 TTTTC
3952192 CCAATTAGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
Found at i:3956093 original size:42 final size:42
Alignment explanation
Indices: 3956035--3956123 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
3956025 CTAGGAATAT
* * *
3956035 TTTTATTTTATCTTTTAGTAGTTTATTAGAATAATGGAACCA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACCA
*
3956077 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACCA
3956119 TTTTC
1 TTTTC
3956124 CCAATTAGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACCA
Found at i:3956607 original size:55 final size:55
Alignment explanation
Indices: 3956517--3956620 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 55
3956507 TTGTCTTAAT
* * *
3956517 TATTGGAATACTGCCTTTTTTAAATATATTTTTTATATGTTTAGATCGATTTTCA
1 TATTGGAATACTGCCTTTTTTAAATATATTGTTTATATATTTAAATCGATTTTCA
*
3956572 TATTGGAATATTG-CTTCTTTTAAAT-TGATTGTTTATATATTTAAATCGA
1 TATTGGAATACTGCCTT-TTTTAAATAT-ATTGTTTATATATTTAAATCGA
3956621 CTGTTACATA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
54 4 0.09
55 39 0.91
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.52
Consensus pattern (55 bp):
TATTGGAATACTGCCTTTTTTAAATATATTGTTTATATATTTAAATCGATTTTCA
Found at i:3964544 original size:14 final size:14
Alignment explanation
Indices: 3964525--3964559 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3964515 CTACTGTTTC
3964525 ACTATTATATTACT
1 ACTATTATATTACT
*
3964539 ACTATTTTATTACT
1 ACTATTATATTACT
*
3964553 ATTATTA
1 ACTATTA
3964560 AGATATTGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (14 bp):
ACTATTATATTACT
Found at i:3968611 original size:18 final size:18
Alignment explanation
Indices: 3968588--3968673 Score: 145
Period size: 18 Copynumber: 4.8 Consensus size: 18
3968578 ACCGTTTACA
*
3968588 GTACTATTTACGTATACG
1 GTACTATTCACGTATACG
*
3968606 GTACTATTCACGTATACA
1 GTACTATTCACGTATACG
3968624 GTACTATTCACGTATACG
1 GTACTATTCACGTATACG
3968642 GTACTATTCACGTATACG
1 GTACTATTCACGTATACG
*
3968660 GTACTGTTCACGTA
1 GTACTATTCACGTA
3968674 AACAGTAGTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (18 bp):
GTACTATTCACGTATACG
Found at i:3978001 original size:46 final size:44
Alignment explanation
Indices: 3977942--3978056 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
3977932 ACAGGACAGA
* *
3977942 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* * *
3977988 ACAGGATTGAGCCATGTAAGTCCATATTATATATGTCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
3978032 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
3978057 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 34 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:3978037 original size:44 final size:45
Alignment explanation
Indices: 3977942--3978075 Score: 144
Period size: 46 Copynumber: 3.0 Consensus size: 45
3977932 ACAGGACAGA
* *
3977942 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
3977988 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGTCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
3978032 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
3978076 CAGGATATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:3986717 original size:25 final size:25
Alignment explanation
Indices: 3986681--3986733 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
3986671 GGAAGATTAG
*
3986681 TTTTTTATTTTATTTTCTATTAATA
1 TTTTTTATTTTATTATCTATTAATA
*
3986706 TTTTATTA-TTTATTATCTATTAGTA
1 TTTT-TTATTTTATTATCTATTAATA
3986731 TTT
1 TTT
3986734 AACCTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTTTTATTTTATTATCTATTAATA
Found at i:3988738 original size:2 final size:2
Alignment explanation
Indices: 3988731--3988767 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3988721 ACAGTTTCAG
3988731 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3988768 AACATGAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3993560 original size:14 final size:14
Alignment explanation
Indices: 3993541--3993575 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3993531 CTACTGTTTC
3993541 ACTATTATATTACT
1 ACTATTATATTACT
*
3993555 ACTATTTTATTACT
1 ACTATTATATTACT
*
3993569 ATTATTA
1 ACTATTA
3993576 AGATATTGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (14 bp):
ACTATTATATTACT
Found at i:3997626 original size:18 final size:18
Alignment explanation
Indices: 3997603--3997688 Score: 145
Period size: 18 Copynumber: 4.8 Consensus size: 18
3997593 ACCGTTTACA
*
3997603 GTACTATTTACGTATACG
1 GTACTATTCACGTATACG
*
3997621 GTACTATTCACGTATACA
1 GTACTATTCACGTATACG
3997639 GTACTATTCACGTATACG
1 GTACTATTCACGTATACG
3997657 GTACTATTCACGTATACG
1 GTACTATTCACGTATACG
*
3997675 GTACTGTTCACGTA
1 GTACTATTCACGTA
3997689 AACAGTAGTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (18 bp):
GTACTATTCACGTATACG
Found at i:4000867 original size:46 final size:44
Alignment explanation
Indices: 4000808--4000922 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
4000798 ACAGGACAGA
* *
4000808 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
4000854 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
4000898 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
4000923 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:4000903 original size:44 final size:45
Alignment explanation
Indices: 4000808--4000941 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
4000798 ACAGGACAGA
* *
4000808 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
4000854 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
4000898 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
4000942 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:4007006 original size:46 final size:44
Alignment explanation
Indices: 4006947--4007061 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
4006937 ACAGGACAGA
* *
4006947 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
4006993 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
4007037 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
4007062 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:4007042 original size:44 final size:45
Alignment explanation
Indices: 4006947--4007080 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
4006937 ACAGGACAGA
* *
4006947 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
4006993 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
4007037 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
4007081 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:4015719 original size:25 final size:25
Alignment explanation
Indices: 4015683--4015735 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
4015673 GGAAGATTAG
*
4015683 TTTTTTATTTTATTTTCTATTAATA
1 TTTTTTATTTTATTATCTATTAATA
*
4015708 TTTTATTA-TTTATTATCTATTAGTA
1 TTTT-TTATTTTATTATCTATTAATA
4015733 TTT
1 TTT
4015736 AACCTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTTTTATTTTATTATCTATTAATA
Found at i:4017741 original size:2 final size:2
Alignment explanation
Indices: 4017734--4017772 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4017724 ACAGTTTCAG
4017734 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4017773 AACATGAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4022502 original size:21 final size:21
Alignment explanation
Indices: 4022468--4022513 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
4022458 ATTTTTTTGC
*
4022468 TGTTGTTTACTGCTTTTATGT
1 TGTTGTTTACTGCTGTTATGT
**
4022489 TGTTGTTTTTTGCTGTTATGT
1 TGTTGTTTACTGCTGTTATGT
4022510 TGTT
1 TGTT
4022514 ATTTCGATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.07, C:0.07, G:0.22, T:0.65
Consensus pattern (21 bp):
TGTTGTTTACTGCTGTTATGT
Found at i:4023895 original size:17 final size:18
Alignment explanation
Indices: 4023870--4023907 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
4023860 AAATGTTGGC
*
4023870 AATCATAAAATATATAAA
1 AATCATAAAATAAATAAA
*
4023888 AATC-TAAACTAAATAAA
1 AATCATAAAATAAATAAA
4023905 AAT
1 AAT
4023908 AAATTTAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (18 bp):
AATCATAAAATAAATAAA
Found at i:4024641 original size:17 final size:17
Alignment explanation
Indices: 4024607--4024639 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4024597 CATGTATAAT
*
4024607 TTTTATAATTTATAAAA
1 TTTTATAATTAATAAAA
4024624 TTTTA-AATTAATAAAA
1 TTTTATAATTAATAAAA
4024640 ATAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTATAATTAATAAAA
Found at i:4035671 original size:155 final size:153
Alignment explanation
Indices: 4035365--4035670 Score: 348
Period size: 155 Copynumber: 2.0 Consensus size: 153
4035355 AATTTGAGGT
* * *
4035365 ATTCACGATTCAACAGAGTAAAACTGGCCAAAACCCAGTAAAAAGAAAAAAAAAACTCTAATTGC
1 ATTCACGATTCAACAGAGTAAAACAGACCAAAACCCAGTAAAAAGAAAAAAAAAACTCTAATCGC
* * * **** *
4035430 AATCTTAAGTGCACGAAACCCATGAACATGAAAACTAAACCTAGGGGGGAAAAGCAACAAAGCTG
66 AATCTTAAGTGCACAAAACCCATGAACATGAAAACCAAACCCAGGAAAAAAAAGAAACAAAGCTG
4035495 TAAAAATGGCAAAAAAAAAAATCAA
131 TAAAAAT-G-AAAAAAAAAAATCAA
*
4035520 ATTCAC-AGTTCAAGAGAGTAAAACAGACC-AAACCCAGT-AAAAGAAAGAAAGAAAACTCTAAT
1 ATTCACGA-TTCAACAGAGTAAAACAGACCAAAACCCAGTAAAAAGAAA-AAA-AAAACTCTAAT
* ** * *
4035582 CGCAATCTTAAGTGCACAAAACCCATGCATGTGAACACCAAACCCAGGAAAAAAAAAAGAAACAG
63 CGCAATCTTAAGTGCACAAAACCCATGAACATGAAAACCAAACCCAGG--AAAAAAAAGAAACAA
* *
4035647 AGGTGTAAAAAATTAAAAAAAAAA
126 AGCTGT-AAAAATGAAAAAAAAAA
4035671 TTTGGACCAT
Statistics
Matches: 126, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
153 8 0.06
154 13 0.10
155 75 0.60
156 10 0.08
157 14 0.11
158 6 0.05
ACGTcount: A:0.53, C:0.18, G:0.15, T:0.14
Consensus pattern (153 bp):
ATTCACGATTCAACAGAGTAAAACAGACCAAAACCCAGTAAAAAGAAAAAAAAAACTCTAATCGC
AATCTTAAGTGCACAAAACCCATGAACATGAAAACCAAACCCAGGAAAAAAAAGAAACAAAGCTG
TAAAAATGAAAAAAAAAAATCAA
Found at i:4038914 original size:16 final size:16
Alignment explanation
Indices: 4038873--4038915 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
4038863 CCTCAAATTT
* *
4038873 TTCAAGTTCAAATTAT
1 TTCAAGTTCAAATCAC
* *
4038889 TTTAAATTCAAATCAC
1 TTCAAGTTCAAATCAC
4038905 TTCAAGTTCAA
1 TTCAAGTTCAA
4038916 GTTCTATTTA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (16 bp):
TTCAAGTTCAAATCAC
Found at i:4046448 original size:20 final size:20
Alignment explanation
Indices: 4046412--4046449 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4046402 ATTTAATTAA
*
4046412 TATTAATATTGTTATTAATT
1 TATTAATATTGTAATTAATT
4046432 TATTAAT-TTGTAAATTAA
1 TATTAATATTGT-AATTAA
4046450 AATCTACTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TATTAATATTGTAATTAATT
Found at i:4048042 original size:21 final size:21
Alignment explanation
Indices: 4048016--4048062 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
4048006 AGACCCAGAA
*
4048016 GGAGACCTTGAAT-ATCTACCT
1 GGAGACCTTG-ATGATCTACAT
4048037 GGAGACCTTGATGATCTACAT
1 GGAGACCTTGATGATCTACAT
4048058 GGAGA
1 GGAGA
4048063 TCGCCTCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (21 bp):
GGAGACCTTGATGATCTACAT
Found at i:4058065 original size:13 final size:14
Alignment explanation
Indices: 4058049--4058077 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4058039 GTGAATCGAA
4058049 TTTTTTAAA-ATAT
1 TTTTTTAAATATAT
4058062 TTTTTTAAATATAT
1 TTTTTTAAATATAT
4058076 TT
1 TT
4058078 AAAATAAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTTTAAATATAT
Found at i:4058996 original size:18 final size:18
Alignment explanation
Indices: 4058973--4059012 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
4058963 CAAAGAAAAA
4058973 TCTTGACATAATAAATGT
1 TCTTGACATAATAAATGT
*
4058991 TCTTGATATAATAAATGT
1 TCTTGACATAATAAATGT
4059009 TCTT
1 TCTT
4059013 TCATTAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (18 bp):
TCTTGACATAATAAATGT
Found at i:4060195 original size:36 final size:36
Alignment explanation
Indices: 4060155--4060230 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
4060145 GGCCATCGCA
* * *
4060155 ATCCACCAGGAGAACCCAAACAATTGGCCAAGTGCG
1 ATCCACCAAGAGAACCCAAACAACTGGACAAGTGCG
* *
4060191 ATCCACCAAGAGAACCCAGACAACTGGACAGGTGCG
1 ATCCACCAAGAGAACCCAAACAACTGGACAAGTGCG
4060227 ATCC
1 ATCC
4060231 CGTAATCTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.32, G:0.22, T:0.11
Consensus pattern (36 bp):
ATCCACCAAGAGAACCCAAACAACTGGACAAGTGCG
Found at i:4060498 original size:20 final size:20
Alignment explanation
Indices: 4060473--4060514 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
4060463 AACCACCGCT
4060473 GCACGCTATTGTGATGGATA
1 GCACGCTATTGTGATGGATA
4060493 GCACGCTATTGTGATGGATA
1 GCACGCTATTGTGATGGATA
4060513 GC
1 GC
4060515 TCGAAATTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (20 bp):
GCACGCTATTGTGATGGATA
Found at i:4063063 original size:183 final size:184
Alignment explanation
Indices: 4062682--4063237 Score: 868
Period size: 184 Copynumber: 3.0 Consensus size: 184
4062672 GAGTATACCA
*
4062682 CAAGTTGCATATGGACTTCATATTTTCCCTCAAATATTATTCTGATAGAC-TATACAAACCTTTT
1 CAAGTTGCATATGGACTTCATATTTTCCCTCAAATATTATTCTGATTG-CTTATACAAACCTTTT
* * * * *
4062746 ACTTATTGTCCCAGAAAGACTCAACCAGTCCGGTCAGTCAACGTTTACTGTTTGTGGAGGAGCCA
65 ACTTTTTGTCCCAGAAAAACTCGACCAGTCCGGTCTGTCAACGTTCACTGTTTGTGGAGGAGCCA
*
4062811 CATCAAC-AGGGCAAACACAGATCTGTTTCTATCTCAAAACCCTTAACCGACTAAT
130 CATCAACAAGGG-AAACACAGATCTGTTTCAATCTCAAAACCCTTAACCGACTAAT
**
4062866 CAAGTTGCATATGGACTTCATATTTTCCCTCAAATATTATTCTGATTGCTTATACAAACCTTCCA
1 CAAGTTGCATATGGACTTCATATTTTCCCTCAAATATTATTCTGATTGCTTATACAAACCTTTTA
*
4062931 CTTTTTGTCCCAGAAAAACTCGGCCAGTCCGGTCTGTCAA-GTTCACTGTTTGTGGAGGAGCCAC
66 CTTTTTGTCCCAGAAAAACTCGACCAGTCCGGTCTGTCAACGTTCACTGTTTGTGGAGGAGCCAC
* *
4062995 ATCAGCAAAGGAAACACAGATCTGTTTCAATCTCAAAACCCTTAACCGACTAAT
131 ATCAACAAGGGAAACACAGATCTGTTTCAATCTCAAAACCCTTAACCGACTAAT
* *
4063049 CAAGTTGCATATGGACTTCATATTTTCCCTCAAATATTATTCTGATTGGTCATACAAACCTTTTA
1 CAAGTTGCATATGGACTTCATATTTTCCCTCAAATATTATTCTGATTGCTTATACAAACCTTTTA
* * *
4063114 CTTTTTGTCTCAGAAAAACTCGACCAGTCCAGT-TGGTCAACATTCACTGTTTGTGGAGGAGCCA
66 CTTTTTGTCCCAGAAAAACTCGACCAGTCCGGTCT-GTCAACGTTCACTGTTTGTGGAGGAGCCA
* * * *
4063178 CATCAACAAGGGAAACACTGATCTGTTTCAGTCTCAAAAACCTTAACCAACTAAT
130 CATCAACAAGGGAAACACAGATCTGTTTCAATCTCAAAACCCTTAACCGACTAAT
4063233 CAAGT
1 CAAGT
4063238 CGGAAAATAC
Statistics
Matches: 342, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
182 1 0.00
183 167 0.49
184 174 0.51
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (184 bp):
CAAGTTGCATATGGACTTCATATTTTCCCTCAAATATTATTCTGATTGCTTATACAAACCTTTTA
CTTTTTGTCCCAGAAAAACTCGACCAGTCCGGTCTGTCAACGTTCACTGTTTGTGGAGGAGCCAC
ATCAACAAGGGAAACACAGATCTGTTTCAATCTCAAAACCCTTAACCGACTAAT
Found at i:4068679 original size:6 final size:6
Alignment explanation
Indices: 4068670--4068770 Score: 112
Period size: 6 Copynumber: 15.8 Consensus size: 6
4068660 TCCCTCTCTT
* * * *
4068670 TTTCCC TTTCCC TTTCTC TTTCTC TTTCTC TTTCCCTC TTCTCCC TTTCTC
1 TTTCCC TTTCCC TTTCCC TTTCCC TTTCCC TTT-CC-C TT-TCCC TTTCCC
4068721 TTTCCC TTTCCC TTTCCC TTTCCC TTTCACGC TTTTCCC TTTCCC TTTCC
1 TTTCCC TTTCCC TTTCCC TTTCCC TTTC-C-C -TTTCCC TTTCCC TTTCC
4068771 TTCTCCCTAG
Statistics
Matches: 85, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
6 67 0.79
7 6 0.07
8 7 0.08
9 5 0.06
ACGTcount: A:0.01, C:0.45, G:0.01, T:0.53
Consensus pattern (6 bp):
TTTCCC
Found at i:4068681 original size:18 final size:18
Alignment explanation
Indices: 4068651--4068697 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
4068641 CCTCGCCTTC
*
4068651 TTTTCCCTCTCCCTCTCT
1 TTTTCCCTTTCCCTCTCT
*
4068669 TTTTCCCTTTCCCTTTCT
1 TTTTCCCTTTCCCTCTCT
* *
4068687 CTTTCTCTTTC
1 TTTTCCCTTTC
4068698 TCTTTCCCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTCCCTTTCCCTCTCT
Found at i:4068715 original size:39 final size:38
Alignment explanation
Indices: 4068667--4068778 Score: 127
Period size: 39 Copynumber: 2.9 Consensus size: 38
4068657 CTCTCCCTCT
* * * *
4068667 CTTTTTCCCTTTCCCTTTCTCTTTCTCTTTCTCTTTCC
1 CTTTCTCCCTTTCCCTTTCCCTTTCCCTTTCCCTTTCC
*
4068705 CTCTTCTCCCTTTCTCTTTCCCTTTCCCTTTCCCTTTCC
1 CT-TTCTCCCTTTCCCTTTCCCTTTCCCTTTCCCTTTCC
* *
4068744 CTTTCACGCTTTTCCCTTTCCCTTT-CCTTCTCCCT
1 CTTTCTC-CCTTTCCCTTTCCCTTTCCCTT-TCCCT
4068779 AGCTCTTTCC
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
38 10 0.16
39 53 0.84
ACGTcount: A:0.01, C:0.45, G:0.01, T:0.54
Consensus pattern (38 bp):
CTTTCTCCCTTTCCCTTTCCCTTTCCCTTTCCCTTTCC
Found at i:4068728 original size:45 final size:45
Alignment explanation
Indices: 4068670--4068778 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 45
4068660 TCCCTCTCTT
* * * * *
4068670 TTTCCCTTTCCCTTTCTCTTTCTCTTTCTCTTTCCCTCTTCTCCC
1 TTTCCCTTTCCCTTTCCCTTTCCCTTTCCCTTTCACGCTTCTCCC
* *
4068715 TTTCTCTTTCCCTTTCCCTTTCCCTTTCCCTTTCACGCTTTTCCC
1 TTTCCCTTTCCCTTTCCCTTTCCCTTTCCCTTTCACGCTTCTCCC
4068760 TTTCCCTTT-CCTTCTCCCT
1 TTTCCCTTTCCCTT-TCCCT
4068779 AGCTCTTTCC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 4 0.07
45 51 0.93
ACGTcount: A:0.01, C:0.45, G:0.01, T:0.53
Consensus pattern (45 bp):
TTTCCCTTTCCCTTTCCCTTTCCCTTTCCCTTTCACGCTTCTCCC
Found at i:4071910 original size:2 final size:2
Alignment explanation
Indices: 4071903--4071929 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4071893 AAATGGATTA
4071903 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
4071930 ACAAATGCAT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4079475 original size:3 final size:3
Alignment explanation
Indices: 4079460--4079523 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
4079450 AAGAATAACT
*
4079460 ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4079508 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
4079524 AACAATGATA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4080006 original size:27 final size:28
Alignment explanation
Indices: 4079943--4080014 Score: 92
Period size: 27 Copynumber: 2.5 Consensus size: 28
4079933 ACGTACATAC
**
4079943 AATATATATACATATAATATAGTTATTAAG
1 AATATATATACA-AT-ATATAGACATTAAG
*
4079973 AAAATATATACAATATATA-ACATTAAG
1 AATATATATACAATATATAGACATTAAG
4080000 AATATATATACAATA
1 AATATATATACAATA
4080015 CATATGGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 20 0.53
28 5 0.13
29 2 0.05
30 11 0.29
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (28 bp):
AATATATATACAATATATAGACATTAAG
Found at i:4080387 original size:24 final size:23
Alignment explanation
Indices: 4080349--4080409 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
4080339 AAAACGGGAT
* *
4080349 ATATAAAAAAATAACTAAATAAA
1 ATATAATAAAATAACCAAATAAA
*
4080372 ATATAATAATAATAACCATATAAA
1 ATATAATAA-AATAACCAAATAAA
* *
4080396 AAATAGTAAAATAA
1 ATATAATAAAATAA
4080410 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 13 0.41
24 19 0.59
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.25
Consensus pattern (23 bp):
ATATAATAAAATAACCAAATAAA
Found at i:4081895 original size:30 final size:30
Alignment explanation
Indices: 4081859--4081918 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
4081849 TATTTTATTA
*
4081859 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
4081889 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
4081919 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:4083529 original size:48 final size:48
Alignment explanation
Indices: 4083458--4083783 Score: 435
Period size: 48 Copynumber: 6.8 Consensus size: 48
4083448 TGTTACAACA
* * *
4083458 TTCACATTAGTCATTCGGCTTTACCACATATACGTATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACACATAT
* *
4083506 TTCACATTCGCCATTCGGCTTTACCACATCTACATA-C-CACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACACATAT
* *
4083552 ATCTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 -T-TCACATTAGCCATTCGGCTTTACCACATATACATATCTCACACATAT
* *
4083602 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACACATAT
** * *
4083650 TTTTCATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACACATA--T
* *
4083700 TTCGCATTAGCCATTCGGCTTTACCACATATACATA--TCACACATGCCT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACACAT--AT
4083748 TTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TTCACATTAGCCATTCGGCTTTACCACATATACATA
4083784 CATTAGCCAT
Statistics
Matches: 252, Mismatches: 18, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
46 8 0.03
47 2 0.01
48 197 0.78
49 2 0.01
50 43 0.17
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACACATAT
Found at i:4083572 original size:96 final size:96
Alignment explanation
Indices: 4083458--4083783 Score: 481
Period size: 96 Copynumber: 3.4 Consensus size: 96
4083448 TGTTACAACA
* * * *
4083458 TTCACATTAGTCATTCGGCTTTACCACATATACGTATCTCATACATATTTCACATTCGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCG
* *
4083523 GCTTTACCACATCTACATACCACACATATAT
66 GCTTTACCACATATACATATCACACATATAT
* * *
4083554 CTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCG
* *
4083619 GCTTTACCACATATACATATCTCATATATAT
66 GCTTTACCACATATACATATCACACATATAT
** *
4083650 TTTTCATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTTTCGCATTAGCCATT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATA--TTTCACATTAGCCATT
***
4083715 CGGCTTTACCACATATACATATCACACATGCCT
64 CGGCTTTACCACATATACATATCACACATATAT
4083748 TTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TTCACATTAGCCATTCGGCTTTACCACATATACATA
4083784 CATTAGCCAT
Statistics
Matches: 204, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
96 127 0.62
98 77 0.38
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (96 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCG
GCTTTACCACATATACATATCACACATATAT
Found at i:4083787 original size:32 final size:32
Alignment explanation
Indices: 4083751--4083812 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
4083741 CATGCCTTTC
4083751 ACATTAGCCATTCGGCTTTACCACATATACAT
1 ACATTAGCCATTCGGCTTTACCACATATACAT
4083783 ACATTAGCCATTCGGCTTTACCACATATAC
1 ACATTAGCCATTCGGCTTTACCACATATAC
4083813 GTATCTCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.31
Consensus pattern (32 bp):
ACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:4083795 original size:80 final size:80
Alignment explanation
Indices: 4083704--4083863 Score: 239
Period size: 80 Copynumber: 2.0 Consensus size: 80
4083694 ATATTTTTCG
* *
4083704 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGCCTTTCACATTAGCCATTCGGCTT
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATACATTTCACATTAGCCATTCGGCTT
4083769 TACCACATATACATA
66 TACCACATATACATA
* * * * ** *
4083784 CATTAGCCATTCGGCTTTACCACATATACGTATCTCATATATATTTTTCATTAGTCATTCGGCTT
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATACATTTCACATTAGCCATTCGGCTT
4083849 TACCACATATACATA
66 TACCACATATACATA
4083864 TCTCATATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 71 1.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (80 bp):
CATTAGCCATTCGGCTTTACCACATATACATATCACACATACATTTCACATTAGCCATTCGGCTT
TACCACATATACATA
Found at i:4083800 original size:178 final size:176
Alignment explanation
Indices: 4083605--4083959 Score: 629
Period size: 178 Copynumber: 2.0 Consensus size: 176
4083595 CATATATTTC
4083605 ACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTTTCATTAGCCATTCGGCT
1 ACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTTTCATTAGCCATTCGGCT
4083670 TTACCACATATACATATCTCATATATATTTTTCGCATTAGCCATTCGGCTTTACCACATATACAT
66 TTACCACATATACATATCTCATATATA--TTTCGCATTAGCCATTCGGCTTTACCACATATACAT
* *
4083735 ATCACACATGCCTTTCACATTAGCCATTCGGCTTTACCACATATACAT
129 ATCACACATACATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
4083783 ACATTAGCCATTCGGCTTTACCACATATACGTATCTCATATATATTTTTCATTAGTCATTCGGCT
1 ACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTTTCATTAGCCATTCGGCT
4083848 TTACCACATATACATATCTCATATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATAT
66 TTACCACATATACATATCTCATATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATAT
* * *
4083913 CACACATATATTTCGCATTAGCCATTCGGCTTTACCACATGTACAT
131 CACACATACATTTCACATTAGCCATTCGGCTTTACCACATATACAT
4083959 A
1 A
4083960 TCTCATATAT
Statistics
Matches: 170, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
176 80 0.47
178 90 0.53
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.37
Consensus pattern (176 bp):
ACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTTTCATTAGCCATTCGGCT
TTACCACATATACATATCTCATATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATAT
CACACATACATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:4083837 original size:48 final size:48
Alignment explanation
Indices: 4083784--4084019 Score: 409
Period size: 48 Copynumber: 4.9 Consensus size: 48
4083774 CATATACATA
* **
4083784 CATTAGCCATTCGGCTTTACCACATATACGTATCTCATATATATTTTT
1 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCG
*
4083832 CATTAGTCATTCGGCTTTACCACATATACATATCTCATATATATTTCG
1 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCG
* *
4083880 CATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCG
1 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCG
*
4083928 CATTAGCCATTCGGCTTTACCACATGTACATATCTCATATATATTTCG
1 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCG
4083976 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
4084020 ATTTTTTTAT
Statistics
Matches: 177, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 177 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (48 bp):
CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCG
Found at i:4086237 original size:21 final size:22
Alignment explanation
Indices: 4086204--4086246 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
4086194 TTTTACCAAT
* *
4086204 AAATTATATTAAA-AATATAAC
1 AAATTACAATAAACAATATAAC
4086225 AAATTACAATAAACTAATATAA
1 AAATTACAATAAAC-AATATAA
4086247 AAAAAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.61
23 7 0.39
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (22 bp):
AAATTACAATAAACAATATAAC
Found at i:4086248 original size:31 final size:30
Alignment explanation
Indices: 4086200--4086257 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
4086190 TGATTTTTAC
* *
4086200 CAATAAATTATATTAAAAATATAACAAATTA
1 CAATAAATAATATTAAAAA-AAAACAAATTA
4086231 CAATAAACTAATA-TAAAAAAAAACAAA
1 CAATAAA-TAATATTAAAAAAAAACAAA
4086258 ATCTGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.29
31 13 0.54
32 4 0.17
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (30 bp):
CAATAAATAATATTAAAAAAAAACAAATTA
Found at i:4092493 original size:5 final size:5
Alignment explanation
Indices: 4092472--4092554 Score: 55
Period size: 5 Copynumber: 16.0 Consensus size: 5
4092462 TTAATAAGAC
* * *
4092472 TATAT TATTAT TTTAT TATAT TGTAATT TATAT TA-AT GATAT TATA-
1 TATAT TA-TAT TATAT TATAT TAT-A-T TATAT TATAT TATAT TATAT
*
4092518 -ATAT TATTAG TATAT TATATT ATATAT TATAT TATAT
1 TATAT TA-TAT TATAT TATA-T -TATAT TATAT TATAT
4092555 AAATAAGTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
3 3 0.05
4 3 0.05
5 36 0.59
6 12 0.20
7 7 0.11
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:4093367 original size:12 final size:12
Alignment explanation
Indices: 4093350--4093374 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4093340 GCCGACTACT
4093350 GTTACTGTTACC
1 GTTACTGTTACC
4093362 GTTACTGTTACC
1 GTTACTGTTACC
4093374 G
1 G
4093375 ATTCAGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:4093402 original size:45 final size:45
Alignment explanation
Indices: 4093352--4093460 Score: 182
Period size: 45 Copynumber: 2.4 Consensus size: 45
4093342 CGACTACTGT
* *
4093352 TACTGTTACCGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
* *
4093397 TACTGTTACTGTTACCGTTATCGATTCAACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
4093442 TACTGTTACTGTTACTGTT
1 TACTGTTACTGTTACTGTT
4093461 CTGGATTTGT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
Found at i:4093457 original size:51 final size:51
Alignment explanation
Indices: 4093337--4093460 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 51
4093327 CAGACACTTA
* * * * *
4093337 TGTGCCGACTACTGTTACTGTTACCGTTACTGTTACCGATTCAGCACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACCGTTACCGATTCAACACTTTG
*
4093388 TGTGTCG-A-A----TACTGTTACTGTTACCGTTATCGATTCAACACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACCGTTACCGATTCAACACTTTG
4093433 TGTGTCGAATACTGTTACTGTTACTGTT
1 TGTGTCGAATACTGTTACTGTTACTGTT
4093461 CTGGATTTGT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
45 39 0.64
46 1 0.02
47 1 0.02
49 1 0.02
51 19 0.31
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (51 bp):
TGTGTCGAATACTGTTACTGTTACTGTTACCGTTACCGATTCAACACTTTG
Found at i:4093656 original size:18 final size:18
Alignment explanation
Indices: 4093635--4093807 Score: 145
Period size: 18 Copynumber: 9.6 Consensus size: 18
4093625 TAACTGATTA
4093635 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
4093653 TTACCGAATAATTGACTG
1 TTACTGAATAATTGACTG
* * * *
4093671 TTACTAAATAACTGAATA
1 TTACTGAATAATTGACTG
* *
4093689 TTACTGAATAAATGA-TCA
1 TTACTGAATAATTGACT-G
* *
4093707 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
* *
4093725 TCACTGAATAAATGACTG
1 TTACTGAATAATTGACTG
* *
4093743 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
* *
4093762 CTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
4093779 TTACTAAATAATTGACTG
1 TTACTGAATAATTGACTG
*
4093797 TTACTGGATAA
1 TTACTGAATAA
4093808 CCGATCAATT
Statistics
Matches: 124, Mismatches: 25, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
17 13 0.10
18 98 0.79
19 13 0.10
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:4093663 original size:36 final size:36
Alignment explanation
Indices: 4093623--4093889 Score: 167
Period size: 36 Copynumber: 7.2 Consensus size: 36
4093613 AAAGGTATAA
* *
4093623 AATAACTGATTATTACTGAATAATTGACTGTTACCG
1 AATAAATGATTATTACTGAATAATTGACTGTTACTG
* * * * * * *
4093659 AATAATTGACTGTTACTAAATAACTGAATATTACTG
1 AATAAATGATTATTACTGAATAATTGACTGTTACTG
* * * *
4093695 AATAAATGATCATTACTGAATAACTGATTGTCACTG
1 AATAAATGATTATTACTGAATAATTGACTGTTACTG
* * * * *
4093731 AATAAATGACTGTTACTGAATAACTTAATTGCTACTG
1 AATAAATGATTATTACTGAATAA-TTGACTGTTACTG
** *
4093768 AATATCTGATT-TTACTAAATAATTGACTGTTACTG
1 AATAAATGATTATTACTGAATAATTGACTGTTACTG
* * * ** * *
4093803 GATAACCGATCAATTGATTGATACTGAATAACTGGTTATTATTG
1 AATAA---AT-GATT-A-T--TACTGAATAATTGACTGTTACTG
* * *
4093847 AATAATTGATTATTACCGAATAACTGACTGTTACTG
1 AATAAATGATTATTACTGAATAATTGACTGTTACTG
4093883 AATAAAT
1 AATAAAT
4093890 AATTGTTCTG
Statistics
Matches: 172, Mismatches: 49, Indels: 20
0.71 0.20 0.08
Matches are distributed among these distances:
35 13 0.08
36 110 0.64
37 17 0.10
38 2 0.01
39 4 0.02
40 3 0.02
41 1 0.01
42 1 0.01
44 21 0.12
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (36 bp):
AATAAATGATTATTACTGAATAATTGACTGTTACTG
Found at i:4093850 original size:18 final size:18
Alignment explanation
Indices: 4093824--4093887 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
4093814 AATTGATTGA
*
4093824 TACTGAATAACTGGTTAT
1 TACTGAATAACTGATTAT
* *
4093842 TATTGAATAATTGATTAT
1 TACTGAATAACTGATTAT
* * *
4093860 TACCGAATAACTGACTGT
1 TACTGAATAACTGATTAT
4093878 TACTGAATAA
1 TACTGAATAA
4093888 ATAATTGTTC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:4094787 original size:14 final size:14
Alignment explanation
Indices: 4094768--4094802 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4094758 AAAAGGTAAG
4094768 TTATTTTCTAGAAA
1 TTATTTTCTAGAAA
*
4094782 TTATTTTCTGGAAA
1 TTATTTTCTAGAAA
*
4094796 CTATTTT
1 TTATTTT
4094803 TATTCAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.54
Consensus pattern (14 bp):
TTATTTTCTAGAAA
Found at i:4095182 original size:19 final size:19
Alignment explanation
Indices: 4095155--4095207 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 19
4095145 AATTAACAAT
* *
4095155 TAAGCTTAATTAAGTAAAA
1 TAAGATTAATTAACTAAAA
4095174 TAAGATTAATTGAAACTAAAA
1 TAAGATTAATT--AACTAAAA
* *
4095195 TATGACTAATTAA
1 TAAGATTAATTAA
4095208 AAAATATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 12 0.43
21 16 0.57
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (19 bp):
TAAGATTAATTAACTAAAA
Found at i:4107902 original size:16 final size:16
Alignment explanation
Indices: 4107877--4107917 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
4107867 GTGCATGGGC
* *
4107877 CGGGCTGGGTCAGGTT
1 CGGGCCGGGTCAAGTT
4107893 CGGGCCGGGTCAAGTT
1 CGGGCCGGGTCAAGTT
4107909 CGGGCCGGG
1 CGGGCCGGG
4107918 CTCATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.07, C:0.24, G:0.51, T:0.17
Consensus pattern (16 bp):
CGGGCCGGGTCAAGTT
Found at i:4108101 original size:25 final size:23
Alignment explanation
Indices: 4108072--4108136 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
4108062 AATAAAAAAC
*
4108072 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
4108097 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
4108118 -TTAAAACA-AAAACCAAATA
1 TTTAAAACATAAAAACAAATA
4108137 AAAAATGGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:4108134 original size:19 final size:20
Alignment explanation
Indices: 4108098--4108136 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
4108088 TCAAATACAT
4108098 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
4108118 TTAAAACA-AAAACCAAATA
1 TTAAAACATAAAAACAAATA
4108137 AAAAATGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:4110179 original size:3 final size:3
Alignment explanation
Indices: 4110173--4110209 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4110163 GTTGTTGTTG
4110173 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
4110210 GATGATGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4111511 original size:16 final size:16
Alignment explanation
Indices: 4111490--4111521 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4111480 TTTAAATTAG
4111490 TAAAGGTAAAAGTGCA
1 TAAAGGTAAAAGTGCA
4111506 TAAAGGTAAAAGTGCA
1 TAAAGGTAAAAGTGCA
4111522 CATTGCCCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.25, T:0.19
Consensus pattern (16 bp):
TAAAGGTAAAAGTGCA
Found at i:4124419 original size:5 final size:5
Alignment explanation
Indices: 4124409--4124434 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4124399 TGAGCATTCG
4124409 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
4124435 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:4125472 original size:9 final size:9
Alignment explanation
Indices: 4125458--4125494 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
4125448 TATAGTTTGA
4125458 TATTCGAAT
1 TATTCGAAT
4125467 TATTCGAAT
1 TATTCGAAT
*
4125476 TATTCGAGT
1 TATTCGAAT
4125485 TATTCGAAT
1 TATTCGAAT
4125494 T
1 T
4125495 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:4125560 original size:9 final size:9
Alignment explanation
Indices: 4125546--4125578 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
4125536 ATTCGAGTTG
4125546 ACTCGAATA
1 ACTCGAATA
*
4125555 ACTCGATTA
1 ACTCGAATA
4125564 ACTCGAATA
1 ACTCGAATA
4125573 ACTCGA
1 ACTCGA
4125579 TTCGTTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:4125569 original size:18 final size:18
Alignment explanation
Indices: 4125546--4125580 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
4125536 ATTCGAGTTG
4125546 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
4125564 ACTCGAATAACTCGATT
1 ACTCGAATAACTCGATT
4125581 CGTTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:4126209 original size:20 final size:20
Alignment explanation
Indices: 4126186--4126228 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
4126176 AATTTTGATA
4126186 TTTTATTTCAATT-TTTTTAT
1 TTTTATTT-AATTATTTTTAT
*
4126206 TTTTCTTTAATTATTTTTAT
1 TTTTATTTAATTATTTTTAT
4126226 TTT
1 TTT
4126229 CTATAACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTATTTAATTATTTTTAT
Found at i:4128098 original size:18 final size:18
Alignment explanation
Indices: 4128075--4128111 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
4128065 TACGTGACAA
*
4128075 AATTTTCCATTTCGATTT
1 AATTTTCCATTTCAATTT
4128093 AATTTTCCATTTCAATTT
1 AATTTTCCATTTCAATTT
4128111 A
1 A
4128112 GTATATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.16, G:0.03, T:0.54
Consensus pattern (18 bp):
AATTTTCCATTTCAATTT
Found at i:4136322 original size:65 final size:65
Alignment explanation
Indices: 4136246--4136375 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
4136236 CTTGAATAAG
4136246 ATAACACACTCAATTGTTCAATATATCAAAATTGCAAGAATTGAACTCAGAACAAAAACAACATT
1 ATAACACACTCAATTGTTCAATATATCAAAATTGCAAGAATTGAACTCAGAACAAAAACAACATT
4136311 ATAACACACTCAATTGTTCAATATATCAAAATTGCAAGAATTGAACTCAGAACAAAAACAACATT
1 ATAACACACTCAATTGTTCAATATATCAAAATTGCAAGAATTGAACTCAGAACAAAAACAACATT
4136376 TTATGTAAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.25
Consensus pattern (65 bp):
ATAACACACTCAATTGTTCAATATATCAAAATTGCAAGAATTGAACTCAGAACAAAAACAACATT
Found at i:4137182 original size:33 final size:32
Alignment explanation
Indices: 4137143--4137303 Score: 94
Period size: 33 Copynumber: 4.8 Consensus size: 32
4137133 CCATAGTTGC
4137143 GCTATGGCATTATGATGATAAGACCATAACTGA
1 GCTATGGCATTATGATG-TAAGACCATAACTGA
* * * * ***
4137176 GTTATGGCACTATGGACGTATGACCATGGTTG-
1 GCTATGGCATTAT-GATGTAAGACCATAACTGA
* * *
4137208 GACCATGACAGTGTTTAT-ATGTAAGACCATATA-TGG
1 G-CTATGGCA----TTATGATGTAAGACCATA-ACTGA
4137244 GCTATGGCATTATGATGATAAGACCATAACTGA
1 GCTATGGCATTATGATG-TAAGACCATAACTGA
* * *
4137277 GTTATGGCACTATGAACGTAAGACCAT
1 GCTATGGCATTATG-ATGTAAGACCAT
4137304 GGAAGGGCTG
Statistics
Matches: 95, Mismatches: 21, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
31 4 0.04
32 5 0.05
33 59 0.62
34 5 0.05
35 18 0.19
36 1 0.01
37 3 0.03
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (32 bp):
GCTATGGCATTATGATGTAAGACCATAACTGA
Found at i:4137271 original size:101 final size:101
Alignment explanation
Indices: 4137093--4137305 Score: 347
Period size: 101 Copynumber: 2.1 Consensus size: 101
4137083 TTGAAGTATT
* * *
4137093 TAAGACCATGGTTGGACCATGGCAGTGTATATATGTACGGCCATAGTTGCGCTATGGCATTATGA
1 TAAGACCATGGTTGGACCATGACAGTGTATATATGTAAGACCATAGTTGCGCTATGGCATTATGA
*
4137158 TGATAAGACCATAACTGAGTTATGGCACTATGGACG
66 TGATAAGACCATAACTGAGTTATGGCACTATGAACG
* * *
4137194 TATGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATA-TATGGGCTATGGCATTATG
1 TAAGACCATGGTTGGACCATGACAGTGTATATATGTAAGACCATAGT-TGCGCTATGGCATTATG
4137258 ATGATAAGACCATAACTGAGTTATGGCACTATGAACG
65 ATGATAAGACCATAACTGAGTTATGGCACTATGAACG
4137295 TAAGACCATGG
1 TAAGACCATGG
4137306 AAGGGCTGTG
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
100 1 0.01
101 102 0.99
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAGTGTATATATGTAAGACCATAGTTGCGCTATGGCATTATGA
TGATAAGACCATAACTGAGTTATGGCACTATGAACG
Found at i:4155213 original size:22 final size:22
Alignment explanation
Indices: 4155185--4155229 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
4155175 ATGACCATGG
4155185 TTGGACCATGACAGTGTTTATA
1 TTGGACCATGACAGTGTTTATA
**
4155207 TTGGACCATTTCAGTGTTTATA
1 TTGGACCATGACAGTGTTTATA
4155229 T
1 T
4155230 GTAAGACCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.42
Consensus pattern (22 bp):
TTGGACCATGACAGTGTTTATA
Found at i:4155305 original size:123 final size:123
Alignment explanation
Indices: 4155084--4155307 Score: 299
Period size: 123 Copynumber: 1.8 Consensus size: 123
4155074 AAGACCATGG
* * *
4155084 TTGGACCATTGCAGTGTATATATGTAAGACTATAGCTGGGCTATAGCATTCTGATGATAAGACCA
1 TTGGACCATTGCAGTGTATATATGTAAGACCATAGCTAGACTATAGCATTCTGATGATAAGACCA
* * * **
4155149 TAATTGAGTTATGATACTATAGACGTATGACCATGGTTGGACCATGACAGTGTTTATA
66 TAACTGAGTTATGACACTATAGACATAAAACCATGGTTGGACCATGACAGTGTTTATA
* * *
4155207 TTGGACCATTTCAGTGTTTATATGTAAGACCATATCTAGACTAT-GACATTCTGATGATAAGACC
1 TTGGACCATTGCAGTGTATATATGTAAGACCATAGCTAGACTATAG-CATTCTGATGATAAGACC
* *
4155271 ATAACTGAGTTATGGCATTAT-GAACATAAAACCATGG
65 ATAACTGAGTTATGACACTATAG-ACATAAAACCATGG
4155308 AAGGGCTGTG
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
122 2 0.02
123 84 0.98
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.32
Consensus pattern (123 bp):
TTGGACCATTGCAGTGTATATATGTAAGACCATAGCTAGACTATAGCATTCTGATGATAAGACCA
TAACTGAGTTATGACACTATAGACATAAAACCATGGTTGGACCATGACAGTGTTTATA
Found at i:4160237 original size:32 final size:35
Alignment explanation
Indices: 4160199--4160286 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 35
4160189 CTTTTTAGGT
4160199 CCCTTAAAAGTTGGTAAAAAAAAA-ACTTT-GGG-
1 CCCTTAAAAGTTGGTAAAAAAAAATACTTTAGGGC
* * ** *
4160231 CTCTTAAAAGCT-AAAAAAAAAAATATTTTAGGGC
1 CCCTTAAAAGTTGGTAAAAAAAAATACTTTAGGGC
4160265 CCCTTAAAAGTTGGTAAAAAAA
1 CCCTTAAAAGTTGGTAAAAAAA
4160287 TTTTTTTGGG
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
31 9 0.21
32 14 0.33
33 3 0.07
34 10 0.23
35 7 0.16
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (35 bp):
CCCTTAAAAGTTGGTAAAAAAAAATACTTTAGGGC
Found at i:4160284 original size:33 final size:33
Alignment explanation
Indices: 4160168--4160306 Score: 106
Period size: 33 Copynumber: 4.2 Consensus size: 33
4160158 GTTTTAGATT
* * * *
4160168 CCTTAAAAGTTGG-AGAAAATTCTTTTTA-GGTC
1 CCTTAAAAGTTGGTAAAAAAAT-ATTTTAGGGCC
* *
4160200 CCTTAAAAGTTGGTAAAAAAAAAACTTT-GGG-C
1 CCTTAAAAGTTGGT-AAAAAAATATTTTAGGGCC
* ****
4160232 TCTTAAAAGCTAAAAAAAAAAATATTTTAGGGCC
1 CCTTAAAAG-TTGGTAAAAAAATATTTTAGGGCC
* *
4160266 CCTTAAAAGTTGGTAAAAAAATTTTTTTGGGCC
1 CCTTAAAAGTTGGTAAAAAAATATTTTAGGGCC
4160299 CCTTAAAA
1 CCTTAAAA
4160307 ACTGGAAAAT
Statistics
Matches: 82, Mismatches: 19, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
32 33 0.40
33 35 0.43
34 14 0.17
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (33 bp):
CCTTAAAAGTTGGTAAAAAAATATTTTAGGGCC
Found at i:4160846 original size:16 final size:16
Alignment explanation
Indices: 4160794--4160850 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
4160784 CTCATAGAGC
4160794 TTGTTCTAAATAAT-G
1 TTGTTCTAAATAATAG
* *
4160809 TCTCTTCTTAAAGAATATAG
1 T-TGTTC-TAAA-TA-ATAG
4160829 TTGTTCTAAATAATAG
1 TTGTTCTAAATAATAG
4160845 TTGTTC
1 TTGTTC
4160851 CAAACAACGA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
15 1 0.03
16 14 0.42
17 5 0.15
18 5 0.15
19 6 0.18
20 2 0.06
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.46
Consensus pattern (16 bp):
TTGTTCTAAATAATAG
Found at i:4166369 original size:87 final size:87
Alignment explanation
Indices: 4166207--4166409 Score: 264
Period size: 87 Copynumber: 2.3 Consensus size: 87
4166197 TAGTTTAATA
* * **
4166207 ATCTGC-AACACTAGTGGTTTATCCACAAATTTACTGGCAGCCTTTATCTGCAAACATGTTGTGC
1 ATCTGCAAACACTAGTGGTTCATCCACAAACTTACTGGCAGCCTTTATCTGCAAACACATTGTGC
**
4166271 ACTCATGACCTATTGACAATTT
66 ACTCACAACCTATTGACAATTT
* * * *
4166293 ATCTGCAAACACTAGTGGTTCATCCACAAACTTACTGGTAGCTTTTATTTGCAAATACATTGTGC
1 ATCTGCAAACACTAGTGGTTCATCCACAAACTTACTGGCAGCCTTTATCTGCAAACACATTGTGC
* * *
4166358 ATTCACAACCTATTGGCAGTTT
66 ACTCACAACCTATTGACAATTT
* *
4166380 ATCTGCAAACATTGGTGGTTCATCCACAAA
1 ATCTGCAAACACTAGTGGTTCATCCACAAA
4166410 TTGGAGTATT
Statistics
Matches: 101, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
86 6 0.06
87 95 0.94
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (87 bp):
ATCTGCAAACACTAGTGGTTCATCCACAAACTTACTGGCAGCCTTTATCTGCAAACACATTGTGC
ACTCACAACCTATTGACAATTT
Found at i:4167838 original size:121 final size:121
Alignment explanation
Indices: 4167692--4167933 Score: 351
Period size: 121 Copynumber: 2.0 Consensus size: 121
4167682 TATTCCTCTT
* * *
4167692 AATGGATACTTTGGAAGTAAC-AAAAATTCATTTTAATAAATTAAATATGAATTTTGTTTTGTAA
1 AATGGATACTTTGGAAGTAACAAAAAATT-ATTTTAATAAATTAAAAATGAATTTTATTTTCTAA
* *
4167756 AATTAATTTTTGATACTAAAATTAAACTTAATTTAACCTAATCTTTGGATAATACAC
65 AATTAAGTTTAGATACTAAAATTAAACTTAATTTAACCTAATCTTTGGATAATACAC
* * * **
4167813 AATGGATACTTTGGAGGTAATAAAAAATTATTTTAATAAATTAAAAATGATTTTTATTTTCTGGA
1 AATGGATACTTTGGAAGTAACAAAAAATTATTTTAATAAATTAAAAATGAATTTTATTTTCTAAA
* * *
4167878 TTTAAGTTTAGATATTAGAATTAAACTTAATTTAACCTAATCTTTGGATAATACAC
66 ATTAAGTTTAGATACTAAAATTAAACTTAATTTAACCTAATCTTTGGATAATACAC
4167934 GATTTCGCGC
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
121 100 0.93
122 7 0.07
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (121 bp):
AATGGATACTTTGGAAGTAACAAAAAATTATTTTAATAAATTAAAAATGAATTTTATTTTCTAAA
ATTAAGTTTAGATACTAAAATTAAACTTAATTTAACCTAATCTTTGGATAATACAC
Found at i:4171879 original size:14 final size:16
Alignment explanation
Indices: 4171862--4171893 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4171852 CTATTAAGGA
4171862 TATT-AAAT-TAAATT
1 TATTAAAATATAAATT
4171876 TATTAAAATATAAATT
1 TATTAAAATATAAATT
4171892 TA
1 TA
4171894 ATATATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 4 0.25
16 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTAAAATATAAATT
Found at i:4172511 original size:2 final size:2
Alignment explanation
Indices: 4172504--4172531 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4172494 TCTTGCAAAA
4172504 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
4172532 TTACTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4173447 original size:2 final size:2
Alignment explanation
Indices: 4173440--4173476 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4173430 TTGTTACGTA
4173440 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4173477 AAATAGCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4175929 original size:2 final size:2
Alignment explanation
Indices: 4175918--4175955 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
4175908 GTGCCTAATA
4175918 TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4175956 AGCCAATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4182093 original size:43 final size:42
Alignment explanation
Indices: 4182045--4182197 Score: 139
Period size: 43 Copynumber: 3.6 Consensus size: 42
4182035 ATCGAGATGT
*
4182045 GATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCT-GGACATTGGCATAGTATTGA
* * * * *
4182088 GATTACATGTAAGACTATGTCTGGTACATTAGCATCGTTAATCA
1 GATTACATGTAAGACCATGTCTGG-ACATTGGCATAG-TATTGA
* * * *
4182132 -ATTTCATGTAAGACCTTGTCTGGGACAGTGGCATAG-ATATGT
1 GATTACATGTAAGACCATGTCT-GGACATTGGCATAGTAT-TGA
* *
4182174 GATAACATGTAAGACCATATCTGG
1 GATTACATGTAAGACCATGTCTGG
4182198 GATATGGCAT
Statistics
Matches: 87, Mismatches: 18, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
41 1 0.01
42 5 0.06
43 75 0.86
44 6 0.07
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGACATTGGCATAGTATTGA
Found at i:4183617 original size:22 final size:20
Alignment explanation
Indices: 4183567--4183627 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
4183557 CCTTGAAGGG
*
4183567 TTGGATATCGCGATACCCAG
1 TTGGATATCGCGATACCCAC
*
4183587 TGTGGATATCGTGATACCCAACC
1 T-TGGATATCGCGATACCC-A-C
*
4183610 TTGGATATCGCAATACCC
1 TTGGATATCGCGATACCC
4183628 CCTCATTGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 16 0.47
22 16 0.47
23 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (20 bp):
TTGGATATCGCGATACCCAC
Found at i:4184505 original size:28 final size:28
Alignment explanation
Indices: 4184473--4184528 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
4184463 TTAATACGTA
*
4184473 AAGTAAACTACAAGTACCAACAAATTAT
1 AAGTAAACTACAAGCACCAACAAATTAT
4184501 AAGTAAACTACAAGCACCAACAAATTAT
1 AAGTAAACTACAAGCACCAACAAATTAT
4184529 GAAATGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.54, C:0.20, G:0.07, T:0.20
Consensus pattern (28 bp):
AAGTAAACTACAAGCACCAACAAATTAT
Found at i:4186494 original size:12 final size:12
Alignment explanation
Indices: 4186471--4186504 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
4186461 TATATATTTT
4186471 AAAATT-ATATA
1 AAAATTAATATA
4186482 AAAATTAATATA
1 AAAATTAATATA
4186494 AAAATTAATAT
1 AAAATTAATAT
4186505 GGGCGGGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:4192982 original size:29 final size:30
Alignment explanation
Indices: 4192931--4192991 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 30
4192921 GGAGAAGAAG
*
4192931 AAGTATAAACATATAGGGTCATTTATGAAAA
1 AAGTATAAACATATAGGGCCA-TTATGAAAA
* *
4192962 AAGTA-AAA-ATATTGGGCCATTATTAAAA
1 AAGTATAAACATATAGGGCCATTATGAAAA
4192990 AA
1 AA
4192992 CAAAAAAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 10 0.37
29 9 0.33
30 3 0.11
31 5 0.19
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.28
Consensus pattern (30 bp):
AAGTATAAACATATAGGGCCATTATGAAAA
Found at i:4200540 original size:11 final size:11
Alignment explanation
Indices: 4200520--4200573 Score: 74
Period size: 11 Copynumber: 5.0 Consensus size: 11
4200510 TAGAATATAC
*
4200520 CCCATTCCTTG
1 CCCATACCTTG
4200531 CCCATACCTTG
1 CCCATACCTTG
*
4200542 CCCATACCTTT
1 CCCATACCTTG
*
4200553 CCCATACC-TA
1 CCCATACCTTG
4200563 CCCATACCTTG
1 CCCATACCTTG
4200574 GAAAGGTCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
10 9 0.24
11 29 0.76
ACGTcount: A:0.19, C:0.46, G:0.06, T:0.30
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:4201132 original size:18 final size:18
Alignment explanation
Indices: 4201105--4201141 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
4201095 TACGACCGTT
*
4201105 TACGGTACTATTCACGTA
1 TACGGCACTATTCACGTA
4201123 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
4201141 T
1 T
4201142 GCAGCATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:4205161 original size:11 final size:11
Alignment explanation
Indices: 4205141--4205183 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
4205131 TAGAATATAC
*
4205141 CCCATTCCTTG
1 CCCATACCTTG
*
4205152 CCCATACCTTT
1 CCCATACCTTG
*
4205163 CCCATACCTAG
1 CCCATACCTTG
4205174 -CCATACCTTG
1 CCCATACCTTG
4205184 GAAAGGTCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.19, C:0.44, G:0.07, T:0.30
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:4206742 original size:19 final size:19
Alignment explanation
Indices: 4206706--4206744 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4206696 AATTAAATTG
*
4206706 TAATTTTTAATAGTTTAAA
1 TAATTTTTAATAGATTAAA
4206725 TAATTTTTAA-ATGATTAAA
1 TAATTTTTAATA-GATTAAA
4206744 T
1 T
4206745 CAAAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TAATTTTTAATAGATTAAA
Found at i:4215261 original size:12 final size:12
Alignment explanation
Indices: 4215244--4215268 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4215234 GTTCTTTATC
4215244 TTTATTTTATTT
1 TTTATTTTATTT
4215256 TTTATTTTATTT
1 TTTATTTTATTT
4215268 T
1 T
4215269 ATTTTTCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:4215266 original size:17 final size:18
Alignment explanation
Indices: 4215238--4215274 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
4215228 TTGTGTGTTC
4215238 TTTATCTTTATTTTATTT
1 TTTATCTTTATTTTATTT
4215256 TTTAT-TTTATTTTATTT
1 TTTATCTTTATTTTATTT
4215273 TT
1 TT
4215275 CACAAATTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTATCTTTATTTTATTT
Found at i:4222853 original size:26 final size:25
Alignment explanation
Indices: 4222824--4222875 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
4222814 AGGCATATAC
4222824 AATTAAGGCTTTCAATATGGAAAAAA
1 AATTAA-GCTTTCAATATGGAAAAAA
* * *
4222850 AATTCAGCTTTTAATATGGGAAAAA
1 AATTAAGCTTTCAATATGGAAAAAA
4222875 A
1 A
4222876 GTTCAGACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.48, C:0.08, G:0.15, T:0.29
Consensus pattern (25 bp):
AATTAAGCTTTCAATATGGAAAAAA
Found at i:4222859 original size:25 final size:25
Alignment explanation
Indices: 4222831--4222881 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
4222821 TACAATTAAG
4222831 GCTTTCAATATGGAAAAAAAATTCA
1 GCTTTCAATATGGAAAAAAAATTCA
* * *
4222856 GCTTTTAATATGGGAAAAAAGTTCA
1 GCTTTCAATATGGAAAAAAAATTCA
4222881 G
1 G
4222882 ACTAAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (25 bp):
GCTTTCAATATGGAAAAAAAATTCA
Found at i:4223615 original size:19 final size:22
Alignment explanation
Indices: 4223584--4223638 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
4223574 ATACTTCATG
* *
4223584 TTAATTTATTATTATTTTAA-TT
1 TTAAATTATTATT-TTATAATTT
4223606 TTAAATTATTTATTTTATAATTT
1 TTAAATTA-TTATTTTATAATTT
4223629 TTAAATTATT
1 TTAAATTATT
4223639 TATTGATGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 14 0.48
23 15 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTAAATTATTATTTTATAATTT
Done.