Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008319.1 Hibiscus syriacus cultivar Beakdansim tig00111022_pilon, 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: 4819703
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 21
Found at i:4309512 original size:19 final size:19
Alignment explanation
Indices: 4309488--4309526 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
4309478 GAAAATATTC
4309488 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
4309507 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
4309526 A
1 A
4309527 TGCATTCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.15, G:0.36, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:4312051 original size:20 final size:20
Alignment explanation
Indices: 4311984--4312059 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 20
4311974 AACCCGACGG
* *
4311984 ATGCATCGATGCATGGTCT-T
1 ATGCATCGATGCATTGT-TAA
*
4312004 ATGCATCGATGCATAT-TCAA
1 ATGCATCGATGCAT-TGTTAA
4312024 GGATGCATCGATGCATTGTTAA
1 --ATGCATCGATGCATTGTTAA
*
4312046 ATGCATCGGTGCAT
1 ATGCATCGATGCAT
4312060 GAAGCACAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
20 28 0.61
21 1 0.02
22 17 0.37
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (20 bp):
ATGCATCGATGCATTGTTAA
Found at i:4317158 original size:30 final size:30
Alignment explanation
Indices: 4317099--4317159 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
4317089 GATAATATGA
* * *
4317099 AAAGAAGCTATGTGATTACATGTATATGTG
1 AAAGAAGCTATGAGATTACATGAACATGTG
* *
4317129 AAAGAAGCTATGAGCTTATATGAACATGTG
1 AAAGAAGCTATGAGATTACATGAACATGTG
4317159 A
1 A
4317160 TATGATATGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
AAAGAAGCTATGAGATTACATGAACATGTG
Found at i:4317585 original size:149 final size:149
Alignment explanation
Indices: 4317301--4317604 Score: 554
Period size: 149 Copynumber: 2.0 Consensus size: 149
4317291 GAGTTGAGGG
* * *
4317301 TCTATGCGGTTCTTTGGGACATATGTATATTCTTCGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGATTCTTCGGGACATATGTATATTCTTCGGAACATGTGTGAAGTCTTGAAAGACACAT
*
4317366 ACTTGATCCCTAGTATATGTATATGATTCTCAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTCAAGGAATTCTATGTGGTCCTTATGGACATCATTA
4317431 CATGGCACTACGGTGCAAT
131 CATGGCACTACGGTGCAAT
4317450 TCTACGCGATTCTTCGGGACATATGTATATTCTTCGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGATTCTTCGGGACATATGTATATTCTTCGGAACATGTGTGAAGTCTTGAAAGACACAT
*
4317515 ACTTGATCCCTAGTGTATGTATATGATTCTCAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTCAAGGAATTCTATGTGGTCCTTATGGACATCATTA
*
4317580 TATGGCACTACGGTGCAAT
131 CATGGCACTACGGTGCAAT
4317599 TCTACG
1 TCTACG
4317605 GGGCACTTCT
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 149 1.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGATTCTTCGGGACATATGTATATTCTTCGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTCAAGGAATTCTATGTGGTCCTTATGGACATCATTA
CATGGCACTACGGTGCAAT
Found at i:4317627 original size:23 final size:23
Alignment explanation
Indices: 4317583--4317627 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
4317573 ATCATTATAT
*
4317583 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* * *
4317606 GGCACTTCTGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
4317628 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:4320874 original size:21 final size:21
Alignment explanation
Indices: 4320848--4320892 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4320838 GATTTCTGGG
* *
4320848 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
4320869 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
4320890 CAA
1 CAA
4320893 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:4322395 original size:30 final size:30
Alignment explanation
Indices: 4322336--4322396 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
4322326 GATAATATGA
* * *
4322336 AAAGAAGCTATGTGATTACATGTATATGTG
1 AAAGAAGCTATGAGATTACATGAACATGTG
* *
4322366 AAAGAAGCTATGAGCTTATATGAACATGTG
1 AAAGAAGCTATGAGATTACATGAACATGTG
4322396 A
1 A
4322397 TATGATATGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
AAAGAAGCTATGAGATTACATGAACATGTG
Found at i:4322822 original size:149 final size:149
Alignment explanation
Indices: 4322538--4322841 Score: 563
Period size: 149 Copynumber: 2.0 Consensus size: 149
4322528 GAGTTGAGGG
* *
4322538 TCTATGCGGTTCTTTGGGACATATGTATATTCTTCGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTCGGAACATGTGTGAAGTCTTGAAAGACACAT
*
4322603 ACTTGATCCCTAGTATATGTATATGATTCTCAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTCAAGGAATTCTATGTGGTCCTTATGGACATCATTA
4322668 CATGGCACTACGGTGCAAT
131 CATGGCACTACGGTGCAAT
4322687 TCTACGCGGTTCTTCGGGACATATGTATATTCTTCGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTCGGAACATGTGTGAAGTCTTGAAAGACACAT
*
4322752 ACTTGATCCCTAGTGTATGTATATGATTCTCAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTCAAGGAATTCTATGTGGTCCTTATGGACATCATTA
*
4322817 TATGGCACTACGGTGCAAT
131 CATGGCACTACGGTGCAAT
4322836 TCTACG
1 TCTACG
4322842 GGGCACTTCG
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGGGACATATGTATATTCTTCGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTCAAGGAATTCTATGTGGTCCTTATGGACATCATTA
CATGGCACTACGGTGCAAT
Found at i:4322864 original size:23 final size:23
Alignment explanation
Indices: 4322820--4322864 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4322810 ATCATTATAT
*
4322820 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
4322843 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
4322865 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:4324507 original size:22 final size:21
Alignment explanation
Indices: 4324465--4324504 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4324455 GAGTTTGTTT
*
4324465 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
4324486 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
4324505 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:4326503 original size:64 final size:64
Alignment explanation
Indices: 4326433--4326610 Score: 160
Period size: 65 Copynumber: 2.8 Consensus size: 64
4326423 GAACACTTGA
* * *
4326433 TGCATCGGTGCACCAAGTGTGCATTGATGCATGAAATGCATTCGATG-TTTGCAAAATAGCCTGG
1 TGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATAGCCTGG
***** * ***
4326497 TGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAAAG
1 TGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATA-GCCTGG
*** * * **
4326562 TGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTT
4326611 CAATTAATTC
Statistics
Matches: 94, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
64 45 0.48
65 49 0.52
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (64 bp):
TGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATAGCCTGG
Found at i:4326584 original size:19 final size:18
Alignment explanation
Indices: 4326559--4326608 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
4326549 AAAATATTCA
4326559 AAGTGCATCGATGCATGG
1 AAGTGCATCGATGCATGG
*
4326577 AGAGTGCATCGGTGCATGG
1 A-AGTGCATCGATGCATGG
4326596 AA-TGCATTCGATG
1 AAGTGCA-TCGATG
4326609 TTCAATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 4 0.14
18 7 0.25
19 17 0.61
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (18 bp):
AAGTGCATCGATGCATGG
Found at i:4326650 original size:65 final size:65
Alignment explanation
Indices: 4326460--4326659 Score: 198
Period size: 65 Copynumber: 3.1 Consensus size: 65
4326450 TGTGCATTGA
* ***
4326460 TGCATGAAATGCATTCGATGTTTGCAAAATA-GCCTGGTGCATCGATGCATGG-CTTG-TGCATC
1 TGCATGAAATGCATTCGATGTTT-CAAAATATTCAAAGTGCATCGATGCATGGAC-TGATGCATC
*
4326522 GA
64 GG
* *
4326524 TGCATCAAATGCATTCGATGTTTTGAAAATATTCAAAGTGCATCGATGCATGGA--GAGTGCATC
1 TGCATGAAATGCATTCGATG-TTTCAAAATATTCAAAGTGCATCGATGCATGGACTGA-TGCATC
4326587 GG
64 GG
* * **
4326589 TGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGATGCATCGATGCATGGACTGATGCATC
1 TGCATGAAATGCATTCGATGTTTCAAAAT-ATTCAAAG-TGCATCGATGCATGGACTGATGCATC
4326652 GG
64 GG
4326654 TGCATG
1 TGCATG
4326660 CCTTTGAATA
Statistics
Matches: 114, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
62 3 0.03
63 9 0.08
64 41 0.36
65 59 0.52
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (65 bp):
TGCATGAAATGCATTCGATGTTTCAAAATATTCAAAGTGCATCGATGCATGGACTGATGCATCGG
Found at i:4328178 original size:10 final size:10
Alignment explanation
Indices: 4328146--4328190 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
4328136 GCATACATCA
4328146 ACACATACAT
1 ACACATACAT
*
4328156 GCATACATACAT
1 --ACACATACAT
*
4328168 ACACGTACAT
1 ACACATACAT
4328178 ACACATACAT
1 ACACATACAT
4328188 ACA
1 ACA
4328191 TGATACATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 20 0.69
12 9 0.31
ACGTcount: A:0.47, C:0.29, G:0.04, T:0.20
Consensus pattern (10 bp):
ACACATACAT
Found at i:4328595 original size:36 final size:36
Alignment explanation
Indices: 4328491--4328595 Score: 92
Period size: 36 Copynumber: 3.0 Consensus size: 36
4328481 TTTGATGTTG
** * * *
4328491 TTTCTCTCGAAACAAAATGTCGTCTCTCTAGAGAC-A
1 TTTCTCTTAAAAC-AAATTTCGTCTCACTTGAGACAA
* *
4328527 GTTCT-TTAAAAACAAA-TT-GTCTCACTTAAGACAA
1 TTTCTCTT-AAAACAAATTTCGTCTCACTTGAGACAA
*
4328561 TTTCTCTTAAAACAAATTTCGTCTCGCTTGAGACA
1 TTTCTCTTAAAACAAATTTCGTCTCACTTGAGACA
4328596 TTTTTCCTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
33 11 0.20
34 14 0.26
35 8 0.15
36 21 0.39
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (36 bp):
TTTCTCTTAAAACAAATTTCGTCTCACTTGAGACAA
Found at i:4328751 original size:105 final size:105
Alignment explanation
Indices: 4328561--4328813 Score: 393
Period size: 105 Copynumber: 2.4 Consensus size: 105
4328551 CTTAAGACAA
* *
4328561 TTTCTCTT-AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATT
1 TTTCT-TTCAAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATT
* *
4328625 TGCTTTACTTAAAACTAAATTAATCTCACTTGAGATTGTTG
65 TGCTTCACATAAAACTAAATTAATCTCACTTGAGATTGTTG
*
4328666 TTTCTTTCAAAACAAATTTCGTCTCGCTTGGGACATTTTCCCTTTGAGATACAAATTTCGAATTT
1 TTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTT
*
4328731 GCTTCACATGAAAC-ACAATTAATCTCACTTGAGATTGTTG
66 GCTTCACATAAAACTA-AATTAATCTCACTTGAGATTGTTG
* * *
4328771 TTTATTTCAAAACAAATTTTGTCTCACTTGAGACATTTTCCCT
1 TTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTCCCT
4328814 CAGAAAACAA
Statistics
Matches: 136, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
104 3 0.02
105 133 0.98
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (105 bp):
TTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTT
GCTTCACATAAAACTAAATTAATCTCACTTGAGATTGTTG
Found at i:4329427 original size:32 final size:31
Alignment explanation
Indices: 4329367--4329440 Score: 87
Period size: 32 Copynumber: 2.4 Consensus size: 31
4329357 CAAAACAAAC
* * *
4329367 AAAATCTTTGAGTATGTTTTTCTTGAAACAA
1 AAAATCTTTGAGTATATTTCTCTCGAAACAA
*
4329398 AAACATCTTTGAGTTTATTTCTCTCGAAAC-A
1 AAA-ATCTTTGAGTATATTTCTCTCGAAACAA
*
4329429 CAAATCTTTGAG
1 AAAATCTTTGAG
4329441 AACGTTTCCC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 9 0.24
31 6 0.16
32 22 0.59
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (31 bp):
AAAATCTTTGAGTATATTTCTCTCGAAACAA
Found at i:4329522 original size:63 final size:64
Alignment explanation
Indices: 4329431--4329590 Score: 180
Period size: 63 Copynumber: 2.5 Consensus size: 64
4329421 TCGAAACACA
* * * *
4329431 AATCTTTGAGAACGTTTCCCTTAAAAACAAATTTTGTTTCGCTTGAGACAATTTCCTTT-AAAAA
1 AATCTTTGAG-TCGTTTCCCTT-GAAACAAATTTTGTCTCGCTTGAGACAATTGCCTTTGAAAAA
4329495 TC
64 -C
** *
4329497 -ATCTTTGAGTCGTTTCCCTTGAAACAAATTTTGTCTCTTTTGAGACAATTGCTTTTGAAAAAC
1 AATCTTTGAGTCGTTTCCCTTGAAACAAATTTTGTCTCGCTTGAGACAATTGCCTTTGAAAAAC
**
4329560 AAATCTTTGAGTCTGTTTCTTTTGAAACAAA
1 -AATCTTTGAGTC-GTTTCCCTTGAAACAAA
4329591 CCTTTGAGTT
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
63 31 0.38
64 15 0.19
65 20 0.25
66 15 0.19
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (64 bp):
AATCTTTGAGTCGTTTCCCTTGAAACAAATTTTGTCTCGCTTGAGACAATTGCCTTTGAAAAAC
Found at i:4329612 original size:28 final size:28
Alignment explanation
Indices: 4329556--4329615 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
4329546 TGCTTTTGAA
* *
4329556 AAACAAATCTTTGAGTCTGTTTCTTTTG
1 AAACAAACCTTTGAGTCTGTTTCTCTTG
4329584 AAACAAACCTTTGAGT-TGGTTTAC-CTTG
1 AAACAAACCTTTGAGTCT-GTTT-CTCTTG
4329612 AAAC
1 AAAC
4329616 CAGTATCCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 1 0.04
28 26 0.93
29 1 0.04
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (28 bp):
AAACAAACCTTTGAGTCTGTTTCTCTTG
Found at i:4330041 original size:3 final size:3
Alignment explanation
Indices: 4330033--4330085 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
4330023 GTCTTTTTTA
** *
4330033 TAT TAT TAT TAT TAT TAT CGT TAT T-T TAT TAT TAT TAT TAA TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
4330081 TAT TA
1 TAT TA
4330086 CATTTTGTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:4336203 original size:15 final size:15
Alignment explanation
Indices: 4336183--4336215 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
4336173 CCCATAGGCT
4336183 TAACGTGTACAATTC
1 TAACGTGTACAATTC
4336198 TAACGTGTACAATTC
1 TAACGTGTACAATTC
4336213 TAA
1 TAA
4336216 TGCCACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (15 bp):
TAACGTGTACAATTC
Found at i:4343623 original size:27 final size:28
Alignment explanation
Indices: 4343593--4343646 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
4343583 ATTTAATCAT
*
4343593 ATTTTGTATTAATT-ATTTTATTATTTA
1 ATTTTGTATTAATTAATTTAATTATTTA
* *
4343620 ATTTTTTATTATTTAATTTAATTATTT
1 ATTTTGTATTAATTAATTTAATTATTT
4343647 TTTTTGCAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (28 bp):
ATTTTGTATTAATTAATTTAATTATTTA
Found at i:4343626 original size:15 final size:15
Alignment explanation
Indices: 4343601--4343638 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
4343591 ATATTTTGTA
4343601 TTAATTATTTTATTAT
1 TTAATT-TTTTATTAT
4343617 TTAATTTTTTATTAT
1 TTAATTTTTTATTAT
4343632 TTAATTT
1 TTAATTT
4343639 AATTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTAATTTTTTATTAT
Found at i:4343936 original size:16 final size:16
Alignment explanation
Indices: 4343899--4343959 Score: 56
Period size: 16 Copynumber: 4.0 Consensus size: 16
4343889 TTTATAACTG
4343899 TAAAAAAATAAAATAA
1 TAAAAAAATAAAATAA
*
4343915 T---TAAATAAAATAA
1 TAAAAAAATAAAATAA
*
4343928 TAAAAAAATTAAATAA
1 TAAAAAAATAAAATAA
* * *
4343944 TATAATAATTAAATAA
1 TAAAAAAATAAAATAA
4343960 AATACTAACA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
13 12 0.32
16 25 0.68
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAAAAATAAAATAA
Found at i:4343957 original size:21 final size:21
Alignment explanation
Indices: 4343899--4343951 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
4343889 TTTATAACTG
* *
4343899 TAAAAAAATAAAATAATTAAA
1 TAAAATAATAAAAAAATTAAA
4343920 TAAAATAATAAAAAAATTAAA
1 TAAAATAATAAAAAAATTAAA
*
4343941 TAATATAATAA
1 TAAAATAATAA
4343952 TTAAATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAAATAATAAAAAAATTAAA
Found at i:4343962 original size:21 final size:21
Alignment explanation
Indices: 4343899--4343963 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
4343889 TTTATAACTG
* *
4343899 TAAAAAAATAAAATAATTAAA
1 TAAAATAATATAATAATTAAA
4343920 TAAAAT-A-ATAA-AA--AAA
1 TAAAATAATATAATAATTAAA
*
4343936 TTAAATAATATAATAATTAAA
1 TAAAATAATATAATAATTAAA
4343957 TAAAATA
1 TAAAATA
4343964 CTAACAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
16 8 0.23
17 1 0.03
18 6 0.17
19 5 0.14
20 1 0.03
21 14 0.40
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAAATAATATAATAATTAAA
Found at i:4347967 original size:15 final size:15
Alignment explanation
Indices: 4347947--4347978 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4347937 TCTAAAAGAT
4347947 AATTAAACCACAAAA
1 AATTAAACCACAAAA
*
4347962 AATTAAACCATAAAA
1 AATTAAACCACAAAA
4347977 AA
1 AA
4347979 AATAAAGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.16, G:0.00, T:0.16
Consensus pattern (15 bp):
AATTAAACCACAAAA
Found at i:4361964 original size:50 final size:53
Alignment explanation
Indices: 4361856--4361964 Score: 145
Period size: 50 Copynumber: 2.1 Consensus size: 53
4361846 ACCAGTTCTG
4361856 TCTATATTATTAGGATTCAAATGTGAGTGTTAGATACGAAGAATGATTAGATTTT
1 TCTATATTATTAGGATTCAAATGT-AGTGTTAGATACG-AGAATGATTAGATTTT
* *
4361911 TCTATATTATTAGGATT-AGA-GT-GTGTTAGATATG-GATATGATTAGATTTT
1 TCTATATTATTAGGATTCAAATGTAGTGTTAGATACGAGA-ATGATTAGATTTT
4361961 TCTA
1 TCTA
4361965 AAGTTTTTCT
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
49 2 0.04
50 17 0.33
51 11 0.22
53 2 0.04
54 2 0.04
55 17 0.33
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (53 bp):
TCTATATTATTAGGATTCAAATGTAGTGTTAGATACGAGAATGATTAGATTTT
Found at i:4373868 original size:19 final size:19
Alignment explanation
Indices: 4373844--4373880 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4373834 ATGACCAACA
*
4373844 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
4373863 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
4373881 CATTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:4374014 original size:20 final size:20
Alignment explanation
Indices: 4373991--4374052 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
4373981 ATGTAAATCA
4373991 CAACGCGATTCTGACTATCG
1 CAACGCGATTCTGACTATCG
**
4374011 CAACGCGATAAT-ACGTGATCG
1 CAACGCGATTCTGAC-T-ATCG
4374032 CAACGCGATTCTGACTATCG
1 CAACGCGATTCTGACTATCG
4374052 C
1 C
4374053 GTTGCGATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 2 0.06
20 16 0.46
21 15 0.43
22 2 0.06
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (20 bp):
CAACGCGATTCTGACTATCG
Found at i:4374073 original size:41 final size:41
Alignment explanation
Indices: 4373985--4374082 Score: 115
Period size: 41 Copynumber: 2.4 Consensus size: 41
4373975 GCGAATATGT
* *
4373985 AAATCACAACGCGATTCTGACTATCGCAACGCGATAATACG
1 AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
** *** *
4374026 TGATCGCAACGCGATTCTGACTATCGCGTTGCGATAATATA
1 AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
*
4374067 AAATCGCAATGCGATT
1 AAATCGCAACGCGATT
4374083 TTCAAAGCGC
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (41 bp):
AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
Found at i:4374125 original size:18 final size:20
Alignment explanation
Indices: 4374080--4374125 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
4374070 TCGCAATGCG
4374080 ATTTTCAAAGCGCCATTAGT
1 ATTTTCAAAGCGCCATTAGT
* *
4374100 A-TTGCAAAGCG-CATT-TT
1 ATTTTCAAAGCGCCATTAGT
4374117 ATTTTCAAA
1 ATTTTCAAA
4374126 TTCCAAACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
17 2 0.09
18 10 0.45
19 9 0.41
20 1 0.05
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (20 bp):
ATTTTCAAAGCGCCATTAGT
Found at i:4374246 original size:22 final size:21
Alignment explanation
Indices: 4374216--4374280 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
4374206 ACTCTCTACG
*
4374216 GCGATATCCGTCCCCATCTCC
1 GCGAAATCCGTCCCCATCTCC
* *
4374237 GACGAAATCCGTCCCCATTTCA
1 G-CGAAATCCGTCCCCATCTCC
* *
4374259 GTGAAATCCATCCCCATCTCC
1 GCGAAATCCGTCCCCATCTCC
4374280 G
1 G
4374281 GTGAAATCGT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 18 0.50
22 18 0.50
ACGTcount: A:0.22, C:0.42, G:0.14, T:0.23
Consensus pattern (21 bp):
GCGAAATCCGTCCCCATCTCC
Found at i:4374287 original size:22 final size:22
Alignment explanation
Indices: 4374221--4374288 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
4374211 CTACGGCGAT
**
4374221 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGGTGAA
* *
4374243 ATCCGTCCCCAT-TTCAGTGAA
1 ATCCGTCCCCATCTCCGGTGAA
*
4374264 ATCCATCCCCATCTCCGGTGAA
1 ATCCGTCCCCATCTCCGGTGAA
4374286 ATC
1 ATC
4374289 GTCTATCTCC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 16 0.42
22 22 0.58
ACGTcount: A:0.24, C:0.40, G:0.13, T:0.24
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGGTGAA
Found at i:4374657 original size:19 final size:20
Alignment explanation
Indices: 4374627--4374664 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
4374617 ATGACTATTT
4374627 GAAATCGAAAATCGCAACGC
1 GAAATCGAAAATCGCAACGC
4374647 GAAAT-GAAAATCGCAACG
1 GAAATCGAAAATCGCAACG
4374665 ATAAAATTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (20 bp):
GAAATCGAAAATCGCAACGC
Found at i:4374733 original size:20 final size:20
Alignment explanation
Indices: 4374668--4374776 Score: 106
Period size: 20 Copynumber: 5.8 Consensus size: 20
4374658 CGCAACGATA
4374668 AAATTCGCGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTC
* *
4374688 -ATTTCACGTTGCGAT--T-
1 AAATTCGCGTTGCGATAGTC
*
4374704 --A-TCTCGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTC
4374721 AAATTCGCGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTC
*
4374741 AAATTCGCGTTGCGATAATC
1 AAATTCGCGTTGCGATAGTC
** *
4374761 ATTTTCGTGTTGCGAT
1 AAATTCGCGTTGCGAT
4374777 TTTCATTTTC
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
14 11 0.15
16 1 0.01
17 1 0.01
19 14 0.19
20 47 0.64
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
AAATTCGCGTTGCGATAGTC
Found at i:4374782 original size:20 final size:20
Alignment explanation
Indices: 4374744--4374799 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
4374734 GATAGTCAAA
* **
4374744 TTCGCGTTGCGATAATCATT
1 TTCGTGTTGCGATTTTCATT
4374764 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
* *
4374784 TTCATGTTGTGATTTT
1 TTCGTGTTGCGATTTT
4374800 AAGTTTCAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:4374806 original size:20 final size:20
Alignment explanation
Indices: 4374763--4374807 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4374753 CGATAATCAT
* * *
4374763 TTTCGTGTTGCGATTTTCAT
1 TTTCATGTTGCGATTTTAAG
*
4374783 TTTCATGTTGTGATTTTAAG
1 TTTCATGTTGCGATTTTAAG
4374803 TTTCA
1 TTTCA
4374808 GAAACTATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.16, C:0.11, G:0.18, T:0.56
Consensus pattern (20 bp):
TTTCATGTTGCGATTTTAAG
Found at i:4375385 original size:20 final size:20
Alignment explanation
Indices: 4375362--4375405 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
4375352 CGATAATCAT
*
4375362 TTTCGTGTTGCGGTTTTAAG
1 TTTCGTGTTGCGATTTTAAG
4375382 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
4375402 TTTC
1 TTTC
4375406 AGAAACTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.11, C:0.11, G:0.25, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:4375972 original size:21 final size:21
Alignment explanation
Indices: 4375877--4375977 Score: 87
Period size: 21 Copynumber: 4.8 Consensus size: 21
4375867 GCTCGACTCA
4375877 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* * *
4375898 TCT-CCTATCATTCAAGAGGCC
1 CCTGTC-ATCGTTCAAGAGGCC
* ** *
4375919 CCTATCATCCCTCAAGAGTCC
1 CCTGTCATCGTTCAAGAGGCC
** *
4375940 CCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
*
4375961 CCTGTCATCGTTGAAGA
1 CCTGTCATCGTTCAAGA
4375978 TGTCCCTCCC
Statistics
Matches: 60, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
20 1 0.02
21 58 0.97
22 1 0.02
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.24
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:4375985 original size:42 final size:41
Alignment explanation
Indices: 4375877--4375999 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 41
4375867 GCTCGACTCA
* * *
4375877 CCTGTCATCGTTCAAGAGGCCTCTCCTATCATTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGTCC-CTCCCACCATTCAAGAGGCC
* ** *
4375919 CCTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGT-CCCTCCCACCATTCAAGAGGCC
* * *
4375961 CCTGTCATCGTTGAAGATGTCCCTCCCAACATTCTAGAG
1 CCTGTCATCGTTCAAGA-GTCCCTCCCACCATTCAAGAG
4376000 CCTGATTCAC
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 61 0.94
43 4 0.06
ACGTcount: A:0.22, C:0.37, G:0.17, T:0.24
Consensus pattern (41 bp):
CCTGTCATCGTTCAAGAGTCCCTCCCACCATTCAAGAGGCC
Found at i:4377412 original size:36 final size:36
Alignment explanation
Indices: 4377338--4377413 Score: 86
Period size: 36 Copynumber: 2.1 Consensus size: 36
4377328 ATTATTATTT
***
4377338 TTTG-GCTTGTTTAATTGATGTGTAAATAATTCTTA
1 TTTGTGCTTGTTTAATTGATGTGTAAATAAAAATTA
4377373 TTTGTGCTTGTTTAATTGAT-TG-AAATTAAAAATTGA
1 TTTGTGCTTGTTTAATTGATGTGTAAA-TAAAAATT-A
4377409 TTTGT
1 TTTGT
4377414 TGATTTCAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 3 0.09
35 11 0.31
36 21 0.60
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.51
Consensus pattern (36 bp):
TTTGTGCTTGTTTAATTGATGTGTAAATAAAAATTA
Found at i:4377499 original size:20 final size:20
Alignment explanation
Indices: 4377474--4377628 Score: 256
Period size: 20 Copynumber: 7.8 Consensus size: 20
4377464 GATTTTCTCA
*
4377474 TTGCGATAATCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
4377494 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
**
4377514 TTATGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
4377534 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
*
4377554 TTGCGATAGTCAAATTCACG
1 TTGCGATAGTCAAATTCGCG
*
4377574 TTGCGATAGTCAAATTCACG
1 TTGCGATAGTCAAATTCGCG
*
4377594 TTGCGATAGTCATATTCGCG
1 TTGCGATAGTCAAATTCGCG
4377614 TTGCGATAGTCAAAT
1 TTGCGATAGTCAAAT
4377629 GAATGTGTAA
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 126 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCG
Found at i:4379883 original size:14 final size:14
Alignment explanation
Indices: 4379864--4379900 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4379854 CTCCCGTGCA
4379864 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
4379878 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
4379892 TTCTTCTTC
1 TT-TTCTTC
4379901 TTCTTCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:4380122 original size:24 final size:24
Alignment explanation
Indices: 4380088--4380141 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4380078 CTGAAACATC
4380088 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
4380112 ATCAAAGTCCGGGTATTGACTAAG
1 ATCAAAATCCGAGTATTGACCAAG
4380136 ATCAAA
1 ATCAAA
4380142 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:4380983 original size:20 final size:19
Alignment explanation
Indices: 4380960--4381063 Score: 88
Period size: 21 Copynumber: 5.3 Consensus size: 19
4380950 AATTCAGTGA
4380960 TGCGATAGTCAGAATCGCGT
1 TGCGATAGT-AGAATCGCGT
**
4380980 TGCGATCACGTATTATCGCGT
1 TGCGAT-A-GTAGAATCGCGT
*
4381001 TGCAATAGTTAGAATCGCGT
1 TGCGATAG-TAGAATCGCGT
**
4381021 TGCGATCACGTATTATCGCGT
1 TGCGAT-A-GTAGAATCGCGT
4381042 TGCGATAGT---ATCGCGT
1 TGCGATAGTAGAATCGCGT
4381058 TGCGAT
1 TGCGAT
4381064 CACGTATTAT
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
16 13 0.18
19 3 0.04
20 22 0.31
21 30 0.42
22 3 0.04
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (19 bp):
TGCGATAGTAGAATCGCGT
Found at i:4380999 original size:21 final size:21
Alignment explanation
Indices: 4380973--4381084 Score: 130
Period size: 21 Copynumber: 5.6 Consensus size: 21
4380963 GATAGTCAGA
4380973 ATCGCGTTGCGATCACGTATT
1 ATCGCGTTGCGATCACGTATT
* **
4380994 ATCGCGTTGCAAT-A-GTTAGA
1 ATCGCGTTGCGATCACG-TATT
4381014 ATCGCGTTGCGATCACGTATT
1 ATCGCGTTGCGATCACGTATT
4381035 ATCGCGTTGCGAT-A-G---T
1 ATCGCGTTGCGATCACGTATT
4381051 ATCGCGTTGCGATCACGTATT
1 ATCGCGTTGCGATCACGTATT
*
4381072 ATCACGTTGCGAT
1 ATCGCGTTGCGAT
4381085 TTACATATTC
Statistics
Matches: 76, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
16 14 0.18
17 1 0.01
18 1 0.01
19 2 0.03
20 16 0.21
21 41 0.54
22 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (21 bp):
ATCGCGTTGCGATCACGTATT
Found at i:4381015 original size:41 final size:41
Alignment explanation
Indices: 4380964--4381081 Score: 181
Period size: 41 Copynumber: 3.0 Consensus size: 41
4380954 CAGTGATGCG
*
4380964 ATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGTTGCA
1 ATAGTTAGAATCGCGTTGCGATCACGTATTATCGCGTTGCA
*
4381005 ATAGTTAGAATCGCGTTGCGATCACGTATTATCGCGTTGCG
1 ATAGTTAGAATCGCGTTGCGATCACGTATTATCGCGTTGCA
*
4381046 ATAG-T---ATCGCGTTGCGATCACGTATTATCACGTTGC
1 ATAGTTAGAATCGCGTTGCGATCACGTATTATCGCGTTGC
4381082 GATTTACATA
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
37 30 0.41
40 1 0.01
41 43 0.58
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (41 bp):
ATAGTTAGAATCGCGTTGCGATCACGTATTATCGCGTTGCA
Found at i:4382205 original size:15 final size:15
Alignment explanation
Indices: 4382185--4382216 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4382175 GAGTCAGTGG
4382185 TTAAAAGTAGTGAGA
1 TTAAAAGTAGTGAGA
4382200 TTAAAAGTAGTGAGA
1 TTAAAAGTAGTGAGA
4382215 TT
1 TT
4382217 GTGAAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (15 bp):
TTAAAAGTAGTGAGA
Found at i:4393755 original size:16 final size:16
Alignment explanation
Indices: 4393734--4393766 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4393724 TTATAAGCAC
4393734 ATGCAAAATAAGAAAT
1 ATGCAAAATAAGAAAT
*
4393750 ATGCAAAATGAGAAAT
1 ATGCAAAATAAGAAAT
4393766 A
1 A
4393767 AGAGAATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.15, T:0.18
Consensus pattern (16 bp):
ATGCAAAATAAGAAAT
Found at i:4403657 original size:24 final size:22
Alignment explanation
Indices: 4403625--4403682 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 22
4403615 ATGCATGGGT
4403625 AGTGCATCGATGCACACAT-TAAGG
1 AGTGCATCGATGCACAC-TGT-A-G
4403649 AGTGCATCGAT--ACACTGTAG
1 AGTGCATCGATGCACACTGTAG
4403669 AGTGCATCGATGCA
1 AGTGCATCGATGCA
4403683 TACCTTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
20 12 0.39
21 2 0.06
22 6 0.19
24 11 0.35
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (22 bp):
AGTGCATCGATGCACACTGTAG
Found at i:4404317 original size:23 final size:23
Alignment explanation
Indices: 4404285--4404343 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
4404275 ATCTTATATA
*
4404285 GCACTACGGTGCAATTCTAC-TCG
1 GCACTTCGGTGCAATTCTACGT-G
4404308 GCACTTCGGTGCAATTCTACGTG
1 GCACTTCGGTGCAATTCTACGTG
*
4404331 ACACTTCGGTGCA
1 GCACTTCGGTGCA
4404344 TTTATACGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 32 0.97
24 1 0.03
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (23 bp):
GCACTTCGGTGCAATTCTACGTG
Found at i:4406594 original size:23 final size:23
Alignment explanation
Indices: 4406567--4406619 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
4406557 AAATATTATG
*
4406567 TTTTAATTAAATTATATTTAGAT
1 TTTTAATTAAATTATAATTAGAT
* * *
4406590 TTTTAACTAATTTATAATTATAT
1 TTTTAATTAAATTATAATTAGAT
*
4406613 GTTTAAT
1 TTTTAAT
4406620 ACTTTATAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTTAATTAAATTATAATTAGAT
Found at i:4406638 original size:22 final size:23
Alignment explanation
Indices: 4406591--4406638 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
4406581 TATTTAGATT
*
4406591 TTTAACTAATTTATAATTATATG
1 TTTAACTAATTTATAATTATACG
*
4406614 TTTAA-TACTTTATAATT-TAACG
1 TTTAACTAATTTATAATTAT-ACG
4406636 TTT
1 TTT
4406639 TATAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 1 0.05
22 16 0.73
23 5 0.23
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTAACTAATTTATAATTATACG
Found at i:4410342 original size:20 final size:20
Alignment explanation
Indices: 4410317--4410356 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4410307 TGATAACATG
4410317 TTAAAAATATCAATCAATAC
1 TTAAAAATATCAATCAATAC
4410337 TTAAAAATATCAATCAATAC
1 TTAAAAATATCAATCAATAC
4410357 CTTCAGTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (20 bp):
TTAAAAATATCAATCAATAC
Found at i:4410442 original size:21 final size:21
Alignment explanation
Indices: 4410418--4410470 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
4410408 AAAAAGTTAT
4410418 GAAAAAGAAAAAACTAAAGAA
1 GAAAAAGAAAAAACTAAAGAA
*
4410439 GAAAAAGAAAAGACTAAAGAA
1 GAAAAAGAAAAAACTAAAGAA
* *
4410460 GTAAACGAAAA
1 GAAAAAGAAAA
4410471 CCTGAGATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.72, C:0.06, G:0.17, T:0.06
Consensus pattern (21 bp):
GAAAAAGAAAAAACTAAAGAA
Found at i:4416538 original size:12 final size:12
Alignment explanation
Indices: 4416521--4416554 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
4416511 GTCCTTTCAC
4416521 TCTTATTCTTCT
1 TCTTATTCTTCT
4416533 TCTTATTCTTCT
1 TCTTATTCTTCT
*
4416545 TCTTGTTCTT
1 TCTTATTCTT
4416555 TGAAGTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.06, C:0.24, G:0.03, T:0.68
Consensus pattern (12 bp):
TCTTATTCTTCT
Found at i:4417097 original size:123 final size:123
Alignment explanation
Indices: 4416901--4417130 Score: 295
Period size: 123 Copynumber: 1.9 Consensus size: 123
4416891 TGATAAAGAC
* * * ** *
4416901 AATGAAGGGACATATTCTTCCTCATCTTCTTTTACACCCTCTTCATTTTCAAGCTCGCCTTCTAA
1 AATGAAGGGACATATTCTTCCTCATCTTCTTTCACACCCTCTTCATCTTCAAGCTCACCACCCAA
* * * *
4416966 GGCTGCAAATGCAA-CTA-TGTTTTTCTTCTTAGATGATTTCTTCTTACCTGAAAATCCA
66 GGCCGCAAAT-AAAGC-AGTGTTATTCTTCTTAGATGACTTCTTCTTACCTGAAAATCCA
* * *
4417024 AATGAAGGAGA-ATCTTCTTCCTCATCTTCTTTCACACCCTCTTCGTCTTCAAGCTCATCACCCA
1 AATGAAGG-GACATATTCTTCCTCATCTTCTTTCACACCCTCTTCATCTTCAAGCTCACCACCCA
4417088 AGGCCGCAAATAAAGCAGTGTTATTCTTCTTAGATGACTTCTT
65 AGGCCGCAAATAAAGCAGTGTTATTCTTCTTAGATGACTTCTT
4417131 TCCTGAAAAT
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
122 3 0.03
123 86 0.95
124 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.37
Consensus pattern (123 bp):
AATGAAGGGACATATTCTTCCTCATCTTCTTTCACACCCTCTTCATCTTCAAGCTCACCACCCAA
GGCCGCAAATAAAGCAGTGTTATTCTTCTTAGATGACTTCTTCTTACCTGAAAATCCA
Found at i:4417172 original size:123 final size:121
Alignment explanation
Indices: 4416922--4417172 Score: 256
Period size: 123 Copynumber: 2.0 Consensus size: 121
4416912 ATATTCTTCC
* * * ** * * *
4416922 TCATCTTCTTTTACACCCTCTTCATTTTCAAGCTCGCCTTCTAAGGCTGCAAATGCAACTATGTT
1 TCATCTTCTTTCACACCCTCTTCATCTTCAAGCTCACCACCCAAGGCCGCAAATGAAACTATGTT
* * * *
4416987 TTTCTTCTTAGATGATTTCTTCTTACCTGAAAATCCAAATGAAGGAGAATCTTCTTCC
66 ATTCTTCTTAGATGA--TCTTCTTACCTGAAAATCCAAATGAAGAAGAATCTTCGTCA
* *
4417045 TCATCTTCTTTCACACCCTCTTCGTCTTCAAGCTCATCACCCAAGGCCGCAAAT-AAAGC-AGTG
1 TCATCTTCTTTCACACCCTCTTCATCTTCAAGCTCACCACCCAAGGCCGCAAATGAAA-CTA-TG
* * **
4417108 TTATTCTTCTTAGATGA-CTTCTTTCCTGAAAATGCAACCATGGAAGAATCATCTTCGTCA
64 TTATTCTTCTTAGATGATCTTCTTACCTGAAAATCCAA--AT-GAAGAAGAATCTTCGTCA
4417168 TCATC
1 TCATC
4417173 AACAGCAGCA
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
120 18 0.17
122 5 0.05
123 82 0.78
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.35
Consensus pattern (121 bp):
TCATCTTCTTTCACACCCTCTTCATCTTCAAGCTCACCACCCAAGGCCGCAAATGAAACTATGTT
ATTCTTCTTAGATGATCTTCTTACCTGAAAATCCAAATGAAGAAGAATCTTCGTCA
Found at i:4425053 original size:31 final size:31
Alignment explanation
Indices: 4425018--4425188 Score: 290
Period size: 31 Copynumber: 5.5 Consensus size: 31
4425008 CATAGATTCT
* * *
4425018 GAAGAACCTAGGTAATCAATCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
4425049 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
4425080 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
* *
4425111 GAAGAACATAGGTAAATAGTCCATATATCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
4425142 GAAGAACATAGGTAAACAGT-CATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
4425172 GAAGAACATAGGTAAAC
1 GAAGAACATAGGTAAAC
4425189 CCTCGACCCT
Statistics
Matches: 133, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 26 0.20
31 107 0.80
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (31 bp):
GAAGAACATAGGTAAACAGTCCATATGTCCC
Found at i:4426188 original size:18 final size:18
Alignment explanation
Indices: 4426131--4426199 Score: 58
Period size: 18 Copynumber: 3.9 Consensus size: 18
4426121 TTTTATTTAG
4426131 GGGGAATC-GATACCCCCCA
1 GGGGAATCTG-TA-CCCCCA
* *
4426150 GAGGAATCTGT--TCCC-
1 GGGGAATCTGTACCCCCA
4426165 GGGGAATC-GATACCCCCA
1 GGGGAATCTG-TACCCCCA
4426183 GGGGAATCTGTACCCCC
1 GGGGAATCTGTACCCCC
4426200 TGGACATTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
14 1 0.03
15 8 0.20
16 3 0.08
17 3 0.08
18 15 0.38
19 9 0.22
20 1 0.03
ACGTcount: A:0.23, C:0.33, G:0.28, T:0.16
Consensus pattern (18 bp):
GGGGAATCTGTACCCCCA
Found at i:4429351 original size:31 final size:31
Alignment explanation
Indices: 4429166--4429352 Score: 286
Period size: 31 Copynumber: 6.0 Consensus size: 31
4429156 CCCGAAGGAC
* * *
4429166 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
4429197 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
4429228 TAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
4429259 CAGTCCATATATCCCAAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
4429290 TAGTCCATATATCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4429321 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4429352 C
1 C
4429353 CCTCGACCCT
Statistics
Matches: 144, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
31 143 0.99
32 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:4435599 original size:24 final size:22
Alignment explanation
Indices: 4435567--4435624 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
4435557 AATGCAATTA
*
4435567 ATGCATCGATGCACACGTTAAGGG
1 ATGCATCGATGCACACGGT-A-GG
4435591 ATGCATCGAT--ACACGGTAGG
1 ATGCATCGATGCACACGGTAGG
4435611 ATGCATCGATGCAC
1 ATGCATCGATGCAC
4435625 TTCAAGGGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 12 0.39
21 1 0.03
22 8 0.26
24 10 0.32
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (22 bp):
ATGCATCGATGCACACGGTAGG
Found at i:4445144 original size:32 final size:31
Alignment explanation
Indices: 4445092--4445211 Score: 95
Period size: 32 Copynumber: 3.8 Consensus size: 31
4445082 GGTTTAGAAA
* *
4445092 GTTACAAAATGATCATTAAACTTATTAAAATT
1 GTTATAAAATGATCACTAAACTTATTAAAA-T
*
4445124 GTTATAAAATGACCACTAAACTCTATTAAACA-
1 GTTATAAAATGATCACTAAACT-TATTAAA-AT
* *
4445156 ATTATAAAAT-ATCACTAAAACTTATCAAAAT
1 GTTATAAAATGATCACT-AAACTTATTAAAAT
* *
4445187 ATTACT-AAACGATC-CTTAAACTTAT
1 GTTA-TAAAATGATCAC-TAAACTTAT
4445212 CAAATTTATG
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
30 1 0.01
31 27 0.36
32 38 0.51
33 7 0.09
34 1 0.01
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.33
Consensus pattern (31 bp):
GTTATAAAATGATCACTAAACTTATTAAAAT
Found at i:4445174 original size:21 final size:22
Alignment explanation
Indices: 4445150--4445196 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
4445140 TAAACTCTAT
4445150 TAAACAATTAT-AAAATATCAC
1 TAAACAATTATCAAAATATCAC
* *
4445171 TAAA-ACTTATCAAAATATTAC
1 TAAACAATTATCAAAATATCAC
4445192 TAAAC
1 TAAAC
4445197 GATCCTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAACAATTATCAAAATATCAC
Found at i:4452004 original size:46 final size:45
Alignment explanation
Indices: 4451934--4452028 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
4451924 CGATGTTTTG
* * * *
4451934 AAAAAGCA-TGAGTGCATCGATGCATATTCTTGTGCATCGATGCAT
1 AAAATGCACTGAGTGCATCAATGCATAGT-ATGTGCATCGATGCAT
* *
4451979 CAAATGCACTGAGTGCATCAATGCATGGTATGTGCATCGATGCAT
1 AAAATGCACTGAGTGCATCAATGCATAGTATGTGCATCGATGCAT
4452024 AAAAT
1 AAAAT
4452029 ACATTCGATG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 25 0.60
46 17 0.40
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (45 bp):
AAAATGCACTGAGTGCATCAATGCATAGTATGTGCATCGATGCAT
Found at i:4454814 original size:24 final size:24
Alignment explanation
Indices: 4454752--4454832 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 24
4454742 CATGACCCCG
*
4454752 TGCATCGATGCACATTCAAGGCG-
1 TGCATCGATGCACATTCAAAGCGA
* * *
4454775 TGCATCG--GTACA-TCAACGTGA
1 TGCATCGATGCACATTCAAAGCGA
* *
4454796 TGAATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTCAAAGCGA
4454820 TGCATCGATGCAC
1 TGCATCGATGCAC
4454833 TGTTAAGTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
20 6 0.13
21 10 0.22
23 11 0.24
24 19 0.41
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (24 bp):
TGCATCGATGCACATTCAAAGCGA
Found at i:4460714 original size:45 final size:46
Alignment explanation
Indices: 4460626--4460716 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 46
4460616 TTGAAAAAGC
* * *
4460626 CTGAGTGCATCGATGCATGTTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
*
4460672 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGTATAAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
4460717 TCGATGTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 21 0.51
46 20 0.49
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
Found at i:4460740 original size:18 final size:17
Alignment explanation
Indices: 4460696--4460741 Score: 83
Period size: 17 Copynumber: 2.6 Consensus size: 17
4460686 GCATGGTATG
4460696 TGCATCGATGTATAAAA
1 TGCATCGATGTATAAAA
4460713 TGCATCGATGTATAAAA
1 TGCATCGATGTATAAAA
4460730 TGCATTCGATGT
1 TGCA-TCGATGT
4460742 TTGAAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 21 0.75
18 7 0.25
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (17 bp):
TGCATCGATGTATAAAA
Found at i:4462143 original size:2 final size:2
Alignment explanation
Indices: 4462131--4462164 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4462121 CATCTATCAA
*
4462131 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4462165 TAAACTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:4466728 original size:30 final size:30
Alignment explanation
Indices: 4466670--4466782 Score: 110
Period size: 30 Copynumber: 3.9 Consensus size: 30
4466660 TTTAAAATTT
*
4466670 ATTTAAGATCG-A-TAAA-TAATTTG-AATA
1 ATTTAAAATCGAATTAAACTAA-TTGAAATA
* *
4466697 ATTTAAAATGGAATTAAACATACTT-AAATA
1 ATTTAAAATCGAATTAAAC-TAATTGAAATA
* *
4466727 ATTTAAAATCGAGTCAAACTAATTGAAATA
1 ATTTAAAATCGAATTAAACTAATTGAAATA
* *
4466757 TTTTAAAATCGAATTAAATTAATTGA
1 ATTTAAAATCGAATTAAACTAATTGA
4466783 GAGTGAATTA
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
27 9 0.13
28 1 0.01
29 8 0.12
30 49 0.71
31 2 0.03
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (30 bp):
ATTTAAAATCGAATTAAACTAATTGAAATA
Found at i:4467984 original size:30 final size:30
Alignment explanation
Indices: 4467949--4468021 Score: 146
Period size: 30 Copynumber: 2.4 Consensus size: 30
4467939 TATCTAATAA
4467949 ATATTTAATTTTAAAATTTAGAAGAAATTC
1 ATATTTAATTTTAAAATTTAGAAGAAATTC
4467979 ATATTTAATTTTAAAATTTAGAAGAAATTC
1 ATATTTAATTTTAAAATTTAGAAGAAATTC
4468009 ATATTTAATTTTA
1 ATATTTAATTTTA
4468022 TAAGTATCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (30 bp):
ATATTTAATTTTAAAATTTAGAAGAAATTC
Found at i:4468469 original size:21 final size:20
Alignment explanation
Indices: 4468429--4468470 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
4468419 GTATACTTTA
* *
4468429 TATTAATTTTAACTTAATAT
1 TATTAATTTAAACATAATAT
4468449 TATTAATTTCAAACATAATAT
1 TATTAATTT-AAACATAATAT
4468470 T
1 T
4468471 TATTTTAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTAATTTAAACATAATAT
Found at i:4474522 original size:14 final size:14
Alignment explanation
Indices: 4474503--4474531 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4474493 CTAGGTTGAA
4474503 GTTATTAAAAGATT
1 GTTATTAAAAGATT
4474517 GTTATTAAAAGATT
1 GTTATTAAAAGATT
4474531 G
1 G
4474532 CCATATATAT
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:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (14 bp):
GTTATTAAAAGATT
Found at i:4475696 original size:42 final size:42
Alignment explanation
Indices: 4475635--4475716 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
4475625 ATATTCTTTG
*
4475635 CCTAGCTCAAATACTGAATGTAGCAACAAACAAAAAGCTCTT
1 CCTAGCTCAAATACAGAATGTAGCAACAAACAAAAAGCTCTT
4475677 CCTAGCTCAAATACAGAATGTAGCAACAAACAAAAAGCTC
1 CCTAGCTCAAATACAGAATGTAGCAACAAACAAAAAGCTC
4475717 CAGAAACCCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.18
Consensus pattern (42 bp):
CCTAGCTCAAATACAGAATGTAGCAACAAACAAAAAGCTCTT
Found at i:4476994 original size:2 final size:2
Alignment explanation
Indices: 4476987--4477011 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4476977 AAAGATAACA
4476987 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
4477012 TGGGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4482748 original size:14 final size:15
Alignment explanation
Indices: 4482719--4482752 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
4482709 ATTTGGGGTT
*
4482719 ATTTTTTAGATTTTA
1 ATTTTTTAGATATTA
4482734 ATTTTTTA-ATATTA
1 ATTTTTTAGATATTA
4482748 ATTTT
1 ATTTT
4482753 ATGTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
ATTTTTTAGATATTA
Found at i:4488335 original size:61 final size:60
Alignment explanation
Indices: 4488269--4488437 Score: 173
Period size: 60 Copynumber: 2.8 Consensus size: 60
4488259 AAATTGTAAT
* * *
4488269 ATTCAAAAGTTTGGGGACCAATTTAGAAAAAAAAGTCATAGTTTAGGGATCAAATTAGAAT
1 ATTCAAAAGTTTAGGGACCAATTTAGAAATAAAAGTCATAGTTT-GGGATCAAATTAGAAC
* ** * * * * *
4488330 GTTCAAAAGAATAGGGACTAAGTTAG-AATGAAAGTCATAGTTTGAGAATGAAATTAGAAC
1 ATTCAAAAGTTTAGGGACCAATTTAGAAATAAAAGTCATAGTTTG-GGATCAAATTAGAAC
*
4488390 ATTCAAAAGTTTAAGGACCAATTTA-AAATAAAAG-CTATAGTTTTGGGA
1 ATTCAAAAGTTTAGGGACCAATTTAGAAATAAAAGTC-ATAG-TTTGGGA
4488438 CTTATGATGC
Statistics
Matches: 85, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
59 2 0.02
60 59 0.69
61 24 0.28
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (60 bp):
ATTCAAAAGTTTAGGGACCAATTTAGAAATAAAAGTCATAGTTTGGGATCAAATTAGAAC
Found at i:4498585 original size:15 final size:15
Alignment explanation
Indices: 4498548--4498579 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4498538 ATTATTGTGA
*
4498548 CAAATTTAATTTTGT
1 CAAAATTAATTTTGT
4498563 CAAAATTAATTTTGT
1 CAAAATTAATTTTGT
4498578 CA
1 CA
4498580 CTATTAGTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (15 bp):
CAAAATTAATTTTGT
Found at i:4500457 original size:15 final size:15
Alignment explanation
Indices: 4500437--4500470 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
4500427 GTAGTATACT
4500437 AATGGTGTTTTAAAA
1 AATGGTGTTTTAAAA
*
4500452 AATGGTGTTTTGAAA
1 AATGGTGTTTTAAAA
4500467 AATG
1 AATG
4500471 TCAGGGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (15 bp):
AATGGTGTTTTAAAA
Found at i:4500767 original size:21 final size:21
Alignment explanation
Indices: 4500741--4500780 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
4500731 AGGTCTACTC
4500741 TGAGAATCTCGATGTCAATTA
1 TGAGAATCTCGATGTCAATTA
4500762 TGAGAATCTCGATGTCAAT
1 TGAGAATCTCGATGTCAAT
4500781 AAAGAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (21 bp):
TGAGAATCTCGATGTCAATTA
Found at i:4502024 original size:23 final size:23
Alignment explanation
Indices: 4501980--4502024 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4501970 GTAACAAATG
* *
4501980 ATTTAGTCACAATAACACGTTAA
1 ATTTAGTCACAATAAAAAGTTAA
4502003 ATTTAGTCA-AAGTAAAAAGTTA
1 ATTTAGTCACAA-TAAAAAGTTA
4502025 TGTCGAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (23 bp):
ATTTAGTCACAATAAAAAGTTAA
Found at i:4502421 original size:107 final size:107
Alignment explanation
Indices: 4502285--4502498 Score: 419
Period size: 107 Copynumber: 2.0 Consensus size: 107
4502275 CTTTTTTTGT
*
4502285 TTAATGTTATAATTTAACTTAATTGTGATGAAATTTACTTTTTGTGTTAAAATAATTATTTTATT
1 TTAATGTTATAATTTAACTTAATTGTGATGAAATTTACTTTTTGTGTTAAAACAATTATTTTATT
4502350 TTAACAAATATTTTGTCTATGTAAGTTACATTTAGTGACGAA
66 TTAACAAATATTTTGTCTATGTAAGTTACATTTAGTGACGAA
4502392 TTAATGTTATAATTTAACTTAATTGTGATGAAATTTACTTTTTGTGTTAAAACAATTATTTTATT
1 TTAATGTTATAATTTAACTTAATTGTGATGAAATTTACTTTTTGTGTTAAAACAATTATTTTATT
4502457 TTAACAAATATTTTGTCTATGTAAGTTACATTTAGTGACGAA
66 TTAACAAATATTTTGTCTATGTAAGTTACATTTAGTGACGAA
4502499 ATAGCAAATG
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 106 1.00
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (107 bp):
TTAATGTTATAATTTAACTTAATTGTGATGAAATTTACTTTTTGTGTTAAAACAATTATTTTATT
TTAACAAATATTTTGTCTATGTAAGTTACATTTAGTGACGAA
Found at i:4507101 original size:37 final size:39
Alignment explanation
Indices: 4507051--4507133 Score: 118
Period size: 37 Copynumber: 2.2 Consensus size: 39
4507041 CCTTTGTTCA
*
4507051 GTTGATGTTATTGCAGAAAAAAC-T-CATACTCTACAA-T
1 GTTGATGTTATTGCAG-AAAAACTTAAATACTCTACAATT
*
4507088 GTTGATGTTATTGCAGAAAAGCTTAAATACTCTACAATT
1 GTTGATGTTATTGCAGAAAAACTTAAATACTCTACAATT
4507127 GTTGATG
1 GTTGATG
4507134 CTCAAACTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
36 5 0.12
37 17 0.41
38 11 0.27
39 8 0.20
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (39 bp):
GTTGATGTTATTGCAGAAAAACTTAAATACTCTACAATT
Found at i:4512935 original size:5 final size:5
Alignment explanation
Indices: 4512925--4512952 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4512915 ATAAATTATG
4512925 TATTT TATTT TATTT TATTT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TAT
4512953 ACATATAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:4513615 original size:113 final size:112
Alignment explanation
Indices: 4513375--4513580 Score: 328
Period size: 113 Copynumber: 1.8 Consensus size: 112
4513365 TTATTTATTT
*
4513375 TAGTAACTTGGACACCCTTGCTAAATGGTAGTATATTTAAACCTTAGATTTTCAACAAGAACCAA
1 TAGTAACTTGGACACCCTCGCTAAATGGTAGTATATTTAAACCTTAGATTTTCAACAAGAACCAA
* *
4513440 AAAGACGAAAACACCCTTGCTAAGTATGTATATCATATCAGCCACTAA
66 AAAGACGAAAACACCCTTGCTAAG-ATGAAGATCATATCAGCCACTAA
* *
4513488 TAGTAACTTAGACACCCTCGCTAAATGGTAGTATATTTAAACCCTT-GATTTTCAACAATAACCA
1 TAGTAACTTGGACACCCTCGCTAAATGGTAGTATATTTAAA-CCTTAGATTTTCAACAAGAACCA
4513552 AAAAGACGAAAACACCCTTG-TAA-ATGAAG
65 AAAAGACGAAAACACCCTTGCTAAGATGAAG
4513581 GTGTTTTCAG
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
110 4 0.05
112 3 0.03
113 76 0.87
114 4 0.05
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (112 bp):
TAGTAACTTGGACACCCTCGCTAAATGGTAGTATATTTAAACCTTAGATTTTCAACAAGAACCAA
AAAGACGAAAACACCCTTGCTAAGATGAAGATCATATCAGCCACTAA
Found at i:4528404 original size:3 final size:3
Alignment explanation
Indices: 4528396--4528454 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
4528386 TCAGATGTGG
4528396 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4528444 AAT AAT AAT AA
1 AAT AAT AAT AA
4528455 ATATCGGTGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4540192 original size:68 final size:67
Alignment explanation
Indices: 4540014--4540217 Score: 254
Period size: 68 Copynumber: 3.0 Consensus size: 67
4540004 AATTTTGAAA
* *
4540014 AAATAATAATCGAATGACTAAAACATAAATTAAATAATATATAAGTGACCAAATAGATAGTTTAC
1 AAATAATAATCG-ATGACTAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTAC
*
4540079 CAT
65 CCT
* * * *
4540082 AAATAAAAAT-GTAT-A-TATGAA-TTATATTAGATAATATATAAGTGACCAAATAGGTAGTTTA
1 AAATAATAATCG-ATGACTA-AAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTA
4540143 CCCT
64 CCCT
* * *
4540147 AAATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATACGTTGTTTAC
1 AAATAATAATCGA-TGACTAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTAC
4540212 CCT
65 CCT
4540215 AAA
1 AAA
4540218 AAAATCCCTA
Statistics
Matches: 115, Mismatches: 15, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
65 51 0.44
66 5 0.04
67 6 0.05
68 53 0.46
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (67 bp):
AAATAATAATCGATGACTAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACC
CT
Found at i:4544880 original size:19 final size:21
Alignment explanation
Indices: 4544852--4544907 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
4544842 CCAGAACCCC
4544852 AGGGGTATCGATTCCCC-T-A
1 AGGGGTATCGATTCCCCTTCA
* * *
4544871 GGGGGAATCGGTTCCCCTTCA
1 AGGGGTATCGATTCCCCTTCA
4544892 AGGGGTATCGATTCCC
1 AGGGGTATCGATTCCC
4544908 TCTGCCATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 14 0.48
20 1 0.03
21 14 0.48
ACGTcount: A:0.18, C:0.27, G:0.30, T:0.25
Consensus pattern (21 bp):
AGGGGTATCGATTCCCCTTCA
Found at i:4554999 original size:235 final size:232
Alignment explanation
Indices: 4554601--4555050 Score: 661
Period size: 235 Copynumber: 1.9 Consensus size: 232
4554591 TTTTAATTTC
* *
4554601 CCCCGCTTGATAATTGCTAAGTATCTCTGGAAAATAACTAGATCCTCTAGTGTGTTCCTTATGTG
1 CCCCGCTTGATAATTGCTAAGTACCTCCGGAAAATAACTAGATCCTCTAGTGTGTTCCTTATGTG
*
4554666 ATATATAATTGTTTTACATTTTTAGAATGTGATTTTCTGAAAGTACAAATTTACTGAAGTATTGA
66 ATATATAATTGTTTTACATTTTTAGAATGCGATTTTCTGAAAGTACAAATTTACTGAAGTATTGA
* * *
4554731 TTTACTGTTTATGAACTATGGCTACATGATATGTGTTCTCTAATTACTGTTTTTACTGATAAATA
131 TTTACTGTTTATGAACTATGACTACATGATATGTGTTATCTAATTACTATTTTTACTGATAAAT-
4554796 AAAATATGTATGAACTCTGATTACAGAAGTTTCTTGTTT
195 -AAATATGTATGAACTCTGATTACAGAAGTTTCTTGTTT
* ** * * *
4554835 CCCCGCTTGATAATTGTTAAGTACCTCCGGAAAATAGTTGGATCCTTTAGTGTGTTTCTTATGTG
1 CCCCGCTTGATAATTGCTAAGTACCTCCGGAAAATAACTAGATCCTCTAGTGTGTTCCTTATGTG
* * *
4554900 CTATATAATTGTTTTACCCA-TTTTAGAATGCGATTTTTTGAAATTA-AAGATTTACTGAAGTAT
66 ATATATAATTGTTTTA--CATTTTTAGAATGCGATTTTCTGAAAGTACAA-ATTTACTGAAGTAT
* * *
4554963 TGATTTACTGTTTCTGAACTATGACTACATGATATGTGTTATCTGATTATTATTTTTACTGATAA
128 TGATTTACTGTTTATGAACTATGACTACATGATATGTGTTATCTAATTACTATTTTTACTGATAA
* *
4555028 ATAAATATTTCTGAACTCTGATT
193 ATAAATATGTATGAACTCTGATT
4555051 TCCTGCTACT
Statistics
Matches: 193, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
233 19 0.10
234 74 0.38
235 98 0.51
236 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (232 bp):
CCCCGCTTGATAATTGCTAAGTACCTCCGGAAAATAACTAGATCCTCTAGTGTGTTCCTTATGTG
ATATATAATTGTTTTACATTTTTAGAATGCGATTTTCTGAAAGTACAAATTTACTGAAGTATTGA
TTTACTGTTTATGAACTATGACTACATGATATGTGTTATCTAATTACTATTTTTACTGATAAATA
AATATGTATGAACTCTGATTACAGAAGTTTCTTGTTT
Found at i:4555176 original size:36 final size:36
Alignment explanation
Indices: 4555136--4555250 Score: 126
Period size: 36 Copynumber: 3.2 Consensus size: 36
4555126 AGGTTCAGTT
*
4555136 CTGATCAATCTGGTAATTCCTTATATAGGTTCAACA
1 CTGATCAAGCTGGTAATTCCTTATATAGGTTCAACA
** * ***
4555172 CTGATC-AGCTAATAATTCCTTATTGTAGGTTCAGTT
1 CTGATCAAGCTGGTAATTCCTTA-TATAGGTTCAACA
*
4555208 TTGATCAAGCTGGTAATTCCTTATATAGGTTCAACTA
1 CTGATCAAGCTGGTAATTCCTTATATAGGTTCAAC-A
4555245 C-GATCA
1 CTGATCA
4555251 GTTTGTAATT
Statistics
Matches: 61, Mismatches: 15, Indels: 6
0.74 0.18 0.07
Matches are distributed among these distances:
35 13 0.21
36 34 0.56
37 14 0.23
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (36 bp):
CTGATCAAGCTGGTAATTCCTTATATAGGTTCAACA
Found at i:4556004 original size:18 final size:18
Alignment explanation
Indices: 4555949--4556005 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
4555939 AGAGTATGGA
4555949 GCATGTAATTAGGGAG-G
1 GCATGTAATTAGGGAGTG
* *
4555966 GACATGT-AGTA-CGA-T-
1 G-CATGTAATTAGGGAGTG
4555981 GCATGTAATTAGGGAGTG
1 GCATGTAATTAGGGAGTG
4555999 GCATGTA
1 GCATGTA
4556006 GATTGTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 11
0.67 0.09 0.24
Matches are distributed among these distances:
14 5 0.17
15 4 0.13
16 4 0.13
17 5 0.17
18 12 0.40
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (18 bp):
GCATGTAATTAGGGAGTG
Found at i:4561353 original size:2 final size:2
Alignment explanation
Indices: 4561348--4561383 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4561338 AATAGGTTTC
4561348 TA 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 TA
4561384 CGTTCAAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4561439 original size:2 final size:2
Alignment explanation
Indices: 4561428--4561507 Score: 54
Period size: 2 Copynumber: 40.0 Consensus size: 2
4561418 CCAATATTGT
* * * * *
4561428 TA TA -A TA TA TA TA TA TT TA AA TA GTT TA TA TA TA TA TT TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
** * * *
4561470 TA GG TT TC TA TA AA 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 TA TA
4561508 CTTCCTCTTG
Statistics
Matches: 58, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
1 1 0.02
2 56 0.97
3 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4573396 original size:21 final size:22
Alignment explanation
Indices: 4573365--4573405 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4573355 TCTGTTTTGG
*
4573365 GCATAGTGTATCGGTACCCTAT
1 GCATAGTGTATCGATACCCTAT
4573387 GCATA-TGTATCGATACCCT
1 GCATAGTGTATCGATACCCT
4573406 CTTGAACGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (22 bp):
GCATAGTGTATCGATACCCTAT
Found at i:4580263 original size:20 final size:20
Alignment explanation
Indices: 4580238--4580277 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4580228 TTTTGGTGCA
*
4580238 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATCCCCCCTT
*
4580258 GAGGGAACCGATTCCCCCTT
1 GAGGGAACCGATCCCCCCTT
4580278 CAAAATCCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCTT
Found at i:4584527 original size:22 final size:22
Alignment explanation
Indices: 4584484--4584543 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
4584474 CGGTACTATT
* *
4584484 CACGGTACTGTTTAATACTGTA
1 CACGGTACTGTTCATTACTGTA
**
4584506 CACGGTACTGTTCATTGTTGTA
1 CACGGTACTGTTCATTACTGTA
*
4584528 CACAGTACTGTTCATT
1 CACGGTACTGTTCATT
4584544 CTTTTATAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.38
Consensus pattern (22 bp):
CACGGTACTGTTCATTACTGTA
Found at i:4587338 original size:25 final size:26
Alignment explanation
Indices: 4587296--4587348 Score: 99
Period size: 25 Copynumber: 2.1 Consensus size: 26
4587286 AGTAACGAGA
4587296 CTGATGCTTTCTTTTTGAGTTGCATC
1 CTGATGCTTTCTTTTTGAGTTGCATC
4587322 CTGATGC-TTCTTTTTGAGTTGCATC
1 CTGATGCTTTCTTTTTGAGTTGCATC
4587347 CT
1 CT
4587349 TATTTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 20 0.74
26 7 0.26
ACGTcount: A:0.11, C:0.21, G:0.19, T:0.49
Consensus pattern (26 bp):
CTGATGCTTTCTTTTTGAGTTGCATC
Found at i:4588687 original size:19 final size:18
Alignment explanation
Indices: 4588654--4588699 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
4588644 TAAACTTAAT
*
4588654 TAAA-ATAACAAATAAAA
1 TAAACATAAAAAATAAAA
4588671 TAAACAGTAAAAAATAAAA
1 TAAACA-TAAAAAATAAAA
4588690 TAAACATAAA
1 TAAACATAAA
4588700 TACAAGGACC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 4 0.15
18 5 0.19
19 17 0.65
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (18 bp):
TAAACATAAAAAATAAAA
Found at i:4588837 original size:51 final size:49
Alignment explanation
Indices: 4588720--4588843 Score: 128
Period size: 51 Copynumber: 2.5 Consensus size: 49
4588710 TAATTGCATA
* *
4588720 AAAT-AAAATAACAGTGACTAAAATGAAAGAAAATAAAAGTTAGTAGTT
1 AAATAAAAATAACAGTGACTAAAACGAAAGAAAATAAAAGTTAGTAGCT
* * *
4588768 AAATAAGAAATAAGCAGTGACTGAAACGCAA-AAAATAAAA-TAATATTAGCT
1 AAATAA-AAATAA-CAGTGACTAAAACGAAAGAAAATAAAAGT--TAGTAGCT
4588819 AAATCAAAAATTAACAGTGACTAAA
1 AAAT-AAAAA-TAACAGTGACTAAA
4588844 TTAAAATAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
48 4 0.06
49 2 0.03
50 15 0.24
51 37 0.59
52 5 0.08
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (49 bp):
AAATAAAAATAACAGTGACTAAAACGAAAGAAAATAAAAGTTAGTAGCT
Found at i:4590308 original size:20 final size:20
Alignment explanation
Indices: 4590283--4590320 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4590273 TTTGGTTCAC
*
4590283 GGAATGTATGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
4590303 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
4590321 GGAATAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:4593527 original size:28 final size:29
Alignment explanation
Indices: 4593496--4593553 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
4593486 AAGAAAAATT
*
4593496 CATCTGTTACAG-TAAATTCAGTCTATTC
1 CATCTGTTACAGCCAAATTCAGTCTATTC
*
4593524 CATCTGTTACAGCCCAAGTTCAGTCTATTC
1 CATCTGTTACAG-CCAAATTCAGTCTATTC
4593554 TGACCAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (29 bp):
CATCTGTTACAGCCAAATTCAGTCTATTC
Found at i:4598967 original size:130 final size:130
Alignment explanation
Indices: 4598826--4599073 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
4598816 TATTTATATA
* *
4598826 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * *
4598891 TTAGCACATGATCATGACACGTGTCATTGGTGACACGTGTTACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
4598956 ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * * *
4599021 TTAACACATGATCATGATATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTA
4599074 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (130 bp):
ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:4599432 original size:28 final size:27
Alignment explanation
Indices: 4599401--4599463 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
4599391 AGTTGATACA
*
4599401 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** *
4599429 ATATATTTTTAAAATAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
4599457 ATATTTT
1 ATATTTT
4599464 TCATATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 3 0.10
28 22 0.73
29 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:4599566 original size:16 final size:18
Alignment explanation
Indices: 4599545--4599578 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
4599535 ATTTCTTATT
4599545 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
4599561 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
4599579 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:4599640 original size:16 final size:16
Alignment explanation
Indices: 4599619--4599650 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4599609 ATACATCTAA
4599619 ATATAAATATACATTT
1 ATATAAATATACATTT
*
4599635 ATATAAATATATATTT
1 ATATAAATATACATTT
4599651 TTATTCGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATAAATATACATTT
Found at i:4599727 original size:21 final size:21
Alignment explanation
Indices: 4599703--4599745 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
4599693 TATTACCTTA
4599703 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
4599724 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
4599745 A
1 A
4599746 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:4599763 original size:35 final size:35
Alignment explanation
Indices: 4599714--4599799 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
4599704 ATTGAAGTAT
** * *
4599714 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
4599749 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
*
4599784 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
4599800 TGACTGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:4599982 original size:29 final size:29
Alignment explanation
Indices: 4599930--4599987 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
4599920 GCAAACGGAA
* *
4599930 TAAATGTTGGGGGACTGTATTGCAAGTTT
1 TAAATGTTGGGGGACTGAAATGCAAGTTT
4599959 TAAATGTTGGGGGACCT-AAATGCAAGTTT
1 TAAATGTTGGGGGA-CTGAAATGCAAGTTT
4599988 CAGAAATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.28, C:0.09, G:0.29, T:0.34
Consensus pattern (29 bp):
TAAATGTTGGGGGACTGAAATGCAAGTTT
Found at i:4600853 original size:15 final size:16
Alignment explanation
Indices: 4600827--4600856 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4600817 CATTTGATGA
4600827 TTTTATTTTTTATTTC
1 TTTTATTTTTTATTTC
4600843 TTTTA-TTTTTATTT
1 TTTTATTTTTTATTT
4600857 TTATTTTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTATTTTTTATTTC
Found at i:4603864 original size:12 final size:12
Alignment explanation
Indices: 4603847--4603871 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4603837 TTTAAGGAAT
4603847 AAATAAAATAAA
1 AAATAAAATAAA
4603859 AAATAAAATAAA
1 AAATAAAATAAA
4603871 A
1 A
4603872 TGATGATTAT
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:4606361 original size:16 final size:17
Alignment explanation
Indices: 4606336--4606373 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
4606326 CGTAAATCTA
*
4606336 TAAATGTTAAA-AAAAT
1 TAAATATTAAATAAAAT
4606352 TAAATATTAAATTAAAAT
1 TAAATATTAAA-TAAAAT
4606370 TAAA
1 TAAA
4606374 CAAATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 10 0.53
18 9 0.47
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
TAAATATTAAATAAAAT
Found at i:4608842 original size:23 final size:23
Alignment explanation
Indices: 4608811--4608858 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
4608801 AAGGTAAAAC
* *
4608811 TTTTCTTTCTTCTCTCTCTTTTT
1 TTTTCTTTCGTATCTCTCTTTTT
*
4608834 TTTTGTTTCGTATCTCTCTTTTT
1 TTTTCTTTCGTATCTCTCTTTTT
4608857 TT
1 TT
4608859 CTATTCTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.02, C:0.21, G:0.04, T:0.73
Consensus pattern (23 bp):
TTTTCTTTCGTATCTCTCTTTTT
Found at i:4609444 original size:3 final size:3
Alignment explanation
Indices: 4609436--4609475 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
4609426 TGTAATTAAT
**
4609436 TAA TAA TAA TAAA TAA CGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4609476 AAAAGACCCG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:4609731 original size:40 final size:40
Alignment explanation
Indices: 4609682--4609924 Score: 117
Period size: 40 Copynumber: 5.5 Consensus size: 40
4609672 ACACGATTCC
*
4609682 TACGTGATGAAGAAATCTGGTCAAGGGATGACACGGCTCA
1 TACGCGATGAAGAAATCTGGTCAAGGGATGACACGGCTCA
** * * * *
4609722 TACGCGATGAAGAGTTCTGGTCATCTTTAAGAAGGGTGATAACTCGGTTCC
1 TACGCGATGAAGAAATCTGG---TC------AA-GG-GATGACACGGCTCA
* *
4609773 TACGTGATGAGGAAATCTGGTCAAGGGATGACACGGCTCA
1 TACGCGATGAAGAAATCTGGTCAAGGGATGACACGGCTCA
** * * * *
4609813 TACGCGATGAAGAGTTCTGGTCATCTTTAAGAAGGGTGATAACTCGGTTCC
1 TACGCGATGAAGAAATCTGG---TC------AA-GG-GATGACACGGCTCA
* *
4609864 TACGTGATGAGGAAATCTGGTCAAGGGATGACACGGCTCA
1 TACGCGATGAAGAAATCTGGTCAAGGGATGACACGGCTCA
* *
4609904 TACGCGATGAGGAAGTCTGGT
1 TACGCGATGAAGAAATCTGGT
4609925 AGTCTAAGGG
Statistics
Matches: 148, Mismatches: 33, Indels: 44
0.66 0.15 0.20
Matches are distributed among these distances:
40 72 0.49
41 4 0.03
42 4 0.03
43 4 0.03
48 4 0.03
49 4 0.03
50 4 0.03
51 52 0.35
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (40 bp):
TACGCGATGAAGAAATCTGGTCAAGGGATGACACGGCTCA
Found at i:4609792 original size:51 final size:51
Alignment explanation
Indices: 4609737--4609886 Score: 151
Period size: 51 Copynumber: 3.2 Consensus size: 51
4609727 GATGAAGAGT
4609737 TCTGGTCATCTTTAAGAAGGGTGATAACTCGGTTCCTACGTGATGAGGAAA
1 TCTGGTCATCTTTAAGAAGGGTGATAACTCGGTTCCTACGTGATGAGGAAA
* * * * * * **
4609788 TCTGG---TC------AA-GG-GATGACACGGCTCATACGCGATGAAGAGT
1 TCTGGTCATCTTTAAGAAGGGTGATAACTCGGTTCCTACGTGATGAGGAAA
4609828 TCTGGTCATCTTTAAGAAGGGTGATAACTCGGTTCCTACGTGATGAGGAAA
1 TCTGGTCATCTTTAAGAAGGGTGATAACTCGGTTCCTACGTGATGAGGAAA
4609879 TCTGGTCA
1 TCTGGTCA
4609887 AGGGATGACA
Statistics
Matches: 72, Mismatches: 16, Indels: 22
0.65 0.15 0.20
Matches are distributed among these distances:
40 26 0.36
41 2 0.03
42 2 0.03
43 2 0.03
48 2 0.03
49 2 0.03
50 2 0.03
51 34 0.47
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (51 bp):
TCTGGTCATCTTTAAGAAGGGTGATAACTCGGTTCCTACGTGATGAGGAAA
Found at i:4609924 original size:91 final size:91
Alignment explanation
Indices: 4609678--4609913 Score: 463
Period size: 91 Copynumber: 2.6 Consensus size: 91
4609668 GGAAACACGA
*
4609678 TTCCTACGTGATGAAGAAATCTGGTCAAGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGT
1 TTCCTACGTGATGAGGAAATCTGGTCAAGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGT
4609743 CATCTTTAAGAAGGGTGATAACTCGG
66 CATCTTTAAGAAGGGTGATAACTCGG
4609769 TTCCTACGTGATGAGGAAATCTGGTCAAGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGT
1 TTCCTACGTGATGAGGAAATCTGGTCAAGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGT
4609834 CATCTTTAAGAAGGGTGATAACTCGG
66 CATCTTTAAGAAGGGTGATAACTCGG
4609860 TTCCTACGTGATGAGGAAATCTGGTCAAGGGATGACACGGCTCATACGCGATGA
1 TTCCTACGTGATGAGGAAATCTGGTCAAGGGATGACACGGCTCATACGCGATGA
4609914 GGAAGTCTGG
Statistics
Matches: 144, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 144 1.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (91 bp):
TTCCTACGTGATGAGGAAATCTGGTCAAGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGT
CATCTTTAAGAAGGGTGATAACTCGG
Found at i:4611062 original size:22 final size:22
Alignment explanation
Indices: 4611013--4611073 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
4611003 CCCTCCTTTA
4611013 TTTA-TTTTCTTCTTTTTCATT
1 TTTATTTTTCTTCTTTTTCATT
* *
4611034 TTCATTTTTCTTCTTTCTT-TTT
1 TTTATTTTTCTTCTTT-TTCATT
* *
4611056 TTTATTTTTTTTATTTTT
1 TTTATTTTTCTTCTTTTT
4611074 AAGTGTAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 5 0.15
22 26 0.79
23 2 0.06
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTATTTTTCTTCTTTTTCATT
Found at i:4623968 original size:24 final size:24
Alignment explanation
Indices: 4623936--4623984 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
4623926 AAGGTAAAAC
* *
4623936 TTTTCTTTCTTCTCTCTCTTTTTT
1 TTTTCTTTCGTATCTCTCTTTTTT
*
4623960 TTTTGTTTCGTATCTCTCTTTTTT
1 TTTTCTTTCGTATCTCTCTTTTTT
4623984 T
1 T
4623985 CTATTCTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.02, C:0.20, G:0.04, T:0.73
Consensus pattern (24 bp):
TTTTCTTTCGTATCTCTCTTTTTT
Found at i:4628288 original size:31 final size:31
Alignment explanation
Indices: 4628243--4628318 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
4628233 CTTTTAAAAC
** * *
4628243 TTGCAATACAGTCCCTCAATATTTAGTCCGT
1 TTGCAATATGGTCCCCCAACATTTAGTCCGT
* * *
4628274 TTGTAATATGGTCCCCCAACATTTATTCTGT
1 TTGCAATATGGTCCCCCAACATTTAGTCCGT
4628305 TTGCAATATGGTCC
1 TTGCAATATGGTCC
4628319 ACGACCGTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (31 bp):
TTGCAATATGGTCCCCCAACATTTAGTCCGT
Done.