Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 142 of 203
Found at i:45324628 original size:25 final size:24
Alignment explanation
Indices: 45324590--45324642 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
45324580 GTCATTAAGG
* *
45324590 TTACCGATTTCAGCT-TGTATGAGC
1 TTACCAATTTCAGCTCT-CATGAGC
45324614 TTACCAATTCTCAGCTCTCATGAGC
1 TTACCAATT-TCAGCTCTCATGAGC
45324639 TTAC
1 TTAC
45324643 TGTTATTCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.32
25 16 0.64
26 1 0.04
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (24 bp):
TTACCAATTTCAGCTCTCATGAGC
Found at i:45326655 original size:19 final size:19
Alignment explanation
Indices: 45326631--45326670 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
45326621 GATTTCTAAC
45326631 ATGGTTTCGATTATAAATA
1 ATGGTTTCGATTATAAATA
45326650 ATGGTTTCGATTATAAATA
1 ATGGTTTCGATTATAAATA
45326669 AT
1 AT
45326671 TATAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (19 bp):
ATGGTTTCGATTATAAATA
Found at i:45327435 original size:44 final size:44
Alignment explanation
Indices: 45327387--45327485 Score: 171
Period size: 44 Copynumber: 2.2 Consensus size: 44
45327377 AGAAATAAGG
*
45327387 GGAGAAAGAAAAGGGAACAAGAAGAATTAGAGGAAGAGAAGAAA
1 GGAGAAAGAAAAGGAAACAAGAAGAATTAGAGGAAGAGAAGAAA
*
45327431 GGAGAAAGAAAAGGAAACAAGAATAATTAGAGGAAGAGAAGAAA
1 GGAGAAAGAAAAGGAAACAAGAAGAATTAGAGGAAGAGAAGAAA
*
45327475 AGAGAAAGAAA
1 GGAGAAAGAAA
45327486 GGAGGTTGTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.62, C:0.02, G:0.31, T:0.05
Consensus pattern (44 bp):
GGAGAAAGAAAAGGAAACAAGAAGAATTAGAGGAAGAGAAGAAA
Found at i:45327831 original size:22 final size:22
Alignment explanation
Indices: 45327803--45327850 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
45327793 GAGGAGACAA
45327803 TGGAACAAAAAGGGGATCATGT
1 TGGAACAAAAAGGGGATCATGT
45327825 TGGAACAAAAAGGGGATCATGT
1 TGGAACAAAAAGGGGATCATGT
45327847 TGGA
1 TGGA
45327851 GTAAATAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.33, T:0.19
Consensus pattern (22 bp):
TGGAACAAAAAGGGGATCATGT
Found at i:45328752 original size:27 final size:27
Alignment explanation
Indices: 45328722--45328794 Score: 128
Period size: 28 Copynumber: 2.7 Consensus size: 27
45328712 AAAAGAAATA
45328722 AAAATATACCAAAAAAAATTATTTACC
1 AAAATATACCAAAAAAAATTATTTACC
*
45328749 AAAATATATCAAAAAAATATTATTTACC
1 AAAATATACCAAAAAAA-ATTATTTACC
45328777 AAAATATACCAAAAAAAA
1 AAAATATACCAAAAAAAA
45328795 AGAGGGCTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 17 0.40
28 26 0.60
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.25
Consensus pattern (27 bp):
AAAATATACCAAAAAAAATTATTTACC
Found at i:45328782 original size:15 final size:15
Alignment explanation
Indices: 45328734--45328783 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
45328724 AATATACCAA
*
45328734 AAAAAATTATTTACC
1 AAAATATTATTTACC
* **
45328749 AAAATA-TA-TCAAA
1 AAAATATTATTTACC
45328762 AAAATATTATTTACC
1 AAAATATTATTTACC
45328777 AAAATAT
1 AAAATAT
45328784 ACCAAAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
13 8 0.31
14 4 0.15
15 14 0.54
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAATATTATTTACC
Found at i:45342177 original size:3 final size:3
Alignment explanation
Indices: 45342164--45342267 Score: 54
Period size: 3 Copynumber: 34.7 Consensus size: 3
45342154 ACAATAAAAC
* * * * *
45342164 AAT AA- AAT AAT AAT AAG AGT AAT AAT AA- AAA AAT GAT AAA AACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * * *
45342208 AAG AAT AAT AAG AAA AAT AA- AAC AAT AAGT AAT AAAT GAAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT -AAT -AAT AAT AAT
*
45342254 ATT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
45342268 ATATAAATAT
Statistics
Matches: 76, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
2 8 0.11
3 57 0.75
4 11 0.14
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:45342241 original size:27 final size:28
Alignment explanation
Indices: 45342181--45342242 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
45342171 TAATAATAAG
45342181 AGTAATAATAAAAAAATGATAAAAACTA
1 AGTAATAATAAAAAAATGATAAAAACTA
45342209 AG-AATAATAAGAAAAAT-A-AAACAA-TA
1 AGTAATAATAA-AAAAATGATAAA-AACTA
45342235 AGTAATAA
1 AGTAATAA
45342243 ATGAATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
26 7 0.23
27 16 0.52
28 8 0.26
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.19
Consensus pattern (28 bp):
AGTAATAATAAAAAAATGATAAAAACTA
Found at i:45342273 original size:12 final size:11
Alignment explanation
Indices: 45342211--45342297 Score: 56
Period size: 11 Copynumber: 7.8 Consensus size: 11
45342201 AAAAACTAAG
*
45342211 AATAATAAGAAA
1 AATAATAA-ATA
*
45342223 AATAAAACAATA
1 AATAATA-AATA
* *
45342235 AGTAATAAATG
1 AATAATAAATA
*
45342246 AATAA-AATATT
1 AATAATAA-ATA
45342257 AATAAT-AATA
1 AATAATAAATA
45342267 AAT-ATAAATA
1 AATAATAAATA
45342277 TAA-AATAAATA
1 -AATAATAAATA
45342288 AATAAATAAA
1 AAT-AATAAA
45342298 AGTAAGGTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
9 2 0.03
10 13 0.22
11 24 0.41
12 19 0.32
13 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.25
Consensus pattern (11 bp):
AATAATAAATA
Found at i:45342276 original size:16 final size:17
Alignment explanation
Indices: 45342250--45342287 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
45342240 TAAATGAATA
* *
45342250 AAATATTAATA-ATAAT
1 AAATATAAATATAAAAT
45342266 AAATATAAATATAAAAT
1 AAATATAAATATAAAAT
45342283 AAATA
1 AAATA
45342288 AATAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATATAAATATAAAAT
Found at i:45342284 original size:49 final size:48
Alignment explanation
Indices: 45342187--45342294 Score: 114
Period size: 49 Copynumber: 2.2 Consensus size: 48
45342177 TAAGAGTAAT
*
45342187 AATAAAAAAATGATAAAAACTAAGAATAATAAGAAAAATAAAACAATA
1 AATAAATAAATGATAAAAACTAAGAATAATAAGAAAAATAAAACAATA
* * * *
45342235 AGT-AATAAATGAATAAAATATTAATAATAATAA-ATATAAATATAA-AATA
1 AATAAATAAATG-ATAAAA-ACTAAGAATAATAAGA-A-AAATAAAACAATA
45342284 AATAAATAAAT
1 AATAAATAAAT
45342295 AAAAGTAAGG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
47 7 0.14
48 9 0.18
49 19 0.39
50 14 0.29
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (48 bp):
AATAAATAAATGATAAAAACTAAGAATAATAAGAAAAATAAAACAATA
Found at i:45342287 original size:21 final size:22
Alignment explanation
Indices: 45342211--45342293 Score: 82
Period size: 21 Copynumber: 3.8 Consensus size: 22
45342201 AAAAACTAAG
* * *
45342211 AATAATAAGAAAAATAAAACAAT
1 AATAATAA-ATAAATAAAATATT
*
45342234 AAGTAATAAATGAATAAAATATT
1 AA-TAATAAATAAATAAAATATT
45342257 AATAAT-AATAAATATAAATA-T
1 AATAATAAATAAATA-AAATATT
45342278 AA-AATAAATAAATAAA
1 AATAATAAATAAATAAA
45342294 TAAAAGTAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
20 5 0.10
21 18 0.35
22 9 0.17
23 14 0.27
24 6 0.12
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (22 bp):
AATAATAAATAAATAAAATATT
Found at i:45345557 original size:21 final size:22
Alignment explanation
Indices: 45345525--45345570 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
45345515 TAAAATTAAA
45345525 TAAAATTAATTAATATAAATTT
1 TAAAATTAATTAATATAAATTT
*
45345547 TAAAA-TAATTAATATAATTTT
1 TAAAATTAATTAATATAAATTT
45345568 TAA
1 TAA
45345571 CTTTCTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAAATTAATTAATATAAATTT
Found at i:45348274 original size:48 final size:48
Alignment explanation
Indices: 45348215--45348411 Score: 234
Period size: 48 Copynumber: 4.1 Consensus size: 48
45348205 AACATATTTC
* * * *
45348215 TCGGTGGCCTGCACACAGTCCGTACCACCTTTGTGTAATAACAGATTC
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTA
* * * *
45348263 TCAGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACA-AGTTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGA-TTA
* * * *
45348311 TTGGTGGCCTGCACACAGTCCGTGCCGCCCTTGTGTCACAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTA
* * **
45348359 TCGATGGCCTGCACACAATATGTGCCACCCTTGTGTCATAACAGATTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTA
45348407 TCGGT
1 TCGGT
45348412 ACACATAGTA
Statistics
Matches: 122, Mismatches: 25, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
47 1 0.01
48 120 0.98
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (48 bp):
TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTA
Found at i:45350596 original size:464 final size:464
Alignment explanation
Indices: 45349723--45351659 Score: 2669
Period size: 464 Copynumber: 4.2 Consensus size: 464
45349713 GGCTGTTACA
* * * **
45349723 TTACCCGACAAGGAATTTAGCTACCTTAGGACCATTATAGTTACGATCGCCTTTCACCGGGGCTT
1 TTACCCGACAAGAAATTTCGCTAGCTTAGGACCATTATAGTTACGGCCGCCTTTCACCGGGGCTT
** * * * * *
45349788 TAGTCAAACTCCCTTCTGCCTTTGCACTCGAGA-GCTAATCTCCGTTTGGCCCGAGGAAACCTTT
66 CGGTCAAACACCCTTCTACCTTTGCACTCGA-ACGCTAATCTCCATTCGGCCCGAGAAAACCTTT
* * * *
45349852 GCACGCCTCCGTTACCTTTTGGGAGGCCTATGCCCCATAGAAACGGTCTACCTGAAACTGTCCCT
130 GCACGCCTCCATTACCTTTTGGGAGGCCTACGCCCCATAGAAACTGTCTACCTGAGACTGTCCCT
* * * * * *
45349917 TGGCGCGTAGGTCTTAACACAAGGCTAGAATTCTATCTCTTCCAGAGTGGTATCTCACTCATGGC
195 TGGCCCGTAAGTCTTGACACAAGTCTAGAATTCTAGCTCTTCTAGAGTGGTATCTCACTCATGGC
* * *
45349982 TCTGGCCCCC-CTAAAAGGAGGCCTTCTTCGCCTTCCACATAAGCTACGCAGGAAAAGCCCAAAA
260 TTTGGCCCCCTC-AGAAGGAGGCCTTCTTCGCCTTCCACATAAGCTACGCAGGAAAAGCCCAAAG
*
45350046 CCAATCCCAGGGAACAGTGAAGCTTCATATGGTCTTTCTATCCAAGTGCGGGTAGTCCGCATCTT
324 CCAATCCCAGGGAACAGTGAAGCTTCATATGGTCTTTCTTTCCAAGTGCGGGTAGTCCGCATCTT
** *
45350111 CACAGACATGTTTATTTCACCAAGCCTCTCTCCGAGACAGTGCCCAGATTATTATGGCTTTCGTG
389 CACAGACATGTTTATTTCACCAAGCCTCTCTCCGAGACAGTGCCCAGATCGTTACGGCTTTCGTG
45350176 CGGGTCAGAAC
454 CGGGTCAGAAC
* * * *
45350187 TTACTCGACAAGAAATTTCGCAAGCTTAGGACCATTATAGTTACGACCGCCTTTCCCCGGGGCTT
1 TTACCCGACAAGAAATTTCGCTAGCTTAGGACCATTATAGTTACGGCCGCCTTTCACCGGGGCTT
*
45350252 CGGTCAAACACCATTCTACCTTTGCACTCGAACGCTAATCTCCATTCGGCCCGAGAAAACCTTTG
66 CGGTCAAACACCCTTCTACCTTTGCACTCGAACGCTAATCTCCATTCGGCCCGAGAAAACCTTTG
* * * *
45350317 TC-TGCCTCTATTACCTTTTGGGAGGCCTACGCCCCATAGAAACTATCTACCTGAGACTATCCCT
131 -CACGCCTCCATTACCTTTTGGGAGGCCTACGCCCCATAGAAACTGTCTACCTGAGACTGTCCCT
* * *
45350381 TGGCCCGTAAGTTTTGACACAAGTCTAGAATTCTAGCTCTTCTAGAGTGGCATCTCACTGATGGC
195 TGGCCCGTAAGTCTTGACACAAGTCTAGAATTCTAGCTCTTCTAGAGTGGTATCTCACTCATGGC
* * *
45350446 TTTGGCCCCCTCAGAAGGTGGCCTTCTTCGCCTTCCACATAAGCTGCGCAAGAAAAGCCCAAAGC
260 TTTGGCCCCCTCAGAAGGAGGCCTTCTTCGCCTTCCACATAAGCTACGCAGGAAAAGCCCAAAGC
*
45350511 CAATCCCAGGGAACAGTGAAGCTTCATATGGTCTTTCTTTCCAAGTGCGGGTAGTCTGCATCTTC
325 CAATCCCAGGGAACAGTGAAGCTTCATATGGTCTTTCTTTCCAAGTGCGGGTAGTCCGCATCTTC
45350576 ACAGACATGTTTATTTCACCAAGCCTCTCTCCGAGACAGTGCCCAGATCGTTACGGCTTTCGTGC
390 ACAGACATGTTTATTTCACCAAGCCTCTCTCCGAGACAGTGCCCAGATCGTTACGGCTTTCGTGC
45350641 GGGTCAGAAC
455 GGGTCAGAAC
* * **
45350651 TTACCCGACAAGAAATTTCGCAAGCTTAAGACCATTATAGTTACGGCCGCCTTTCTTCGGGGCTT
1 TTACCCGACAAGAAATTTCGCTAGCTTAGGACCATTATAGTTACGGCCGCCTTTCACCGGGGCTT
* *
45350716 CGGTCAAACACCCTTCTGCCTTTGCACTCGAACGCTAATCTCCATTTGGCCCGAGAAAACCTTTG
66 CGGTCAAACACCCTTCTACCTTTGCACTCGAACGCTAATCTCCATTCGGCCCGAGAAAACCTTTG
* *
45350781 TATGCCTCCATTACCTTTTGGGAGGCCTACGCCCCATAGAAACTGTCTACCTGAGACTGTCCCTT
131 CACGCCTCCATTACCTTTTGGGAGGCCTACGCCCCATAGAAACTGTCTACCTGAGACTGTCCCTT
* *
45350846 GGCCCGTAAGTTTTGACACAAGTCTAGAATTCTAGCTCTTCTAGAGTGGTATCTCACTGATGGCT
196 GGCCCGTAAGTCTTGACACAAGTCTAGAATTCTAGCTCTTCTAGAGTGGTATCTCACTCATGGCT
* * *
45350911 TTGGCCCCCCCGGAAGGTGGCCTTCTTCGCCTTCCACATAAGCTACGCAGGAAAAGCCCAAAGCC
261 TTGGCCCCCTCAGAAGGAGGCCTTCTTCGCCTTCCACATAAGCTACGCAGGAAAAGCCCAAAGCC
45350976 AATCCCAGGGAACAGTGAAGCTTCATATGGTCTTT-TTGTCCAAGTGCGGGTAGTCCGCATCTTC
326 AATCCCAGGGAACAGTGAAGCTTCATATGGTCTTTCTT-TCCAAGTGCGGGTAGTCCGCATCTTC
*
45351040 ACAGACATGTTTATTTCACCAAGCCTCTCTCCGAGACAGTGCCCAGATCGTTACGGCTTTCGTAC
390 ACAGACATGTTTATTTCACCAAGCCTCTCTCCGAGACAGTGCCCAGATCGTTACGGCTTTCGTGC
45351105 GGGTCAGAAC
455 GGGTCAGAAC
* * * ** * * *
45351115 TTACCCGACAA-AGAATTTTGCTAGCTTAGGACCGTTACAGTTACGGTTGCCGTTCATCAGGGCT
1 TTACCCGACAAGA-AATTTCGCTAGCTTAGGACCATTATAGTTACGGCCGCCTTTCACCGGGGCT
* * * * * * * * *
45351179 TCAGTCAAGCTCCCTTTTACCTTTGCACTCG-AGGGTCAATCTCCGTCCGGCCCGAGGAAACCTT
65 TCGGTCAAACACCCTTCTACCTTTGCACTCGAACGCT-AATCTCCATTCGGCCCGAGAAAACCTT
* *
45351243 TGCACGCCTCCATTACCTTTTTGGAGGCTTACGCCCCATAGAAACTGTCTACCTGAGACTGTCCC
129 TGCACGCCTCCATTACCTTTTGGGAGGCCTACGCCCCATAGAAACTGTCTACCTGAGACTGTCCC
* *
45351308 TTGGCCTGT-AGATCCTGACACAATGT-TAGAATTCTAGCTCTTCTAGAGTGGTATCTCACTCAT
194 TTGGCCCGTAAG-TCTTGACACAA-GTCTAGAATTCTAGCTCTTCTAGAGTGGTATCTCACTCAT
* * *
45351371 GG-TTCTGGCCCCCT-GGAAGGAGGCCTTCTTTGCCTTCCACCTAAGCTACGCAGGAAAAGCCCA
257 GGCTT-TGGCCCCCTCAGAAGGAGGCCTTCTTCGCCTTCCACATAAGCTACGCAGGAAAAGCCCA
* * * ** * * **
45351434 AAGCCAATCCTAGGGAACAGTGAAGCTTCGTA-GGATCTCTCAGTCCAGGTGCAGGTAGTCTACA
321 AAGCCAATCCCAGGGAACAGTGAAGCTTCATATGG-TCTTTCTTTCCAAGTGCGGGTAGTCCGCA
* * * * * * * *
45351498 TCTTCACAAACATGTCTATTTCACCGAGCCTCTCTCCAAGATAGTGTCCAAATCGTTACGCCTTT
385 TCTTCACAGACATGTTTATTTCACCAAGCCTCTCTCCGAGACAGTGCCCAGATCGTTACGGCTTT
** *
45351563 CGTGTAGCTCAGAAC
450 CGTGCGGGTCAGAAC
* * * * * *
45351578 TTA-CCAATAA-ATAATTTTGCTACCTTAGGACCGTTATAGTTACGGCCGCCATTCA-CGAGGGC
1 TTACCCGACAAGA-AATTTCGCTAGCTTAGGACCATTATAGTTACGGCCGCCTTTCACCG-GGGC
* *
45351640 TTCGGTCAAGCTCCCTTCTA
64 TTCGGTCAAACACCCTTCTA
45351660 ACTATCTCAC
Statistics
Matches: 1333, Mismatches: 127, Indels: 28
0.90 0.09 0.02
Matches are distributed among these distances:
461 1 0.00
462 68 0.05
463 179 0.13
464 1081 0.81
465 4 0.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (464 bp):
TTACCCGACAAGAAATTTCGCTAGCTTAGGACCATTATAGTTACGGCCGCCTTTCACCGGGGCTT
CGGTCAAACACCCTTCTACCTTTGCACTCGAACGCTAATCTCCATTCGGCCCGAGAAAACCTTTG
CACGCCTCCATTACCTTTTGGGAGGCCTACGCCCCATAGAAACTGTCTACCTGAGACTGTCCCTT
GGCCCGTAAGTCTTGACACAAGTCTAGAATTCTAGCTCTTCTAGAGTGGTATCTCACTCATGGCT
TTGGCCCCCTCAGAAGGAGGCCTTCTTCGCCTTCCACATAAGCTACGCAGGAAAAGCCCAAAGCC
AATCCCAGGGAACAGTGAAGCTTCATATGGTCTTTCTTTCCAAGTGCGGGTAGTCCGCATCTTCA
CAGACATGTTTATTTCACCAAGCCTCTCTCCGAGACAGTGCCCAGATCGTTACGGCTTTCGTGCG
GGTCAGAAC
Found at i:45352354 original size:39 final size:39
Alignment explanation
Indices: 45352300--45352440 Score: 185
Period size: 39 Copynumber: 3.6 Consensus size: 39
45352290 CACATTCAGT
* * *
45352300 TTTAAGCATGA-ATCACATTACACATATTATCACATAACA
1 TTTAAGCAT-ATATCACAATACTCATATAATCACATAACA
* * **
45352339 TTCAAACATATATCACAATACTCATACCATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
45352378 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
45352417 TTTAAGCATATATTAGAATACTCA
1 TTTAAGCATATATCACAATACTCA
45352441 AAAACATGTT
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 1 0.01
39 88 0.99
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:45357789 original size:46 final size:43
Alignment explanation
Indices: 45357713--45357820 Score: 121
Period size: 46 Copynumber: 2.4 Consensus size: 43
45357703 ACACTTCGGA
*
45357713 ATAATAATAGATATACGGTGGATTCAGCACATAACAACCACCCTTT
1 ATAATAAT-GATATCCGGTGGATTCAGCACATAACAACCA-CC-TT
* *
45357759 GTAATCAATGATATCCGGTGGGA-TCAGCACATAGCAACCACCTT
1 ATAAT-AATGATATCCGGT-GGATTCAGCACATAACAACCACCTT
45357803 ATAATTAATGATA-CCGGT
1 ATAA-TAATGATATCCGGT
45357821 TCACATAGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
43 5 0.09
44 12 0.22
45 3 0.05
46 29 0.53
47 6 0.11
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (43 bp):
ATAATAATGATATCCGGTGGATTCAGCACATAACAACCACCTT
Found at i:45357884 original size:51 final size:51
Alignment explanation
Indices: 45357826--45358016 Score: 246
Period size: 51 Copynumber: 3.8 Consensus size: 51
45357816 CCGGTTCACA
* *
45357826 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACACG
* * * *
45357877 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCTGGTACACG
* * *
45357928 TAGTAGCCTGCACCTAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTGGTACACG
45357978 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
45358017 TTCACTTTCA
Statistics
Matches: 118, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
49 4 0.03
50 41 0.35
51 70 0.59
52 2 0.02
53 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACACG
Found at i:45358005 original size:101 final size:102
Alignment explanation
Indices: 45357824--45358008 Score: 320
Period size: 101 Copynumber: 1.8 Consensus size: 102
45357814 TACCGGTTCA
*
45357824 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCTGATACACGTAGTAGCCTGCA
45357889 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* *
45357926 CATAGTAGCCTGCACCTAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCTGATACACGTAGTAGCCTGC
45357989 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
45358009 CCATCACTTT
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
101 41 0.52
102 34 0.43
103 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCTGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:45359571 original size:21 final size:21
Alignment explanation
Indices: 45359528--45359571 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
45359518 ATTAATTTTT
* *
45359528 TTTAAAATTTCATTTATTCTG
1 TTTAAAATTTAATTTATTATG
* *
45359549 TTTAAATTTTAATTTTTTATG
1 TTTAAAATTTAATTTATTATG
45359570 TT
1 TT
45359572 AATAAAGGGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (21 bp):
TTTAAAATTTAATTTATTATG
Found at i:45366135 original size:26 final size:26
Alignment explanation
Indices: 45366082--45366142 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
45366072 ACCATTAGCT
*
45366082 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCACAAAGAGCCTATAATCG
*
45366108 GGAAGCTTACAAAGAGCCATATAA-CG
1 GGAAGCTCACAAAGAGCC-TATAATCG
*
45366134 GGACGCTCA
1 GGAAGCTCA
45366143 TAAGAGCTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCTATAATCG
Found at i:45368493 original size:24 final size:25
Alignment explanation
Indices: 45368455--45368507 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
45368445 TCTATTGAAG
*
45368455 AAAAAGATAAGTTTCCAATTTATCA
1 AAAAAGATAAATTTCCAATTTATCA
* *
45368480 AAAAAG-TAAATTTCCATTTTATCC
1 AAAAAGATAAATTTCCAATTTATCA
45368504 AAAA
1 AAAA
45368508 TTTTAGCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (25 bp):
AAAAAGATAAATTTCCAATTTATCA
Found at i:45369592 original size:27 final size:27
Alignment explanation
Indices: 45369554--45369612 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
45369544 TGATTAAAAC
*
45369554 TTCTTTACATTAATTGTTCAATCAATA
1 TTCTTTACATTAATTGTTCAACCAATA
*
45369581 TTCTTTACATTAATTGTTGAACCAATA
1 TTCTTTACATTAATTGTTCAACCAATA
45369608 TTCTT
1 TTCTT
45369613 ATCTCGTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (27 bp):
TTCTTTACATTAATTGTTCAACCAATA
Found at i:45371269 original size:13 final size:13
Alignment explanation
Indices: 45371253--45371277 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45371243 ATTTAGTATT
45371253 TATATAATAAATA
1 TATATAATAAATA
45371266 TATATAATAAAT
1 TATATAATAAAT
45371278 TTTTTTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATATAATAAATA
Found at i:45371300 original size:36 final size:36
Alignment explanation
Indices: 45371260--45371332 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 36
45371250 ATTTATATAA
*
45371260 TAAA-TATATATAATAA-ATTTTTTTATTTTTTTATTT
1 TAAATTATATATAA-AATACTTTTTTA-TTTTTTATTT
* *
45371296 TAAATTATTTTTAAAATACTTTTTTATTTTTTATTT
1 TAAATTATATATAAAATACTTTTTTATTTTTTATTT
45371332 T
1 T
45371333 TAAAATGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 17 0.53
37 15 0.47
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (36 bp):
TAAATTATATATAAAATACTTTTTTATTTTTTATTT
Found at i:45371329 original size:26 final size:27
Alignment explanation
Indices: 45371286--45371338 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 27
45371276 ATTTTTTTAT
45371286 TTTTTTATTTTAAATTATTTTTAAAATAC
1 TTTTTTATTTT--ATTATTTTTAAAATAC
45371315 TTTTTTATTTT-TTATTTTTAAAAT
1 TTTTTTATTTTATTATTTTTAAAAT
45371339 GTATTTCCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 13 0.54
29 11 0.46
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTTTTATTTTATTATTTTTAAAATAC
Found at i:45371925 original size:74 final size:74
Alignment explanation
Indices: 45371804--45371976 Score: 258
Period size: 74 Copynumber: 2.3 Consensus size: 74
45371794 TCTTTCCACG
*
45371804 GTTTATTTATGAAGCTACATACCATGCGTCTACTCTAAAAGTCTGAAAT-GCATAACCAGTCACC
1 GTTTATTTATGAAGCTACGTACCATGCGTCTACTCTAAAAGTCTGAAATAG-ATAACCAGTCACC
*
45371868 ATATCCCCTA
65 ATATCACCTA
* * * * *
45371878 GTTTATTTATGAAGTTACGTACCATGTGTTTACTCTAAAGGTCTGAAATAGATAACCTGTCACCA
1 GTTTATTTATGAAGCTACGTACCATGCGTCTACTCTAAAAGTCTGAAATAGATAACCAGTCACCA
*
45371943 TATCACCTC
66 TATCACCTA
45371952 GTTTATTTATGAAGCTACGTACCAT
1 GTTTATTTATGAAGCTACGTACCAT
45371977 ACAGTAAACT
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
74 88 0.99
75 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (74 bp):
GTTTATTTATGAAGCTACGTACCATGCGTCTACTCTAAAAGTCTGAAATAGATAACCAGTCACCA
TATCACCTA
Found at i:45381842 original size:61 final size:61
Alignment explanation
Indices: 45381739--45381877 Score: 188
Period size: 61 Copynumber: 2.3 Consensus size: 61
45381729 TAACTAGGGG
* * *
45381739 AAGGAATACCTTTGTGGCAATACTCTGGACAGGAAAACCTTTGTGGCGAGTACTGAATGTT
1 AAGGAATGCCTTTGTGGCAATACTCTGGACAGGAAAACCTTTGTGGCGACTACTAAATGTT
* * * ** *
45381800 AAGGAATGCCTTTGTGGTAATACTTTGGACATGAAAGGCTTTGTGGTGACTACTAAATGTT
1 AAGGAATGCCTTTGTGGCAATACTCTGGACAGGAAAACCTTTGTGGCGACTACTAAATGTT
*
45381861 AAAGAATGCCTTTGTGG
1 AAGGAATGCCTTTGTGG
45381878 GAAAACTCCA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (61 bp):
AAGGAATGCCTTTGTGGCAATACTCTGGACAGGAAAACCTTTGTGGCGACTACTAAATGTT
Found at i:45381959 original size:29 final size:29
Alignment explanation
Indices: 45381918--45381994 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
45381908 AACCTCTGTT
*
45381918 AAGG-AACGACTTTGTGGCAAATCT-TCAA
1 AAGGAAACGCCTTTGTGGCAAATCTATC-A
*
45381946 AAGGAAACGCCTTTGTGGCGATATCTATCA
1 AAGGAAACGCCTTTGTGGC-AAATCTATCA
* *
45381976 AATGAAA-GCCTCTGTGGCA
1 AAGGAAACGCCTTTGTGGCA
45381995 TTCTCTGTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
28 5 0.12
29 23 0.55
30 12 0.29
31 2 0.05
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (29 bp):
AAGGAAACGCCTTTGTGGCAAATCTATCA
Found at i:45388862 original size:10 final size:10
Alignment explanation
Indices: 45388847--45388882 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
45388837 TCCTAGAATG
45388847 TGAATTGATT
1 TGAATTGATT
*
45388857 TGAATTGAAT
1 TGAATTGATT
45388867 TGAATTGATT
1 TGAATTGATT
45388877 ATGAAT
1 -TGAAT
45388883 CGTATTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 18 0.78
11 5 0.22
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.44
Consensus pattern (10 bp):
TGAATTGATT
Found at i:45388867 original size:15 final size:16
Alignment explanation
Indices: 45388842--45388874 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
45388832 ATTTTTCCTA
*
45388842 GAATGTGAATTGATTT
1 GAATGTGAATTGAATT
45388858 GAAT-TGAATTGAATT
1 GAATGTGAATTGAATT
45388873 GA
1 GA
45388875 TTATGAATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (16 bp):
GAATGTGAATTGAATT
Found at i:45388893 original size:21 final size:20
Alignment explanation
Indices: 45388849--45388895 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
45388839 CTAGAATGTG
* *
45388849 AATTGATTTGAATTGAATTG
1 AATTGATTTGAATCGAATTA
*
45388869 AATTGATTATGAATCGTATTA
1 AATTGATT-TGAATCGAATTA
45388890 AATTGA
1 AATTGA
45388896 GTTAAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (20 bp):
AATTGATTTGAATCGAATTA
Found at i:45396375 original size:23 final size:23
Alignment explanation
Indices: 45396331--45396375 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
45396321 ACACACTCTT
*
45396331 TACTTTAACAAAATTGCTTTTTC
1 TACTTTAACAAAATTGCCTTTTC
*
45396354 TACTTTAACAAAATTTCCTTTT
1 TACTTTAACAAAATTGCCTTTT
45396376 TAAAAGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.18, G:0.02, T:0.49
Consensus pattern (23 bp):
TACTTTAACAAAATTGCCTTTTC
Found at i:45402668 original size:48 final size:49
Alignment explanation
Indices: 45402567--45402676 Score: 145
Period size: 49 Copynumber: 2.3 Consensus size: 49
45402557 GCTTAATCAC
*
45402567 TTTAATATTAAATTAATATAATAATTATCTAGATAAATATTAGATAAAT
1 TTTAATATTAAATTAATAAAATAATTATCTAGATAAATATTAGATAAAT
* * *
45402616 TTTAATATTAAATTAATAAAATACTT-T-TAAGATAAGTATTAAGTTAAA-
1 TTTAATATTAAATTAATAAAATAATTATCT-AGATAAATATT-AGATAAAT
45402664 TTTAATATTAAAT
1 TTTAATATTAAAT
45402677 ATGTTAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
47 1 0.02
48 24 0.44
49 30 0.55
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.44
Consensus pattern (49 bp):
TTTAATATTAAATTAATAAAATAATTATCTAGATAAATATTAGATAAAT
Found at i:45412501 original size:105 final size:106
Alignment explanation
Indices: 45412285--45412475 Score: 273
Period size: 106 Copynumber: 1.8 Consensus size: 106
45412275 TGATTAAGTT
*
45412285 TAATCACTTTAATATTAAATTAATATAATACTTATCTAGATAAATATTAGATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATACTTATCTAGATAAATATTAGATTAAATTTAATATT
*
45412350 AAATCTATAAGATAAATATTAAATTACATTTAATATTAAGA
66 AAATCTATAAAATAAATATTAAATTACATTTAATATTAAGA
* * *
45412391 TAATCACTTTCATATTAAATTATTAAAATAC-TAT-TCAGATAAATATTTA-ATTTAATTTAATA
1 TAATCACTTTAATATTAAATTAATAAAATACTTATCT-AGATAAATA-TTAGATTAAATTTAATA
*
45412453 TTAAATTTATTAAAATAAA-ATTA
64 TTAAATCTA-TAAAATAAATATTA
45412476 TTTTTGGATT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
104 1 0.01
105 36 0.47
106 39 0.51
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (106 bp):
TAATCACTTTAATATTAAATTAATAAAATACTTATCTAGATAAATATTAGATTAAATTTAATATT
AAATCTATAAAATAAATATTAAATTACATTTAATATTAAGA
Found at i:45414400 original size:84 final size:84
Alignment explanation
Indices: 45414259--45414425 Score: 325
Period size: 84 Copynumber: 2.0 Consensus size: 84
45414249 CACTCGAAGT
45414259 AATTTCGTGGTACGAGAATAGAGGAGAAGGGCGTTCAGTTGAAAGCCAAGAACAAAAAGGATCCG
1 AATTTCGTGGTACGAGAATAGAGGAGAAGGGCGTTCAGTTGAAAGCCAAGAACAAAAAGGATCCG
45414324 TTTAGCCGAAAACAAAGGG
66 TTTAGCCGAAAACAAAGGG
*
45414343 AATTTCGTGGTACGAGAATAGAGGAGAAGGTCGTTCAGTTGAAAGCCAAGAACAAAAAGGATCCG
1 AATTTCGTGGTACGAGAATAGAGGAGAAGGGCGTTCAGTTGAAAGCCAAGAACAAAAAGGATCCG
45414408 TTTAGCCGAAAACAAAGG
66 TTTAGCCGAAAACAAAGG
45414426 TGCGATTTTG
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.40, C:0.14, G:0.29, T:0.17
Consensus pattern (84 bp):
AATTTCGTGGTACGAGAATAGAGGAGAAGGGCGTTCAGTTGAAAGCCAAGAACAAAAAGGATCCG
TTTAGCCGAAAACAAAGGG
Found at i:45416380 original size:16 final size:16
Alignment explanation
Indices: 45416355--45416401 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
45416345 GAAAAATATG
45416355 AACAATTCTTCATCTA
1 AACAATTCTTCATCTA
*
45416371 AACGATTCTTCATCTA
1 AACAATTCTTCATCTA
*
45416387 AACAACTCTTCATCT
1 AACAATTCTTCATCT
45416402 GAAAGAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.36
Consensus pattern (16 bp):
AACAATTCTTCATCTA
Found at i:45417028 original size:30 final size:27
Alignment explanation
Indices: 45416990--45417104 Score: 99
Period size: 30 Copynumber: 4.0 Consensus size: 27
45416980 GTATGTCTAT
45416990 TATGTATGTTTCTTTATTGTTTATGTATG
1 TATGTATGTTT-TTTATTG-TTATGTATG
* *
45417019 TATGTTATGTTTTTAAATTGTTATGTATAT
1 TATG-TATGTTTTT-TATTGTTATGTAT-G
*
45417049 TATGTATGTTATGTT-TTGTTATGTATG
1 TATGTATGTT-TTTTATTGTTATGTATG
45417076 TATGTTATGTTTACTATTA-TGTTATGTAT
1 TATG-TATGTTT--T-TTATTGTTATGTAT
45417105 TGTTATGTGT
Statistics
Matches: 71, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
27 5 0.07
28 17 0.24
29 20 0.28
30 29 0.41
ACGTcount: A:0.22, C:0.02, G:0.17, T:0.60
Consensus pattern (27 bp):
TATGTATGTTTTTTATTGTTATGTATG
Found at i:45417029 original size:5 final size:5
Alignment explanation
Indices: 45417010--45417416 Score: 142
Period size: 5 Copynumber: 81.4 Consensus size: 5
45417000 TCTTTATTGT
*
45417010 TTATG -TATG -TATG TTATG TT-T- TTAAATTG TTATG -TATA TTATG
1 TTATG TTATG TTATG TTATG TTATG TT--AT-G TTATG TTATG TTATG
* *
45417053 -TATG TTATG TTTTG TTATG -TATG -TATG TTATG TTTACTA TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG -TTA-TG TTATG TTATG
* *
45417102 -TATTG TTATG TGTGGATG ATATG TTTACTG TTATG TT-TG TATATT TGTATG
1 TTA-TG TTATG T-T--ATG TTATG -TTA-TG TTATG TTATG T-TATG T-TATG
*
45417153 -TATG TTATG TTATG TTATG -TATTG TTAT- ATATG -TATG TTATG TTTATTG
1 TTATG TTATG TTATG TTATG TTA-TG TTATG TTATG TTATG TTATG -TTA-TG
*
45417202 TTATG TT-TG TATATT TGTATG -TATG TTATG TTATG TTATG -TATTG
1 TTATG TTATG T-TATG T-TATG TTATG TTATG TTATG TTATG TTA-TG
* * *
45417247 TTA-- TTATA TTATG -TATG TATATT TGTATG TT-TG TTATGTG TTATA
1 TTATG TTATG TTATG TTATG T-TATG T-TATG TTATG TTA--TG TTATG
* * *
45417292 TTACTA TTATG TT-TG -TATA TTATG -TATG TCATG TTTAATG -TATG
1 TTA-TG TTATG TTATG TTATG TTATG TTATG TTATG -TT-ATG TTATG
* * *
45417336 -TATA TTATG TGGTATA TTATTG TTATG TGTATG --ACTG TTTAT- TAATG
1 TTATG TTATG T--TATG TTA-TG TTATG T-TATG TTA-TG -TTATG TTATG
45417383 TTTATG -TATG TTATG -TATG -TATG -TATG TTATG TT
1 -TTATG TTATG TTATG TTATG TTATG TTATG TTATG TT
45417417 TAGCACTATT
Statistics
Matches: 313, Mismatches: 31, Indels: 116
0.68 0.07 0.25
Matches are distributed among these distances:
3 7 0.02
4 93 0.30
5 125 0.40
6 64 0.20
7 19 0.06
8 5 0.02
ACGTcount: A:0.23, C:0.01, G:0.19, T:0.57
Consensus pattern (5 bp):
TTATG
Found at i:45417071 original size:44 final size:40
Alignment explanation
Indices: 45417037--45417274 Score: 166
Period size: 40 Copynumber: 6.2 Consensus size: 40
45417027 GTTTTTAAAT
* *
45417037 TGTTATGTATATTATGTATGTTATGTTTTGTTATGTATGTA
1 TGTTATGTATACTAT-TATGTTATGTATTGTTATGTATGTA
* * *
45417078 TGTTATGTTTACTATTATGTTATGTATTGTTATGTGTGGA
1 TGTTATGTATACTATTATGTTATGTATTGTTATGTATGTA
* * *
45417118 TGATATGTTTACTGTTATGTT-TGTA----TAT-T-TGTA
1 TGTTATGTATACTATTATGTTATGTATTGTTATGTATGTA
* *
45417151 TG-TATGT-TA-TGTTATGTTATGTATTGTTATATATGTA
1 TGTTATGTATACTATTATGTTATGTATTGTTATGTATGTA
* * * *
45417188 TGTTATGTTTATTGTTATGTT-TGTA-TATT-TGTATGTA
1 TGTTATGTATACTATTATGTTATGTATTGTTATGTATGTA
** *
45417225 TGTTATGTTATGTTATGTATTGTTAT-TA-TATTATGTATGTA
1 TGTTATG-TATACTAT-TA-TGTTATGTATTGTTATGTATGTA
*
45417266 TATT-TGTAT
1 TGTTATGTAT
45417275 GTTTGTTATG
Statistics
Matches: 168, Mismatches: 14, Indels: 32
0.79 0.07 0.15
Matches are distributed among these distances:
30 9 0.05
31 6 0.04
32 5 0.03
33 5 0.03
34 1 0.01
35 6 0.04
36 1 0.01
37 20 0.12
38 13 0.08
39 15 0.09
40 62 0.37
41 25 0.15
ACGTcount: A:0.22, C:0.01, G:0.19, T:0.58
Consensus pattern (40 bp):
TGTTATGTATACTATTATGTTATGTATTGTTATGTATGTA
Found at i:45417204 original size:70 final size:70
Alignment explanation
Indices: 45417040--45417280 Score: 289
Period size: 70 Copynumber: 3.4 Consensus size: 70
45417030 TTTAAATTGT
* *
45417040 TATGTATATTATG--TA-TGTTATGTTTTGT-TATGTATGTATGTTATGTTTACTATTATGTTAT
1 TATGTATGTTATGTTTATTGTTATG-TTTGTATAT-T-TGTATG-TATG-TTA-TGTTATGTTAT
*
45417101 GTATTGTTATG
60 GTATTGTTATA
* * * *
45417112 TGTGGATGATATGTTTACTGTTATGTTTGTATATTTGTATGTATGTTATGTTATGTTATGTATTG
1 TATGTATGTTATGTTTATTGTTATGTTTGTATATTTGTATGTATGTTATGTTATGTTATGTATTG
45417177 TTATA
66 TTATA
45417182 TATGTATGTTATGTTTATTGTTATGTTTGTATATTTGTATGTATGTTATGTTATGTTATGTATTG
1 TATGTATGTTATGTTTATTGTTATGTTTGTATATTTGTATGTATGTTATGTTATGTTATGTATTG
45417247 TTATTA
66 TTA-TA
*
45417253 TAT-TATG-TATGTATATT-TGTATGTTTGT
1 TATGTATGTTATGTTTATTGT-TATGTTTGT
45417281 TATGTGTTAT
Statistics
Matches: 152, Mismatches: 11, Indels: 15
0.85 0.06 0.08
Matches are distributed among these distances:
68 1 0.01
69 18 0.12
70 88 0.58
71 8 0.05
72 13 0.09
73 6 0.04
74 8 0.05
75 10 0.07
ACGTcount: A:0.22, C:0.01, G:0.19, T:0.59
Consensus pattern (70 bp):
TATGTATGTTATGTTTATTGTTATGTTTGTATATTTGTATGTATGTTATGTTATGTTATGTATTG
TTATA
Found at i:45417255 original size:110 final size:110
Alignment explanation
Indices: 45417021--45417292 Score: 301
Period size: 110 Copynumber: 2.5 Consensus size: 110
45417011 TATGTATGTA
* * * * *
45417021 TGTTATGTTTTTAAATTGT-TATGTATATTATGTATGTTATGTTTTGTTATGTATGTATGTTATG
1 TGTTATGTTTGTATATTATGTATGTATATTATGTATGTTATGTATTGTTATATATGTATGTTATG
*
45417085 TTTACTATTATGTTATGTATTGTTATGTGTGGATGATATGTTTAC
66 TTTACTATTATGTTATGTATTGTTATGTATGGATGATATGTTTAC
*
45417130 TGTTATGTTTGTATATT-TGTATGTATGTTATGTTATGTTATGTATTGTTATATATGTATGTTAT
1 TGTTATGTTTGTATATTATGTATGTATATTATG-TATGTTATGTATTGTTATATATGTATGTTAT
* * * * *
45417194 GTTTATTGTTATGTT-TGTA-TATT-TGTATGTATGTTATG-TTA-
65 GTTTACTATTATGTTATGTATTGTTATGTATGGATGATATGTTTAC
45417235 TGTTATGTATTGTTATTATATTATGTATGTATATT-TGTATGTT-TGTTATGTGTTATAT
1 TGTTATGT-TTG----TATATTATGTATGTATATTATGTATGTTATG-TAT-TGTTATAT
45417293 TACTATTATG
Statistics
Matches: 141, Mismatches: 12, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
105 8 0.06
106 6 0.04
107 12 0.09
108 6 0.04
109 40 0.28
110 58 0.41
111 11 0.08
ACGTcount: A:0.22, C:0.01, G:0.19, T:0.59
Consensus pattern (110 bp):
TGTTATGTTTGTATATTATGTATGTATATTATGTATGTTATGTATTGTTATATATGTATGTTATG
TTTACTATTATGTTATGTATTGTTATGTATGGATGATATGTTTAC
Found at i:45417289 original size:60 final size:64
Alignment explanation
Indices: 45417044--45417363 Score: 193
Period size: 70 Copynumber: 4.9 Consensus size: 64
45417034 AATTGTTATG
* * *
45417044 TATAT-TATGTATGTTA-TGTTTTGTTATGTATGTATGTTATGT-TTACTATTATGTTATGTATT
1 TATATATAT-TATGTTACTGTTATATT-TGTATGTTTGTTATGTGTTA-TATTATGTTATGTATT
45417106 GT
63 GT
* * * * *
45417108 TATGTGTGGATGATATGTTTACTGTTATGTTTGTATATTTG-TATGTATGTTATGTTATGTTATG
1 TATATAT--AT--TATG-TTACTGTTATATTTGTATGTTTGTTATG--TGTTATATTATGTTATG
45417172 TATTGT
59 TATTGT
* * * *
45417178 TATATATGTATGTTATGTTTATTGTTATGTTTGTATATTTG-TATGTATGTTATGTTATGTTATG
1 TATATA--TA--TTATG-TTACTGTTATATTTGTATGTTTGTTATG--TGTTATATTATGTTATG
45417242 TATTGT
59 TATTGT
*
45417248 TAT-TATATTATG-TA-TG-TATATTTGTATGTTTGTTATGTGTTATATTACTATTATGT-TTG-
1 TATATATATTATGTTACTGTTATATTTGTATGTTTGTTATGTGTTATATTA-TGTTATGTATTGT
* * * * *
45417307 TATAT-TATGTATGTCA-TGTT-TA-ATGTATGTATATTATGTGGTATATTATTGTTATGT
1 TATATATAT-TATGTTACTGTTATATTTGTATGTTTGTTATGTGTTATATTA-TGTTATGT
45417364 GTATGACTGT
Statistics
Matches: 217, Mismatches: 20, Indels: 42
0.78 0.07 0.15
Matches are distributed among these distances:
59 6 0.03
60 46 0.21
61 26 0.12
62 7 0.03
63 2 0.01
64 4 0.02
65 6 0.03
67 4 0.02
68 8 0.04
69 13 0.06
70 90 0.41
71 3 0.01
72 2 0.01
ACGTcount: A:0.23, C:0.01, G:0.18, T:0.58
Consensus pattern (64 bp):
TATATATATTATGTTACTGTTATATTTGTATGTTTGTTATGTGTTATATTATGTTATGTATTGT
Found at i:45417300 original size:43 final size:45
Alignment explanation
Indices: 45417223--45417415 Score: 135
Period size: 43 Copynumber: 4.4 Consensus size: 45
45417213 TATTTGTATG
*
45417223 TATGTTATGTTATGTTATGTATTGTTATTATATTATGTATGTATAT
1 TATG-TATGTTATGTTATGTATTGATATTATATTATGTATGTATAT
* *
45417269 T-TGTATGTT-TGTTATGTGTT-ATATTACTATTATGTTTGTATAT
1 TATGTATGTTATGTTATGTATTGATATTA-TATTATGTATGTATAT
* * *
45417312 TATGTATGTCATG-T-T-TAATG-TATGTATATTATGT-GGTATAT
1 TATGTATGTTATGTTATGTATTGATAT-TATATTATGTATGTATAT
* * *
45417353 TA--T-TGTTATGTGTATG-ACTGTTTATTAATGTTTATGTATGT-TAT
1 TATGTATGTTATGT-TATGTATTG-ATATT-AT-ATTATGTATGTATAT
45417397 GTATGTATG-TATGTTATGT
1 -TATGTATGTTATGTTATGT
45417416 TTAGCACTAT
Statistics
Matches: 117, Mismatches: 11, Indels: 37
0.71 0.07 0.22
Matches are distributed among these distances:
38 6 0.05
39 1 0.01
40 1 0.01
41 12 0.10
42 19 0.16
43 34 0.29
44 23 0.20
45 8 0.07
46 5 0.04
47 6 0.05
48 2 0.02
ACGTcount: A:0.24, C:0.02, G:0.18, T:0.56
Consensus pattern (45 bp):
TATGTATGTTATGTTATGTATTGATATTATATTATGTATGTATAT
Found at i:45417300 original size:48 final size:50
Alignment explanation
Indices: 45417202--45417309 Score: 123
Period size: 53 Copynumber: 2.2 Consensus size: 50
45417192 ATGTTTATTG
* **
45417202 TTATGTTTGTATATTTGTATGTATGTTATGTTATGTTATGTATTGTTATTATA
1 TTATGTATGTATATTTGTATGTATGTTATG-T-TGTTA-GTATTACTATTATA
* *
45417255 TTATGTATGTATATTTGTATGTTTGTTATG-TGTTA-TATTACTATTATG
1 TTATGTATGTATATTTGTATGTATGTTATGTTGTTAGTATTACTATTATA
45417303 TT-TGTAT
1 TTATGTAT
45417310 ATTATGTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
47 5 0.10
48 12 0.24
50 5 0.10
53 28 0.56
ACGTcount: A:0.22, C:0.01, G:0.17, T:0.60
Consensus pattern (50 bp):
TTATGTATGTATATTTGTATGTATGTTATGTTGTTAGTATTACTATTATA
Found at i:45417398 original size:9 final size:9
Alignment explanation
Indices: 45417384--45417415 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
45417374 TTATTAATGT
45417384 TTATGTATG
1 TTATGTATG
45417393 TTATGTATG
1 TTATGTATG
45417402 -TATGTATG
1 TTATGTATG
45417410 TTATGT
1 TTATGT
45417416 TTAGCACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (9 bp):
TTATGTATG
Found at i:45420739 original size:14 final size:14
Alignment explanation
Indices: 45420706--45420739 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
45420696 TGGATAGTTT
*
45420706 TATTTTGTTGGATG
1 TATTTTGTTGAATG
45420720 -ATTTTGTTGAATG
1 TATTTTGTTGAATG
45420733 TATTTTG
1 TATTTTG
45420740 ATGGTGGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.59
Consensus pattern (14 bp):
TATTTTGTTGAATG
Found at i:45427735 original size:29 final size:29
Alignment explanation
Indices: 45427702--45427992 Score: 218
Period size: 29 Copynumber: 10.0 Consensus size: 29
45427692 GTGGAATCAC
*
45427702 GATGGTCGTCACCATCCCTTTTCATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAATT
*
45427731 GATGGTCGTCA-CATTCCCATTTT-ATAATC
1 GATGGTCGTCACCA-TCCC-TTTTCATAATT
* * * * *
45427760 AATAGCCG-AAGCTATCCCTTTTCATAATT
1 GATGGTCGTCA-CCATCCCTTTTCATAATT
* * *
45427789 CAATGGTCATCACCATCCCTTTTCATAATC
1 -GATGGTCGTCACCATCCCTTTTCATAATT
* * * **
45427819 GATAGCCG-AAGCTTTCCCTTTTCATAATT
1 GATGGTCGTCA-CCATCCCTTTTCATAATT
*
45427848 CGATGGTCATCACCA-CCCATTTTCATAATT
1 -GATGGTCGTCACCATCCC-TTTTCATAATT
* *
45427878 GATGGTCATCACCATCCCTTTTCATAATC
1 GATGGTCGTCACCATCCCTTTTCATAATT
* * *** * *
45427907 AATAG-CCAAAGCTATCCCTTTTCATACTT
1 GATGGTCGTCA-CCATCCCTTTTCATAATT
45427936 CGATGGTCGTC-CCATCCCTTTTCATAATT
1 -GATGGTCGTCACCATCCCTTTTCATAATT
*
45427965 GATGGTCGTCACCATTCCTTTTCATAAT
1 GATGGTCGTCACCATCCCTTTTCATAAT
45427993 CGATAGCCGA
Statistics
Matches: 201, Mismatches: 45, Indels: 32
0.72 0.16 0.12
Matches are distributed among these distances:
28 20 0.10
29 129 0.64
30 49 0.24
31 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (29 bp):
GATGGTCGTCACCATCCCTTTTCATAATT
Found at i:45427824 original size:59 final size:59
Alignment explanation
Indices: 45427713--45428018 Score: 272
Period size: 59 Copynumber: 5.2 Consensus size: 59
45427703 ATGGTCGTCA
* * *
45427713 CCATCCCTTTTCATAGTT-GATGGTCGTCA-CATTCCCATTTT-ATAATCAATAGCCGAAG
1 CCATCCCTTTTCATAATTCGATGGTCATCACCA-TCCC-TTTTCATAATCGATAGCCGAAG
* *
45427771 CTATCCCTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAATCGATAGCCGAAG
1 CCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTTTCATAATCGATAGCCGAAG
** * * *
45427830 CTTTCCCTTTTCATAATTCGATGGTCATCACCA-CCCATTTTCATAATTGATGGTC-ATCA-
1 CCATCCCTTTTCATAATTCGATGGTCATCACCATCCC-TTTTCATAATCGATAGCCGA--AG
* * * * * * * * **
45427889 CCATCCCTTTTCATAA-TCAATAGCCA-AAGCTATCCCTTTTCATACTTCGATGGTCG-TC
1 CCATCCCTTTTCATAATTCGATGGTCATCA-CCATCCCTTTTCATA-ATCGATAGCCGAAG
* *
45427947 CCATCCCTTTTCATAATT-GATGGTCGTCACCATTCCTTTTCATAATCGATAGCCGAAG
1 CCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTTTCATAATCGATAGCCGAAG
*
45428005 CCATCCCTATTCAT
1 CCATCCCTTTTCAT
45428019 TGGTCGATGA
Statistics
Matches: 201, Mismatches: 33, Indels: 28
0.77 0.13 0.11
Matches are distributed among these distances:
57 9 0.04
58 87 0.43
59 102 0.51
60 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.35
Consensus pattern (59 bp):
CCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTTTCATAATCGATAGCCGAAG
Found at i:45427883 original size:88 final size:87
Alignment explanation
Indices: 45427773--45428018 Score: 368
Period size: 88 Copynumber: 2.8 Consensus size: 87
45427763 AGCCGAAGCT
* *
45427773 ATCCCTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAATCGATAGCCGAAGCTTTCCCT
1 ATCCCTTTTCATAATT-GATGGTCATCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCT
45427838 TTTCATAATTCGATGGTCATCACC
65 TTTCATAATTCGATGGTCATC-CC
* *
45427862 A-CCCATTTTCATAATTGATGGTCATCACCATCCCTTTTCATAATCAATAGCCAAAGCTATCCCT
1 ATCCC-TTTTCATAATTGATGGTCATCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCT
* *
45427926 TTTCATACTTCGATGGTCGTCCC
65 TTTCATAATTCGATGGTCATCCC
* * * *
45427949 ATCCCTTTTCATAATTGATGGTCGTCACCATTCCTTTTCATAATCGATAGCCGAAGCCATCCCTA
1 ATCCCTTTTCATAATTGATGGTCATCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTT
45428014 TTCAT
66 TTCAT
45428019 TGGTCGATGA
Statistics
Matches: 143, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
87 62 0.43
88 69 0.48
89 12 0.08
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.35
Consensus pattern (87 bp):
ATCCCTTTTCATAATTGATGGTCATCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTT
TTCATAATTCGATGGTCATCCC
Found at i:45432261 original size:6 final size:6
Alignment explanation
Indices: 45432250--45432320 Score: 59
Period size: 5 Copynumber: 13.2 Consensus size: 6
45432240 GGGATCACTA
45432250 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
* * *
45432293 A-GAAT A-GAAT ACTAAT -TTAAT ACTAAT A
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT A
45432321 GAATAGAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
4 3 0.05
5 26 0.47
6 26 0.47
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (6 bp):
ACTAAT
Found at i:45432272 original size:20 final size:21
Alignment explanation
Indices: 45432246--45432291 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
45432236 AGCCGGGATC
45432246 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
45432267 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
45432287 ACTAA
1 ACTAA
45432292 TAGAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:45432285 original size:11 final size:11
Alignment explanation
Indices: 45432246--45432292 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
45432236 AGCCGGGATC
45432246 ACTAA-CTAAT
1 ACTAATCTAAT
45432256 ACTAATCTAAT
1 ACTAATCTAAT
45432267 -CTAA-CTAAT
1 ACTAATCTAAT
45432276 ACTAATCTAAT
1 ACTAATCTAAT
45432287 ACTAAT
1 ACTAAT
45432293 AGAATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:45432307 original size:27 final size:27
Alignment explanation
Indices: 45432273--45432328 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
45432263 TAATCTAACT
45432273 AATACTAATCTAATACTAATAGAATAG
1 AATACTAATCTAATACTAATAGAATAG
*
45432300 AATACTAATTTAATACTAATAGAATAG
1 AATACTAATCTAATACTAATAGAATAG
45432327 AA
1 AA
45432329 AATACTAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.54, C:0.09, G:0.07, T:0.30
Consensus pattern (27 bp):
AATACTAATCTAATACTAATAGAATAG
Found at i:45432334 original size:18 final size:18
Alignment explanation
Indices: 45432311--45432347 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45432301 ATACTAATTT
45432311 AATACTAATAGAATAGAA
1 AATACTAATAGAATAGAA
* *
45432329 AATACTAGTATAATAGAA
1 AATACTAATAGAATAGAA
45432347 A
1 A
45432348 GAAAAGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.59, C:0.05, G:0.11, T:0.24
Consensus pattern (18 bp):
AATACTAATAGAATAGAA
Found at i:45432855 original size:15 final size:14
Alignment explanation
Indices: 45432835--45432865 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
45432825 GAAGGGAATA
45432835 AAATAAAATAAAAAG
1 AAATAAAA-AAAAAG
45432850 AAATAAAAAAAAAG
1 AAATAAAAAAAAAG
45432864 AA
1 AA
45432866 GGGGAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (14 bp):
AAATAAAAAAAAAG
Found at i:45435442 original size:29 final size:29
Alignment explanation
Indices: 45435409--45435698 Score: 187
Period size: 29 Copynumber: 9.9 Consensus size: 29
45435399 GTAGGGACAC
*
45435409 ATGGTCGTCACCATCCCTTTTCATAGTTG
1 ATGGTCGTCACCATCCCTTTTCATAATTG
* **
45435438 ATGGTCGTCACCATCCCTTTTTATAATCA
1 ATGGTCGTCACCATCCCTTTTCATAATTG
* ** ** *
45435467 ATAGTC-AAAGTTATCCCTTTTCATAATTCA
1 ATGGTCGTCA-CCATCCCTTTTCATAATT-G
** * *
45435497 ATGGTCGTCACCATCTTTTTTCGTAATCG
1 ATGGTCGTCACCATCCCTTTTCATAATTG
* * **
45435526 ATAGCCG--AGCTTTCCCTTTTCATAATTG
1 ATGGTCGTCA-CCATCCCTTTTCATAATTG
* *
45435554 ATGGTCGTCACCATCCTTTTTCATAATCG
1 ATGGTCGTCACCATCCCTTTTCATAATTG
* ** * *
45435583 ATAGTC-AAAGCTATCCCTTTACATAATTCG
1 ATGGTCGTCA-CCATCCCTTTTCATAATT-G
* *
45435613 ATGGCCATCACCATCCCTTTTCATAATCT-
1 ATGGTCGTCACCATCCCTTTTCATAAT-TG
* * * *
45435642 ATAGCCG-AAGCTATCCCTTTTCATAATTCG
1 ATGGTCGTCA-CCATCCCTTTTCATAATT-G
45435672 ATGGTCGTCACCATCCCTTTTCATAAT
1 ATGGTCGTCACCATCCCTTTTCATAAT
45435699 CGATAGCCGA
Statistics
Matches: 191, Mismatches: 56, Indels: 27
0.70 0.20 0.10
Matches are distributed among these distances:
27 1 0.01
28 22 0.12
29 104 0.54
30 60 0.31
31 4 0.02
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (29 bp):
ATGGTCGTCACCATCCCTTTTCATAATTG
Found at i:45435591 original size:116 final size:117
Alignment explanation
Indices: 45435421--45435724 Score: 441
Period size: 116 Copynumber: 2.6 Consensus size: 117
45435411 GGTCGTCACC
* * *
45435421 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTT-ATAATCAATAGTCAAAGTTATCCCT
1 ATCCCTTTTCATAATTGATGGTCGTCACCAT-CCTTTTTCATAATCGATAGTCAAAGCTATCCCT
* * ** *
45435485 TTTCATAATTCAATGGTCGTCACCATCTTTTTTCGTAATCGATAGCCG-AGCT
65 TTTCATAATTCAATGGCCATCACCATCCCTTTTCATAATCGATAGCCGAAGCT
*
45435537 TTCCCTTTTCATAATTGATGGTCGTCACCATCCTTTTTCATAATCGATAGTCAAAGCTATCCCTT
1 ATCCCTTTTCATAATTGATGGTCGTCACCATCCTTTTTCATAATCGATAGTCAAAGCTATCCCTT
* * *
45435602 TACATAATTCGATGGCCATCACCATCCCTTTTCATAATCTATAGCCGAAGCT
66 TTCATAATTCAATGGCCATCACCATCCCTTTTCATAATCGATAGCCGAAGCT
* * *
45435654 ATCCCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCT
1 ATCCCTTTTCATAATT-GATGGTCGTCACCATCCTTTTTCATAATCGATAGTCAAAGCTATCCCT
45435719 TTTCAT
65 TTTCAT
45435725 TGGTCGATGA
Statistics
Matches: 168, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
115 7 0.04
116 92 0.55
117 19 0.11
118 50 0.30
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (117 bp):
ATCCCTTTTCATAATTGATGGTCGTCACCATCCTTTTTCATAATCGATAGTCAAAGCTATCCCTT
TTCATAATTCAATGGCCATCACCATCCCTTTTCATAATCGATAGCCGAAGCT
Found at i:45435716 original size:29 final size:29
Alignment explanation
Indices: 45435514--45435724 Score: 171
Period size: 29 Copynumber: 7.2 Consensus size: 29
45435504 TCACCATCTT
* *
45435514 TTTTCGTAATCGATAGCCG-AGCTTTCCC
1 TTTTCATAATCGATAGCCGAAGCTATCCC
* * * * * *
45435542 TTTTCATAATTGATGGTCGTCA-CCATCCT
1 TTTTCATAATCGATAGCCG-AAGCTATCCC
* *
45435571 TTTTCATAATCGATAGTCAAAGCTATCCC
1 TTTTCATAATCGATAGCCGAAGCTATCCC
* * *
45435600 TTTACATAATTCGATGGCC-ATCA-CCATCCC
1 TTTTCATAA-TCGATAGCCGA--AGCTATCCC
*
45435630 TTTTCATAATCTATAGCCGAAGCTATCCC
1 TTTTCATAATCGATAGCCGAAGCTATCCC
* * * *
45435659 TTTTCATAATTCGATGGTCGTCA-CCATCCC
1 TTTTCATAA-TCGATAGCCG-AAGCTATCCC
45435689 TTTTCATAATCGATAGCCGAAGCTATCCC
1 TTTTCATAATCGATAGCCGAAGCTATCCC
45435718 TTTTCAT
1 TTTTCAT
45435725 TGGTCGATGA
Statistics
Matches: 142, Mismatches: 30, Indels: 21
0.74 0.16 0.11
Matches are distributed among these distances:
28 18 0.13
29 77 0.54
30 45 0.32
31 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.36
Consensus pattern (29 bp):
TTTTCATAATCGATAGCCGAAGCTATCCC
Found at i:45435739 original size:59 final size:59
Alignment explanation
Indices: 45435421--45435724 Score: 425
Period size: 59 Copynumber: 5.2 Consensus size: 59
45435411 GGTCGTCACC
* * * * * *
45435421 ATCCCTTTTCATAGTT-GATGGTCGTCACCATCCCTTTTTATAATCAATAGTCAAAGTT
1 ATCCCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCT
* ** *
45435479 ATCCCTTTTCATAATTCAATGGTCGTCACCATCTTTTTTCGTAATCGATAGCCG-AGCT
1 ATCCCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCT
* * * *
45435537 TTCCCTTTTCATAATT-GATGGTCGTCACCATCCTTTTTCATAATCGATAGTCAAAGCT
1 ATCCCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCT
* * * *
45435595 ATCCCTTTACATAATTCGATGGCCATCACCATCCCTTTTCATAATCTATAGCCGAAGCT
1 ATCCCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCT
45435654 ATCCCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCT
45435713 ATCCCTTTTCAT
1 ATCCCTTTTCAT
45435725 TGGTCGATGA
Statistics
Matches: 215, Mismatches: 28, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
57 32 0.15
58 51 0.24
59 132 0.61
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (59 bp):
ATCCCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCT
Found at i:45442830 original size:19 final size:18
Alignment explanation
Indices: 45442800--45442845 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
45442790 AAAATTGAAT
*
45442800 ATAAATAAAATTTCAAA-A
1 ATAAA-AAAAATTCAAACA
45442818 ATAATAAAAAATTCAAACA
1 ATAA-AAAAAATTCAAACA
45442837 ATAAAAAAA
1 ATAAAAAAA
45442846 TAAAAACACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.22
Consensus pattern (18 bp):
ATAAAAAAAATTCAAACA
Found at i:45443007 original size:15 final size:14
Alignment explanation
Indices: 45442984--45443025 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
45442974 TTATTCTATA
45442984 TTTTCAATTTTTAAT
1 TTTTCAATTTTT-AT
*
45442999 TTTTTAATTTTTAT
1 TTTTCAATTTTTAT
45443013 TTTTCGAATTTTT
1 TTTTC-AATTTTT
45443026 TATATATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.71
Consensus pattern (14 bp):
TTTTCAATTTTTAT
Found at i:45443039 original size:23 final size:22
Alignment explanation
Indices: 45442990--45443047 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
45442980 TATATTTTCA
* *
45442990 ATTTTT-AATTTTTTAATTTTT
1 ATTTTTGAATTTTTTAATATAT
45443011 ATTTTTCGAATTTTTT-ATATAT
1 ATTTTT-GAATTTTTTAATATAT
*
45443033 ATGTTTTGAAATTTT
1 AT-TTTTGAATTTTT
45443048 AACTAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 6 0.19
22 13 0.42
23 12 0.39
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (22 bp):
ATTTTTGAATTTTTTAATATAT
Found at i:45443064 original size:7 final size:7
Alignment explanation
Indices: 45443052--45443078 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
45443042 AATTTTAACT
45443052 AATTTTA
1 AATTTTA
45443059 AATTTTA
1 AATTTTA
45443066 AATTTTA
1 AATTTTA
45443073 AATTTT
1 AATTTT
45443079 GAGTTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
AATTTTA
Found at i:45445309 original size:36 final size:37
Alignment explanation
Indices: 45445257--45445333 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 37
45445247 GGAATTAAAA
* *
45445257 TGAATTTTGACTTGAAAATGGAAAAGT-AAATTTGAAT
1 TGAATTGTGACTTGAAAATGAAAAAGTGAAA-TTGAAT
*
45445294 TGAATTGTGA-TTGAAAGTGAAAAAGTGAAATTGAAT
1 TGAATTGTGACTTGAAAATGAAAAAGTGAAATTGAAT
45445330 TGAA
1 TGAA
45445334 ATATGAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 24 0.67
37 12 0.33
ACGTcount: A:0.44, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TGAATTGTGACTTGAAAATGAAAAAGTGAAATTGAAT
Found at i:45445559 original size:23 final size:24
Alignment explanation
Indices: 45445528--45445596 Score: 115
Period size: 23 Copynumber: 3.0 Consensus size: 24
45445518 GGCTTTGTCG
*
45445528 ATCAGGCACTTTATGTGTCGTA-C
1 ATCAAGCACTTTATGTGTCGTATC
45445551 ATCAAGCACTTTATGTGTCGTATC
1 ATCAAGCACTTTATGTGTCGTATC
45445575 -TCAAGCACTTTATGTGTCGTAT
1 ATCAAGCACTTTATGTGTCGTAT
45445597 TAGGCACCAC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 43 0.98
24 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (24 bp):
ATCAAGCACTTTATGTGTCGTATC
Found at i:45447981 original size:31 final size:32
Alignment explanation
Indices: 45447940--45448546 Score: 303
Period size: 31 Copynumber: 19.8 Consensus size: 32
45447930 TTATAGTTAT
* *
45447940 ACATTATCGAAATTGATTTGCATATGGATATG
1 ACATTGTCGAAATTGATTTGTATATGGATATG
*
45447972 A-GTTGTCG-AATTGATTTGTATAT-GAT-TG
1 ACATTGTCGAAATTGATTTGTATATGGATATG
* * *
45448000 TACATT-ACTGAAATTAATTTGTATATGGTTAT-
1 -ACATTGTC-GAAATTGATTTGTATATGGATATG
* *
45448032 ACATTGTTGAAATTGAATTGTATATGGATAT-
1 ACATTGTCGAAATTGATTTGTATATGGATATG
*
45448063 A-AGTTGTCG-AATTGATTTGTATAT-AAT-TG
1 ACA-TTGTCGAAATTGATTTGTATATGGATATG
* * * *
45448092 TACATTG-CTGAAACTAATTTTTATATGGTTAT-
1 -ACATTGTC-GAAATTGATTTGTATATGGATATG
*
45448124 ACATTG-CTGAAATTGAATTGTATATGGATAT-
1 ACATTGTC-GAAATTGATTTGTATATGGATATG
* *
45448155 A-AGTTGCCG-AATTGATTCGTATATGG-T-TG
1 ACA-TTGTCGAAATTGATTTGTATATGGATATG
* *
45448184 TACATT-TCTGAAATTAATTTGTATATGGTTAT-
1 -ACATTGTC-GAAATTGATTTGTATATGGATATG
* *
45448216 ACATTGTTGAAATTGAATTGTATATGGATAT-
1 ACATTGTCGAAATTGATTTGTATATGGATATG
*
45448247 A-AGTTGCCG-AATTGATTTGTATAT-GATTAT-
1 ACA-TTGTCGAAATTGATTTGTATATGGA-TATG
* * * * *
45448277 ATATTG-CTAAAATTAATTTGTACATGGTTAT-
1 ACATTGTC-GAAATTGATTTGTATATGGATATG
* *
45448308 ACATTGTTGAAATTGAATTGTATATGGATAT-
1 ACATTGTCGAAATTGATTTGTATATGGATATG
*
45448339 A-AGTTGCCG-AATTGATTTGTATAT-GATTAT-
1 ACA-TTGTCGAAATTGATTTGTATATGGA-TATG
* * * * *
45448369 ATATTG-CTAAAATTAATTTGTACATGGTTAT-
1 ACATTGTC-GAAATTGATTTGTATATGGATATG
* *
45448400 ACATTGTTGAAATTGAATTGTATATGGATAT-
1 ACATTGTCGAAATTGATTTGTATATGGATATG
* * *
45448431 A-AGTTGCCG-AATTGATTCGTATATGGTTAT-
1 ACA-TTGTCGAAATTGATTTGTATATGGATATG
* * * *
45448461 ACATT-ACTGAATTTAATTTTTATAT-GATTAT-
1 ACATTGTC-GAAATTGATTTGTATATGGA-TATG
* * * *
45448492 ACATTGCCGAACTTGATTCGTATATGGTTAT-
1 ACATTGTCGAAATTGATTTGTATATGGATATG
* *
45448523 ACGTTG-CCAAATTGATTTGTATAT
1 ACATTGTCGAAATTGATTTGTATAT
45448547 AAATATACAT
Statistics
Matches: 446, Mismatches: 83, Indels: 94
0.72 0.13 0.15
Matches are distributed among these distances:
28 4 0.01
29 17 0.04
30 140 0.31
31 271 0.61
32 11 0.02
33 3 0.01
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (32 bp):
ACATTGTCGAAATTGATTTGTATATGGATATG
Found at i:45448574 original size:61 final size:61
Alignment explanation
Indices: 45447905--45448601 Score: 439
Period size: 61 Copynumber: 11.4 Consensus size: 61
45447895 TTTGATTGTT
* * * * * * *
45447905 TTATATATTGCCAAATTCGAATTGTTTATAGTTATACATT-ATCGAAATTGATTTGCATATGG
1 TTATACATTGCCAAATT-GATTTGTATATGGTTATACATTGCT-GAAATTGATTCGTATATGG
* * * * * * * * *
45447967 ATATGA-GTTGTCGAATTGATTTGTATATGATTGTACATTACTGAAATTAATTTGTATATGG
1 TTAT-ACATTGCCAAATTGATTTGTATATGGTTATACATTGCTGAAATTGATTCGTATATGG
** * * * **
45448028 TTATACATTGTTGAAATTGAATTGTATATGGATATA-AGTTG-TCG-AATTGATTTGTATATAA
1 TTATACATTG-CCAAATTGATTTGTATATGGTTATACA-TTGCT-GAAATTGATTCGTATATGG
* * * * *
45448089 TTGTACATTGCTGAAACTAATTTTTATATGGTTATACATTGCTGAAATTGAATT-GTATATGG
1 TTATACATTGC-CAAATTGATTTGTATATGGTTATACATTGCTGAAATTG-ATTCGTATATGG
* * * * * * *
45448151 ATATA-AGTTGCCGAATTGATTCGTATATGGTTGTACATTTCTGAAATTAATTTGTATATGG
1 TTATACA-TTGCCAAATTGATTTGTATATGGTTATACATTGCTGAAATTGATTCGTATATGG
** * * * * *
45448212 TTATACATTGTTGAAATTGAATTGTATATGGATATA-AGTTGCCG-AATTGATTTGTATATGA
1 TTATACATTG-CCAAATTGATTTGTATATGGTTATACA-TTGCTGAAATTGATTCGTATATGG
* * * * *
45448273 TTATATATTGCTAAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAATT-GTATATGG
1 TTATACATTGC-CAAATTGATTTGTATATGGTTATACATTGCTGAAATTG-ATTCGTATATGG
* * * * * * * *
45448335 ATATA-AGTTGCCGAATTGATTTGTATATGATTATATATTGCTAAAATTAATTTGTACATGG
1 TTATACA-TTGCCAAATTGATTTGTATATGGTTATACATTGCTGAAATTGATTCGTATATGG
** * * *
45448396 TTATACATTGTTGAAATTGAATTGTATATGGATATA-AGTTGCCG-AATTGATTCGTATATGG
1 TTATACATTG-CCAAATTGATTTGTATATGGTTATACA-TTGCTGAAATTGATTCGTATATGG
* * * * * * * *
45448457 TTATACATTACTGAATTTAATTTTTATATGATTATACATTGCCGAACTTGATTCGTATATGG
1 TTATACATTGC-CAAATTGATTTGTATATGGTTATACATTGCTGAAATTGATTCGTATATGG
* *** * * **
45448519 TTATACGTTGCCAAATTGATTTGTATATAAATATACATTGCTGAATTTGGTTCGTATATCA
1 TTATACATTGCCAAATTGATTTGTATATGGTTATACATTGCTGAAATTGATTCGTATATGG
* * *
45448580 ATATATATTGCTAAATTGATTT
1 TTATACATTGCCAAATTGATTT
45448602 TAACATTGGA
Statistics
Matches: 492, Mismatches: 115, Indels: 57
0.74 0.17 0.09
Matches are distributed among these distances:
60 7 0.01
61 330 0.67
62 148 0.30
63 7 0.01
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (61 bp):
TTATACATTGCCAAATTGATTTGTATATGGTTATACATTGCTGAAATTGATTCGTATATGG
Found at i:45448577 original size:92 final size:92
Alignment explanation
Indices: 45447926--45448563 Score: 900
Period size: 92 Copynumber: 6.9 Consensus size: 92
45447916 CAAATTCGAA
* * * * * * * *
45447926 TTGTTTATAGTTATACATTATCGAAATTGATTTGCATATGGATATGAGTTGTCGAATTGATTTGT
1 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
* *
45447991 ATATGATTGTACATTACTGAAATTAAT
66 ATATGATTATACATTGCTGAAATTAAT
*
45448018 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGTCGAATTGATTTGT
1 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
* * *
45448083 ATATAATTGTACATTGCTGAAACTAAT
66 ATATGATTATACATTGCTGAAATTAAT
* * *
45448110 TTTTATATGGTTATACATTGCTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTCGT
1 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
* * *
45448175 ATATGGTTGTACATTTCTGAAATTAAT
66 ATATGATTATACATTGCTGAAATTAAT
45448202 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
1 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
* *
45448267 ATATGATTATATATTGCTAAAATTAAT
66 ATATGATTATACATTGCTGAAATTAAT
*
45448294 TTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
1 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
* *
45448359 ATATGATTATATATTGCTAAAATTAAT
66 ATATGATTATACATTGCTGAAATTAAT
* *
45448386 TTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTCGT
1 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
* * *
45448451 ATATGGTTATACATTACTGAATTTAAT
66 ATATGATTATACATTGCTGAAATTAAT
* * ** * * * *
45448478 TTTTATATGATTATACATTGCCGAACTTG-ATTCGTATATGGTTATACGTTGCCAAATTGATTTG
1 TTGTATATGGTTATACATTGTTGAAATTGAATT-GTATATGGATATAAGTTGCCGAATTGATTTG
* *
45448542 TATATAAATATACATTGCTGAA
65 TATATGATTATACATTGCTGAA
45448564 TTTGGTTCGT
Statistics
Matches: 498, Mismatches: 47, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
91 3 0.01
92 495 0.99
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (92 bp):
TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
ATATGATTATACATTGCTGAAATTAAT
Found at i:45460930 original size:32 final size:31
Alignment explanation
Indices: 45460888--45460966 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 31
45460878 TATTTATTTT
**
45460888 ATATAATAAATTAATTTTAAATATTA-TTATAA
1 ATATAATAAATTAATTAAAAAT-TTACTTA-AA
* *
45460920 ATATTATAAATTACAATAAAAATTTACTTAAA
1 ATATAATAAATTA-ATTAAAAATTTACTTAAA
45460952 ATATAATAAATTAAT
1 ATATAATAAATTAAT
45460967 AATTTACATT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
31 1 0.03
32 29 0.74
33 9 0.23
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (31 bp):
ATATAATAAATTAATTAAAAATTTACTTAAA
Found at i:45461525 original size:99 final size:99
Alignment explanation
Indices: 45461354--45461753 Score: 730
Period size: 99 Copynumber: 4.0 Consensus size: 99
45461344 GTAAGGGAGT
45461354 TAGTGTGTTGGAGGTATTGTGTTTGAATCCCTGCGCGAGCGTGGATGTTATTTTTGCTCGGTTGT
1 TAGTGTGTTGGAGGTATTGTGTTTGAATCCCTGCGCGAGCGTGGATGTTATTTTTGCTCGGTTGT
45461419 GTGATAGAGTTTTGGTGTAGTTAGGATTCTGAGG
66 GTGATAGAGTTTTGGTGTAGTTAGGATTCTGAGG
45461453 TAGTGTGTTGGAGGTATTGTGTTTGAATCCCTGCGCGAGCGTGGATGTTATTTTTGCTCGGTTGT
1 TAGTGTGTTGGAGGTATTGTGTTTGAATCCCTGCGCGAGCGTGGATGTTATTTTTGCTCGGTTGT
45461518 GTGATAGAGTTTTGGTGTAGTTAGGATTCTGAGG
66 GTGATAGAGTTTTGGTGTAGTTAGGATTCTGAGG
45461552 TAGTGTGTTGGAGGTATTGTGTTTGAATCCCTGCGCGAGCGTGGATGTTATTTTTGCTCGGTTGT
1 TAGTGTGTTGGAGGTATTGTGTTTGAATCCCTGCGCGAGCGTGGATGTTATTTTTGCTCGGTTGT
45461617 GTGATAGAGTTTTGGTGTAGTTAGGATTCTGAGG
66 GTGATAGAGTTTTGGTGTAGTTAGGATTCTGAGG
* *
45461651 TAGTGTGTTGGAGGTATTGTGTTTGAATCCCTGCGCGAGCATGGAAGTTATTTTTGCTCGGTTGT
1 TAGTGTGTTGGAGGTATTGTGTTTGAATCCCTGCGCGAGCGTGGATGTTATTTTTGCTCGGTTGT
* * * *
45461716 GTGGTAGAGTTTCGATGGAGTT-GAGATTCTGAGG
66 GTGATAGAGTTTTGGTGTAGTTAG-GATTCTGAGG
45461750 TAGT
1 TAGT
45461754 TGAGGTTGAG
Statistics
Matches: 294, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
98 1 0.00
99 293 1.00
ACGTcount: A:0.16, C:0.09, G:0.35, T:0.40
Consensus pattern (99 bp):
TAGTGTGTTGGAGGTATTGTGTTTGAATCCCTGCGCGAGCGTGGATGTTATTTTTGCTCGGTTGT
GTGATAGAGTTTTGGTGTAGTTAGGATTCTGAGG
Found at i:45466497 original size:20 final size:21
Alignment explanation
Indices: 45466451--45466497 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
45466441 AAACAGACCT
*
45466451 AACCCAAAACAATAAAATTAC
1 AACCCAAAACAATAAAATTAA
*
45466472 AGCCCAAAA-AGA-AAAATTAA
1 AACCCAAAACA-ATAAAATTAA
45466492 AACCCA
1 AACCCA
45466498 GCCCAAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.62, C:0.23, G:0.04, T:0.11
Consensus pattern (21 bp):
AACCCAAAACAATAAAATTAA
Found at i:45467469 original size:9 final size:9
Alignment explanation
Indices: 45467457--45467536 Score: 54
Period size: 10 Copynumber: 8.4 Consensus size: 9
45467447 CTTTTTTAGC
45467457 ATTTTTATT
1 ATTTTTATT
45467466 ATTTTCTTCATT
1 A-TTT-TT-ATT
*
45467478 ATTTTTAAT
1 ATTTTTATT
*
45467487 A-TTTTATC
1 ATTTTTATT
45467495 ATCTTTTATT
1 AT-TTTTATT
* *
45467505 ATTATTGTT
1 ATTTTTATT
*
45467514 ATTATTAGTT
1 ATTTTTA-TT
*
45467524 ATTATTATT
1 ATTTTTATT
45467533 ATTT
1 ATTT
45467537 CTTCATCTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
8 6 0.11
9 20 0.35
10 22 0.39
11 5 0.09
12 4 0.07
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (9 bp):
ATTTTTATT
Found at i:45467477 original size:18 final size:18
Alignment explanation
Indices: 45467449--45467507 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 18
45467439 ATTTAACCCT
*
45467449 TTTTTAGCATTTTTATTA
1 TTTTTATCATTTTTATTA
45467467 TTTTCT-TCATTATTT-TTAA
1 TTTT-TATCATT-TTTATT-A
45467486 TATTTTATCATCTTTTATTA
1 T-TTTTATCAT-TTTTATTA
45467506 TT
1 TT
45467508 ATTGTTATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 13
0.70 0.02 0.28
Matches are distributed among these distances:
18 10 0.30
19 8 0.24
20 12 0.36
21 3 0.09
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTTTATCATTTTTATTA
Found at i:45467508 original size:3 final size:3
Alignment explanation
Indices: 45467461--45467535 Score: 55
Period size: 3 Copynumber: 24.7 Consensus size: 3
45467451 TTTAGCATTT
* * * * *
45467461 TTA TTA TT- TTC TTCA TTA TTT TTA ATA TT- TTA TCA TCTT TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
45467506 TTA TTG TTA TTA TTA GTTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
45467536 TCTTCATCTA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
2 4 0.07
3 46 0.82
4 6 0.11
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:45471204 original size:13 final size:13
Alignment explanation
Indices: 45471168--45471205 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
45471158 TTTGACCAAT
45471168 TGATTCTATTAAC
1 TGATTCTATTAAC
45471181 TGATT-TGATTAAC
1 TGATTCT-ATTAAC
45471194 TGATTCTATTAA
1 TGATTCTATTAA
45471206 TTGTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.04
13 21 0.91
14 1 0.04
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (13 bp):
TGATTCTATTAAC
Found at i:45478542 original size:8 final size:9
Alignment explanation
Indices: 45478519--45478543 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
45478509 TCAAATTCAC
45478519 TTAAAAATT
1 TTAAAAATT
45478528 TTAAAAATT
1 TTAAAAATT
45478537 TTAAAAA
1 TTAAAAA
45478544 ACTAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TTAAAAATT
Found at i:45478858 original size:20 final size:20
Alignment explanation
Indices: 45478802--45478861 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
45478792 TAAAAACATC
* * **
45478802 AAAAAAATTCATAAAAATGC
1 AAAAAAATCCATAAAATTTT
* *
45478822 AAAGAAATCCCTAAAATTTT
1 AAAAAAATCCATAAAATTTT
45478842 AAAAAAATCCATAAAATTTT
1 AAAAAAATCCATAAAATTTT
45478862 TAATTTTTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (20 bp):
AAAAAAATCCATAAAATTTT
Found at i:45478912 original size:17 final size:18
Alignment explanation
Indices: 45478881--45478914 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
45478871 TATAAAATTA
*
45478881 TAAAAGTTTCTAAAAACC
1 TAAAAGTTTCAAAAAACC
45478899 TAAAA-TTTCAAAAAAC
1 TAAAAGTTTCAAAAAAC
45478915 AAAACATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.26
Consensus pattern (18 bp):
TAAAAGTTTCAAAAAACC
Found at i:45478974 original size:20 final size:21
Alignment explanation
Indices: 45478922--45478976 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
45478912 AACAAAACAT
*
45478922 ATTTTTAAA-A-TTCTTTGAG
1 ATTTTTAAATATTTTTTTGAG
*
45478941 ATTTTT-TATAATTTTTTTG-G
1 ATTTTTAAAT-ATTTTTTTGAG
45478961 ATTTTTAAATATTTTT
1 ATTTTTAAATATTTTT
45478977 AAAATTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 1 0.03
19 6 0.21
20 14 0.48
21 8 0.28
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (21 bp):
ATTTTTAAATATTTTTTTGAG
Found at i:45478984 original size:18 final size:20
Alignment explanation
Indices: 45478963--45479000 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
45478953 TTTTTTGGAT
45478963 TTTTAAAT-A-TTTTTAAAA
1 TTTTAAATAATTTTTTAAAA
*
45478981 TTTTAAGTAATTTTTTAAAA
1 TTTTAAATAATTTTTTAAAA
45479001 AAATTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 1 0.06
20 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTTAAATAATTTTTTAAAA
Found at i:45483649 original size:23 final size:23
Alignment explanation
Indices: 45483553--45483651 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
45483543 ATAAGTGCCA
*
45483553 CACTAATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
45483576 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
45483599 CACTGATATGTAGCCGAAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
*
45483622 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
45483645 CACTGAT
1 CACTGAT
45483652 CAATAACACT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:45498158 original size:50 final size:50
Alignment explanation
Indices: 45498067--45498683 Score: 404
Period size: 50 Copynumber: 12.4 Consensus size: 50
45498057 ATGAAGTTAC
* * * ** * * *
45498067 CTTCCCTGACAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTG
1 CTTCCCTGACATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTG
* * *
45498117 CTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGC-AAGTCTTA
1 CTTCCCTGACATTGCAATTGAAAAGATTGAAGCCACAACGGCGAA-TCTTG
* * * * ** * *
45498167 CTTTCCTGGCGA-TGCAGTGGATCAGATTGAAGCTACAACAGCGAATCTTG
1 CTTCCCTGAC-ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTG
* * * * **
45498217 -TTCCCCGACATTGCAATTAAAAATATTGAAGCCACAACGGTGAATCTCA
1 CTTCCCTGACATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTG
* * * * ** * * ** *
45498266 CTTCCCTGGCAGTACAATGGAGCAGATTAAAGCTATGACGGTGAATCTTG
1 CTTCCCTGACATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTG
* * * * *
45498316 CTTCCCTGATATTGCAATTTAAAATATTGAAGCCGCAACGGTGAATCTTG
1 CTTCCCTGACATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTG
* * * * *
45498366 CTTCCCTAATATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTA
1 CTTCCCTGACATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTG
*** * * * * *
45498416 CTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTCA-AATGGCGAATCTTG
1 CTTCCCTGACATTGCAATTGAAAAGATTGAAGC-CACAACGGCGAATCTTG
* * * * *
45498466 -TTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTA
1 CTTCCCTGACATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTG
* * * * * ** * * *
45498515 CTTTCCTGGCGA-TGTAGTGGATCAGACTGAAGCTACAACTGCGAATCTTG
1 CTTCCCTGAC-ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTG
* * * *
45498565 -TTCCCTGACATTGCAATTAAAAAGATTAAAGCCACAACGGTGAATCTTA
1 CTTCCCTGACATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTG
* * * * * * * * *
45498614 CTTCCCTGGCAGTGCAGTGGAAAAGATTAAAGCTACGACTGCGAATCGTG
1 CTTCCCTGACATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTG
45498664 -TTCCCTGACATTGCAATTGA
1 CTTCCCTGACATTGCAATTGA
45498684 GACCGCAATG
Statistics
Matches: 419, Mismatches: 137, Indels: 23
0.72 0.24 0.04
Matches are distributed among these distances:
48 3 0.01
49 118 0.28
50 293 0.70
51 5 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (50 bp):
CTTCCCTGACATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTG
Found at i:45498412 original size:100 final size:99
Alignment explanation
Indices: 45498090--45498621 Score: 311
Period size: 99 Copynumber: 5.4 Consensus size: 99
45498080 GCAGTGGAGC
* * * * * * *
45498090 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGATATTGCAATTAAAAATATTGAAGCC-CAA
* * * * * ** **
45498155 CGG-CAAGTCTTACTTTCCTGGCGA-TGCAGTGGATC
65 CGGTGAA-TCTTGCTTCCCTGAC-ATTGCAATTAAAA
* * * * *
45498190 AGATTGAAGCTACAACAGCGAATCTT-GTTCCCCGACATTGCAATTAAAAATATTGAAGCCACAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGATATTGCAATTAAAAATATTGAAGCC-CAA
** * * * ** **
45498254 CGGTGAATCTCACTTCCCTGGCAGTACAATGGAGC
65 CGGTGAATCTTGCTTCCCTGACATTGCAATTAAAA
* * ** * * *
45498289 AGATTAAAGCTATGACGGTGAATCTTGCTTCCCTGATATTGCAATTTAAAATATTGAAGCCGCAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGATATTGCAATTAAAAATATTGAAGCC-CAA
* * *
45498354 CGGTGAATCTTGCTTCCCTAATATTGCAATTTAAA
65 CGGTGAATCTTGCTTCCCTGACATTGCAATTAAAA
* * * * ** * * * *
45498389 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTCAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGATATTGCAATTAAAAATATTGAAGC-CCAA
* * *
45498454 TGGCGAATCTTG-TTCCCCGACATTGCAATTAAAA
65 CGGTGAATCTTGCTTCCCTGACATTGCAATTAAAA
* * * ** * * ** ** * * *
45498488 AGATTGAAGCCGCAACGACGAATCTTACTTTCCTGGCGA-TGTAGTGGATCAGACTGAAGCTACA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCT-GATATTGCAATTAAAAATATTGAAGC-CCA
* *
45498552 ACTGCGAATCTTG-TTCCCTGACATTGCAATTAAAA
64 ACGGTGAATCTTGCTTCCCTGACATTGCAATTAAAA
* *
45498587 AGATTAAAGCCACAACGGTGAATCTTACTTCCCTG
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTG
45498622 GCAGTGCAGT
Statistics
Matches: 354, Mismatches: 73, Indels: 12
0.81 0.17 0.03
Matches are distributed among these distances:
98 2 0.01
99 211 0.60
100 140 0.40
101 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (99 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGATATTGCAATTAAAAATATTGAAGCCCAAC
GGTGAATCTTGCTTCCCTGACATTGCAATTAAAA
Found at i:45498498 original size:99 final size:98
Alignment explanation
Indices: 45498358--45498681 Score: 425
Period size: 99 Copynumber: 3.3 Consensus size: 98
45498348 CCGCAACGGT
* * *
45498358 GAATCTTGCTTCCCTAATATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCT
1 GAATCTTG-TTCCCTGACATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCT
* *
45498423 GGTGTTGCAGTGGAACAGATTAAAGCT-CAAATGGC
65 GGAG-TGCAGTGGAACAGATTAAAGCTACAACT-GC
* * *
45498458 GAATCTTGTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTACTTTCCTG
1 GAATCTTGTTCCCTGACATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTG
* * * * *
45498523 GCGATGTAGTGGATCAGACTGAAGCTACAACTGC
66 GAG-TGCAGTGGAACAGATTAAAGCTACAACTGC
* * *
45498557 GAATCTTGTTCCCTGACATTGCAATTAAAAAGATTAAAGCCACAACGGTGAATCTTACTTCCCTG
1 GAATCTTGTTCCCTGACATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTG
* *
45498622 GCAGTGCAGTGGAAAAGATTAAAGCTACGACTGC
66 G-AGTGCAGTGGAACAGATTAAAGCTACAACTGC
*
45498656 GAATCGTGTTCCCTGACATTGCAATT
1 GAATCTTGTTCCCTGACATTGCAATT
45498682 GAGACCGCAA
Statistics
Matches: 195, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
99 182 0.93
100 13 0.07
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (98 bp):
GAATCTTGTTCCCTGACATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTG
GAGTGCAGTGGAACAGATTAAAGCTACAACTGC
Found at i:45498563 original size:249 final size:247
Alignment explanation
Indices: 45498090--45498620 Score: 674
Period size: 249 Copynumber: 2.1 Consensus size: 247
45498080 GCAGTGGAGC
* * * **
45498090 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCTAACATTGCAATTAAAAAGATTGAAGCCACAA
* * *
45498155 CGGCAAGTCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCTACAACAGCGAATCTTGTTC
66 CGGCAAGTCTTACTTCCCTGGCGATGCAGTGGAACAGATTAAAGCTACAACAGCGAATCTTGTTC
* **
45498220 CCCGACATTGCAATTAAAAATATTGAAGCCACAACGGTGAATCTCACTTCCCTGGCAGTACAATG
131 CCCGACATTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTCACTTCCCTGGCAGTA-AATG
* ** * * *
45498285 GAGCAGATTAAAGCTATGACGGTGAATCTTGCTTCCCTGATATTGCAATTTAAA
195 GAGCAGACTAAAGCTACAACGGCGAATCTTG-TTCCCTGACATTGCAATTAAAA
* * * * * *
45498339 ATATTGAAGCCGCAACGGTGAATCTTGCTTCCCTAATATTGCAATTTAAAAGATTGAAGCCGCAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCTAACATTGCAATTAAAAAGATTGAAGCCACAA
* *
45498404 CGGCGAA-TCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCT-CAA-ATGGCGAATCTTG
66 CGGC-AAGTCTTACTTCCCTGGCGATGCAGTGGAACAGATTAAAGCTACAACA--GCGAATCTTG
* * *
45498466 TTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTACTTTCCTGGCGATGT-
128 TTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTCACTTCCCTGGC-A-GTA
* * * *
45498530 AGTGGATCAGACTGAAGCTACAACTGCGAATCTTGTTCCCTGACATTGCAATTAAAA
191 AATGGAGCAGACTAAAGCTACAACGGCGAATCTTGTTCCCTGACATTGCAATTAAAA
*
45498587 AGATTAAAGCCACAACGGTGAATCTTACTTCCCT
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCT
45498621 GGCAGTGCAG
Statistics
Matches: 241, Mismatches: 36, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
247 1 0.00
248 53 0.22
249 182 0.76
250 3 0.01
251 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (247 bp):
AGATTAAAGCCACAACGGTGAATCTTGCTTCCCTAACATTGCAATTAAAAAGATTGAAGCCACAA
CGGCAAGTCTTACTTCCCTGGCGATGCAGTGGAACAGATTAAAGCTACAACAGCGAATCTTGTTC
CCCGACATTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTCACTTCCCTGGCAGTAAATGG
AGCAGACTAAAGCTACAACGGCGAATCTTGTTCCCTGACATTGCAATTAAAA
Found at i:45498841 original size:44 final size:44
Alignment explanation
Indices: 45498787--45498899 Score: 208
Period size: 44 Copynumber: 2.6 Consensus size: 44
45498777 CATCCATTCT
*
45498787 TATCTCCTTGAAGTTGCAGTGGAGTAGACTGAAGCTACTAATCC
1 TATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGCTACTAATCC
45498831 TATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGCTACTAATCC
1 TATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGCTACTAATCC
*
45498875 TATCTCCCTGAAGTTGCAGTGGAGC
1 TATCTCCTTGAAGTTGCAGTGGAGC
45498900 GGATTAAAAC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 67 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGCTACTAATCC
Found at i:45501283 original size:15 final size:15
Alignment explanation
Indices: 45501260--45501294 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
45501250 CGAGTAATTT
*
45501260 TAAAATAACACAATA
1 TAAAGTAACACAATA
45501275 TAAAGTAACACAATA
1 TAAAGTAACACAATA
45501290 TAAAG
1 TAAAG
45501295 AGGGATCGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.63, C:0.11, G:0.06, T:0.20
Consensus pattern (15 bp):
TAAAGTAACACAATA
Found at i:45502219 original size:21 final size:23
Alignment explanation
Indices: 45502169--45502221 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
45502159 AACAATTTAA
45502169 TTTTTTTTT-CTTTTATGTTCTT
1 TTTTTTTTTCCTTTTATGTTCTT
**
45502191 TTAATTTTTCCTTTT-T-TTCTT
1 TTTTTTTTTCCTTTTATGTTCTT
45502212 TTTTTTTTTC
1 TTTTTTTTTC
45502222 ATTCTCTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 13 0.50
22 8 0.31
23 5 0.19
ACGTcount: A:0.06, C:0.11, G:0.02, T:0.81
Consensus pattern (23 bp):
TTTTTTTTTCCTTTTATGTTCTT
Found at i:45504997 original size:113 final size:113
Alignment explanation
Indices: 45504799--45505026 Score: 402
Period size: 113 Copynumber: 2.0 Consensus size: 113
45504789 CTTCAATCAT
* *
45504799 GGCACAACATACTGATAGTAATCATATATTGTATTAAAAACTGTAATATATGCTACCTAGACTCT
1 GGCACAACACACTGATAGTAATCATATATTGTATTAAAAACTGTAATAAATGCTACCTAGACTCT
45504864 TGTTTTACCGTAAATTACATGTTTCGGCATATATTAGGAATAGGTATG
66 TGTTTTACCGTAAATTACATGTTTCGGCATATATTAGGAATAGGTATG
* *
45504912 GGCACAACACACTGATAGTAATCATATATTGTATTAAGAACTGTAATAAATGCTACCTGGACTCT
1 GGCACAACACACTGATAGTAATCATATATTGTATTAAAAACTGTAATAAATGCTACCTAGACTCT
* *
45504977 TGTTTTACTGTAAATTACATGTTTCGGCATATATTTGGAATAGGTATG
66 TGTTTTACCGTAAATTACATGTTTCGGCATATATTAGGAATAGGTATG
45505025 GG
1 GG
45505027 GATATATTCT
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 109 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (113 bp):
GGCACAACACACTGATAGTAATCATATATTGTATTAAAAACTGTAATAAATGCTACCTAGACTCT
TGTTTTACCGTAAATTACATGTTTCGGCATATATTAGGAATAGGTATG
Found at i:45505635 original size:21 final size:21
Alignment explanation
Indices: 45505609--45505661 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
45505599 CGCTGTTTCT
*
45505609 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
45505630 AATCTCACCGCTATAGTAACT
1 AATCTCACCGCTACAGTAACC
45505651 AATCTCACCGC
1 AATCTCACCGC
45505662 CACCGCTGTT
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:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:45512638 original size:18 final size:19
Alignment explanation
Indices: 45512610--45512649 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
45512600 GTTCAAAACA
45512610 AGAGCTTAAGAAAATTGAG
1 AGAGCTTAAGAAAATTGAG
* *
45512629 AGAG-TTAAGAGACTTGAG
1 AGAGCTTAAGAAAATTGAG
45512647 AGA
1 AGA
45512650 AAAGAAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.45, C:0.05, G:0.30, T:0.20
Consensus pattern (19 bp):
AGAGCTTAAGAAAATTGAG
Found at i:45522680 original size:16 final size:16
Alignment explanation
Indices: 45522659--45522698 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
45522649 TAATTTGATG
*
45522659 ATTTTACTAACAATTA
1 ATTTTAATAACAATTA
*
45522675 ATTTTAATAATAATTA
1 ATTTTAATAACAATTA
*
45522691 GTTTTAAT
1 ATTTTAAT
45522699 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (16 bp):
ATTTTAATAACAATTA
Found at i:45522699 original size:22 final size:23
Alignment explanation
Indices: 45522672--45522733 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
45522662 TTACTAACAA
* *
45522672 TTAATTTTAATAATAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
*
45522694 TTAATTTTATTAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
45522717 TTAATTTTAATTAAAAA
1 TTAATTTTAA-TAAAAA
45522734 CGGGCCGGGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 15 0.44
23 13 0.38
24 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:45541779 original size:20 final size:20
Alignment explanation
Indices: 45541754--45541807 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
45541744 TGTGGTTCAA
*
45541754 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
45541774 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
45541794 CTCATTCAAGCTCA
1 CTCATTCGAGCTCA
45541808 GTTTAACTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.30
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:45545349 original size:20 final size:20
Alignment explanation
Indices: 45545324--45545378 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
45545314 TGTGGTTCAA
*
45545324 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
45545344 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
45545364 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
45545379 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:45545781 original size:45 final size:45
Alignment explanation
Indices: 45545717--45545904 Score: 313
Period size: 45 Copynumber: 4.2 Consensus size: 45
45545707 CCTGAAATTA
45545717 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
45545762 AGGAAGCATTTGGCCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
45545807 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTA
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* * * * *
45545852 AGGAAGCATTTGGCCAACATCATGCATAATTTAAGGAACAAATTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
45545897 AGGAAGCA
1 AGGAAGCA
45545905 CCATGGCCGA
Statistics
Matches: 134, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 134 1.00
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (45 bp):
AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
Found at i:45548817 original size:29 final size:29
Alignment explanation
Indices: 45548758--45548817 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
45548748 TATGGTTTAA
* *
45548758 TGTGCAATTGTATACATGAACTTTGATTT
1 TGTGCAATTGTATACATGAAATTTGAATT
* *
45548787 TGTGCAATTTTATACATGAAATTTTAATT
1 TGTGCAATTGTATACATGAAATTTGAATT
45548816 TG
1 TG
45548818 ATCCAATTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (29 bp):
TGTGCAATTGTATACATGAAATTTGAATT
Found at i:45549829 original size:29 final size:29
Alignment explanation
Indices: 45549770--45549829 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
45549760 TATGGTTTAA
* *
45549770 TGTGCAATTGTATACATGAACTTTGATTT
1 TGTGCAATTGTATACATGAAATTTGAATT
* *
45549799 TGTGCAATTTTATACATGAAATTTTAATT
1 TGTGCAATTGTATACATGAAATTTGAATT
45549828 TG
1 TG
45549830 ATCCAATTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (29 bp):
TGTGCAATTGTATACATGAAATTTGAATT
Found at i:45550628 original size:15 final size:15
Alignment explanation
Indices: 45550608--45550657 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
45550598 AATATTTTTT
45550608 AGTGACCAAAATGAA
1 AGTGACCAAAATGAA
45550623 AGTGACCTAAAAGTTG--
1 AGTGACC-AAAA--TGAA
*
45550639 AGTGATCAAAATGAA
1 AGTGACCAAAATGAA
45550654 AGTG
1 AGTG
45550658 TAAACATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
13 2 0.07
15 15 0.52
16 10 0.34
18 2 0.07
ACGTcount: A:0.46, C:0.10, G:0.24, T:0.20
Consensus pattern (15 bp):
AGTGACCAAAATGAA
Found at i:45551866 original size:13 final size:13
Alignment explanation
Indices: 45551844--45551873 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
45551834 AAAATTTGAA
*
45551844 TTTAATAAAATAT
1 TTTAAGAAAATAT
45551857 TTTAAGAAAATAT
1 TTTAAGAAAATAT
45551870 TTTA
1 TTTA
45551874 TAATTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
TTTAAGAAAATAT
Found at i:45557732 original size:39 final size:39
Alignment explanation
Indices: 45557678--45557755 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
45557668 TTCCAAAGCG
45557678 AACAAACTTTGTTATGAAGTGTCGAATACCCGATGCTTC
1 AACAAACTTTGTTATGAAGTGTCGAATACCCGATGCTTC
45557717 AACAAACTTTGTTATGAAGTGTCGAATACCCGATGCTTC
1 AACAAACTTTGTTATGAAGTGTCGAATACCCGATGCTTC
45557756 TTTCTAAGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (39 bp):
AACAAACTTTGTTATGAAGTGTCGAATACCCGATGCTTC
Found at i:45558308 original size:24 final size:25
Alignment explanation
Indices: 45558281--45558331 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
45558271 ACTGGTCATA
* *
45558281 GAGAAAATTGATGAG-GGATATTTG
1 GAGAAAATTGAGGAGAGAATATTTG
* *
45558305 GAGAGATTTGAGGAGAGAATATTTG
1 GAGAAAATTGAGGAGAGAATATTTG
45558330 GA
1 GA
45558332 TTTGGGGAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.37, C:0.00, G:0.35, T:0.27
Consensus pattern (25 bp):
GAGAAAATTGAGGAGAGAATATTTG
Found at i:45559062 original size:27 final size:27
Alignment explanation
Indices: 45558991--45559121 Score: 164
Period size: 26 Copynumber: 5.0 Consensus size: 27
45558981 ATATTTGGAT
* *
45558991 CGTAATACCCCTGTAGGATAAAAT-AC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
* *
45559017 CGTAATGTCCCTGTAGGGTAAAATGAT
1 CGTAATGCCCCTGTAGGGTAAAATGAC
* *
45559044 CGTAATGCCCTTGTCGGGTAAAATGAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
45559071 CGTAAT-CCCCTGTAGGGTAAAATGAC
1 CGTAATGCCCCTGTAGGGTAAAATGAC
45559097 CGTAATG-CCCTGGT-GGGT-AAATGAC
1 CGTAATGCCCCT-GTAGGGTAAAATGAC
45559122 TATTTTTTCC
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
25 7 0.08
26 53 0.58
27 32 0.35
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (27 bp):
CGTAATGCCCCTGTAGGGTAAAATGAC
Found at i:45559082 original size:53 final size:53
Alignment explanation
Indices: 45558988--45559121 Score: 175
Period size: 53 Copynumber: 2.5 Consensus size: 53
45558978 TCGATATTTG
* * * *
45558988 GATCGTAATACCCCTGTAGGATAAAAT-ACCGTAATGTCCCTGTAGGGTAAAAT
1 GATCGTAATGCCCTTGT-GGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAAT
45559041 GATCGTAATGCCCTTGTCGGGTAAAATGACCGTAAT-CCCCTGTAGGGTAAAAT
1 GATCGTAATGCCCTTGT-GGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAAT
* *
45559094 GACCGTAATGCCCTGGTGGGT-AAATGAC
1 GATCGTAATGCCCTTGTGGGTAAAATGAC
45559122 TATTTTTTCC
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
51 7 0.10
52 4 0.05
53 54 0.74
54 8 0.11
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (53 bp):
GATCGTAATGCCCTTGTGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAAT
Found at i:45559198 original size:24 final size:24
Alignment explanation
Indices: 45559142--45559224 Score: 89
Period size: 24 Copynumber: 3.5 Consensus size: 24
45559132 CTCGAGGTTA
* * * *
45559142 AATGATTGTTTTGTCTATG-GTTA
1 AATGACTGATTTGTCTATGATTTG
45559165 AATGACTGATTTGTCTATG-TTTGG
1 AATGACTGATTTGTCTATGATTT-G
* *
45559189 TATGACTGATTTGTCTGTGATTTG
1 AATGACTGATTTGTCTATGATTTG
45559213 AATGACTGATTT
1 AATGACTGATTT
45559225 TGAGCATGGC
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
23 19 0.37
24 29 0.57
25 3 0.06
ACGTcount: A:0.22, C:0.07, G:0.23, T:0.48
Consensus pattern (24 bp):
AATGACTGATTTGTCTATGATTTG
Found at i:45559374 original size:26 final size:26
Alignment explanation
Indices: 45559338--45559389 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
45559328 CTTGGCCACA
45559338 TATATTATTACTGGCAGCTTTGCTGC
1 TATATTATTACTGGCAGCTTTGCTGC
*
45559364 TATATTTTTACTGGCAGCTTTGCTGC
1 TATATTATTACTGGCAGCTTTGCTGC
45559390 GATGCTACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.44
Consensus pattern (26 bp):
TATATTATTACTGGCAGCTTTGCTGC
Found at i:45559514 original size:64 final size:63
Alignment explanation
Indices: 45559395--45559641 Score: 233
Period size: 64 Copynumber: 3.9 Consensus size: 63
45559385 GCTGCGATGC
* * * * * * *
45559395 TACTGATGGCTTTGTGCCGACCGTAGTACCATTACTGATGGATTTGTGTCGATCATAATACCGT
1 TACTGATGGCTGTGTGCCGATCATATTACCATTACTGATGGCTTTGTGCCGATCAT-TTACCGT
* * ** * * *
45559459 TACTGATGGTTTTGTGCCGATCATATTACCATTACCAATGGCTGTGTGCCAATCATTTCACTGT
1 TACTGATGGCTGTGTGCCGATCATATTACCATTACTGATGGCTTTGTGCCGATCATTT-ACCGT
* * ** * *
45559523 TACTGATGGCTGTGTGCTGATCATATCACTGTTACTGATGGCTTTGTGCTGATCATGTTACCAT
1 TACTGATGGCTGTGTGCCGATCATATTACCATTACTGATGGCTTTGTGCCGATCAT-TTACCGT
* * *** *
45559587 TACTGATGGTTGTGTGCCGATCATATCACTGCTACTGATGGCTTTGTGCCAATCA
1 TACTGATGGCTGTGTGCCGATCATATTACCATTACTGATGGCTTTGTGCCGATCA
45559642 CATTACTGTA
Statistics
Matches: 151, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
63 1 0.01
64 148 0.98
65 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (63 bp):
TACTGATGGCTGTGTGCCGATCATATTACCATTACTGATGGCTTTGTGCCGATCATTTACCGT
Found at i:45559569 original size:96 final size:95
Alignment explanation
Indices: 45559426--45559661 Score: 278
Period size: 96 Copynumber: 2.5 Consensus size: 95
45559416 CGTAGTACCA
* * *
45559426 TTACTGATGGATTTGTG-TCGATCATAATACCGTTACTGATGGTTTTGTGCCGATCATATTACCA
1 TTACTGATGGCTTTGTGCT-GATCAT-ATACTGTTACTGATGGCTTTGTGCCGATCATATTACCA
*
45559490 TTACCAATGGCTGTGTGCCAATCATTTCACTG
64 TTACCAATGGCTGTGTGCCAATCATATCACTG
* * *
45559522 TTACTGATGGCTGTGTGCTGATCATATCACTGTTACTGATGGCTTTGTGCTGATCATGTTACCAT
1 TTACTGATGGCTTTGTGCTGATCATAT-ACTGTTACTGATGGCTTTGTGCCGATCATATTACCAT
** * *
45559587 TACTGATGGTTGTGTGCCGATCATATCACTG
65 TACCAATGGCTGTGTGCCAATCATATCACTG
* ** * *
45559618 CTACTGATGGCTTTGTGCCAATCACATTACTG-TACTTATGGCTT
1 TTACTGATGGCTTTGTGCTGATCATA-TACTGTTACTGATGGCTT
45559662 GTAGCCATTC
Statistics
Matches: 120, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
95 13 0.11
96 105 0.88
97 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (95 bp):
TTACTGATGGCTTTGTGCTGATCATATACTGTTACTGATGGCTTTGTGCCGATCATATTACCATT
ACCAATGGCTGTGTGCCAATCATATCACTG
Found at i:45559623 original size:32 final size:33
Alignment explanation
Indices: 45559395--45559663 Score: 209
Period size: 32 Copynumber: 8.4 Consensus size: 33
45559385 GCTGCGATGC
* * **
45559395 TACTGATGGCTT-TGTGCCGACCGTAGT-ACCAT
1 TACTGATGGCTTGTGTGCCGATCATA-TCACTGT
* * *
45559427 TACTGATGGATT-TGTGTCGATCATAAT-ACCGT
1 TACTGATGGCTTGTGTGCCGATCAT-ATCACTGT
* * **
45559459 TACTGATGG-TTTTGTGCCGATCATATTACCAT
1 TACTGATGGCTTGTGTGCCGATCATATCACTGT
** * *
45559491 TACCAATGGC-TGTGTGCCAATCATTTCACTGT
1 TACTGATGGCTTGTGTGCCGATCATATCACTGT
*
45559523 TACTGATGGC-TGTGTGCTGATCATATCACTGT
1 TACTGATGGCTTGTGTGCCGATCATATCACTGT
* * * **
45559555 TACTGATGGCTT-TGTGCTGATCATGTTACCAT
1 TACTGATGGCTTGTGTGCCGATCATATCACTGT
*
45559587 TACTGATGG-TTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTTGTGTGCCGATCATATCACTGT
* * *
45559619 TACTGATGGCTT-TGTGCCAATCACATTACTG-
1 TACTGATGGCTTGTGTGCCGATCATATCACTGT
*
45559650 TACTTATGGCTTGT
1 TACTGATGGCTTGT
45559664 AGCCATTCTG
Statistics
Matches: 195, Mismatches: 34, Indels: 16
0.80 0.14 0.07
Matches are distributed among these distances:
31 17 0.09
32 174 0.89
33 4 0.02
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (33 bp):
TACTGATGGCTTGTGTGCCGATCATATCACTGT
Found at i:45559678 original size:22 final size:21
Alignment explanation
Indices: 45559653--45559714 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
45559643 ATTACTGTAC
45559653 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
* * *
45559675 TTATAGCTTATAGCTATCCTGT
1 TTATGGCTT-TAGCCATTCTGT
*
45559697 TTACGGCTCTTAGCCATT
1 TTATGGCT-TTAGCCATT
45559715 TTGACTATTG
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
22 30 0.97
23 1 0.03
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.44
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:45559741 original size:26 final size:26
Alignment explanation
Indices: 45559712--45559762 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
45559702 GCTCTTAGCC
* *
45559712 ATTTTGACTATTGACAGCTCTGCTGT
1 ATTTTGACTACTGACAGCTATGCTGT
* *
45559738 ATTTTTACTACTGGCAGCTATGCTG
1 ATTTTGACTACTGACAGCTATGCTG
45559763 CGATATTGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (26 bp):
ATTTTGACTACTGACAGCTATGCTGT
Found at i:45561640 original size:40 final size:40
Alignment explanation
Indices: 45561582--45561661 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
45561572 ACGTTATCAG
* *
45561582 AATACAGTCACTCTAAATCTATTGATCAAGTTGTTGTCGA
1 AATACAGTCACTCCAAATCTATTAATCAAGTTGTTGTCGA
* *
45561622 AATACGGTCACTCCAAATCTGTTAATCAAGTTGTTGTCGA
1 AATACAGTCACTCCAAATCTATTAATCAAGTTGTTGTCGA
45561662 TTGCCTTCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (40 bp):
AATACAGTCACTCCAAATCTATTAATCAAGTTGTTGTCGA
Found at i:45571092 original size:13 final size:13
Alignment explanation
Indices: 45571074--45571148 Score: 53
Period size: 14 Copynumber: 5.5 Consensus size: 13
45571064 TAACTTCTTA
45571074 AAAATATAATTTT
1 AAAATATAATTTT
*
45571087 AAAATATAAATATT
1 AAAATAT-AATTTT
* *
45571101 AATAT-TAATAATT
1 AAAATATAAT-TTT
*
45571114 AAAATTAAAATTATT
1 AAAA-TATAATT-TT
*
45571129 TAAATAATAATTTT
1 AAAAT-ATAATTTT
45571143 AAAATA
1 AAAATA
45571149 AAAATTGTGA
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
12 3 0.06
13 15 0.31
14 17 0.35
15 13 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAATATAATTTT
Found at i:45571112 original size:29 final size:28
Alignment explanation
Indices: 45571075--45571153 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
45571065 AACTTCTTAA
45571075 AAAT-ATAATTTTAAAATATAAATA-TT
1 AAATAATAATTTTAAAATATAAATATTT
45571101 AATATTAATAA--TTAAAAT-TAAAATTATTT
1 AA-A-TAATAATTTTAAAATAT-AAA-TATTT
*
45571130 AAATAATAATTTTAAAATAAAAAT
1 AAATAATAATTTTAAAATATAAAT
45571154 TGTGATAGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 16
0.72 0.02 0.27
Matches are distributed among these distances:
26 3 0.07
27 17 0.40
28 5 0.12
29 18 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
AAATAATAATTTTAAAATATAAATATTT
Found at i:45572912 original size:20 final size:18
Alignment explanation
Indices: 45572865--45572963 Score: 60
Period size: 19 Copynumber: 5.3 Consensus size: 18
45572855 CAAGATAAAC
45572865 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
45572882 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
45572902 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
* *
45572921 ATTAAAATAAGTATTAAAT
1 ATTAAATTAA-TATTTAAT
* *
45572940 -TTAATTTAATATTAAACT
1 ATTAAATTAATATTTAA-T
45572958 ATTAAA
1 ATTAAA
45572964 ACAATATTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
17 15 0.24
18 9 0.15
19 21 0.34
20 17 0.27
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:45572950 original size:37 final size:36
Alignment explanation
Indices: 45572903--45572972 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
45572893 CACTTTAATA
*
45572903 TTAAATTAATA-AAATACTATTAAAATAAGTATTAAAT
1 TTAAATTAATATAAA-ACTATTAAAACAA-TATTAAAT
* *
45572940 TTAATTTAATATTAAACTATTAAAACAATATTA
1 TTAAATTAATATAAAACTATTAAAACAATATTA
45572973 TTTTTGGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 5 0.17
37 22 0.76
38 2 0.07
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (36 bp):
TTAAATTAATATAAAACTATTAAAACAATATTAAAT
Found at i:45573420 original size:19 final size:19
Alignment explanation
Indices: 45573382--45573421 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
45573372 AAAATATCAT
*
45573382 ATTAATTTAAATTGAGTTG
1 ATTAATTTAAATTGACTTG
* *
45573401 ATTAATTTAATTTTACTTG
1 ATTAATTTAAATTGACTTG
45573420 AT
1 AT
45573422 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.53
Consensus pattern (19 bp):
ATTAATTTAAATTGACTTG
Found at i:45576745 original size:43 final size:43
Alignment explanation
Indices: 45576677--45576834 Score: 226
Period size: 43 Copynumber: 3.7 Consensus size: 43
45576667 CACTGTTGTC
* *
45576677 AACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCCAAA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAA
* * *
45576720 AACGCCACTATAGATCAAGATCTTTACCGGCGCTTTTCCCAAA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAA
* * *
45576763 AACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTTCCACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAA
* *
45576806 AACGCCGCTATAGGTCAAGGCCTTTAGCG
1 AACGCCGCTATAGATCAAGACCTTTAGCG
45576835 ACTCTTTTTT
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (43 bp):
AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAA
Found at i:45576860 original size:86 final size:86
Alignment explanation
Indices: 45576677--45576900 Score: 207
Period size: 86 Copynumber: 2.6 Consensus size: 86
45576667 CACTGTTGTC
* * *
45576677 AACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCCAAAAACGCCACTATAGATCAAGATC
1 AACGCCACTATAGATCAAGACCTTTAGCAGCGCTTTTCCCAAAAACGCCACTATAGATCAAGACC
*
45576742 TTTACCGGCGCTTTTCCCAAA
66 TTTACCGACGCTTTTCCCAAA
* * * * * * * *
45576763 AACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGGTCAAGGCC
1 AACGCCACTATAGATCAAGACCTTTAGCAGCGCTTTTCCCAAAAACGCCACTATAGATCAAGACC
* * *** *
45576828 TTTAGCGACTCTTTTTTTACA
66 TTTACCGACGCTTTTCCCAAA
** * * * * * *
45576849 ATTGCCACTATATACCAA-AGCTTTAGCAACGCTTCTCGCAAAAACGCCACTA
1 AACGCCACTATAGATCAAGACCTTTAGCAGCGCTTTTCCCAAAAACGCCACTA
45576901 AAAACATTAA
Statistics
Matches: 108, Mismatches: 30, Indels: 1
0.78 0.22 0.01
Matches are distributed among these distances:
85 26 0.24
86 82 0.76
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (86 bp):
AACGCCACTATAGATCAAGACCTTTAGCAGCGCTTTTCCCAAAAACGCCACTATAGATCAAGACC
TTTACCGACGCTTTTCCCAAA
Done.