Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 211 of 218
Found at i:62734474 original size:24 final size:24
Alignment explanation
Indices: 62734392--62734476 Score: 86
Period size: 23 Copynumber: 3.5 Consensus size: 24
62734382 TAGTCGCTCT
* *
62734392 TATATACATATA-TTTCCTTTATA
1 TATATACATATATTTTTCTATATA
62734415 TATATACATATATTTTTCTATATA
1 TATATACATATATTTTTCTATATA
*
62734439 T-T-TACATGCATACTTTTTGTACTATA
1 TATATACAT--ATA-TTTTTCTA-TATA
62734465 TATATACATATA
1 TATATACATATA
62734477 CATTTATTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
22 5 0.10
23 13 0.25
24 13 0.25
25 7 0.13
26 8 0.15
27 1 0.02
28 5 0.10
ACGTcount: A:0.35, C:0.12, G:0.02, T:0.51
Consensus pattern (24 bp):
TATATACATATATTTTTCTATATA
Found at i:62734609 original size:13 final size:12
Alignment explanation
Indices: 62734572--62734638 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 12
62734562 TCTTTTTACA
62734572 TATATATATTTT
1 TATATATATTTT
*
62734584 TAT-TACTTTTTTT
1 TATATA--TATTTT
62734597 TATATATAGTTTT
1 TATATATA-TTTT
62734610 TATATATACTTATT
1 TATATATA-TT-TT
* *
62734624 TACATATTTTTT
1 TATATATATTTT
62734636 TAT
1 TAT
62734639 TTATTTATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
11 2 0.05
12 8 0.18
13 24 0.55
14 10 0.23
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (12 bp):
TATATATATTTT
Found at i:62734619 original size:29 final size:29
Alignment explanation
Indices: 62734544--62734630 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 29
62734534 TTCTAACTTT
*
62734544 TATATA-TATATATATACGTCTTTTTACATA
1 TATATATTTTATATATAC-T-TTTTTACATA
**
62734574 TATATATTTT-TAT-TACTTTTTTTTATA
1 TATATATTTTATATATACTTTTTTACATA
*
62734601 TATAGT-TTTTATATATACTTATTTACATA
1 TATA-TATTTTATATATACTTTTTTACATA
62734630 T
1 T
62734631 TTTTTTATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
27 16 0.34
28 5 0.11
29 15 0.32
30 9 0.19
31 2 0.04
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (29 bp):
TATATATTTTATATATACTTTTTTACATA
Found at i:62743518 original size:6 final size:6
Alignment explanation
Indices: 62743504--62743537 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
62743494 TAAAACAATG
*
62743504 ATAATA ATAACA ATAACA ATAACA ATAACA ATAA
1 ATAACA ATAACA ATAACA ATAACA ATAACA ATAA
62743538 ATAATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.21
Consensus pattern (6 bp):
ATAACA
Found at i:62743639 original size:17 final size:15
Alignment explanation
Indices: 62743617--62743667 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 15
62743607 TAATAACAAT
62743617 AATAAAAGATAAAGTAA
1 AATAAAA-ATAAA-TAA
*
62743634 AATAAAAATAAACAA
1 AATAAAAATAAATAA
62743649 ATATAAAAAATAAATAA
1 A-AT-AAAAATAAATAA
62743666 AA
1 AA
62743668 AGAATGCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 3 0.10
16 8 0.27
17 19 0.63
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (15 bp):
AATAAAAATAAATAA
Found at i:62747192 original size:31 final size:31
Alignment explanation
Indices: 62747157--62747233 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
62747147 AAAAGAATTT
* ***
62747157 AATAGTCTAATGACTTCAATAAAAACTTTTG
1 AATAGTCTAATGACTTAAATAAAAACCACTG
*
62747188 AATAGTTCT-ATGACTTAAATGAAAACCACTG
1 AATAG-TCTAATGACTTAAATAAAAACCACTG
*
62747219 AATAGTTTAATGACT
1 AATAGTCTAATGACT
62747234 ATTTTGTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
30 2 0.05
31 33 0.87
32 3 0.08
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.34
Consensus pattern (31 bp):
AATAGTCTAATGACTTAAATAAAAACCACTG
Found at i:62748037 original size:19 final size:19
Alignment explanation
Indices: 62748013--62748052 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
62748003 AATGCCCAAA
*
62748013 AATCTTACGTTATAATTTT
1 AATCTTACATTATAATTTT
* *
62748032 AATCTTATATTATTATTTT
1 AATCTTACATTATAATTTT
62748051 AA
1 AA
62748053 AATTAACTCT
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:0.07, G:0.03, T:0.55
Consensus pattern (19 bp):
AATCTTACATTATAATTTT
Found at i:62748360 original size:22 final size:22
Alignment explanation
Indices: 62748320--62748383 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
62748310 ATAAACTATT
62748320 AATATTCCTCCACTAATACATA
1 AATATTCCTCCACTAATACATA
*
62748342 ATATATTCC-CCCCTAATACATA
1 A-ATATTCCTCCACTAATACATA
62748364 AACTATTCCTCCACTAATAC
1 AA-TATTCCTCCACTAATAC
62748384 TTACCGATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
21 1 0.03
22 20 0.54
23 16 0.43
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (22 bp):
AATATTCCTCCACTAATACATA
Found at i:62750346 original size:20 final size:20
Alignment explanation
Indices: 62750326--62750365 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
62750316 GCTTTTTTTA
62750326 TAAAAATTATTTTATAATTAT
1 TAAAAA-TATTTTATAATTAT
* *
62750347 TATAAATATTTTATTATTA
1 TAAAAATATTTTATAATTA
62750366 AGTGGATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAAAAATATTTTATAATTAT
Found at i:62753756 original size:18 final size:19
Alignment explanation
Indices: 62753713--62753758 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
62753703 TAACCAAATA
*
62753713 AAAATAAAAATATTTAATT
1 AAAATAAAAATATGTAATT
**
62753732 AGCATAAAAAT-TGTAATT
1 AAAATAAAAATATGTAATT
62753750 AAAATAAAA
1 AAAATAAAA
62753759 TAAAAAGGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (19 bp):
AAAATAAAAATATGTAATT
Found at i:62760319 original size:22 final size:22
Alignment explanation
Indices: 62760289--62760331 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
62760279 CATTTTTATT
*
62760289 TTATTTTATTTATTATTATTTC
1 TTATATTATTTATTATTATTTC
*
62760311 TTATATTATTTATTTTTATTT
1 TTATATTATTTATTATTATTT
62760332 TACTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (22 bp):
TTATATTATTTATTATTATTTC
Found at i:62760347 original size:42 final size:41
Alignment explanation
Indices: 62760280--62760361 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
62760270 TAATCACCCC
* ** *
62760280 ATTTTTATTTTATTTTATTTATTATTATTTCTTATATTATTT
1 ATTTTTATTTTACTAAATTTATTATTATTTATT-TATTATTT
* *
62760322 ATTTTTATTTTACTAAATTTTTTATTTTTTATTTATTATT
1 ATTTTTATTTTACTAAATTTATTATTATTTATTTATTATT
62760362 CTTATACTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 7 0.21
42 27 0.79
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (41 bp):
ATTTTTATTTTACTAAATTTATTATTATTTATTTATTATTT
Found at i:62760468 original size:3 final size:3
Alignment explanation
Indices: 62760460--62760494 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
62760450 ATCATTAAGT
62760460 TTA TTA TTA TTA TTA TTA TTA TTA TTCA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TT
62760495 TTTTATCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:62760474 original size:18 final size:18
Alignment explanation
Indices: 62760436--62760485 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
62760426 ACAATTACCT
** *
62760436 TTAAGTTTATTGGTATCA
1 TTAAGTTTATTATTATTA
62760454 TTAAGTTTATTATTATTA
1 TTAAGTTTATTATTATTA
62760472 TT-A--TTATTATTATT
1 TTAAGTTTATTATTATT
62760486 CATTTTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 11 0.38
17 1 0.03
18 17 0.59
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.60
Consensus pattern (18 bp):
TTAAGTTTATTATTATTA
Found at i:62765074 original size:26 final size:26
Alignment explanation
Indices: 62765010--62765075 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 26
62765000 TTAATAACTT
* * *
62765010 TATTTTATATAAATAAAATTAACATAAA
1 TATTTT-TAT-AATAAAAATAAAAAAAA
62765038 T-TTTTTA-AATAAAAATAAAAAAAA
1 TATTTTTATAATAAAAATAAAAAAAA
62765062 TATTTTTATAATAA
1 TATTTTTATAATAA
62765076 TGTCAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 15 0.45
25 6 0.18
26 7 0.21
27 4 0.12
28 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (26 bp):
TATTTTTATAATAAAAATAAAAAAAA
Found at i:62766878 original size:22 final size:22
Alignment explanation
Indices: 62766851--62766899 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
62766841 ATAATATTTT
62766851 GTAATTTTATAATAATTTGGAA
1 GTAATTTTATAATAATTTGGAA
62766873 GTAATTTTATAATAATTTGGAA
1 GTAATTTTATAATAATTTGGAA
62766895 G-AATT
1 GTAATT
62766900 GAATTGCGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (22 bp):
GTAATTTTATAATAATTTGGAA
Found at i:62766968 original size:3 final size:3
Alignment explanation
Indices: 62766960--62766997 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
62766950 TTCTTCACAT
62766960 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
62766998 TGTTCAGCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:62772489 original size:19 final size:15
Alignment explanation
Indices: 62772452--62772483 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
62772442 AAAGATTTCT
62772452 ATCCATCCACATTTA
1 ATCCATCCACATTTA
62772467 ATCCATCCACATTTA
1 ATCCATCCACATTTA
62772482 AT
1 AT
62772484 TGATCCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (15 bp):
ATCCATCCACATTTA
Found at i:62775220 original size:31 final size:31
Alignment explanation
Indices: 62775185--62775258 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
62775175 CCTCTTTTTT
* *
62775185 TTAAAAAAAAAGAACTTAATAGTTCAATGAC
1 TTAAAAAAAAACAACTAAATAGTTCAATGAC
* ** *
62775216 TTAAACAAAAACTTCTAAATAGTTTAATGAC
1 TTAAAAAAAAACAACTAAATAGTTCAATGAC
*
62775247 TTAAAAGAAAAC
1 TTAAAAAAAAAC
62775259 TATTGAATAG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.54, C:0.11, G:0.08, T:0.27
Consensus pattern (31 bp):
TTAAAAAAAAACAACTAAATAGTTCAATGAC
Found at i:62775259 original size:31 final size:31
Alignment explanation
Indices: 62775202--62775274 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
62775192 AAAAGAACTT
*
62775202 AATAGTTCAATGACTTAAACAAAAACT-TCTA
1 AATAGTTTAATGACTTAAACAAAAACTAT-TA
*
62775233 AATAGTTTAATGACTTAAA-AGAAAACTATTG
1 AATAGTTTAATGACTTAAACA-AAAACTATTA
62775264 AATAGTTTAAT
1 AATAGTTTAAT
62775275 AACTATAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 1 0.03
31 36 0.95
32 1 0.03
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (31 bp):
AATAGTTTAATGACTTAAACAAAAACTATTA
Found at i:62776756 original size:19 final size:19
Alignment explanation
Indices: 62776718--62776758 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
62776708 TATTTTAATG
**
62776718 TTATTATCATTTATTATTA
1 TTATTATCATCAATTATTA
*
62776737 TTATTATCATCAATTTTTA
1 TTATTATCATCAATTATTA
62776756 TTA
1 TTA
62776759 GTTTTATTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTATCATCAATTATTA
Found at i:62778001 original size:215 final size:213
Alignment explanation
Indices: 62777573--62778100 Score: 790
Period size: 215 Copynumber: 2.5 Consensus size: 213
62777563 AAAAATAATA
*
62777573 AAGGCAATGTTTTGCATTTGGAAATTCGAGACAACGTGCCCTAATGTGCTGGGTTTCGATTTTTT
1 AAGGCAATGTTTTGCGTTTGG-AATTCGAGA-AACGTGCCCTAATGTGCTGGGTTTCGA-TTTTT
*
62777638 TCGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGTAAGGTAATATTTTGAGTTTGGA
63 TCGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGTAAGGTAATATTTTGAGCTTGGA
* *
62777703 GATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTTCGTTCGACCAAATAGCTAAAT
128 GATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCAAAT
* *
62777768 ATCCTTTTAAATTTTCAAAGT
193 ATCCTTTTAAAATTTCAAAAT
* * *
62777789 AAGGTAATATTTTGCGTTTGGAGATTTGAGAAACGTGCCCTAATGTGCTGGGTTTCGACTTTTTT
1 AAGGCAATGTTTTGCGTTTGGA-ATTCGAGAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTTTT
* *
62777854 CGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGTAAGGTAATGTTTTGCGCTTGGAG
64 CGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGTAAGGTAATATTTTGAGCTTGGAG
* * * *
62777919 ATTTGAGAAAATGTGCCCTAATGTGTTGGGTTTCGA-TTTTCTCGTTTGACCAAATATCCAAATA
129 ATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCAAATA
62777983 TCCTTTTAATAATTTCAAAAT
194 TCCTTTTAA-AATTTCAAAAT
*
62778004 AAGGCAATGTTTTGCGTTTGGAACTTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTCT
1 AAGGCAATGTTTTGCGTTTGGAA-TTCGAG-AAACGTGCCCTAATGTGCTGGGTTTCGATTTTTT
* * * *
62778068 CGTTGGACCAAATAGCCAAATATACTCTTAAAT
64 CGTTCGACCAAATAGCTAAATATCCTTTTAAAT
62778101 CTTAATCCAT
Statistics
Matches: 284, Mismatches: 24, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
214 67 0.24
215 164 0.58
216 53 0.19
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (213 bp):
AAGGCAATGTTTTGCGTTTGGAATTCGAGAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCG
TTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGTAAGGTAATATTTTGAGCTTGGAGAT
TTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCAAATATC
CTTTTAAAATTTCAAAAT
Found at i:62778124 original size:108 final size:107
Alignment explanation
Indices: 62777573--62778100 Score: 774
Period size: 108 Copynumber: 4.9 Consensus size: 107
62777563 AAAAATAATA
* * * * *
62777573 AAGGCAATGTTTTGCATTTGGAAATTCGAGACAACGTGCCCTAATGTGCTGGGTTTCGATTTTTT
1 AAGGTAATGTTTTGCGTTTGGAGATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTTT
62777638 TCGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGT
65 TCGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGT
* *
62777681 AAGGTAATATTTTGAGTTTGGAGATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTT
1 AAGGTAATGTTTTGCGTTTGGAGATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTTT
62777746 TCGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGT
65 TCGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGT
*
62777789 AAGGTAATATTTTGCGTTTGGAGATTTGAG-AAACGTGCCCTAATGTGCTGGGTTTCGACTTTTT
1 AAGGTAATGTTTTGCGTTTGGAGATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTTT
62777853 TCGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGT
65 TCGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGT
* * * *
62777896 AAGGTAATGTTTTGCGCTTGGAGATTTGAGAAAATGTGCCCTAATGTGTTGGGTTTCGATTTTCT
1 AAGGTAATGTTTTGCGTTTGGAGATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTT
* * * * *
62777961 CGTTTGACCAAATATCCAAATATCCTTTTAATAATTTCAAAAT
66 CGTTCGACCAAATAGCTAAATATCCTTTTAA-ATTTTCAAAGT
* * *
62778004 AAGGCAATGTTTTGCGTTTGGA-ACTTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTC
1 AAGGTAATGTTTTGCGTTTGGAGA-TTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
* * * *
62778067 TCGTTGGACCAAATAGCCAAATATACTCTTAAAT
65 TCGTTCGACCAAATAGCTAAATATCCTTTTAAAT
62778101 CTTAATCCAT
Statistics
Matches: 388, Mismatches: 29, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
106 1 0.00
107 170 0.44
108 217 0.56
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (107 bp):
AAGGTAATGTTTTGCGTTTGGAGATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTT
CGTTCGACCAAATAGCTAAATATCCTTTTAAATTTTCAAAGT
Found at i:62778627 original size:3 final size:3
Alignment explanation
Indices: 62778619--62778656 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
62778609 TTCTTCACAT
*
62778619 TAA TAA TAA TAA TAA TAA TAA TAA TCA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
62778657 TGTTCAGCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:62790354 original size:31 final size:31
Alignment explanation
Indices: 62790319--62790379 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
62790309 TTTTTTTTTA
62790319 AAAAAGAACTT-AATAGTTCAATGACTTAAAC
1 AAAAA-AACTTAAATAGTTCAATGACTTAAAC
** *
62790350 AAAAAATTTTAAATAGTTTAATGACTTAAA
1 AAAAAAACTTAAATAGTTCAATGACTTAAA
62790380 TGAAAACTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.31
Consensus pattern (31 bp):
AAAAAAACTTAAATAGTTCAATGACTTAAAC
Found at i:62792194 original size:31 final size:30
Alignment explanation
Indices: 62792136--62792198 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
62792126 CTTTAGAGTT
*
62792136 TTGTATAAATTTTATTTAAACATAAAAAATA
1 TTGTATAAATTTAATTTAAAC-TAAAAAATA
*
62792167 TTGTATAAATTTCAATTTTAA-TAAAAAATA
1 TTGTATAAATTT-AATTTAAACTAAAAAATA
62792197 TT
1 TT
62792199 ATTAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 11 0.38
31 12 0.41
32 6 0.21
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (30 bp):
TTGTATAAATTTAATTTAAACTAAAAAATA
Found at i:62792229 original size:21 final size:19
Alignment explanation
Indices: 62792186--62792238 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 19
62792176 TTTCAATTTT
*
62792186 AATAAAAAATATTATTAAA
1 AATAATAAATATTATTAAA
* *
62792205 AATATTAAATATTAAATTAAG
1 AATAATAAATATT--ATTAAA
*
62792226 AATAATATATATT
1 AATAATAAATATT
62792239 TAAAAATTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 11 0.41
21 16 0.59
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATAAATATTATTAAA
Found at i:62795151 original size:27 final size:27
Alignment explanation
Indices: 62795112--62795171 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
62795102 CTTAGTGTCT
62795112 TGAAGAAAGTTCTCTCTCCTTCTAACGA
1 TGAA-AAAGTTCTCTCTCCTTCTAACGA
62795140 TGAAAAAGTTCTCTCTCCTTCTAACGA
1 TGAAAAAGTTCTCTCTCCTTCTAACGA
62795167 TGAAA
1 TGAAA
62795172 GAGAGAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (27 bp):
TGAAAAAGTTCTCTCTCCTTCTAACGA
Found at i:62797306 original size:34 final size:35
Alignment explanation
Indices: 62797263--62797334 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 35
62797253 ATAGAGTTAG
62797263 AGATTGATATAATATTGATAAAATAACAGAATA-A
1 AGATTGATATAATATTGATAAAATAACAGAATAGA
*
62797297 AGATTGATATAATATTGATAAAATAACATAATAGA
1 AGATTGATATAATATTGATAAAATAACAGAATAGA
62797332 AGA
1 AGA
62797335 ATATATCTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 32 0.89
35 4 0.11
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (35 bp):
AGATTGATATAATATTGATAAAATAACAGAATAGA
Found at i:62804734 original size:33 final size:34
Alignment explanation
Indices: 62804681--62804748 Score: 129
Period size: 33 Copynumber: 2.0 Consensus size: 34
62804671 TTAATTTTTT
62804681 ATTTTTATAACCCTTTAATAATTTATTTAATAAA
1 ATTTTTATAACCCTTTAATAATTTATTTAATAAA
62804715 ATTTTTATAA-CCTTTAATAATTTATTTAATAAA
1 ATTTTTATAACCCTTTAATAATTTATTTAATAAA
62804748 A
1 A
62804749 AAACGAGTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 24 0.71
34 10 0.29
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (34 bp):
ATTTTTATAACCCTTTAATAATTTATTTAATAAA
Found at i:62810080 original size:14 final size:15
Alignment explanation
Indices: 62810041--62810082 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
62810031 TGTAAACATA
*
62810041 ATTATTATTAAATAT
1 ATTATAATTAAATAT
62810056 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
62810070 A-TATAATTTAATA
1 ATTATAATTAAATA
62810083 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:62810132 original size:61 final size:61
Alignment explanation
Indices: 62810067--62810374 Score: 250
Period size: 61 Copynumber: 5.1 Consensus size: 61
62810057 TTATAATTAA
*
62810067 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * *
62810128 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTACAATTAA
1 AATATATAAT-TTAATAAAATTATTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
62810187 AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * *
62810248 AATATATGAGA-CT-ATAAAATATAATTTAA-CAT-AATAATTATTAAAT--ATATTA-T--AAT
1 AATATAT-A-ATTTAATAAAAT-T-A-TTAATAATCAAT-ATTCTTATATGAAT-TTACTCAAAT
* *
62810304 TAA
59 CAT
* *
62810307 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
62810368 AATATAT
1 AATATAT
62810375 GATACTATAA
Statistics
Matches: 189, Mismatches: 32, Indels: 52
0.69 0.12 0.19
Matches are distributed among these distances:
56 4 0.02
57 11 0.06
58 12 0.06
59 51 0.27
60 25 0.13
61 58 0.31
62 12 0.06
63 12 0.06
64 4 0.02
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:62810185 original size:120 final size:120
Alignment explanation
Indices: 62810035--62810447 Score: 711
Period size: 120 Copynumber: 3.4 Consensus size: 120
62810025 ATCATATGTA
62810035 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
62810100 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT
* *
62810155 AACATAATTATTATTAAATATATTACAATTAAAATATATAATTTAATAAAATTATTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
62810220 TATTCTTATATGAATTTACTCAAATCATAATATATGAGACTATAAAATATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT
* *
62810275 AACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
62810340 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT
* * **
62810395 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGGTTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
62810448 TAAAATAATT
Statistics
Matches: 277, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
120 275 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT
Found at i:62810517 original size:26 final size:28
Alignment explanation
Indices: 62810488--62810548 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
62810478 TATGAATTTG
*
62810488 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
62810514 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
62810542 TAAAATT
1 TATAATT
62810549 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:62810558 original size:91 final size:91
Alignment explanation
Indices: 62810463--62810675 Score: 363
Period size: 91 Copynumber: 2.3 Consensus size: 91
62810453 TAATTATAAC
* * * * *
62810463 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
62810528 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
*
62810554 TAATAAATTTTCTTATATAAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
62810619 GATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
62810645 TAATAAATTTTCTTATATGAATTTATACAAT
1 TAATAAATTTTCTTATATGAATTTATACAAT
62810676 AGATATTTAA
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 114 1.00
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTGA
Found at i:62810630 original size:44 final size:43
Alignment explanation
Indices: 62810488--62810630 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
62810478 TATGAATTTG
* *
62810488 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
62810532 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATAAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
62810579 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
62810623 TATAATTT
1 TATAATTT
62810631 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:62813924 original size:16 final size:16
Alignment explanation
Indices: 62813900--62813964 Score: 96
Period size: 16 Copynumber: 4.1 Consensus size: 16
62813890 TTCGCTGTAT
62813900 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
62813916 TGGATTAGAGGCGTAA
1 TGGAATAGAGGCGTAA
62813932 T-GAATTAGAGGCGTAA
1 TGGAA-TAGAGGCGTAA
*
62813948 TGGAATAGAGACGTAA
1 TGGAATAGAGGCGTAA
62813964 T
1 T
62813965 AGCAAATCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
15 2 0.05
16 39 0.89
17 3 0.07
ACGTcount: A:0.37, C:0.06, G:0.34, T:0.23
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:62814008 original size:45 final size:44
Alignment explanation
Indices: 62813944--62814033 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
62813934 AATTAGAGGC
62813944 GTAATGGAATAGAGACGTAATAGCAAATCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGACGTAATAG-AAATC-ATGTGTTTGGTTGAAT
* * *
62813989 GTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGACGTAATAGAAATCATGTGTTTGGTTGAAT
62814033 G
1 G
62814034 GAATAGAGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.44
45 22 0.54
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (44 bp):
GTAATGGAATAGAGACGTAATAGAAATCATGTGTTTGGTTGAAT
Found at i:62814215 original size:16 final size:16
Alignment explanation
Indices: 62814178--62814219 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
62814168 TTAATCATAT
*
62814178 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
62814194 TT-AAATATATTATAA
1 TTAAAATATATTATAA
62814209 TTAAAATATAT
1 TTAAAATATAT
62814220 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:62814226 original size:14 final size:15
Alignment explanation
Indices: 62814187--62814228 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
62814177 TTTAAACATA
*
62814187 ATTATTATTAAATAT
1 ATTATAATTAAATAT
62814202 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
62814216 A-TATAATTTAATA
1 ATTATAATTAAATA
62814229 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:62814326 original size:120 final size:120
Alignment explanation
Indices: 62814181--62814542 Score: 609
Period size: 120 Copynumber: 3.0 Consensus size: 120
62814171 ATCATATTTA
62814181 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
62814246 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
62814301 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
62814366 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * *
62814421 AACATAATTATTATTAAATATAATT-TAATAAAAATATATAATTTAATAAAATTCTTAATATTAA
1 AACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
* * * * * *
62814485 ATATTCTTATATGAAATTAATAAAATCATAATATATAATACTATATAATATAGATT
65 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
62814541 AA
1 AA
62814543 TAATGTAGAT
Statistics
Matches: 228, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
120 225 0.99
121 3 0.01
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:62814346 original size:14 final size:15
Alignment explanation
Indices: 62814297--62814348 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
62814287 ATAAAATATA
62814297 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
62814312 TATTAAATATATTAT
1 AATTAAATATATTAT
62814327 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
62814340 AATTTAATA
1 AATTAAATA
62814349 AAATTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:62814354 original size:44 final size:43
Alignment explanation
Indices: 62814274--62814357 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
62814264 CTCAAATCAT
* *
62814274 AATATATGATACTATAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATATAAAATATAAATTAACAAAATTATTATTA
* *
62814317 AATATATTATAAT-TAAAATATATAATTTAATAAAATTATTA
1 AATATATGATAATATAAAATATA-AA-TTAACAAAATTATTA
62814358 ATAATCAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 9 0.26
43 13 0.37
44 13 0.37
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (43 bp):
AATATATGATAATATAAAATATAAATTAACAAAATTATTATTA
Found at i:62816062 original size:108 final size:108
Alignment explanation
Indices: 62815873--62816089 Score: 425
Period size: 108 Copynumber: 2.0 Consensus size: 108
62815863 GCAAACTAAC
62815873 TCTAGAATAAGAGCTAAACTATATACATATATAACTCAAATATATGTGCTACAATGAAAAACAAT
1 TCTAGAATAAGAGCTAAACTATATACATATATAACTCAAATATATGTGCTACAATGAAAAACAAT
*
62815938 CGGCTTCATCACCTTTCTCAACATGGTCTACTGTGTTATTAAT
66 CGGCTTCATCACCTTTCTCAACATGGTCTACTGTGTTAATAAT
62815981 TCTAGAATAAGAGCTAAACTATATACATATATAACTCAAATATATGTGCTACAATGAAAAACAAT
1 TCTAGAATAAGAGCTAAACTATATACATATATAACTCAAATATATGTGCTACAATGAAAAACAAT
62816046 CGGCTTCATCACCTTTCTCAACATGGTCTACTGTGTTAATAAT
66 CGGCTTCATCACCTTTCTCAACATGGTCTACTGTGTTAATAAT
62816089 T
1 T
62816090 TTATGAATTT
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.32
Consensus pattern (108 bp):
TCTAGAATAAGAGCTAAACTATATACATATATAACTCAAATATATGTGCTACAATGAAAAACAAT
CGGCTTCATCACCTTTCTCAACATGGTCTACTGTGTTAATAAT
Found at i:62831942 original size:29 final size:30
Alignment explanation
Indices: 62831902--62831959 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 30
62831892 TCTTTTTATT
62831902 AAAAATAGAC-AAATTAAGATCAAAGTATA
1 AAAAATAGACAAAATTAAGATCAAAGTATA
62831931 AAAAATAGACAAAAATTAAGATCAAAGTA
1 AAAAATAGAC-AAAATTAAGATCAAAGTA
62831960 CAAATTATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 10 0.37
31 17 0.63
ACGTcount: A:0.64, C:0.07, G:0.10, T:0.19
Consensus pattern (30 bp):
AAAAATAGACAAAATTAAGATCAAAGTATA
Found at i:62842202 original size:22 final size:22
Alignment explanation
Indices: 62842177--62842233 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
62842167 CCCACAAGTA
62842177 TATGTAGAAAATTGCACAAATT
1 TATGTAGAAAATTGCACAAATT
62842199 TATGTAGAAAATTGCACAAATT
1 TATGTAGAAAATTGCACAAATT
62842221 TATGTAGAAAATT
1 TATGTAGAAAATT
62842234 CTGACTTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.33
Consensus pattern (22 bp):
TATGTAGAAAATTGCACAAATT
Found at i:62844458 original size:60 final size:61
Alignment explanation
Indices: 62844345--62844469 Score: 234
Period size: 60 Copynumber: 2.1 Consensus size: 61
62844335 ATTTCAAAAT
62844345 ATGATGGCTTAAACTCGAATCTTCTTTTTATCTTCACTTTTAACTCTACTTTAGAGAGGCA
1 ATGATGGCTTAAACTCGAATCTTCTTTTTATCTTCACTTTTAACTCTACTTTAGAGAGGCA
*
62844406 ATGATGGCTTAAACTCGAATCTTC-TTTTATCTTCACTTTTAACTCTAGTTTAGAGAGGCA
1 ATGATGGCTTAAACTCGAATCTTCTTTTTATCTTCACTTTTAACTCTACTTTAGAGAGGCA
62844466 ATGA
1 ATGA
62844470 CACCTCAAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
60 39 0.62
61 24 0.38
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.40
Consensus pattern (61 bp):
ATGATGGCTTAAACTCGAATCTTCTTTTTATCTTCACTTTTAACTCTACTTTAGAGAGGCA
Found at i:62854665 original size:16 final size:16
Alignment explanation
Indices: 62854641--62854675 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
62854631 GCAAGAGAGC
62854641 TATGCATGCATGTATG
1 TATGCATGCATGTATG
*
62854657 TATGTATGCATGTATG
1 TATGCATGCATGTATG
62854673 TAT
1 TAT
62854676 ATACCTCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.43
Consensus pattern (16 bp):
TATGCATGCATGTATG
Found at i:62855979 original size:23 final size:23
Alignment explanation
Indices: 62855953--62856004 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
62855943 ATATATTTTT
62855953 ATTTTTA-TTTTAATATTTAATAA
1 ATTTTTACTTTT-ATATTTAATAA
* * *
62855976 ATTTATACTTTTTTATTTATTAA
1 ATTTTTACTTTTATATTTAATAA
62855999 ATTTTT
1 ATTTTT
62856005 TTATATAGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
ATTTTTACTTTTATATTTAATAA
Found at i:62857704 original size:10 final size:10
Alignment explanation
Indices: 62857685--62857718 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
62857675 TTTAAAATAT
62857685 AATACACTAA
1 AATACACTAA
*
62857695 AATGCACTAA
1 AATACACTAA
*
62857705 AAAACACTAA
1 AATACACTAA
62857715 AATA
1 AATA
62857719 AAAGTTATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.62, C:0.18, G:0.03, T:0.18
Consensus pattern (10 bp):
AATACACTAA
Found at i:62864825 original size:14 final size:15
Alignment explanation
Indices: 62864803--62864879 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
62864793 CAATCAAACA
62864803 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
62864817 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
62864832 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
62864852 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
62864866 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
62864880 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:62864844 original size:20 final size:20
Alignment explanation
Indices: 62864819--62864858 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
62864809 AATATTTTCC
*
62864819 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
62864839 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
62864859 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:62864864 original size:34 final size:35
Alignment explanation
Indices: 62864807--62864873 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
62864797 CAAACACCAG
*
62864807 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
62864842 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
62864874 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:62864880 original size:14 final size:14
Alignment explanation
Indices: 62864842--62864881 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
62864832 ACAGAAAAGT
*
62864842 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
62864856 AAATCATTTTACGG
1 AAAACATTTTACAG
62864870 AAAACATTTTAC
1 AAAACATTTTAC
62864882 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:62865648 original size:60 final size:60
Alignment explanation
Indices: 62865498--62865655 Score: 238
Period size: 54 Copynumber: 2.7 Consensus size: 60
62865488 GTACATTAAT
* *
62865498 GGTTCATAAAGAGGTGCAAACGCAATCCCATTTTCAAGCATCTGGGAACTAGTATTTATG
1 GGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAAGCATTTGGGAACTAGTATTTATG
*
62865558 GGTTCATAAAGA-G-G----TGCAATCCCATGTTCAAGCATTTGGGAACTAGTATTTATG
1 GGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAAGCATTTGGGAACTAGTATTTATG
*
62865612 GGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAACCATTTG
1 GGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAAGCATTTG
62865656 AATTCCATTG
Statistics
Matches: 87, Mismatches: 5, Indels: 12
0.84 0.05 0.12
Matches are distributed among these distances:
54 49 0.56
55 1 0.01
56 1 0.01
58 1 0.01
59 1 0.01
60 34 0.39
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (60 bp):
GGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAAGCATTTGGGAACTAGTATTTATG
Found at i:62867175 original size:15 final size:15
Alignment explanation
Indices: 62867155--62867184 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
62867145 ACGCCACTTA
62867155 CTGTTGAATGAGGTT
1 CTGTTGAATGAGGTT
62867170 CTGTTGAATGAGGTT
1 CTGTTGAATGAGGTT
62867185 GTGGCTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.33, T:0.40
Consensus pattern (15 bp):
CTGTTGAATGAGGTT
Found at i:62868053 original size:11 final size:11
Alignment explanation
Indices: 62868037--62868061 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
62868027 ATTATACATG
62868037 AAATAACAAGT
1 AAATAACAAGT
62868048 AAATAACAAGT
1 AAATAACAAGT
62868059 AAA
1 AAA
62868062 ACAAATCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (11 bp):
AAATAACAAGT
Found at i:62869963 original size:32 final size:32
Alignment explanation
Indices: 62869915--62869982 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
62869905 GGCTTTGGGC
*
62869915 TATTCGGCCGGGTATTGTAATTGGGCTTGGTT
1 TATTCGGCCGGGTATTGTAATTGGGCTTGGAT
* *
62869947 TATTGGGCTGGGTATTGTAATTGGGCTTGGAT
1 TATTCGGCCGGGTATTGTAATTGGGCTTGGAT
62869979 TATT
1 TATT
62869983 AGGTTTTTGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.15, C:0.09, G:0.34, T:0.43
Consensus pattern (32 bp):
TATTCGGCCGGGTATTGTAATTGGGCTTGGAT
Found at i:62869971 original size:18 final size:18
Alignment explanation
Indices: 62869924--62869973 Score: 63
Period size: 14 Copynumber: 3.0 Consensus size: 18
62869914 CTATTCGGCC
62869924 GGGTATTGTAATTGGGCT
1 GGGTATTGTAATTGGGCT
*
62869942 TGG--TT-T-ATTGGGCT
1 GGGTATTGTAATTGGGCT
62869956 GGGTATTGTAATTGGGCT
1 GGGTATTGTAATTGGGCT
62869974 TGGATTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
14 10 0.38
15 1 0.04
16 4 0.15
17 1 0.04
18 10 0.38
ACGTcount: A:0.14, C:0.06, G:0.38, T:0.42
Consensus pattern (18 bp):
GGGTATTGTAATTGGGCT
Found at i:62875219 original size:15 final size:16
Alignment explanation
Indices: 62875201--62875238 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
62875191 AAGACATTTT
62875201 AACAAATGAAATTAA-
1 AACAAATGAAATTAAC
62875216 AACAAATGAAATTAAC
1 AACAAATGAAATTAAC
62875232 AACAAAT
1 AACAAAT
62875239 ACGGTGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.66, C:0.11, G:0.05, T:0.18
Consensus pattern (16 bp):
AACAAATGAAATTAAC
Found at i:62881090 original size:60 final size:60
Alignment explanation
Indices: 62880937--62881097 Score: 244
Period size: 54 Copynumber: 2.8 Consensus size: 60
62880927 TTGTACATTA
* *
62880937 ATGGGTTCATAAAGAGGTGCAAACGCAATCCCATTTTCAAGCATCTGGGAACTAGTATTT
1 ATGGGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAAGCATTTGGGAACTAGTATTT
*
62880997 ATGGGTTCATAAAGA-G-G----TGCAATCCCATGTTCAAGCATTTGGGAACTAGTATTT
1 ATGGGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAAGCATTTGGGAACTAGTATTT
*
62881051 ATGGGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAACCATTTG
1 ATGGGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAAGCATTTG
62881098 AATTCCATTG
Statistics
Matches: 90, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
54 49 0.54
55 1 0.01
56 1 0.01
58 1 0.01
59 1 0.01
60 37 0.41
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (60 bp):
ATGGGTTCATAAAGAGGTGCAAATGCAATCCCATTTTCAAGCATTTGGGAACTAGTATTT
Found at i:62882128 original size:14 final size:14
Alignment explanation
Indices: 62882088--62882130 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
62882078 TTTAACCGAC
*
62882088 ATATTAATTTTTTA
1 ATATTAATTATTTA
*
62882102 ATATT--TAATTTA
1 ATATTAATTATTTA
62882114 ATATTAATTATTTA
1 ATATTAATTATTTA
62882128 ATA
1 ATA
62882131 AAATAATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 10 0.42
14 14 0.58
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATTAATTATTTA
Found at i:62887167 original size:21 final size:22
Alignment explanation
Indices: 62887141--62887181 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
62887131 AAACGATGTA
*
62887141 GTTTTGCCTTTTAA-CTTAATG
1 GTTTTGACTTTTAACCTTAATG
62887162 GTTTTGACTTTTAACCTTAA
1 GTTTTGACTTTTAACCTTAA
62887182 AAAAGGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.22, C:0.15, G:0.12, T:0.51
Consensus pattern (22 bp):
GTTTTGACTTTTAACCTTAATG
Found at i:62895805 original size:22 final size:21
Alignment explanation
Indices: 62895777--62895825 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
62895767 ATATAATAAT
62895777 AATTATATAAAGAATTTTATTA
1 AATTATAT-AAGAATTTTATTA
** *
62895799 AATTATATATTATTTTTATTA
1 AATTATATAAGAATTTTATTA
62895820 AATTAT
1 AATTAT
62895826 TTTTAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
AATTATATAAGAATTTTATTA
Found at i:62896473 original size:15 final size:17
Alignment explanation
Indices: 62896455--62896495 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
62896445 TAATTTATCT
62896455 AATATTA-TTTT-ATTA
1 AATATTATTTTTAATTA
62896470 AATAATTATTTTTAAATTA
1 AAT-ATTATTTTT-AATTA
62896489 AATATTA
1 AATATTA
62896496 AAAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.14
16 4 0.18
17 4 0.18
18 4 0.18
19 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATATTATTTTTAATTA
Found at i:62904986 original size:15 final size:16
Alignment explanation
Indices: 62904958--62904995 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
62904948 TTCCCACCGT
62904958 ATTTGTTGTTAATTTC
1 ATTTGTTGTTAATTTC
62904974 ATTTGTT-TTAATTTC
1 ATTTGTTGTTAATTTC
62904989 ATTTGTT
1 ATTTGTT
62904996 AAAATGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (16 bp):
ATTTGTTGTTAATTTC
Found at i:62905712 original size:23 final size:23
Alignment explanation
Indices: 62905668--62905712 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
62905658 TAAAATAAAT
* *
62905668 TATTCTTTTTTTTATTATTTTAC
1 TATTCTTTCTTTTATTAATTTAC
62905691 TATTCATTTCTTTT-TTAATTTA
1 TATTC-TTTCTTTTATTAATTTA
62905713 AGGTATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (23 bp):
TATTCTTTCTTTTATTAATTTAC
Found at i:62908697 original size:16 final size:17
Alignment explanation
Indices: 62908671--62908703 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
62908661 GTTAATTTGA
*
62908671 TAAAATGATAATTAAAT
1 TAAAATGATAATAAAAT
62908688 TAAAAT-ATAATAAAAT
1 TAAAATGATAATAAAAT
62908704 AAACAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
TAAAATGATAATAAAAT
Found at i:62909455 original size:22 final size:23
Alignment explanation
Indices: 62909410--62909456 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
62909400 AATATAAATG
*
62909410 TTTTATACATTGCCGAATTTGAA
1 TTTTATACATTGCCGAATTCGAA
**
62909433 TTTTATATTTTGCC-AATTCGAA
1 TTTTATACATTGCCGAATTCGAA
62909455 TT
1 TT
62909457 GTTTATAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.49
Consensus pattern (23 bp):
TTTTATACATTGCCGAATTCGAA
Found at i:62909544 original size:31 final size:30
Alignment explanation
Indices: 62909508--62909719 Score: 99
Period size: 31 Copynumber: 7.5 Consensus size: 30
62909498 ATATTGATTC
62909508 GTATATGGTTGAATATTGTCGAAAATAATTT
1 GTATATGGTT-AATATTGTCGAAAATAATTT
* * *
62909539 GTATATGGTTATATATTATTGAAATTGAA-TT
1 GTATATGGTTA-ATATTGTCGAAAAT-AATTT
*
62909570 GTATATGGAT-ATA-T-T-G------ATTT
1 GTATATGGTTAATATTGTCGAAAATAATTT
*
62909590 GTATATGGTTGAATATTGCCGAAAATAATTT
1 GTATATGGTT-AATATTGTCGAAAATAATTT
* * * *
62909621 GTGTATGGTTATATATTATTGAAATTGAA-TT
1 GTATATGGTTA-ATATTGTCGAAAAT-AATTT
*
62909652 GTATATGGAT-ATA-T-T-G------ATTT
1 GTATATGGTTAATATTGTCGAAAATAATTT
*
62909672 GTATATGGTTGAATATTGTCTAAAATAATTT
1 GTATATGGTT-AATATTGTCGAAAATAATTT
62909703 GTATATGGTTATATATT
1 GTATATGGTTA-ATATT
62909720 ATTGAAATTG
Statistics
Matches: 137, Mismatches: 15, Indels: 58
0.65 0.07 0.28
Matches are distributed among these distances:
19 2 0.01
20 22 0.16
22 6 0.04
23 2 0.01
24 1 0.01
25 1 0.01
26 2 0.01
27 2 0.01
28 2 0.01
29 6 0.04
30 3 0.02
31 84 0.61
32 4 0.03
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.46
Consensus pattern (30 bp):
GTATATGGTTAATATTGTCGAAAATAATTT
Found at i:62909558 original size:82 final size:82
Alignment explanation
Indices: 62909455--62909797 Score: 564
Period size: 82 Copynumber: 4.2 Consensus size: 82
62909445 CCAATTCGAA
* *
62909455 TTGTTTATAGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTCGTATATGGTTGA
1 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTCGTATATGGTTGA
62909520 ATATTGTCGAAAATAAT
66 ATATTGTCGAAAATAAT
*
62909537 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTTGTATATGGTTGA
1 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTCGTATATGGTTGA
*
62909602 ATATTGCCGAAAATAAT
66 ATATTGTCGAAAATAAT
* *
62909619 TTGTGTATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTTGTATATGGTTGA
1 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTCGTATATGGTTGA
*
62909684 ATATTGTCTAAAATAAT
66 ATATTGTCGAAAATAAT
* * *
62909701 TTGTATATGGTTATATATTATTGAAATTGAATTTTAAATAGATATATTGATTCGTATAT-GTTGA
1 TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTCGTATATGGTTGA
*
62909765 ATATTGTCGAAAGTAAT
66 ATATTGTCGAAAATAAT
62909782 TTGTAT-TGGTGTATAT
1 TTGTATATGGT-TATAT
62909798 GATGGAATTG
Statistics
Matches: 246, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
80 4 0.02
81 31 0.13
82 211 0.86
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.47
Consensus pattern (82 bp):
TTGTATATGGTTATATATTATTGAAATTGAATTGTATATGGATATATTGATTCGTATATGGTTGA
ATATTGTCGAAAATAAT
Found at i:62912576 original size:15 final size:17
Alignment explanation
Indices: 62912558--62912598 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
62912548 TAATTTATCT
62912558 AATATTA-TTTT-ATTA
1 AATATTATTTTTAATTA
62912573 AATAATTATTTTTAAATTA
1 AAT-ATTATTTTT-AATTA
62912592 AATATTA
1 AATATTA
62912599 AAAAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.14
16 4 0.18
17 4 0.18
18 4 0.18
19 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATATTATTTTTAATTA
Found at i:62921695 original size:19 final size:19
Alignment explanation
Indices: 62921659--62921696 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
62921649 GAGTAAGAAA
*
62921659 TTGGGCTGTTATAAAAGTT
1 TTGGGCTGTAATAAAAGTT
62921678 TTGGGCTG-AATAACAAGTT
1 TTGGGCTGTAATAA-AAGTT
62921697 GATGGACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (19 bp):
TTGGGCTGTAATAAAAGTT
Found at i:62921812 original size:15 final size:15
Alignment explanation
Indices: 62921777--62921814 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
62921767 TATTAGGATA
62921777 ATATTTTAATTTTTT
1 ATATTTTAATTTTTT
62921792 AGTATTTT-ATCTTTTT
1 A-TATTTTAAT-TTTTT
62921808 ATATTTT
1 ATATTTT
62921815 TAGATAACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (15 bp):
ATATTTTAATTTTTT
Found at i:62936822 original size:21 final size:21
Alignment explanation
Indices: 62936796--62936836 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
62936786 AGACGAGCAA
* *
62936796 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
62936817 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
62936837 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:62941619 original size:20 final size:20
Alignment explanation
Indices: 62941580--62941621 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
62941570 CTGTTAGAGT
*
62941580 TAATATAGTCAAAGCAGTTG
1 TAATATAGTCAAAACAGTTG
*
62941600 TAATATAGTCAAAACCGTTG
1 TAATATAGTCAAAACAGTTG
62941620 TA
1 TA
62941622 CCGTTGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
TAATATAGTCAAAACAGTTG
Found at i:62941650 original size:15 final size:15
Alignment explanation
Indices: 62941630--62941660 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
62941620 TACCGTTGTA
62941630 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
62941645 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
62941660 A
1 A
62941661 AAGATGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTCTGTTAGCAGTT
Found at i:62943050 original size:19 final size:19
Alignment explanation
Indices: 62942999--62943051 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
62942989 TAAATAAAAA
*
62942999 TAAATACATAAACA-TCAAT
1 TAAA-ACATTAACATTCAAT
*
62943018 TAAAA-ATTCTACATTCAAT
1 TAAAACATT-AACATTCAAT
62943037 TAAAACATTAACATT
1 TAAAACATTAACATT
62943052 ATCATTTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 2 0.07
18 4 0.14
19 19 0.68
20 3 0.11
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAACATTAACATTCAAT
Found at i:62943305 original size:14 final size:15
Alignment explanation
Indices: 62943274--62943328 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
62943264 TGGTAAACTG
62943274 AAAATTAAGTACTAA
1 AAAATTAAGTACTAA
*
62943289 AAAATTAAGTGCTAA
1 AAAATTAAGTACTAA
* * * *
62943304 AATATTGAGTATTTA
1 AAAATTAAGTACTAA
*
62943319 AAAGTTAAGT
1 AAAATTAAGT
62943329 GCTGAATTTG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.51, C:0.04, G:0.13, T:0.33
Consensus pattern (15 bp):
AAAATTAAGTACTAA
Found at i:62945710 original size:22 final size:21
Alignment explanation
Indices: 62945661--62945708 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
62945651 ATTTACTCAA
* *
62945661 TTAAAAAGTAAATGTCATTTT
1 TTAAATAGTAAATGTAATTTT
62945682 TTAAATAGTAAATGGTAATTTT
1 TTAAATAGTAAAT-GTAATTTT
62945704 ATTAA
1 -TTAA
62945709 TATTTCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 12 0.52
22 7 0.30
23 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (21 bp):
TTAAATAGTAAATGTAATTTT
Found at i:62953350 original size:22 final size:22
Alignment explanation
Indices: 62953325--62953370 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
62953315 TTTTTTAATA
*
62953325 TTCACTTTAGTACTTAAATTTT
1 TTCAATTTAGTACTTAAATTTT
* * *
62953347 TTCAATTTGGTATTTGAATTTT
1 TTCAATTTAGTACTTAAATTTT
62953369 TT
1 TT
62953371 TTGTCCCGGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.59
Consensus pattern (22 bp):
TTCAATTTAGTACTTAAATTTT
Found at i:62955125 original size:31 final size:29
Alignment explanation
Indices: 62955068--62955132 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 29
62955058 TCAAATTGAT
* *
62955068 ACTCAATCCAAAATGAGCATTGAAACCAA
1 ACTCAATCCAAAATGAACATTAAAACCAA
*
62955097 ACTCAAGTACCAAATTGAACATTAAAACCAA
1 ACTCAA-T-CCAAAATGAACATTAAAACCAA
62955128 ACTCA
1 ACTCA
62955133 GGTATTCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 6 0.19
30 1 0.03
31 24 0.77
ACGTcount: A:0.49, C:0.25, G:0.08, T:0.18
Consensus pattern (29 bp):
ACTCAATCCAAAATGAACATTAAAACCAA
Found at i:62956288 original size:17 final size:17
Alignment explanation
Indices: 62956266--62956299 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62956256 ATCCACTAAT
*
62956266 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
62956283 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
62956300 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:62960927 original size:17 final size:17
Alignment explanation
Indices: 62960905--62960938 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62960895 ATCCACTAAT
*
62960905 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
62960922 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
62960939 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:62975597 original size:22 final size:24
Alignment explanation
Indices: 62975571--62975614 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
62975561 GAAAAATATT
62975571 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
62975593 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
62975615 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:62975744 original size:59 final size:59
Alignment explanation
Indices: 62975681--62975859 Score: 259
Period size: 68 Copynumber: 2.9 Consensus size: 59
62975671 TCAAGTTTGT
*
62975681 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
62975740 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATT---AC-----A-ACAATTAATACAATTAATAATTTGAT
62975805 AAA
57 AAA
*
62975808 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
62975860 AATAATTTGA
Statistics
Matches: 109, Mismatches: 2, Indels: 18
0.84 0.02 0.14
Matches are distributed among these distances:
59 47 0.43
60 1 0.01
62 2 0.02
65 2 0.02
67 1 0.01
68 56 0.51
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.40
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:62975782 original size:9 final size:9
Alignment explanation
Indices: 62975770--62975797 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
62975760 TTTTATTACA
62975770 ACAATTAAT
1 ACAATTAAT
62975779 ACAATTAAT
1 ACAATTAAT
62975788 ACAATTAAT
1 ACAATTAAT
62975797 A
1 A
62975798 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:62975788 original size:68 final size:68
Alignment explanation
Indices: 62975711--62975881 Score: 319
Period size: 68 Copynumber: 2.5 Consensus size: 68
62975701 TTTTGTTACA
62975711 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
62975776 AAT
66 AAT
62975779 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
62975844 AAT
66 AAT
*
62975847 ACAATT-A-ACAATTAATAATTTGATAATTTTACTAA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAA
62975882 CAATTAATTT
Statistics
Matches: 102, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
66 27 0.26
67 1 0.01
68 74 0.73
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (68 bp):
ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
AAT
Found at i:62975891 original size:16 final size:16
Alignment explanation
Indices: 62975870--62975911 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
62975860 AATAATTTGA
*
62975870 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
62975886 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
62975902 TAGTTTTAAT
1 TAATTTTAAT
62975912 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:62975900 original size:59 final size:66
Alignment explanation
Indices: 62975711--62975903 Score: 283
Period size: 68 Copynumber: 3.0 Consensus size: 66
62975701 TTTTGTTACA
62975711 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGATTTTA-TACAACAATT
62975776 AAT
64 AAT
62975779 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGATTTTA-TACAACAATT
62975844 AAT
64 AAT
* *
62975847 ACAATT-A-ACAATTAATAATTTGATAATTTTACTAA-C-AA-TTA-ATTTTA-ATAACAATTA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATTTTATACAACAATTA
62975904 GTTTTAATTT
Statistics
Matches: 123, Mismatches: 2, Indels: 9
0.92 0.01 0.07
Matches are distributed among these distances:
59 9 0.07
61 6 0.05
62 3 0.02
64 2 0.02
65 1 0.01
66 27 0.22
67 1 0.01
68 74 0.60
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.40
Consensus pattern (66 bp):
ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATTTTATACAACAATTAA
T
Found at i:62975924 original size:28 final size:28
Alignment explanation
Indices: 62975893--62975950 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
62975883 AATTAATTTT
*
62975893 AATAACAATTAGTTTTAATTTT-ATTAAA
1 AATAA-AATTAATTTTAATTTTAATTAAA
**
62975921 AATAATTTTAATTTTAATTTTAATTAAA
1 AATAAAATTAATTTTAATTTTAATTAAA
62975949 AA
1 AA
62975951 CGGGCCGGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 13 0.50
28 13 0.50
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (28 bp):
AATAAAATTAATTTTAATTTTAATTAAA
Found at i:62975931 original size:21 final size:22
Alignment explanation
Indices: 62975885--62975938 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
62975875 TTACTAACAA
* *
62975885 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAACAAATAATT
*
62975907 TTAATTTTATTAA-AAATAATT
1 TTAATTTTAATAACAAATAATT
62975928 TTAATTTTAAT
1 TTAATTTTAAT
62975939 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
TTAATTTTAATAACAAATAATT
Found at i:62978975 original size:6 final size:6
Alignment explanation
Indices: 62978964--62979007 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
62978954 TAACATGAAG
* *
62978964 AAAATA AAAATA AAAAT- AAAATA TATATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
62979008 TTGGGTTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:62988583 original size:20 final size:20
Alignment explanation
Indices: 62988558--62988605 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
62988548 AATATATAGA
*
62988558 ATAAAATTTAGTAAAAAT-TT
1 ATAAAATTCA-TAAAAATATT
62988578 ATAAAA-TCATAAAAATAATT
1 ATAAAATTCATAAAAAT-ATT
62988598 ATAAAATT
1 ATAAAATT
62988606 GAAACCATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 7 0.29
19 2 0.08
20 14 0.58
21 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
ATAAAATTCATAAAAATATT
Found at i:62993423 original size:6 final size:6
Alignment explanation
Indices: 62993412--62993479 Score: 136
Period size: 6 Copynumber: 11.3 Consensus size: 6
62993402 AAGCATATAC
62993412 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
62993460 ATGTAT ATGTAT ATGTAT AT
1 ATGTAT ATGTAT ATGTAT AT
62993480 TTATTTGAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:63000736 original size:21 final size:21
Alignment explanation
Indices: 63000707--63000760 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
63000697 ATGATATTGA
63000707 AATGATATTTATATTTATGAT
1 AATGATATTTATATTTATGAT
* * *
63000728 AATGTTATTTATCTTTGTGAT
1 AATGATATTTATATTTATGAT
* *
63000749 AATTAAATTTAT
1 AATGATATTTAT
63000761 CTAGCCATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (21 bp):
AATGATATTTATATTTATGAT
Found at i:63009912 original size:17 final size:16
Alignment explanation
Indices: 63009890--63009933 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
63009880 TATTAATATT
*
63009890 TATATATAGTTTTAATA
1 TATATATA-TTTTAAAA
63009907 TATATAT-TTTTAAAA
1 TATATATATTTTAAAA
*
63009922 TTTATATATTTT
1 TATATATATTTT
63009934 TTTAAAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.54
16 4 0.17
17 7 0.29
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TATATATATTTTAAAA
Found at i:63009935 original size:19 final size:19
Alignment explanation
Indices: 63009905--63009942 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
63009895 ATAGTTTTAA
63009905 TATATATATTTTTAAAATT
1 TATATATATTTTTAAAATT
*
63009924 TATATATTTTTTTAAAATT
1 TATATATATTTTTAAAATT
63009943 GATACATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATATATTTTTAAAATT
Found at i:63009963 original size:9 final size:9
Alignment explanation
Indices: 63009949--63010387 Score: 314
Period size: 9 Copynumber: 51.1 Consensus size: 9
63009939 AATTGATACA
63009949 TTACATAAC
1 TTACATAAC
63009958 TTACATAACC
1 TTACATAA-C
63009968 TAAATACATAAAC
1 T---TACAT-AAC
63009981 TTACATAA-
1 TTACATAAC
63009989 -TACATAAC
1 TTACATAAC
63009997 TTACATAAC
1 TTACATAAC
*
63010006 TT--A-AAT
1 TTACATAAC
*
63010012 TTATCA-ATC
1 TTA-CATAAC
*
63010021 ATATCATAAC
1 TTA-CATAAC
63010031 TTACAT-AC
1 TTACATAAC
* * *
63010039 ATAAAT-AT
1 TTACATAAC
63010047 TTATCAT-A-
1 TTA-CATAAC
63010055 -T-CATAAC
1 TTACATAAC
63010062 TTACATAAC
1 TTACATAAC
**
63010071 CCACATAAC
1 TTACATAAC
63010080 TTACATAAC
1 TTACATAAC
63010089 TTACATAATAAC
1 TTAC---ATAAC
*
63010101 TTACACAA-
1 TTACATAAC
63010109 -TACATAAC
1 TTACATAAC
*
63010117 CTACATAAC
1 TTACATAAC
*
63010126 TTATATAAC
1 TTACATAAC
63010135 TTACATAAC
1 TTACATAAC
63010144 TTACATAAC
1 TTACATAAC
63010153 TTACATAA-
1 TTACATAAC
63010161 -TACATAAC
1 TTACATAAC
63010169 TTACATAAC
1 TTACATAAC
*
63010178 CTACATAA-
1 TTACATAAC
63010186 -TACATAAC
1 TTACATAAC
63010194 TTACATAAC
1 TTACATAAC
63010203 TTACATAA-
1 TTACATAAC
*
63010211 -TACACAAC
1 TTACATAAC
63010219 TTACATAAC
1 TTACATAAC
*
63010228 CTACATAA-
1 TTACATAAC
63010236 -TACATAAC
1 TTACATAAC
63010244 TTACATAA-
1 TTACATAAC
*
63010252 -TACACAAC
1 TTACATAAC
63010260 TTACATAAC
1 TTACATAAC
63010269 TTACATAA-
1 TTACATAAC
63010277 -TACATAAC
1 TTACATAAC
63010285 TTACATAAC
1 TTACATAAC
*
63010294 TTATATAA-
1 TTACATAAC
*
63010302 -TACAGAAC
1 TTACATAAC
*
63010310 TTACATAAT
1 TTACATAAC
*
63010319 TTACTTAA-
1 TTACATAAC
63010327 -TACATAAC
1 TTACATAAC
*
63010335 TTACATAAT
1 TTACATAAC
*
63010344 TTACTTAA-
1 TTACATAAC
63010352 -TACATAA-
1 TTACATAAC
* * *
63010359 ATATATATC
1 TTACATAAC
*
63010368 ATATCATAAC
1 TTA-CATAAC
63010378 TTACATAAC
1 TTACATAAC
63010387 T
1 T
63010388 CATTTATACT
Statistics
Matches: 349, Mismatches: 41, Indels: 80
0.74 0.09 0.17
Matches are distributed among these distances:
5 3 0.01
6 5 0.01
7 72 0.21
8 15 0.04
9 219 0.63
10 17 0.05
12 9 0.03
13 7 0.02
14 2 0.01
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (9 bp):
TTACATAAC
Found at i:63010056 original size:31 final size:32
Alignment explanation
Indices: 63009961--63010068 Score: 107
Period size: 31 Copynumber: 3.4 Consensus size: 32
63009951 ACATAACTTA
* * * * *
63009961 CATAACCTAAATACATAAACTTA-CATAATA-
1 CATAACTTACATACATAAATTTATAATCATAT
*
63009991 CATAACTTACATAACTTAAATTTATCAATCATAT
1 CATAACTTACAT-ACATAAATTTAT-AATCATAT
63010025 CATAACTTACATACATAAATATT-T-ATCATAT
1 CATAACTTACATACATAAAT-TTATAATCATAT
63010056 CATAACTTACATA
1 CATAACTTACATA
63010069 ACCCACATAA
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
30 10 0.15
31 29 0.44
33 13 0.20
34 14 0.21
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (32 bp):
CATAACTTACATACATAAATTTATAATCATAT
Found at i:63010170 original size:25 final size:25
Alignment explanation
Indices: 63010073--63010358 Score: 291
Period size: 25 Copynumber: 11.2 Consensus size: 25
63010063 TACATAACCC
63010073 ACATAACTTACATAACTTACATAAT
1 ACATAACTTACATAACTTACATAAT
* * *
63010098 AACTTACACAATACATAACCTACATAACTT
1 -ACATA-AC-TTACATAACTTACATAA--T
*
63010128 ATATAACTTACATAACTTACATAACTT
1 ACATAACTTACATAACTTACATAA--T
63010155 ACATAA--TACATAACTTACATAACCT
1 ACATAACTTACATAACTTACATAA--T
63010180 ACATAA--TACATAACTTACATAACTT
1 ACATAACTTACATAACTTACATAA--T
*
63010205 ACATAA--TACACAACTTACATAACCT
1 ACATAACTTACATAACTTACATAA--T
63010230 ACATAA--TACATAACTTACATAAT
1 ACATAACTTACATAACTTACATAAT
*
63010253 ACACAACTTACATAACTTACATAAT
1 ACATAACTTACATAACTTACATAAT
*
63010278 ACATAACTTACATAACTTATATAAT
1 ACATAACTTACATAACTTACATAAT
* * *
63010303 ACAGAACTTACATAATTTACTTAAT
1 ACATAACTTACATAACTTACATAAT
* *
63010328 ACATAACTTACATAATTTACTTAAT
1 ACATAACTTACATAACTTACATAAT
63010353 ACATAA
1 ACATAA
63010359 ATATATATCA
Statistics
Matches: 233, Mismatches: 21, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
23 6 0.03
25 177 0.76
26 4 0.02
27 25 0.11
28 17 0.07
29 3 0.01
30 1 0.00
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (25 bp):
ACATAACTTACATAACTTACATAAT
Found at i:63010209 original size:50 final size:50
Alignment explanation
Indices: 63010056--63010358 Score: 354
Period size: 50 Copynumber: 6.1 Consensus size: 50
63010046 TTTATCATAT
* *
63010056 CATAACTTACATAACCCACATAACTTACATAACTTACATAATAACTTACACAATA
1 CATAACTTACATAACCTACATAA--TACATAACTTAC---ATAACTTACATAATA
* * *
63010111 CATAACCTACATAACTTATATAACTTACATAACTTACATAACTTACATAATA
1 CATAACTTACATAACCTACATAA--TACATAACTTACATAACTTACATAATA
63010163 CATAACTTACATAACCTACATAATACATAACTTACATAACTTACATAATA
1 CATAACTTACATAACCTACATAATACATAACTTACATAACTTACATAATA
*
63010213 CACAACTTACATAACCTACATAATACATAACTTACATAA--TAC-----A
1 CATAACTTACATAACCTACATAATACATAACTTACATAACTTACATAATA
* *
63010256 C--AACTTACATAACTTACATAATACATAACTTACATAACTTATATAATA
1 CATAACTTACATAACCTACATAATACATAACTTACATAACTTACATAATA
* ** * * *
63010304 CAGAACTTACATAATTTACTTAATACATAACTTACATAATTTACTTAATA
1 CATAACTTACATAACCTACATAATACATAACTTACATAACTTACATAATA
63010354 CATAA
1 CATAA
63010359 ATATATATCA
Statistics
Matches: 222, Mismatches: 17, Indels: 23
0.85 0.06 0.09
Matches are distributed among these distances:
41 35 0.16
43 4 0.02
48 5 0.02
50 111 0.50
52 34 0.15
55 33 0.15
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.31
Consensus pattern (50 bp):
CATAACTTACATAACCTACATAATACATAACTTACATAACTTACATAATA
Found at i:63016239 original size:43 final size:43
Alignment explanation
Indices: 63016171--63016425 Score: 278
Period size: 43 Copynumber: 6.0 Consensus size: 43
63016161 AAAATTTGTG
* * *
63016171 GCGTTTATGATAAAAGCGCCGTTAAAAGTCATGATCTATAGCA
1 GCGTTTGTGAGAAAAGCGTCGTTAAAAGTCATGATCTATAGCA
*
63016214 GCGTTTGTGAGAAAAGCGTCATTAAAAGTCATGATCTATAGCA
1 GCGTTTGTGAGAAAAGCGTCGTTAAAAGTCATGATCTATAGCA
* *** * ** *
63016257 GCATTTGTGATTGAAGCGCCACT-AAAGTCATGATCTATAGCG
1 GCGTTTGTGAGAAAAGCGTCGTTAAAAGTCATGATCTATAGCA
* * *
63016299 GCGTTTGTGAGAGAAGCGTCGCTAAAAGTCATGATCTATAACA
1 GCGTTTGTGAGAAAAGCGTCGTTAAAAGTCATGATCTATAGCA
* * *
63016342 GCGTTTGTGAGAAAAGCGTCGTTAAAGGTCGTGATCTATAGCG
1 GCGTTTGTGAGAAAAGCGTCGTTAAAAGTCATGATCTATAGCA
* * * * * * *
63016385 GCGTTTGTAATAAAAGTGTAGCTAAAGGTCGTGATCTATAG
1 GCGTTTGTGAGAAAAGCGTCGTTAAAAGTCATGATCTATAG
63016426 GCGCCACTAA
Statistics
Matches: 182, Mismatches: 29, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
42 36 0.20
43 146 0.80
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (43 bp):
GCGTTTGTGAGAAAAGCGTCGTTAAAAGTCATGATCTATAGCA
Found at i:63016338 original size:85 final size:85
Alignment explanation
Indices: 63016195--63016425 Score: 282
Period size: 85 Copynumber: 2.7 Consensus size: 85
63016185 AGCGCCGTTA
* **
63016195 AAAGTCATGATCTATAGCAGCGTTTGTGAGAAAAGCGTCATTAAAAGTCATGATCTATAGCAGCA
1 AAAGTCATGATCTATAGCGGCGTTTGTGAGAAAAGCGTCGCTAAAAGTCATGATCTATAGCAGCA
***
63016260 TTTGTGATTGAAGCGCCACT
66 TTTGTGAGAAAAGCGCCACT
* * *
63016280 AAAGTCATGATCTATAGCGGCGTTTGTGAGAGAAGCGTCGCTAAAAGTCATGATCTATAACAGCG
1 AAAGTCATGATCTATAGCGGCGTTTGTGAGAAAAGCGTCGCTAAAAGTCATGATCTATAGCAGCA
* **
63016345 TTTGTGAGAAAAGCGTCGTT
66 TTTGTGAGAAAAGCGCCACT
* * * * * * *
63016365 AAAGGTCGTGATCTATAGCGGCGTTTGTAATAAAAGTGTAGCTAAAGGTCGTGATCTATAG
1 AAA-GTCATGATCTATAGCGGCGTTTGTGAGAAAAGCGTCGCTAAAAGTCATGATCTATAG
63016426 GCGCCACTAA
Statistics
Matches: 124, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
85 76 0.61
86 48 0.39
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (85 bp):
AAAGTCATGATCTATAGCGGCGTTTGTGAGAAAAGCGTCGCTAAAAGTCATGATCTATAGCAGCA
TTTGTGAGAAAAGCGCCACT
Found at i:63016410 original size:128 final size:129
Alignment explanation
Indices: 63016170--63016425 Score: 336
Period size: 128 Copynumber: 2.0 Consensus size: 129
63016160 CAAAATTTGT
* * *
63016170 GGCGTTTATGATAAAAGCGCCGTTAAAAGTCATGATCTATAGCAGCGTTTGTGAGAAAAGCGTCA
1 GGCGTTTATGAGAAAAGCGCCGCTAAAAGTCATGATCTATAACAGCGTTTGTGAGAAAAGCGTCA
* **
63016235 TTAAAAGTCATGATCTATAGCAGCATTTGTGATTGAAGCGCCACTAAA-GTCATGATCTATAGC
66 TTAAAAGTCATGATCTATAGCAGCATTTGTAATAAAAGCGCCACTAAAGGTCATGATCTATAGC
* * * *
63016298 GGCGTTTGTGAGAGAAGCGTCGCTAAAAGTCATGATCTATAACAGCGTTTGTGAGAAAAGCGTCG
1 GGCGTTTATGAGAAAAGCGCCGCTAAAAGTCATGATCTATAACAGCGTTTGTGAGAAAAGCGTCA
* * * * * * *
63016363 TTAAAGGTCGTGATCTATAGCGGCGTTTGTAATAAAAGTG-TAGCTAAAGGTCGTGATCTATAG
66 TTAAAAGTCATGATCTATAGCAGCATTTGTAATAAAAGCGCCA-CTAAAGGTCATGATCTATAG
63016426 GCGCCACTAA
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
127 1 0.01
128 95 0.87
129 13 0.12
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (129 bp):
GGCGTTTATGAGAAAAGCGCCGCTAAAAGTCATGATCTATAACAGCGTTTGTGAGAAAAGCGTCA
TTAAAAGTCATGATCTATAGCAGCATTTGTAATAAAAGCGCCACTAAAGGTCATGATCTATAGC
Found at i:63025843 original size:34 final size:34
Alignment explanation
Indices: 63025777--63025843 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
63025767 AGCTAGAGAT
* *
63025777 GCATCAAATAAATACTGAATATGAAGAGGGATAA
1 GCATCAAATAAATACTAAATATGAAAAGGGATAA
* *
63025811 GCATCAAATAGATACTAAATATGAAAATGGATA
1 GCATCAAATAAATACTAAATATGAAAAGGGATA
63025844 GGGAACTAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.51, C:0.09, G:0.18, T:0.22
Consensus pattern (34 bp):
GCATCAAATAAATACTAAATATGAAAAGGGATAA
Found at i:63031153 original size:20 final size:21
Alignment explanation
Indices: 63031128--63031168 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
63031118 GATTTGTCTG
*
63031128 AAATAACATT-TCATATATTT
1 AAATAACATTATAATATATTT
*
63031148 AAATAATATTATAATATATTT
1 AAATAACATTATAATATATTT
63031169 TTATTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATAACATTATAATATATTT
Found at i:63042282 original size:17 final size:17
Alignment explanation
Indices: 63042260--63042294 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
63042250 TAATTGTTAA
63042260 ATTGGTAAAAACAATTT
1 ATTGGTAAAAACAATTT
*
63042277 ATTGGTGAAAACAATTT
1 ATTGGTAAAAACAATTT
63042294 A
1 A
63042295 GTTACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (17 bp):
ATTGGTAAAAACAATTT
Found at i:63051026 original size:9 final size:9
Alignment explanation
Indices: 63051012--63051059 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
63051002 TTTGGTTAAA
63051012 AATTAACCG
1 AATTAACCG
63051021 AATTAACCG
1 AATTAACCG
*
63051030 AGTT-ACCG
1 AATTAACCG
63051038 AATTAACCG
1 AATTAACCG
*
63051047 AATTAACCA
1 AATTAACCG
63051056 AATT
1 AATT
63051060 GAATCACTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
8 7 0.20
9 28 0.80
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:63051102 original size:6 final size:6
Alignment explanation
Indices: 63051091--63051138 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
63051081 ATTTTTAGAC
*
63051091 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG ATTTAG TTTTAG
1 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG
63051139 AATTTTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.19, C:0.00, G:0.17, T:0.65
Consensus pattern (6 bp):
TTTTAG
Found at i:63051148 original size:18 final size:16
Alignment explanation
Indices: 63051092--63051148 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 16
63051082 TTTTTAGACT
63051092 TTTAGTTTTAGTTTTA
1 TTTAGTTTTAGTTTTA
63051108 GTTTTAGTTTTAGTTTTAGA
1 --TTTAGTTTTAGTTTT--A
63051128 TTTAGTTTTAGAATTTTA
1 TTTAGTTTTAG--TTTTA
63051146 TTT
1 TTT
63051149 TTATTTATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
18 30 0.86
20 5 0.14
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.65
Consensus pattern (16 bp):
TTTAGTTTTAGTTTTA
Found at i:63060191 original size:171 final size:171
Alignment explanation
Indices: 63059906--63060249 Score: 688
Period size: 171 Copynumber: 2.0 Consensus size: 171
63059896 TTTGGACTTC
63059906 TAGGCAACTCATTAGGATTTCATATGTACATTTTAGCAATTATTCTTCATGCACTATCATCACCA
1 TAGGCAACTCATTAGGATTTCATATGTACATTTTAGCAATTATTCTTCATGCACTATCATCACCA
63059971 ATACCGTATGCAATGTGCTTTGGTGGAACCATGAATTTCTCAAGTCAGTTCCTAACTTCATGAAA
66 ATACCGTATGCAATGTGCTTTGGTGGAACCATGAATTTCTCAAGTCAGTTCCTAACTTCATGAAA
63060036 AACCAAAGAGATTTTTAGGCATTAAATGGAAAGTTTTTATA
131 AACCAAAGAGATTTTTAGGCATTAAATGGAAAGTTTTTATA
63060077 TAGGCAACTCATTAGGATTTCATATGTACATTTTAGCAATTATTCTTCATGCACTATCATCACCA
1 TAGGCAACTCATTAGGATTTCATATGTACATTTTAGCAATTATTCTTCATGCACTATCATCACCA
63060142 ATACCGTATGCAATGTGCTTTGGTGGAACCATGAATTTCTCAAGTCAGTTCCTAACTTCATGAAA
66 ATACCGTATGCAATGTGCTTTGGTGGAACCATGAATTTCTCAAGTCAGTTCCTAACTTCATGAAA
63060207 AACCAAAGAGATTTTTAGGCATTAAATGGAAAGTTTTTATA
131 AACCAAAGAGATTTTTAGGCATTAAATGGAAAGTTTTTATA
63060248 TA
1 TA
63060250 TAAAAATAAT
Statistics
Matches: 173, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
171 173 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (171 bp):
TAGGCAACTCATTAGGATTTCATATGTACATTTTAGCAATTATTCTTCATGCACTATCATCACCA
ATACCGTATGCAATGTGCTTTGGTGGAACCATGAATTTCTCAAGTCAGTTCCTAACTTCATGAAA
AACCAAAGAGATTTTTAGGCATTAAATGGAAAGTTTTTATA
Found at i:63068487 original size:36 final size:36
Alignment explanation
Indices: 63068447--63068526 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
63068437 ATACATATAA
*
63068447 ATATATATACT-TATAAAAATAAAAAT-ATGTATATGT
1 ATATATATA-TATATAAAAAGAAAAATGA-GTATATGT
* *
63068483 ATATAGATATATATAAAAAGAAATATGAGTATATGT
1 ATATATATATATATAAAAAGAAAAATGAGTATATGT
63068519 ATATATAT
1 ATATATAT
63068527 TAAACAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 1 0.03
36 36 0.95
37 1 0.03
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.38
Consensus pattern (36 bp):
ATATATATATATATAAAAAGAAAAATGAGTATATGT
Found at i:63068684 original size:3 final size:3
Alignment explanation
Indices: 63068678--63068731 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
63068668 TAGTAAGATG
*
63068678 ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
63068726 ATA ATA
1 ATA ATA
63068732 GCAAAAGTAC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:63069761 original size:14 final size:14
Alignment explanation
Indices: 63069742--63069804 Score: 74
Period size: 14 Copynumber: 4.4 Consensus size: 14
63069732 TTTGTTTGTA
* *
63069742 ATTGGGCTGAGGGT
1 ATTGGGTTGTGGGT
63069756 ATTGGGTTTGTGGGT
1 ATTGGG-TTGTGGGT
*
63069771 ATTGGTTTGTGGGT
1 ATTGGGTTGTGGGT
63069785 ATTGGGTT-TGTGGT
1 ATTGGGTTGTG-GGT
63069799 ATTGGG
1 ATTGGG
63069805 CCGGACAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
13 2 0.05
14 30 0.70
15 11 0.26
ACGTcount: A:0.10, C:0.02, G:0.46, T:0.43
Consensus pattern (14 bp):
ATTGGGTTGTGGGT
Found at i:63069772 original size:15 final size:15
Alignment explanation
Indices: 63069752--63069804 Score: 92
Period size: 14 Copynumber: 3.7 Consensus size: 15
63069742 ATTGGGCTGA
63069752 GGGTATTGGGTTTGT
1 GGGTATTGGGTTTGT
63069767 GGGTATT-GGTTTGT
1 GGGTATTGGGTTTGT
63069781 GGGTATTGGGTTTGT
1 GGGTATTGGGTTTGT
63069796 -GGTATTGGG
1 GGGTATTGGG
63069805 CCGGACAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
14 23 0.62
15 14 0.38
ACGTcount: A:0.08, C:0.00, G:0.47, T:0.45
Consensus pattern (15 bp):
GGGTATTGGGTTTGT
Found at i:63069774 original size:29 final size:28
Alignment explanation
Indices: 63069742--63069805 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
63069732 TTTGTTTGTA
63069742 ATTGGGCTGAGGGTATTGGGTTTGTGGGT
1 ATTGGGCTGAGGGTATTGGGTTTGT-GGT
** *
63069771 ATTGGTTTGTGGGTATTGGGTTTGTGGT
1 ATTGGGCTGAGGGTATTGGGTTTGTGGT
63069799 ATTGGGC
1 ATTGGGC
63069806 CGGACAGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.09, C:0.03, G:0.45, T:0.42
Consensus pattern (28 bp):
ATTGGGCTGAGGGTATTGGGTTTGTGGT
Found at i:63070040 original size:41 final size:41
Alignment explanation
Indices: 63069983--63070169 Score: 160
Period size: 44 Copynumber: 4.4 Consensus size: 41
63069973 AATCCATTGT
* *
63069983 ACTTCAGGGAAATAAGACTTGATGCGATCTGCTCTACTGCA
1 ACTTCAGAGAGATAAGACTTGATGCGATCTGCTCTACTGCA
*** *
63070024 ACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCTACTGCA
1 ACTTCAGAGAGATAAGA-CT-TGA-TGCGATCTGCTCTACTGCA
* * * * *
63070068 ACTTCAGAGAGATAGGA-TTGGTTTCTTCTATCTGCTCCACTGCA
1 ACTTCAGAGAGATAAGACTT-G---ATGCGATCTGCTCTACTGCA
* * * *
63070112 ACTTCAGGGAGATAAGACTTGATGCGATCTACTCTGCTGTA
1 ACTTCAGAGAGATAAGACTTGATGCGATCTGCTCTACTGCA
*
63070153 ACCTCAGAGAGATAAGA
1 ACTTCAGAGAGATAAGA
63070170 TCCTTTATTT
Statistics
Matches: 115, Mismatches: 23, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
41 44 0.38
42 4 0.03
43 3 0.03
44 62 0.54
45 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (41 bp):
ACTTCAGAGAGATAAGACTTGATGCGATCTGCTCTACTGCA
Found at i:63070069 original size:44 final size:43
Alignment explanation
Indices: 63070013--63070210 Score: 168
Period size: 44 Copynumber: 4.6 Consensus size: 43
63070003 GATGCGATCT
63070013 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
1 GCTCTACTGCAACTTCAGAGAGATAAGATCT-TGATTTTAATCC
* * * * *
63070057 GCTCTACTGCAACTTCAGAGAGATAGGAT-TGGTTTCTTCTATCT
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTTGATT-TT-AATCC
* * *** *
63070101 GCTCCACTGCAACTTCAGGGAGATAAGA-CTTGA-TGCGATCT
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTTGATTTTAATCC
* * * * *
63070142 ACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCC
1 GCTCTACTGCAACTTCAGAGAGATAAGAT-CTTGATTTTAATCC
* * *
63070186 GCTCCACTGTAACTTCAGGGAGATA
1 GCTCTACTGCAACTTCAGAGAGATA
63070211 GGATAGTGTC
Statistics
Matches: 119, Mismatches: 29, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
41 26 0.22
42 3 0.03
43 8 0.07
44 82 0.69
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
GCTCTACTGCAACTTCAGAGAGATAAGATCTTGATTTTAATCC
Found at i:63070213 original size:129 final size:128
Alignment explanation
Indices: 63069986--63070381 Score: 509
Period size: 129 Copynumber: 3.1 Consensus size: 128
63069976 CCATTGTACT
* * * * *
63069986 TCAGGGAAATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTT
1 TCAGGGAGATAAGACTTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCT-TTATTT
* * * * * * *
63070051 TAATCCGCTCTACTGCAACTTCAGAGAGATAGGATTGGTTTCTTCTATCTGCTCCACTGCAA-C
65 TAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAGTATCTTCTATCTGCTCCGCTGTAATC
*
63070114 TTCAGGGAGATAAGACTTGATGCGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTATT
1 -TCAGGGAGATAAGACTTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGAT-CTTTATT
* *
63070179 TTAATCCGCTCCACTGTAACTTCAGGGAGATAGGA-TAGTGTCTTCGATCTGCTCCGCTGTAATC
64 TTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAGTATCTTCTATCTGCTCCGCTGTAATC
* **
63070243 TCAGGGAGATAAGAC-TGATGCGGTCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTT-TAAT
1 TCAGGGAGATAAGACTTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTATTTT
* * *
63070306 -ATCCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTATCTT-TGATCTGCTCCGCTGTAATC
66 AATCCGCTCCACTGTAACT-TCAGGGAGATAGGATTAGTATCTTCT-ATCTGCTCCGCTGTAATC
63070368 TCAGGGAGATAAGA
1 TCAGGGAGATAAGA
63070382 TCTGAAATTC
Statistics
Matches: 239, Mismatches: 23, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
123 1 0.00
124 28 0.12
125 41 0.17
126 4 0.02
127 38 0.16
128 37 0.15
129 88 0.37
130 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (128 bp):
TCAGGGAGATAAGACTTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTATTTT
AATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAGTATCTTCTATCTGCTCCGCTGTAATC
Done.