Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 184 of 185
Found at i:56170225 original size:11 final size:11
Alignment explanation
Indices: 56170211--56170265 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
56170201 TAAAAAAATC
56170211 AAAATTATTAA
1 AAAATTATTAA
*
56170222 AAAAGTA-T-A
1 AAAATTATTAA
*
56170231 AAAATTATAAA
1 AAAATTATTAA
*
56170242 AAATATTTTTAA
1 AAA-ATTATTAA
56170254 AAAATTAATTAA
1 AAAATT-ATTAA
56170266 TTGCTAATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
9 7 0.21
10 1 0.03
11 13 0.38
12 13 0.38
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
AAAATTATTAA
Found at i:56170233 original size:26 final size:25
Alignment explanation
Indices: 56170187--56170235 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
56170177 ATAATCTTTT
56170187 AAATTTTAAAAAAATAAAAAAATCA
1 AAATTTTAAAAAAATAAAAAAATCA
* *
56170212 AAATTATTAAAAAAGTATAAAAAT
1 AAATT-TTAAAAAAATAAAAAAAT
56170236 TATAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (25 bp):
AAATTTTAAAAAAATAAAAAAATCA
Found at i:56170626 original size:24 final size:24
Alignment explanation
Indices: 56170590--56170635 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
56170580 TATTTACAAT
* * *
56170590 TTTTTTATTATTTTTAAATTTTAA
1 TTTTTAATAATTTGTAAATTTTAA
*
56170614 TTTTTAATAATTTGTACATTTT
1 TTTTTAATAATTTGTAAATTTT
56170636 TAAAAATTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTTAATAATTTGTAAATTTTAA
Found at i:56174689 original size:31 final size:31
Alignment explanation
Indices: 56174654--56174716 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
56174644 AAAAATTGTT
56174654 ATTGAACTATTCAAAAGTTTTCATTTAAGTC
1 ATTGAACTATTCAAAAGTTTTCATTTAAGTC
** * *
56174685 ATTGAACTATTTGACAGTTTTTATTTAAGTC
1 ATTGAACTATTCAAAAGTTTTCATTTAAGTC
56174716 A
1 A
56174717 CCGGGCCGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (31 bp):
ATTGAACTATTCAAAAGTTTTCATTTAAGTC
Found at i:56178866 original size:24 final size:23
Alignment explanation
Indices: 56178814--56178869 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
56178804 GCCCGGCCCG
*
56178814 ATTTTTAATAAACACAAAAAAAAT
1 ATTTTTAA-AAACAAAAAAAAAAT
*
56178838 A-TTTTAAAAATAAAAATAAAAAT
1 ATTTTTAAAAACAAAAA-AAAAAT
56178861 ATTTTTAAA
1 ATTTTTAAA
56178870 GTATTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 7 0.25
23 13 0.46
24 8 0.29
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (23 bp):
ATTTTTAAAAACAAAAAAAAAAT
Found at i:56185929 original size:24 final size:24
Alignment explanation
Indices: 56185898--56185949 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
56185888 TTCAAAAAAT
*
56185898 AATAAAAAATTCAAAATTCAAAAAA
1 AATAAAAAA-TAAAAATTCAAAAAA
56185923 AAT-AAAAATAAAAAGTTCATAAAAA
1 AATAAAAAATAAAAA-TTCA-AAAAA
56185948 AA
1 AA
56185950 GCATGAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 5 0.21
24 9 0.38
25 10 0.42
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (24 bp):
AATAAAAAATAAAAATTCAAAAAA
Found at i:56189370 original size:235 final size:236
Alignment explanation
Indices: 56188959--56189409 Score: 645
Period size: 235 Copynumber: 1.9 Consensus size: 236
56188949 CAAGATATTA
*
56188959 AAAAAGGTTAAATTACTAAAGAAGCCCTTAAACTAGTTTTTTAAAAAAATAAGCCTCTAAACTTT
1 AAAAAGGTCAAATTACTAAAGAAGCCCTTAAACTAGTTTTTTAAAAAAATAAGCCTCTAAACTTT
* * *
56189024 TGTTGCAACTCAAATAAACCCTTATGTTTTGATTTGTATTTAAATTAGCTCTTAAATAATGATTT
66 TGTTGCAACTCAAATAAACCCGTATATTTTGATTTGTATTTAAATTAGCCCTTAAATAATGATTT
*
56189089 ATATTAAGAATTTTATTTAAGTTTAAACTAAAGGATAGAGGCTTATTTAGATACAAGTT-AAAGA
131 ATATTAAGAATTTTATTTAAGTATAAACTAAAGGATAGAGGCTTATTTAGATACAAGTTAAAAGA
56189153 TTAAGAGCTTATTTGGTTTTTAAGGGTTTATACAAATCATT
196 TTAAGAGCTTATTTGGTTTTTAAGGGTTTATACAAATCATT
* * * *
56189194 AAAAAGGTCAAATTACTACAGAAGCCCTTAAACTAGTTTTTT-TAAAAATATGCTTCTAAACTTT
1 AAAAAGGTCAAATTACTAAAGAAGCCCTTAAACTAGTTTTTTAAAAAAATAAGCCTCTAAAC-TT
* * * *
56189258 TTTTTGTAACTCAAATAAACCCGTATATTTTGTTTTGTTTTTAAATTAGCCCTTAAATAATGATT
65 TTGTTGCAACTCAAATAAACCCGTATATTTTGATTTGTATTTAAATTAGCCCTTAAATAATGATT
* * ** ** * * *
56189323 TATATTGAGAATTTTATTTAGGTATAAGTTGCAGTATAGATGCTTATTTGGATACAAGTTAAAAA
130 TATATTAAGAATTTTATTTAAGTATAAACTAAAGGATAGAGGCTTATTTAGATACAAGTT---AA
*
56189388 AAGATTAAGAGCTTCTTTGGTT
192 AAGATTAAGAGCTTATTTGGTT
56189410 ACCAATTAAA
Statistics
Matches: 188, Mismatches: 23, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
234 16 0.09
235 150 0.80
239 22 0.12
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (236 bp):
AAAAAGGTCAAATTACTAAAGAAGCCCTTAAACTAGTTTTTTAAAAAAATAAGCCTCTAAACTTT
TGTTGCAACTCAAATAAACCCGTATATTTTGATTTGTATTTAAATTAGCCCTTAAATAATGATTT
ATATTAAGAATTTTATTTAAGTATAAACTAAAGGATAGAGGCTTATTTAGATACAAGTTAAAAGA
TTAAGAGCTTATTTGGTTTTTAAGGGTTTATACAAATCATT
Found at i:56201309 original size:16 final size:16
Alignment explanation
Indices: 56201290--56201331 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
56201280 AAATTAAATA
56201290 AAATTTAAAATAATCC
1 AAATTTAAAATAATCC
* *
56201306 AAATTTATAATAATTC
1 AAATTTAAAATAATCC
*
56201322 GAATTTAAAA
1 AAATTTAAAA
56201332 ATTAAATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (16 bp):
AAATTTAAAATAATCC
Found at i:56201437 original size:3 final size:3
Alignment explanation
Indices: 56201429--56201457 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
56201419 GACAAATACA
56201429 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
56201458 GATGTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:56209752 original size:17 final size:18
Alignment explanation
Indices: 56209732--56209765 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
56209722 ATGTAAAATT
56209732 AATATATATATA-TCAAA
1 AATATATATATACTCAAA
*
56209749 AATATATCTATACTCAA
1 AATATATATATACTCAA
56209766 TATTCAACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (18 bp):
AATATATATATACTCAAA
Found at i:56213210 original size:14 final size:15
Alignment explanation
Indices: 56213188--56213220 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
56213178 GTTTTAGTTG
*
56213188 AAATGTTAAAA-TTA
1 AAATATTAAAATTTA
56213202 AAATATTAAAATTTA
1 AAATATTAAAATTTA
56213217 AAAT
1 AAAT
56213221 GACAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
AAATATTAAAATTTA
Found at i:56225239 original size:17 final size:18
Alignment explanation
Indices: 56225219--56225252 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
56225209 ATGTAAAATT
56225219 AATATATATATA-TCAAA
1 AATATATATATACTCAAA
*
56225236 AATATATCTATACTCAA
1 AATATATATATACTCAA
56225253 TATTCAACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (18 bp):
AATATATATATACTCAAA
Found at i:56228699 original size:14 final size:15
Alignment explanation
Indices: 56228677--56228709 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
56228667 GTTTTAGTTG
*
56228677 AAATGTTAAAA-TTA
1 AAATATTAAAATTTA
56228691 AAATATTAAAATTTA
1 AAATATTAAAATTTA
56228706 AAAT
1 AAAT
56228710 GACAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
AAATATTAAAATTTA
Found at i:56229951 original size:23 final size:25
Alignment explanation
Indices: 56229917--56229983 Score: 102
Period size: 23 Copynumber: 2.7 Consensus size: 25
56229907 TTTGCCCTCA
*
56229917 TCTCTGCCCTCTGCCGGTTCTTTGT
1 TCTCTGCCCTCTGCCGGTCCTTTGT
56229942 T-T-TGCCCTCTGCCGGTCCTTTGT
1 TCTCTGCCCTCTGCCGGTCCTTTGT
56229965 TCCTCTGCCCTCTGCCGGT
1 T-CTCTGCCCTCTGCCGGT
56229984 GAGTTTATCT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
23 21 0.55
24 1 0.03
25 2 0.05
26 14 0.37
ACGTcount: A:0.00, C:0.39, G:0.21, T:0.40
Consensus pattern (25 bp):
TCTCTGCCCTCTGCCGGTCCTTTGT
Found at i:56234711 original size:93 final size:93
Alignment explanation
Indices: 56234597--56234778 Score: 231
Period size: 93 Copynumber: 2.0 Consensus size: 93
56234587 TTCTGCCTAT
* ** *
56234597 GAGGTTTCCCATAAGAAATCAA-TTCTCCACTCTCGGTTTTAACTTCTAGGGATTCAAAATCTTG
1 GAGGTTTCCCATAAGAAATCAACTCCT-CACTCTCGACTTTAACTTCTAGGGATTCAAAATATTG
* * *
56234661 TGAAGACTTTTTCCTAATTTTCTCCACAC
65 CGAAGACTTTTCCCTAAATTTCTCCACAC
* * * * * *
56234690 GAGGTTTCTCATCAGAAATCAACTCCTCATTCTTGACTTTAATTTCTAGGGATTCAGAATATTGC
1 GAGGTTTCCCATAAGAAATCAACTCCTCACTCTCGACTTTAACTTCTAGGGATTCAAAATATTGC
56234755 GAAGACTTTTCCCTAAATTTCTCC
66 GAAGACTTTTCCCTAAATTTCTCC
56234779 CTCTTAATTT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
93 72 0.96
94 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (93 bp):
GAGGTTTCCCATAAGAAATCAACTCCTCACTCTCGACTTTAACTTCTAGGGATTCAAAATATTGC
GAAGACTTTTCCCTAAATTTCTCCACAC
Found at i:56238762 original size:13 final size:13
Alignment explanation
Indices: 56238744--56238769 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56238734 ATAAAAAAAA
56238744 TTATTTAACTTTT
1 TTATTTAACTTTT
56238757 TTATTTAACTTTT
1 TTATTTAACTTTT
56238770 CATCTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTTAACTTTT
Found at i:56243404 original size:8 final size:8
Alignment explanation
Indices: 56243391--56243415 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
56243381 TACATGTACA
56243391 TATATATT
1 TATATATT
56243399 TATATATT
1 TATATATT
56243407 TATATATT
1 TATATATT
56243415 T
1 T
56243416 TTTCTAACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATATATT
Found at i:56246767 original size:19 final size:19
Alignment explanation
Indices: 56246735--56246772 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
56246725 AATTTTTTAA
56246735 AATTATTTTATAATGATTT
1 AATTATTTTATAATGATTT
*
56246754 AATTGATTTT-TAATTATTT
1 AATT-ATTTTATAATGATTT
56246773 TACGAAGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
AATTATTTTATAATGATTT
Found at i:56251241 original size:18 final size:18
Alignment explanation
Indices: 56251214--56251253 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
56251204 CAGTTCCCGA
* *
56251214 TTTGATCAGTCTGACTGG
1 TTTGACCAGTCTAACTGG
*
56251232 TTTGACCAGTCTAATTGG
1 TTTGACCAGTCTAACTGG
56251250 TTTG
1 TTTG
56251254 TCTGGTTCGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.15, G:0.25, T:0.42
Consensus pattern (18 bp):
TTTGACCAGTCTAACTGG
Found at i:56253888 original size:95 final size:95
Alignment explanation
Indices: 56253725--56253915 Score: 382
Period size: 95 Copynumber: 2.0 Consensus size: 95
56253715 AACACTGTTA
56253725 TCGAAATTAGAGATGTTCATGGTTTAAGTCGAATATTGTTTACTAGACTTGAACTCGATTTAAAA
1 TCGAAATTAGAGATGTTCATGGTTTAAGTCGAATATTGTTTACTAGACTTGAACTCGATTTAAAA
56253790 TATATACTTAAATTTCTAGGATGCTTTCTC
66 TATATACTTAAATTTCTAGGATGCTTTCTC
56253820 TCGAAATTAGAGATGTTCATGGTTTAAGTCGAATATTGTTTACTAGACTTGAACTCGATTTAAAA
1 TCGAAATTAGAGATGTTCATGGTTTAAGTCGAATATTGTTTACTAGACTTGAACTCGATTTAAAA
56253885 TATATACTTAAATTTCTAGGATGCTTTCTC
66 TATATACTTAAATTTCTAGGATGCTTTCTC
56253915 T
1 T
56253916 ATAGGAAAAA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (95 bp):
TCGAAATTAGAGATGTTCATGGTTTAAGTCGAATATTGTTTACTAGACTTGAACTCGATTTAAAA
TATATACTTAAATTTCTAGGATGCTTTCTC
Found at i:56255241 original size:15 final size:16
Alignment explanation
Indices: 56255209--56255241 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
56255199 CACAATGAGT
*
56255209 TTTTTTTTTTTAATAA
1 TTTTATTTTTTAATAA
56255225 TTTTATTTTTTAA-AA
1 TTTTATTTTTTAATAA
56255240 TT
1 TT
56255242 GTAATAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTATTTTTTAATAA
Found at i:56257443 original size:4 final size:4
Alignment explanation
Indices: 56257434--56257459 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
56257424 GAAGAAGAAG
56257434 AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
56257460 TGGGGTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:56267605 original size:9 final size:9
Alignment explanation
Indices: 56267593--56267624 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
56267583 TTTTGGTTAA
56267593 GAATTAACC
1 GAATTAACC
*
56267602 GAATTACCC
1 GAATTAACC
56267611 GAATTAACC
1 GAATTAACC
56267620 GAATT
1 GAATT
56267625 GAATCACTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (9 bp):
GAATTAACC
Found at i:56270116 original size:24 final size:25
Alignment explanation
Indices: 56270076--56270132 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
56270066 ACATAAGTAA
56270076 ATTA-AATAATTTTTAAAT-TAAAT
1 ATTATAATAATTTTTAAATGTAAAT
*
56270099 ATTATAATTATTTTTAAATGTAAAT
1 ATTATAATAATTTTTAAATGTAAAT
56270124 -TTAGTAATA
1 ATTA-TAATA
56270133 CGAGTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 4 0.14
24 16 0.55
25 9 0.31
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (25 bp):
ATTATAATAATTTTTAAATGTAAAT
Found at i:56274117 original size:274 final size:276
Alignment explanation
Indices: 56273643--56274157 Score: 757
Period size: 274 Copynumber: 1.9 Consensus size: 276
56273633 ATGATTTATT
* * ** *
56273643 TATTTTAAACAAATCAGTTTAATATAATGCCATTGGGGAAAATAATTAAATGATTTATTTGTTTG
1 TATTTTAAACAAATCAGTTTAATATAATACCACTGCAGAAAATAATTAAATGA--TATTTGTTTA
* * *
56273708 TTTCTATTTTAGGTACGACAACAGATTCGGAGGAAAAACGTAATGAAGAATCGAAAGGTAAAAAC
64 TTTCTATTTTAGGTACGACAACAGATTCGGAGAAAAAACGTAATGAAGAACCAAAAGGTAAAAAC
* * *
56273773 TCTAATCTATATGTCTAAAAAATAAATTATTTTAGCCGAATTTACATTGTTAAAAATTTGAATTA
129 TCTAATCTACACGTCTAAAAAATAAATTATTTTAGCCGAATATACATTGTTAAAAATTTGAATTA
*
56273838 AAATTCTCATATCATATTACATATTAAATAAAAAATAAAAATTGTTTAACCAGGTGAAGATGAAA
194 AAATTCTCATATCATATTACATATTAAATAAAAAAGAAAAA-TGTTTAACCAGGTGAAGATGAAA
56273903 TTATTTATAAAAAAAAACA
258 TTATTTATAAAAAAAAACA
* * *
56273922 TATTTTAGACAAATCAGTTTAATATGATATCACTGCAGAAAATAATTAAAT-A-ATTT-TTTATT
1 TATTTTAAACAAATCAGTTTAATATAATACCACTGCAGAAAATAATTAAATGATATTTGTTTATT
* * * * * * *
56273984 TTTATTTTAGGTATGACTACAGGTTTGGAGAAAAAACGTAATGAAGAACCAAAAGGTAAATACTT
66 TCTATTTTAGGTACGACAACAGATTCGGAGAAAAAACGTAATGAAGAACCAAAAGGTAAAAACTC
*
56274049 TAATCTACACGTCTAAAAAATAAATTATTTTAGCCGAATATACATTGTTAAATATTTGAATTAAA
131 TAATCTACACGTCTAAAAAATAAATTATTTTAGCCGAATATACATTGTTAAAAATTTGAATTAAA
* *
56274114 ATTCTCATATCATATTGCATATTAAATCAAAAAGAAAAATGTTT
196 ATTCTCATATCATATTACATATTAAATAAAAAAGAAAAATGTTT
56274158 TAAATCAAAA
Statistics
Matches: 211, Mismatches: 25, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
273 5 0.02
274 157 0.74
275 4 0.02
278 1 0.00
279 44 0.21
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (276 bp):
TATTTTAAACAAATCAGTTTAATATAATACCACTGCAGAAAATAATTAAATGATATTTGTTTATT
TCTATTTTAGGTACGACAACAGATTCGGAGAAAAAACGTAATGAAGAACCAAAAGGTAAAAACTC
TAATCTACACGTCTAAAAAATAAATTATTTTAGCCGAATATACATTGTTAAAAATTTGAATTAAA
ATTCTCATATCATATTACATATTAAATAAAAAAGAAAAATGTTTAACCAGGTGAAGATGAAATTA
TTTATAAAAAAAAACA
Found at i:56274811 original size:155 final size:154
Alignment explanation
Indices: 56274204--56274821 Score: 699
Period size: 155 Copynumber: 4.0 Consensus size: 154
56274194 ATGGTATCAC
* ** * *
56274204 TAGAGAAAATAATTGAATGATTTATTTATTTATTTATCCATTTTTATTTCAGACAAGACTACAGG
1 TAGAGAAAATAATTGAATGATTTATTTATTTATTCATCCATTTTTATTTCAGGTACGACTACAAG
* * ** * * *
56274269 TTCGGAAGAAAAATGTAATGAGGAACCGAAAGGTAAAGACCTTAATCTACAAGTATAAAAAATAA
66 TTCGGAAGAAAAACGTAATGAAGAACTAAAAGGTAAAGACCTTAATCTACCA-TCTAAAGAATAA
* *
56274334 TTTATTTTAGCC-AATTTTACATTTT
130 ATTATTTTAGCCGAA-TTTACATTGT
* * * * *
56274359 TAGAGAAAATAATTGAATGATTTATTTA---GTT-GTCCGTTTTTATTTTAGGTACAACTACAAG
1 TAGAGAAAATAATTGAATGATTTATTTATTTATTCATCCATTTTTATTTCAGGTACGACTACAAG
* * * * * * * * *
56274420 TTCGGAAGGAAAACGCAACGAAGAACAAAAAGGTAAATAACTTAATCTA-CATGTCCAATAATTA
66 TTCGGAAGAAAAACGTAATGAAGAACTAAAAGGTAAAGACCTTAATCTACCATCT-AAAGAA-TA
*
56274484 AATTATTTTAGCCAAATTTACATTGT
129 AATTATTTTAGCCGAATTTACATTGT
* * * * * *
56274510 TAGAGAAAATAATTGAATGATTTACTTATTTATTTATCCGTTTTTATTTTAGGTACGACTATAGG
1 TAGAGAAAATAATTGAATGATTTATTTATTTATTCATCCATTTTTATTTCAGGTACGACTACAAG
* * * *
56274575 TTCGGAAGAAAAACGTAATCAAGAACTAAAAGGTAAAGGCTTTAATCTACACATCTAAAGAATAC
66 TTCGGAAGAAAAACGTAATGAAGAACTAAAAGGTAAAGACCTTAATCTAC-CATCTAAAGAATAA
56274640 ATTATTTTAGCCGAATTTACATTGT
130 ATTATTTTAGCCGAATTTACATTGT
* * * *
56274665 TAGAGAAAATATTTGAATGATTTATTTATTTATCCATTCATTTTTATTTCAGGTATGACTACAAG
1 TAGAGAAAATAATTGAATGATTTATTTATTTATTCATCCATTTTTATTTCAGGTACGACTACAAG
* * *
56274730 TTCGGAAGAAAAACGTAATGAGGAATTGAAAGGTAAAGACCTTAATCTACGCATCTAAAGAATAA
66 TTCGGAAGAAAAACGTAATGAAGAACTAAAAGGTAAAGACCTTAATCTAC-CATCTAAAGAATAA
** *
56274795 ATTATTTTAGTTGAATTTAGATTGT
130 ATTATTTTAGCCGAATTTACATTGT
56274820 TA
1 TA
56274822 AAAAATTGAA
Statistics
Matches: 389, Mismatches: 65, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
149 2 0.01
150 5 0.01
151 112 0.29
152 4 0.01
154 2 0.01
155 256 0.66
156 4 0.01
157 4 0.01
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (154 bp):
TAGAGAAAATAATTGAATGATTTATTTATTTATTCATCCATTTTTATTTCAGGTACGACTACAAG
TTCGGAAGAAAAACGTAATGAAGAACTAAAAGGTAAAGACCTTAATCTACCATCTAAAGAATAAA
TTATTTTAGCCGAATTTACATTGT
Found at i:56276884 original size:289 final size:284
Alignment explanation
Indices: 56276051--56277644 Score: 1133
Period size: 280 Copynumber: 5.7 Consensus size: 284
56276041 ACAAAAATGG
* * * * * * * * *
56276051 TTAAAATAAACATTTTTTGAACAAATCAATCTAATTTGATATCATTGGATAAAGTAATTAAATGA
1 TTAAAAAAAACATATTTT-AACAAATCAGTTTAATATGATATCACTAGAGAAAATAATTAAATGA
* * * *
56276116 TTTATTT-GTT-TGTTTTTA--TTTTAGGTACTG-CAACAGATTCAAAGAAAAAACTTAATGAAG
65 TTTATTTATTTATCTTTTTATTTTTTAGGTAC-GACAACAGGTTCAAAGGAAAAACTTAATGAAG
* * * *
56276176 AACCGAAAGGTAAAGACCTTAACCTACATGTGTAAAAAATAAATTATTTTAGTCGAAGTTACATT
129 AACCGAAAGGTAAAAACCTTAACCTACACGTATAAAAAATAAATTATTTTAGTCGAATTTACATT
* * * *
56276241 GTTAAAATTTTGAATTAAAATTCCCATCTCATATTGCATACTAAATC-CAAAATAAAAATT----
194 GTTAAAAATTTGAATTAAAATTCTCATATCATATTGCAT--TAAATCAAAAAAT-AAAATTAAAA
* *
56276301 -TG-TTTAACCAGGTGAAGATGAAATGA-
256 ATGTTTTAACTAGGTGAAGATGAAATTAT
* * * *
56276327 TTAAAAAAAACATGTTTTAAACAAATCAGTTTAATATGATATTAGTGGAGAAAATAATTAAATGA
1 TTAAAAAAAACATATTTT-AACAAATCAGTTTAATATGATATCACTAGAGAAAATAATTAAATGA
* * * *
56276392 TTTATTTATTTATCTGTTTT-TATTTTAGGTGCGACAACAGGTTCAAAGGAAAAACGTAATGATG
65 TTTATTTATTTATCT-TTTTATTTTTTAGGTACGACAACAGGTTCAAAGGAAAAACTTAATGAAG
** * *
56276456 AACCGAAAGGTAAAAATTTTAACCTACACG-ACTAAAAAATAAATTATTTTAGTC-AGTTTTACT
129 AACCGAAAGGTAAAAACCTTAACCTACACGTA-TAAAAAATAAATTATTTTAGTCGA-ATTTACA
* * * *
56276519 TTGTTAAAAATTTTGAATTAAAATTCTCTTATCATATTGCATATTAAAACGAAAACA-AAAA-CA
192 TTGTTAAAAA-TTTGAATTAAAATTCTCATATCATATTGC--ATTAAATC-AAAAAATAAAATTA
56276582 AAAAT-TGTTTAACTAGGTGAAGATGAAATTAT
253 AAAATGT-TTTAACTAGGTGAAGATGAAATTAT
*
56276614 TTAAAAAAAACATATTTTCAACAAATCAGTTTAATATGATATCACTAGAGAAAATAATTAAATAA
1 TTAAAAAAAACATATTTT-AACAAATCAGTTTAATATGATATCACTAGAGAAAATAATTAAATGA
* * *
56276679 TTTATTTATTTATCTATTATTATTTTTTAGGTACGACTACAGGTTCGAAGGAAAAACTCAATGAA
65 TTTATTTATTTATCT-TT-TTATTTTTTAGGTACGACAACAGGTTCAAAGGAAAAACTTAATGAA
* * * *
56276744 GAACCGAAAGGTAAAGACCTTAATCTACACGTATAAAAAATAAATTATTGTAGCCGAATTTACAT
128 GAACCGAAAGGTAAAAACCTTAACCTACACGTATAAAAAATAAATTATTTTAGTCGAATTTACAT
*
56276809 TGTCAAAAATTTGAATTAAAATTCTCATATCATATTATGCATTAAATCAAAAAATAAAATTAAAA
193 TGTTAAAAATTTGAATTAAAATTCTCATATCATA-T-TGCATTAAATCAAAAAATAAAATTAAAA
56276874 ATGTTTTAACTAGGTGAAGATGAAATTAT
256 ATGTTTTAACTAGGTGAAGATGAAATTAT
* ** * * * * *
56276903 TTAAAAATATTATA-TTTAACTAAT-TGTTTAATATGATATTACTAGAGAAAATAATTGAACGAT
1 TTAAAAAAAACATATTTTAACAAATCAGTTTAATATGATATCACTAGAGAAAATAATTAAATGAT
* * *
56276966 TTATTTATTTATC----CATTTTTTAGGTACGACTACAGGTTCGGAA-GAAAAA-TGTAATGAAG
66 TTATTTATTTATCTTTTTATTTTTTAGGTACGACAACAGGTTC-AAAGGAAAAACT-TAATGAAG
* * * * * * * * * *
56277025 AACTGAAAGGTAAAAACCTTAATCTACAC-TTTACATTGTTAGAGAAAATAATTGAAT-G-ATTT
129 AACCGAAAGGTAAAAACCTTAACCTACACGTATA-A----AAAATAAATTATTTTAGTCGAATTT
**** * * * * * * * **
56277087 --A-T-TTACCTGTTT---TT--ATTTTTGATA-C-GACTACAGGT--A-CAAAAGAA-AAACGT
189 ACATTGTTAAAAATTTGAATTAAAATTCTCATATCATATTGCA-TTAAATCAAAA-AATAAAATT
* ** * * * * *
56277137 AATGAA-GAACTGAA--AGGTAAAGACCTTAACCTACACGT
252 AA-AAATG-TTTTAACTAGGTGAAGA--TGAA-AT-TA--T
* * ** *
56277175 CTAAAAAATAA-ATTATTTTAGCCGA--A-TTTACAT-TG---T---TAGAGAAAATAATTGAAT
1 TTAAAAAA-AACA-TATTTTAACAAATCAGTTTA-ATATGATATCACTAGAGAAAATAATTAAAT
* * * * * *
56277229 GATTTGTTTATTTATCTGTTTT-TATTTTAGATACGACTACAGGTTCAAAAGAAAAACCTAATGA
63 GATTTATTTATTTATCT-TTTTATTTTTTAGGTACGACAACAGGTTCAAAGGAAAAACTTAATGA
* * * * * * *
56277293 GGAACCGAAAGGTAAAGACCTTAATCTACATGTCTAAAAAATAAATTATTTTAGCCGAATTTATA
127 AGAACCGAAAGGTAAAAACCTTAACCTACACGTATAAAAAATAAATTATTTTAGTCGAATTTACA
* * * *
56277358 TTGTCAAAAATTTGAATTAAAATTCTCATATCATGTTACATATTAAATC-AAAAATGAAATTAAA
192 TTGTTAAAAATTTGAATTAAAATTCTCATATCATATTGC--ATTAAATCAAAAAATAAAATTAAA
* *
56277422 AATGTTTTAACTAGGTAAAGCTGAAATTAT
255 AATGTTTTAACTAGGTGAAGATGAAATTAT
* *** * * *
56277452 TTAAAAACAACATA-TTTAATTGATTA-TTTAATATGATATCACTAGAGAAAATAATTGAACGAT
1 TTAAAAAAAACATATTTTAACAAATCAGTTTAATATGATATCACTAGAGAAAATAATTAAATGAT
* * * * * *
56277515 TTATTTATTTATC-TATT-TTCTTTAGGTACGACTACAAGTTCGGAA-GAAAAACGTAATGAAGA
66 TTATTTATTTATCTTTTTATTTTTTAGGTACGACAACAGGTTC-AAAGGAAAAACTTAATGAAGA
* ** * * * *
56277577 ACTGAAAGGTAAAAATATTAATCTACACGTCTAAAAAATAAATTATTTTAGCCAAATTTACATTG
130 ACCGAAAGGTAAAAACCTTAACCTACACGTATAAAAAATAAATTATTTTAGTCGAATTTACATTG
56277642 TTA
195 TTA
56277645 GAGAAAATAA
Statistics
Matches: 1046, Mismatches: 180, Indels: 179
0.74 0.13 0.13
Matches are distributed among these distances:
266 50 0.05
267 13 0.01
268 15 0.01
269 7 0.01
270 65 0.06
271 5 0.00
272 20 0.02
273 12 0.01
274 6 0.01
275 10 0.01
276 68 0.07
277 24 0.02
278 8 0.01
279 15 0.01
280 166 0.16
281 147 0.14
282 16 0.02
283 47 0.04
284 9 0.01
285 1 0.00
286 69 0.07
287 87 0.08
288 40 0.04
289 140 0.13
290 6 0.01
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (284 bp):
TTAAAAAAAACATATTTTAACAAATCAGTTTAATATGATATCACTAGAGAAAATAATTAAATGAT
TTATTTATTTATCTTTTTATTTTTTAGGTACGACAACAGGTTCAAAGGAAAAACTTAATGAAGAA
CCGAAAGGTAAAAACCTTAACCTACACGTATAAAAAATAAATTATTTTAGTCGAATTTACATTGT
TAAAAATTTGAATTAAAATTCTCATATCATATTGCATTAAATCAAAAAATAAAATTAAAAATGTT
TTAACTAGGTGAAGATGAAATTAT
Found at i:56277156 original size:119 final size:119
Alignment explanation
Indices: 56276945--56277172 Score: 318
Period size: 119 Copynumber: 1.9 Consensus size: 119
56276935 ATGATATTAC
* * **
56276945 TAGAGAAAATAATTGAACGATTTATTTATTTATCCATTTTTTAGGTACGACTACAGGTTCGGAAG
1 TAGAGAAAATAATTGAACGATTTATTTATTTATCCATTTTTTAGATACGACTACAGGTACAAAAG
* *
56277010 AAAAATGTAATGAAGAACTGAAAGGTAAAAACCTTAATCTACACTTTACATTGT
66 AAAAACGTAATGAAGAACTGAAAGGTAAAAACCTTAACCTACACTTTACATTGT
* **
56277064 TAGAGAAAATAATTGAATGATTTATTTACCTGTT-TTTA-TTTTT-GATACGACTACAGGTACAA
1 TAGAGAAAATAATTGAACGATTTATTTA--T-TTATCCATTTTTTAGATACGACTACAGGTACAA
*
56277126 AAGAAAAACGTAATGAAGAACTGAAAGGTAAAGACCTTAACCTACAC
63 AAGAAAAACGTAATGAAGAACTGAAAGGTAAAAACCTTAACCTACAC
56277173 GTCTAAAAAA
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
119 86 0.90
120 5 0.05
121 3 0.03
122 2 0.02
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (119 bp):
TAGAGAAAATAATTGAACGATTTATTTATTTATCCATTTTTTAGATACGACTACAGGTACAAAAG
AAAAACGTAATGAAGAACTGAAAGGTAAAAACCTTAACCTACACTTTACATTGT
Found at i:56277328 original size:151 final size:149
Alignment explanation
Indices: 56277054--56278095 Score: 898
Period size: 147 Copynumber: 7.1 Consensus size: 149
56277044 TAATCTACAC
* *
56277054 TTTACATTGTTAGAGAAAATAATTGAATGA--TTTATTTACCTGTTTTTATTTTTGATACGACTA
1 TTTACATTGTTAGAGAAAATAATTGAATGATTTTTATTTATCTGTTTTTATTTTAGATACGACTA
* * *
56277117 CAGGTACAAAAGAAAAACGTAATGAAGAACTGAAAGGTAAAGACCTTAACCTACACGTCTAAAAA
66 CAGGTTCAAAAGAAAAACGTAATGAAGAACCGAAAGGTAAAGACCTTAATCTACACGTCTAAAAA
56277182 ATAAATTATTTTAGCCGAA
131 ATAAATTATTTTAGCCGAA
56277201 TTTACATTGTTAGAGAAAATAATTGAATGATTTGTTTATTTATCTGTTTTTATTTTAGATACGAC
1 TTTACATTGTTAGAGAAAATAATTGAATGA-TT-TTTATTTATCTGTTTTTATTTTAGATACGAC
* * *
56277266 TACAGGTTCAAAAGAAAAACCTAATGAGGAACCGAAAGGTAAAGACCTTAATCTACATGTCTAAA
64 TACAGGTTCAAAAGAAAAACGTAATGAAGAACCGAAAGGTAAAGACCTTAATCTACACGTCTAAA
56277331 AAATAAATTATTTTAGCCGAA
129 AAATAAATTATTTTAGCCGAA
* * * * * * ** * *
56277352 TTTATATTGTCA-A-AAATTTGAATT-AA-AATTCTCA--TATCATG-TTACATATTAAAT-C-A
1 TTTACATTGTTAGAGAAA-AT-AATTGAATGATTTTTATTTATC-TGTTTTTATTTTAGATACGA
** * ** * * * ** * * * * ***
56277408 --A-A-AATGAAATTAAAAATGT-TTTAACTA-GGTAAAGCTGAA-A--TT-ATTTA-AAAAC-A
63 CTACAGGTTCAAAAGAAAAACGTAATGAAGAACCG-AAAGGTAAAGACCTTAATCTACACGTCTA
* * * *
56277461 ACATATTTAATTGATTATT----TAA
127 A-AAAATAAATT-ATT-TTAGCCGAA
* * *** * * * *
56277483 TATGATATCACTAGAGAAAATAATTGAACGATTTATTTATTTATCT-ATTTT-CTTTAGGTACGA
1 T-TTACATTGTTAGAGAAAATAATTGAATGA-TT-TTTATTTATCTGTTTTTATTTTAGATACGA
* ** * * **
56277546 CTACAAGTTCGGAAGAAAAACGTAATGAAGAACTGAAAGGTAAAAATATTAATCTACACGTCTAA
63 CTACAGGTTCAAAAGAAAAACGTAATGAAGAACCGAAAGGTAAAGACCTTAATCTACACGTCTAA
*
56277611 AAAATAAATTATTTTAGCCAAA
128 AAAATAAATTATTTTAGCCGAA
* * *
56277633 TTTACATTGTTAGAGAAAATAATTGAATGA--TTTATTTATCCGTTTTTATTTTAGGTTCGACTA
1 TTTACATTGTTAGAGAAAATAATTGAATGATTTTTATTTATCTGTTTTTATTTTAGATACGACTA
* * *
56277696 CAAGTTCAAAAGAAAAACGTAATGAAGAACCGAAAGGCAAATG-CCTTAAACTACACGTCTAAAA
66 CAGGTTCAAAAGAAAAACGTAATGAAGAACCGAAAGGTAAA-GACCTTAATCTACACGTCTAAAA
56277760 AATAAATTATTTTAGCCGAA
130 AATAAATTATTTTAGCCGAA
* * * * *
56277780 TTTACATTGTTAAAGAAAATAGTTGAATGA--TTTATTTATCCGTTTTTATTTTAGGTGCGACTA
1 TTTACATTGTTAGAGAAAATAATTGAATGATTTTTATTTATCTGTTTTTATTTTAGATACGACTA
* * *
56277843 CAGATACAAAAGAAAAACGTAATGAAGAACCGAAAGGTAAATG--CTTAACCTACACGTCTAAAA
66 CAGGTTCAAAAGAAAAACGTAATGAAGAACCGAAAGGTAAA-GACCTTAATCTACACGTCTAAAA
*
56277906 AATAAATTATTTTAGCCAAA
130 AATAAATTATTTTAGCCGAA
**
56277926 TTTACATTGTTAGAGAAAACGATTGAATGATTTATTAATTTATTTACTTATTCGTTTTTATTTTA
1 TTTACATTGTTAGAGAAAATAATTGAATGATTT-TT-ATTTA--T-C----T-GTTTTTATTTTA
* * * * * *
56277991 GATACGGCTATAGGTTTAGAAGAAAAACGTAATGAGGAACCAAAAGGTAAAGACCTTAATCTACA
56 GATACGACTACAGGTTCAAAAGAAAAACGTAATGAAGAACCGAAAGGTAAAGACCTTAATCTACA
56278056 CGTCT-AAAAATAAATTATTTTAGCCGAA
121 CGTCTAAAAAATAAATTATTTTAGCCGAA
56278084 TTTACATTGTTA
1 TTTACATTGTTA
56278096 AAATTTTGAA
Statistics
Matches: 715, Mismatches: 124, Indels: 101
0.76 0.13 0.11
Matches are distributed among these distances:
131 3 0.00
132 12 0.02
133 13 0.02
134 11 0.02
135 6 0.01
136 6 0.01
137 6 0.01
138 15 0.02
139 10 0.01
140 2 0.00
141 2 0.00
142 9 0.01
143 12 0.02
144 3 0.00
145 23 0.03
146 74 0.10
147 225 0.31
148 12 0.02
149 31 0.04
150 12 0.02
151 123 0.17
152 1 0.00
153 1 0.00
157 1 0.00
158 87 0.12
159 15 0.02
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.34
Consensus pattern (149 bp):
TTTACATTGTTAGAGAAAATAATTGAATGATTTTTATTTATCTGTTTTTATTTTAGATACGACTA
CAGGTTCAAAAGAAAAACGTAATGAAGAACCGAAAGGTAAAGACCTTAATCTACACGTCTAAAAA
ATAAATTATTTTAGCCGAA
Found at i:56278805 original size:277 final size:277
Alignment explanation
Indices: 56277964--56278888 Score: 943
Period size: 277 Copynumber: 3.3 Consensus size: 277
56277954 GATTTATTAA
* * * ** * *
56277964 TTTATTTACTTATTCGTTTTTATTTTAGATACGGCTAT-AGGTTTAGAAGAAAAACGTAATGAGG
1 TTTATTTA-TTACT-GTTTTTATTTTAGGTACGACT-TCAGGTTCGGAGGAAAAACGTAATGAAG
* * *
56278028 AACCAAAAGGTAAAGACCTTAATCTACACGTCT-AAAAATAAATTATTTTAGCCGAATTTACATT
63 AACCGAAAGGTAAAGACCTTAATCTACACGTCTAAAAAATAAATAATTTTAGTCGAATTTACATT
* * * * *
56278092 GTTAAAATTTTGAATTAAAATTCTCATATC-ATTGCATATAAAATCAAAAAA-AGAAGAAGCTTT
128 ATTAAAATTTTGAATTAAAATTCTCATATCAATTGCATATTAAAT-AAAAAATAAAAAAAGGTTT
* * *
56278155 AACCAGGTGAAGATGAAATTATTAGAAAAAAAAAAGCATATTCTAAACAAATCAGTTTAATATGA
192 AACTAGGTGAAGATGAAATTATT----AAAATAAA-CATATTTTAAACAAATCAGTTTAATATGA
* *
56278220 TATCACTCGAGAAAATAATTAAATGATTTA
252 TATCACTAGAGAAAATAATTAAAT-A---G
* * ** ** *
56278250 TTTATTTATTTATCTATTTTTATTTTAGGTATGACAACAGGTTCGGAGGAAAAATTTAAAGAAGA
1 TTTATTTA-TTA-CTGTTTTTATTTTAGGTACGACTTCAGGTTCGGAGGAAAAACGTAATGAAGA
* * * *
56278315 ATCGAAAGGTAAAGACCTTAATCTACACATCTAAAAAATAAATCATTTTAGTCGAA--TACACTG
64 ACCGAAAGGTAAAGACCTTAATCTACACGTCTAAAAAATAAATAATTTTAGTCGAATTTACA-TT
* *
56278378 A-TAAAATTTTGAATTAAAATTCTCATACCACATTGC--A-T-AAT-AAAAAT-AAAAATGGTTT
128 ATTAAAATTTTGAATTAAAATTCTCATATCA-ATTGCATATTAAATAAAAAATAAAAAAAGGTTT
* * *
56278436 AAGTAGGTGAAGATGAAATTATTAAAATAAACATATTTTAAACAAATCGGTTTAATATGATATGA
192 AACTAGGTGAAGATGAAATTATTAAAATAAACATATTTTAAACAAATCAGTTTAATATGATATCA
*
56278501 CTGGAGAAAATAATTAAAT-G
257 CTAGAGAAAATAATTAAATAG
*
56278521 ATTTATTTA-TA-TGTTTTTATTTTAGGTACGACTTCAGGTTCGGAGGAAAAACGTAATGACGAA
1 -TTTATTTATTACTGTTTTTATTTTAGGTACGACTTCAGGTTCGGAGGAAAAACGTAATGAAGAA
* * * * *
56278584 CCGAAAGGTAAAAACTTTTA-CATACACGTCTAAAAAATAAAAAATTTTAATCGAATTTACATTA
65 CCGAAAGGTAAAGACCTTAATC-TACACGTCTAAAAAATAAATAATTTTAGTCGAATTTACATTA
56278648 TTAATAA-TTTGAATTAAAATTCTCATATCATATTGCATATTAAATAAAAAAATAAAAAAAGGTT
129 TTAA-AATTTTGAATTAAAATTCTCATATCA-ATTGCATATTAAAT-AAAAAATAAAAAAAGGTT
* * * *
56278712 TAACTAGGTGAAGATGAAATTATTAAAATAAATATTTTTTAAACGAATCAGTTTAATATAATATC
191 TAACTAGGTGAAGATGAAATTATTAAAATAAACATATTTTAAACAAATCAGTTTAATATGATATC
*
56278777 ACTAGATAAAATAATTAAATAG
256 ACTAGAGAAAATAATTAAATAG
* * ** * ** * * * *
56278799 TTTATTTTTTTATCTGTTTTTATTTCATATACAACAACAAGTTCAGAGGACAAACGGAATGCAA-
1 TTTA-TTTATTA-CTGTTTTTATTTTAGGTACGACTTCAGGTTCGGAGGAAAAACGTAATG-AAG
* *
56278863 AACCGAAAGGTAAATACTTTAATCTA
63 AACCGAAAGGTAAAGACCTTAATCTA
56278889 TATATATATA
Statistics
Matches: 533, Mismatches: 79, Indels: 59
0.79 0.12 0.09
Matches are distributed among these distances:
267 1 0.00
268 89 0.17
269 2 0.00
270 36 0.07
271 2 0.00
272 9 0.02
273 1 0.00
274 3 0.01
276 55 0.10
277 96 0.18
278 4 0.01
279 2 0.00
281 92 0.17
282 2 0.00
283 3 0.01
285 32 0.06
286 77 0.14
287 27 0.05
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (277 bp):
TTTATTTATTACTGTTTTTATTTTAGGTACGACTTCAGGTTCGGAGGAAAAACGTAATGAAGAAC
CGAAAGGTAAAGACCTTAATCTACACGTCTAAAAAATAAATAATTTTAGTCGAATTTACATTATT
AAAATTTTGAATTAAAATTCTCATATCAATTGCATATTAAATAAAAAATAAAAAAAGGTTTAACT
AGGTGAAGATGAAATTATTAAAATAAACATATTTTAAACAAATCAGTTTAATATGATATCACTAG
AGAAAATAATTAAATAG
Found at i:56288325 original size:20 final size:19
Alignment explanation
Indices: 56288298--56288335 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
56288288 TCTAATATGA
56288298 AAACAATTATCAAATTCAG
1 AAACAATTATCAAATTCAG
*
56288317 AAACTAATTATCTAATTCA
1 AAAC-AATTATCAAATTCA
56288336 AGCCCTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.32
Consensus pattern (19 bp):
AAACAATTATCAAATTCAG
Found at i:56298181 original size:15 final size:14
Alignment explanation
Indices: 56298157--56298190 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
56298147 TACCTACGTA
*
56298157 TATATGTACATATTT
1 TATATATACATA-TT
56298172 TATATATACATATT
1 TATATATACATATT
56298186 TATAT
1 TATAT
56298191 GTTCTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (14 bp):
TATATATACATATT
Found at i:56299005 original size:108 final size:108
Alignment explanation
Indices: 56298863--56299064 Score: 307
Period size: 108 Copynumber: 1.9 Consensus size: 108
56298853 ATAATAAAGG
* * *
56298863 TAATGTTTTGCGTTTGGAGATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGT
1 TAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTCCGATTTTTCTCGT
* * *
56298928 TCGATCAAATAGCCAAATATCCTTTTAAAATTTCAAGTTAAGA
66 TCAACCAAATAGCCAAATATCCTCTTAAAATTTCAAGTTAAGA
*
56298971 TAATATTTTGCGTTTGGAAATTCGA-AGAAACGTGCCCTAATGTGCTGGGTTCCGATTTTTTTCG
1 TAATATTTTGCGTTTGGAAATTCGAGA-AAACGTGCCCTAATGTGCTGGGTTCCGATTTTTCTCG
* *
56299035 TTTAACCAAATAGCCAAATATTCTCTTAAA
65 TTCAACCAAATAGCCAAATATCCTCTTAAA
56299065 TCTTAATCCA
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
107 1 0.01
108 83 0.99
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (108 bp):
TAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTCCGATTTTTCTCGT
TCAACCAAATAGCCAAATATCCTCTTAAAATTTCAAGTTAAGA
Found at i:56299855 original size:25 final size:25
Alignment explanation
Indices: 56299827--56299874 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
56299817 TTCAATTTTA
56299827 TATTCAAT-AAATTTATATATATATT
1 TATTCAATAAAATTT-TATATATATT
* *
56299852 TATTTAGTAAAATTTTATATATA
1 TATTCAATAAAATTTTATATATA
56299875 AGCATCTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
TATTCAATAAAATTTTATATATATT
Found at i:56303390 original size:29 final size:29
Alignment explanation
Indices: 56303357--56303421 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
56303347 ATAGGGAATT
* * * *
56303357 GATCAAATTAGTCTCTCTATTATTAAATA
1 GATCAAATTAGTCCCTATACTATTAAAAA
*
56303386 GATCAATTTAGTCCCTATACTATTAAAAA
1 GATCAAATTAGTCCCTATACTATTAAAAA
56303415 GAATCAA
1 G-ATCAA
56303422 GTGAGGCCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (29 bp):
GATCAAATTAGTCCCTATACTATTAAAAA
Found at i:56308740 original size:54 final size:54
Alignment explanation
Indices: 56308658--56308769 Score: 197
Period size: 54 Copynumber: 2.1 Consensus size: 54
56308648 AACTTCATCC
* *
56308658 TGACTGATGGAATAACTAGACTGTTACATGTGGCGTGCCAATTGTACCTATAGT
1 TGACTGATGGAATAACTAGACAGTTACATGTGGCGTGCCAAGTGTACCTATAGT
*
56308712 TGACTGATGGAATAACTAGACAGTTACATGTGGCGTGCCACGTGTACCTATAGT
1 TGACTGATGGAATAACTAGACAGTTACATGTGGCGTGCCAAGTGTACCTATAGT
56308766 TGAC
1 TGAC
56308770 GTGCAGGGAC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (54 bp):
TGACTGATGGAATAACTAGACAGTTACATGTGGCGTGCCAAGTGTACCTATAGT
Found at i:56321458 original size:3 final size:3
Alignment explanation
Indices: 56321450--56321477 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
56321440 AATAACAAAC
56321450 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
56321478 TTTTATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:56322588 original size:35 final size:35
Alignment explanation
Indices: 56322517--56322588 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 35
56322507 AATCTTACCC
* * * * *
56322517 TTTAATTTTGGAATCAATTCTATGTTTGTTTGTTT
1 TTTAATTTTGGAATAAATTATATGTTGGTATATTT
56322552 TTTAATTTTGGAATAAATTATAT-TTAGGTATATTT
1 TTTAATTTTGGAATAAATTATATGTT-GGTATATTT
56322587 TT
1 TT
56322589 GTGCATCTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.26, C:0.03, G:0.12, T:0.58
Consensus pattern (35 bp):
TTTAATTTTGGAATAAATTATATGTTGGTATATTT
Found at i:56329646 original size:4 final size:4
Alignment explanation
Indices: 56329639--56329663 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
56329629 TCTTAAATAA
56329639 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
56329664 TTTAGCCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:56330462 original size:31 final size:31
Alignment explanation
Indices: 56330394--56330467 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
56330384 TATGGGTCAA
* * * *
56330394 GACTAAAATCTCA-AAATTCGAAAAGTATAGG
1 GACTAAAAT-TGACAAATTCAAAAAGTACAAG
* *
56330425 GGCTAAAGTTGACAAATTCAAAAAGTACAAG
1 GACTAAAATTGACAAATTCAAAAAGTACAAG
56330456 GACTAAAATTGA
1 GACTAAAATTGA
56330468 TATTAAAGTT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
30 2 0.06
31 32 0.94
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.22
Consensus pattern (31 bp):
GACTAAAATTGACAAATTCAAAAAGTACAAG
Found at i:56337117 original size:15 final size:15
Alignment explanation
Indices: 56337093--56337124 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
56337083 ACGAAGTAGC
*
56337093 TCGTCTTTGTCGTTG
1 TCGTCGTTGTCGTTG
56337108 TCGTCGTTGTCGTTG
1 TCGTCGTTGTCGTTG
56337123 TC
1 TC
56337125 TTTGTCGCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.22, G:0.28, T:0.50
Consensus pattern (15 bp):
TCGTCGTTGTCGTTG
Found at i:56343546 original size:15 final size:15
Alignment explanation
Indices: 56343526--56343559 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
56343516 TTACTTTTTG
* *
56343526 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
56343541 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
56343556 TTAT
1 TTAT
56343560 CGTAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:56345568 original size:62 final size:62
Alignment explanation
Indices: 56345465--56345589 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 62
56345455 TCTTTTTTTT
* *
56345465 GCATTCATGCATCAACATTACATTTCATCGCATGCAATAAATTTCCTAAAATCCAAAAATAC
1 GCATTCATGCATCAACACTACATTTCATCGCATACAATAAATTTCCTAAAATCCAAAAATAC
* * * *
56345527 GCATTCATGCATCAACACTACGTTTCATTGCATACAGTAAATTTCCTAAAATCCAAAAGTAC
1 GCATTCATGCATCAACACTACATTTCATCGCATACAATAAATTTCCTAAAATCCAAAAATAC
56345589 G
1 G
56345590 TCGAGCAGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (62 bp):
GCATTCATGCATCAACACTACATTTCATCGCATACAATAAATTTCCTAAAATCCAAAAATAC
Found at i:56346857 original size:12 final size:12
Alignment explanation
Indices: 56346817--56346850 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
56346807 GTGGAGGCAA
56346817 AAAAAAAAGGAC
1 AAAAAAAAGGAC
*
56346829 AAAAAAAAAGAC
1 AAAAAAAAGGAC
56346841 AAAAAAAAGG
1 AAAAAAAAGG
56346851 TAAAAAACGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGGAC
Found at i:56346867 original size:12 final size:11
Alignment explanation
Indices: 56346817--56346885 Score: 54
Period size: 10 Copynumber: 6.4 Consensus size: 11
56346807 GTGGAGGCAA
56346817 AAAAAAAAGGAC
1 AAAAAAAA-GAC
56346829 AAAAAAAAAGAC
1 -AAAAAAAAGAC
*
56346841 AAAAAAAAG-G
1 AAAAAAAAGAC
* * *
56346851 TAAAAAACGAG
1 AAAAAAAAGAC
56346862 AAAAAAAA-AC
1 AAAAAAAAGAC
*
56346872 AAATAAAAGA-
1 AAAAAAAAGAC
56346882 AAAA
1 AAAA
56346886 CCTCTACTGG
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
10 18 0.39
11 17 0.37
12 3 0.07
13 8 0.17
ACGTcount: A:0.80, C:0.06, G:0.12, T:0.03
Consensus pattern (11 bp):
AAAAAAAAGAC
Found at i:56347329 original size:15 final size:14
Alignment explanation
Indices: 56347307--56347356 Score: 52
Period size: 13 Copynumber: 3.7 Consensus size: 14
56347297 AAAAAAAACG
*
56347307 AAAAGAAAAATGAA
1 AAAAGAAAAAAGAA
56347321 AAAATGAAAAAAG--
1 AAAA-GAAAAAAGAA
*
56347334 AAAAGAAGAAAG-A
1 AAAAGAAAAAAGAA
56347347 AAAAGAAAAA
1 AAAAGAAAAA
56347357 GGAGAGGCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 7 0.23
13 13 0.42
14 4 0.13
15 7 0.23
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (14 bp):
AAAAGAAAAAAGAA
Found at i:56347339 original size:5 final size:6
Alignment explanation
Indices: 56347295--56347357 Score: 51
Period size: 6 Copynumber: 10.2 Consensus size: 6
56347285 TACTTCACTT
*
56347295 GAAAAA -AAAAC G-AAAA GAAAAA TGAAAAAA TGAAAAA -AGAAAA GAAGAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA -G-AAAAA -GAAAAA GA-AAAA GAA-AAA
56347345 GAAAAA GAAAAA G
1 GAAAAA GAAAAA G
56347358 GAGAGGCCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
5 9 0.19
6 19 0.40
7 13 0.27
8 7 0.15
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (6 bp):
GAAAAA
Found at i:56347342 original size:8 final size:7
Alignment explanation
Indices: 56347307--56347356 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
56347297 AAAAAAAACG
56347307 AAAAGAA
1 AAAAGAA
*
56347314 AAATGAA
1 AAAAGAA
56347321 AAAATGAA
1 AAAA-GAA
56347329 AAAAG--
1 AAAAGAA
56347334 AAAAGAA
1 AAAAGAA
*
56347341 GAAAG-A
1 AAAAGAA
56347347 AAAAGAA
1 AAAAGAA
56347354 AAA
1 AAA
56347357 GGAGAGGCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
5 5 0.14
6 5 0.14
7 18 0.51
8 7 0.20
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (7 bp):
AAAAGAA
Found at i:56347357 original size:12 final size:12
Alignment explanation
Indices: 56347295--56347357 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 12
56347285 TACTTCACTT
*
56347295 GAAAAA-AAAAC
1 GAAAAAGAAAAA
56347306 G-AAAAGAAAAA
1 GAAAAAGAAAAA
56347317 TGAAAAAATGAAAAA
1 -G-AAAAA-GAAAAA
56347332 -AGAAAAGAAGAAA
1 GA-AAAAGAA-AAA
56347345 GAAAAAGAAAAA
1 GAAAAAGAAAAA
56347357 G
1 G
56347358 GAGAGGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
10 4 0.09
11 5 0.12
12 9 0.21
13 14 0.33
14 5 0.12
15 6 0.14
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (12 bp):
GAAAAAGAAAAA
Found at i:56347878 original size:108 final size:108
Alignment explanation
Indices: 56347679--56347885 Score: 290
Period size: 108 Copynumber: 1.9 Consensus size: 108
56347669 TAATTTATTC
* *
56347679 TCATTTTGTATTCTAGCAAAATTTGCTATCCTGATTAATGTGTTCATTTAGAGTTTTGCTCTCAA
1 TCATCTTGTATTCTAGCAAAATTTGCTATCCTGATTAATGTGTTCATTTAGAGCTTTGCTCTCAA
*
56347744 CAAATTTTCATCTTATCCATTGTGATAATATTTTCCATCTTAT
66 CAAAATTTCATCTTATCCATTGTGATAATATTTTCCATCTTAT
* * * **
56347787 TCATCTTGTA-TCTCAGCAAAATTTGCTATCTTGATTGATTTGTTTGTTTAGAGCTTTGCTCTCA
1 TCATCTTGTATTCT-AGCAAAATTTGCTATCCTGATTAATGTGTTCATTTAGAGCTTTGCTCTCA
* * * *
56347851 ACAAAATTTCATTTTGTCCATTTTGATAATCTTTT
65 ACAAAATTTCATCTTATCCATTGTGATAATATTTT
56347886 TCAAGCATTT
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
107 3 0.03
108 83 0.97
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (108 bp):
TCATCTTGTATTCTAGCAAAATTTGCTATCCTGATTAATGTGTTCATTTAGAGCTTTGCTCTCAA
CAAAATTTCATCTTATCCATTGTGATAATATTTTCCATCTTAT
Found at i:56348458 original size:86 final size:86
Alignment explanation
Indices: 56348313--56348576 Score: 411
Period size: 86 Copynumber: 3.1 Consensus size: 86
56348303 AGTAAAAATT
*
56348313 GAAGATAAACCTTGCCTCTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
56348378 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* *
56348399 GAAGACAAACCTTGCCACTCTTGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
*
56348464 GCACTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * * * *
56348485 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTACTTTTCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
* * *
56348550 GTATTTGGCAGCGAAGCTGATC
66 GCA-TTGACAGCGAAGCAGATC
56348572 GAAGA
1 GAAGA
56348577 TGGCAGATTT
Statistics
Matches: 162, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
86 142 0.88
87 20 0.12
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (86 bp):
GAAGACAAACCTTGCCTCTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATC
Found at i:56348688 original size:95 final size:96
Alignment explanation
Indices: 56348575--56348762 Score: 315
Period size: 97 Copynumber: 2.0 Consensus size: 96
56348565 GCTGATCGAA
56348575 GATGGCAGATTTTACCTCC-CTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTA
1 GATGGCAGATTTTACCTCCACTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTA
56348639 TATTGGGCAGTGGAATAGATTGAAGATCAAG
66 TATTGGGCAGTGGAATAGATTGAAGATCAAG
* * *
56348670 GATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCA-CTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCT
* *
56348735 GTATTTGGCAGTGGAATAGATTGAAGAT
65 ATATTGGGCAGTGGAATAGATTGAAGAT
56348763 TGCAGATCTT
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
95 19 0.22
97 67 0.78
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (96 bp):
GATGGCAGATTTTACCTCCACTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTA
TATTGGGCAGTGGAATAGATTGAAGATCAAG
Found at i:56348791 original size:46 final size:46
Alignment explanation
Indices: 56348729--56348925 Score: 142
Period size: 46 Copynumber: 4.4 Consensus size: 46
56348719 ATAATTCTAT
*
56348729 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGC
* * * * * * *
56348775 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTAAAGATTGCAGATCTTGC
*** * * * *
56348821 CTCCCTG-A--CCACAGTGGAGTACATTGAAGCCAAT--A-ATTCTAT--
1 CTCCCTGTATTTGGCAGTGGAATAGATTAAAG--ATTGCAGA-TCT-TGC
56348863 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGC
*
56348909 CTTCCTGTATTTGGCAG
1 CTCCCTGTATTTGGCAG
56348926 CGAAGCCGAT
Statistics
Matches: 108, Mismatches: 29, Indels: 28
0.65 0.18 0.17
Matches are distributed among these distances:
42 8 0.07
43 15 0.14
44 4 0.04
45 24 0.22
46 57 0.53
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGC
Found at i:56348857 original size:134 final size:134
Alignment explanation
Indices: 56348662--56349030 Score: 630
Period size: 134 Copynumber: 2.7 Consensus size: 134
56348652 AATAGATTGA
* *
56348662 AGATCAAGGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
56348727 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
56348792 CGAAGC
129 CGAAGC
* *
56348798 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCAATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
*
56348863 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
56348928 AAGC
131 AAGC
* * *
56348932 CGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
* *
56348997 CTCTCTGCATTTGGCAGTGGAATAGATTGAAGAT
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
56349031 CAAAGATGGC
Statistics
Matches: 220, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
134 194 0.88
136 26 0.12
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (134 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
AAGC
Found at i:56349041 original size:95 final size:95
Alignment explanation
Indices: 56348933--56349125 Score: 325
Period size: 95 Copynumber: 2.0 Consensus size: 95
56348923 CAGCGAAGCC
56348933 GATCAAAGATGGCAGATTTTACCTCCCTGACTACA-GTGGAGTACATTAAAGCCGATAACTCTAT
1 GATCAAAGATGGCAGATTTTACCTCCCTGACTACATG-GGAGTACATTAAAGCCGATAACTCTAT
* *
56348997 CTCTCTGCATTTGGCAGTGGAATAGATTGAA
65 CTCCCTGCATCTGGCAGTGGAATAGATTGAA
* *
56349028 GATCAAAGATGGCAGATTTTACTTCCCTGACTACATGGGAGTACATTGAAGCCGATAACTCTATC
1 GATCAAAGATGGCAGATTTTACCTCCCTGACTACATGGGAGTACATTAAAGCCGATAACTCTATC
*
56349093 TCCCTGTATCTGGCAGTGGAATAGATTGAA
66 TCCCTGCATCTGGCAGTGGAATAGATTGAA
56349123 GAT
1 GAT
56349126 TGTAGATCTT
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
95 91 0.99
96 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (95 bp):
GATCAAAGATGGCAGATTTTACCTCCCTGACTACATGGGAGTACATTAAAGCCGATAACTCTATC
TCCCTGCATCTGGCAGTGGAATAGATTGAA
Found at i:56349093 original size:229 final size:225
Alignment explanation
Indices: 56348798--56349350 Score: 876
Period size: 229 Copynumber: 2.4 Consensus size: 225
56348788 GCAGCGAAGC
* * *
56348798 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCAATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
56348863 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGCG
* * *
56348928 AAGCCGATC-AAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAAC
131 AAGCAGATCAAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACACTAAAGCCGATAAC
* *
56348992 TCTATCTCTCTGCATTTGGCAGTGGAATAGATTGA
196 TCTATCTCCCTGCATCTGGCA---G--TAGATTGA
*
56349027 AGATCAAAGATGGCAGATTTTACTTCCCTGACTACA-TGGGAGTACATTGAAGCCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGT-GGAGTACATTGAAGCCGATAACTCTA
* *
56349091 TCTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGTAGATCTTACCTTCCTGTATTTGGCAGC
65 TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGC
*
56349156 GAAGCAGATCAAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACACTGAAGCCGATAA
130 GAAGCAGATCAAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACACTAAAGCCGATAA
*
56349221 TTCTATCTCCCTGCATCTGGCAGTAGATTGA
195 CTCTATCTCCCTGCATCTGGCAGTAGATTGA
*
56349252 AGATCAAATATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
56349317 CTCTCTGCATTTGGCAGTGGAATAGATTGAAGAT
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
56349351 CAAAGATGGC
Statistics
Matches: 301, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
225 100 0.33
226 1 0.00
227 1 0.00
228 1 0.00
229 128 0.43
230 70 0.23
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (225 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGCG
AAGCAGATCAAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACACTAAAGCCGATAAC
TCTATCTCCCTGCATCTGGCAGTAGATTGA
Found at i:56349389 original size:95 final size:95
Alignment explanation
Indices: 56349161--56349445 Score: 438
Period size: 95 Copynumber: 3.0 Consensus size: 95
56349151 GCAGCGAAGC
* * *
56349161 AGATCAAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACACTGAAGCCGATAATTCTA
1 AGATC-AAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
*
56349226 TCTCCCTGCATCTGGCA---G--TAGATTGA
65 TCTCCCTGCATTTGGCAGTGGAATAGATTGA
*
56349252 AGATCAAATATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
56349317 CTCTCTGCATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
*
56349347 AGATCAAAGATGGCAGATTTTACTTCCCTGACTACA-TGGGAGTACATTGAAGCCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGT-GGAGTACATTGAAGCCGATAACTCTA
*
56349411 TCTCCCTGTATTTGGCAGTGGAATAGATTGA
65 TCTCCCTGCATTTGGCAGTGGAATAGATTGA
56349442 AGAT
1 AGAT
56349446 TGTAGATCTT
Statistics
Matches: 178, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
90 70 0.39
91 5 0.03
93 1 0.01
94 1 0.01
95 101 0.57
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGCATTTGGCAGTGGAATAGATTGA
Found at i:56349612 original size:44 final size:45
Alignment explanation
Indices: 56349558--56349987 Score: 351
Period size: 44 Copynumber: 9.8 Consensus size: 45
56349548 CCCGGGGCAA
* * *
56349558 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGC
* * * * *
56349602 GAAGTGGATCGACGA-CGCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGC
* * * * * * *
56349646 GAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGC
* * * *
56349690 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGC
* * * *
56349734 GAAGTGGATCCAAGATA-CAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGC
* * * * * * *
56349778 GAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGC
* * * *
56349822 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGC
* * * *
56349866 GAAGTGGATCCAAGATA-CAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGC
* * * * * *
56349910 GAAGTAGATCGAAGAAAGTAGATCTTGTC-TCATGTATTGGCA-T
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGC
* * *
56349953 GAAGTAGATTGAAGATTA-CAGATCTTATCTCCCTA
1 GAAGTAGATCGAAGA-TAGCAGATCTTGTCTTCCTA
56349988 AGCAGTAGTG
Statistics
Matches: 295, Mismatches: 81, Indels: 20
0.74 0.20 0.05
Matches are distributed among these distances:
43 85 0.29
44 157 0.53
45 53 0.18
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (45 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGC
Found at i:56349795 original size:132 final size:132
Alignment explanation
Indices: 56349558--56349968 Score: 707
Period size: 132 Copynumber: 3.1 Consensus size: 132
56349548 CCCGGGGCAA
* * * * * **
56349558 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGACGACGCAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
56349623 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
56349688 GT
131 GT
56349690 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
56349755 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
56349820 GT
131 GT
56349822 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
* * *
56349887 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTC-TCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
*
56349951 AT
131 GT
*
56349953 GAAGTAGATTGAAGAT
1 GAAGTAGATCGAAGAT
56349969 TACAGATCTT
Statistics
Matches: 267, Mismatches: 12, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
131 28 0.10
132 239 0.90
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (132 bp):
GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
GT
Found at i:56352351 original size:15 final size:15
Alignment explanation
Indices: 56352331--56352364 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
56352321 TTACTTTTTG
* *
56352331 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
56352346 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
56352361 TTAT
1 TTAT
56352365 CGTAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:56354373 original size:62 final size:62
Alignment explanation
Indices: 56354270--56354394 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 62
56354260 TCTTTTTTTT
* *
56354270 GCATTCATGCATCAACATTACATTTCATCGCATGCAATAAATTTCCTAAAATCCAAAAATAC
1 GCATTCATGCATCAACACTACATTTCATCGCATACAATAAATTTCCTAAAATCCAAAAATAC
* * * *
56354332 GCATTCATGCATCAACACTACGTTTCATTGCATACAGTAAATTTCCTAAAATCCAAAAGTAC
1 GCATTCATGCATCAACACTACATTTCATCGCATACAATAAATTTCCTAAAATCCAAAAATAC
56354394 G
1 G
56354395 TCGAGCAGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (62 bp):
GCATTCATGCATCAACACTACATTTCATCGCATACAATAAATTTCCTAAAATCCAAAAATAC
Found at i:56355639 original size:13 final size:13
Alignment explanation
Indices: 56355619--56355654 Score: 63
Period size: 13 Copynumber: 2.7 Consensus size: 13
56355609 TCAGTGGAGG
56355619 CAAAAAAAAAAGGA
1 CAAAAAAAAAA-GA
56355633 CAAAAAAAAAAGA
1 CAAAAAAAAAAGA
56355646 CAAAAAAAA
1 CAAAAAAAA
56355655 GGTAAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.83, C:0.08, G:0.08, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAAGA
Found at i:56355663 original size:13 final size:12
Alignment explanation
Indices: 56355620--56355676 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
56355610 CAGTGGAGGC
56355620 AAAAAAAAAAGG
1 AAAAAAAAAAGG
*
56355632 ACAAAAAAAAAAG
1 A-AAAAAAAAAGG
*
56355645 ACAAAAAAAAGG
1 AAAAAAAAAAGG
* **
56355657 TAAAAAACGA-G
1 AAAAAAAAAAGG
56355668 AAAAAAAAA
1 AAAAAAAAA
56355677 CAAATAAAAG
Statistics
Matches: 34, Mismatches: 10, Indels: 3
0.72 0.21 0.06
Matches are distributed among these distances:
11 7 0.21
12 16 0.47
13 11 0.32
ACGTcount: A:0.81, C:0.05, G:0.12, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAAGG
Found at i:56356135 original size:15 final size:14
Alignment explanation
Indices: 56356113--56356162 Score: 52
Period size: 13 Copynumber: 3.7 Consensus size: 14
56356103 AAAAAAAACG
*
56356113 AAAAGAAAAATGAA
1 AAAAGAAAAAAGAA
56356127 AAAATGAAAAAAG--
1 AAAA-GAAAAAAGAA
*
56356140 AAAAGAAGAAAG-A
1 AAAAGAAAAAAGAA
56356153 AAAAGAAAAA
1 AAAAGAAAAA
56356163 GGAGAGGCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 7 0.23
13 13 0.42
14 4 0.13
15 7 0.23
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (14 bp):
AAAAGAAAAAAGAA
Found at i:56356145 original size:5 final size:6
Alignment explanation
Indices: 56356101--56356163 Score: 51
Period size: 6 Copynumber: 10.2 Consensus size: 6
56356091 TACTTCACTT
*
56356101 GAAAAA -AAAAC G-AAAA GAAAAA TGAAAAAA TGAAAAA -AGAAAA GAAGAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA -G-AAAAA -GAAAAA GA-AAAA GAA-AAA
56356151 GAAAAA GAAAAA G
1 GAAAAA GAAAAA G
56356164 GAGAGGCCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
5 9 0.19
6 19 0.40
7 13 0.27
8 7 0.15
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (6 bp):
GAAAAA
Found at i:56356148 original size:8 final size:7
Alignment explanation
Indices: 56356113--56356162 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
56356103 AAAAAAAACG
56356113 AAAAGAA
1 AAAAGAA
*
56356120 AAATGAA
1 AAAAGAA
56356127 AAAATGAA
1 AAAA-GAA
56356135 AAAAG--
1 AAAAGAA
56356140 AAAAGAA
1 AAAAGAA
*
56356147 GAAAG-A
1 AAAAGAA
56356153 AAAAGAA
1 AAAAGAA
56356160 AAA
1 AAA
56356163 GGAGAGGCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
5 5 0.14
6 5 0.14
7 18 0.51
8 7 0.20
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (7 bp):
AAAAGAA
Found at i:56356163 original size:12 final size:12
Alignment explanation
Indices: 56356101--56356163 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 12
56356091 TACTTCACTT
*
56356101 GAAAAA-AAAAC
1 GAAAAAGAAAAA
56356112 G-AAAAGAAAAA
1 GAAAAAGAAAAA
56356123 TGAAAAAATGAAAAA
1 -G-AAAAA-GAAAAA
56356138 -AGAAAAGAAGAAA
1 GA-AAAAGAA-AAA
56356151 GAAAAAGAAAAA
1 GAAAAAGAAAAA
56356163 G
1 G
56356164 GAGAGGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
10 4 0.09
11 5 0.12
12 9 0.21
13 14 0.33
14 5 0.12
15 6 0.14
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (12 bp):
GAAAAAGAAAAA
Found at i:56356684 original size:108 final size:108
Alignment explanation
Indices: 56356485--56356691 Score: 290
Period size: 108 Copynumber: 1.9 Consensus size: 108
56356475 TAATTTATTC
* *
56356485 TCATTTTGTATTCTAGCAAAATTTGCTATCCTGATTAATGTGTTCATTTAGAGTTTTGCTCTCAA
1 TCATCTTGTATTCTAGCAAAATTTGCTATCCTGATTAATGTGTTCATTTAGAGCTTTGCTCTCAA
*
56356550 CAAATTTTCATCTTATCCATTGTGATAATATTTTCCATCTTAT
66 CAAAATTTCATCTTATCCATTGTGATAATATTTTCCATCTTAT
* * * **
56356593 TCATCTTGTA-TCTCAGCAAAATTTGCTATCTTGATTGATTTGTTTGTTTAGAGCTTTGCTCTCA
1 TCATCTTGTATTCT-AGCAAAATTTGCTATCCTGATTAATGTGTTCATTTAGAGCTTTGCTCTCA
* * * *
56356657 ACAAAATTTCATTTTGTCCATTTTGATAATCTTTT
65 ACAAAATTTCATCTTATCCATTGTGATAATATTTT
56356692 TCAAGCATTT
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
107 3 0.03
108 83 0.97
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (108 bp):
TCATCTTGTATTCTAGCAAAATTTGCTATCCTGATTAATGTGTTCATTTAGAGCTTTGCTCTCAA
CAAAATTTCATCTTATCCATTGTGATAATATTTTCCATCTTAT
Found at i:56357264 original size:86 final size:86
Alignment explanation
Indices: 56357119--56357382 Score: 411
Period size: 86 Copynumber: 3.1 Consensus size: 86
56357109 AGTAAAAATT
*
56357119 GAAGATAAACCTTGCCTCTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
56357184 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* *
56357205 GAAGACAAACCTTGCCACTCTTGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
*
56357270 GCACTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * * * *
56357291 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTACTTTTCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
* * *
56357356 GTATTTGGCAGCGAAGCTGATC
66 GCA-TTGACAGCGAAGCAGATC
56357378 GAAGA
1 GAAGA
56357383 TGGCAGATTT
Statistics
Matches: 162, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
86 142 0.88
87 20 0.12
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (86 bp):
GAAGACAAACCTTGCCTCTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATC
Found at i:56357494 original size:95 final size:96
Alignment explanation
Indices: 56357381--56357568 Score: 315
Period size: 97 Copynumber: 2.0 Consensus size: 96
56357371 GCTGATCGAA
56357381 GATGGCAGATTTTACCTCC-CTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTA
1 GATGGCAGATTTTACCTCCACTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTA
56357445 TATTGGGCAGTGGAATAGATTGAAGATCAAG
66 TATTGGGCAGTGGAATAGATTGAAGATCAAG
* * *
56357476 GATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCA-CTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCT
* *
56357541 GTATTTGGCAGTGGAATAGATTGAAGAT
65 ATATTGGGCAGTGGAATAGATTGAAGAT
56357569 TGCAGATCTT
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
95 19 0.22
97 67 0.78
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (96 bp):
GATGGCAGATTTTACCTCCACTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTA
TATTGGGCAGTGGAATAGATTGAAGATCAAG
Found at i:56357597 original size:46 final size:46
Alignment explanation
Indices: 56357535--56357731 Score: 142
Period size: 46 Copynumber: 4.4 Consensus size: 46
56357525 ATAATTCTAT
*
56357535 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGC
* * * * * * *
56357581 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTAAAGATTGCAGATCTTGC
*** * * * *
56357627 CTCCCTG-A--CCACAGTGGAGTACATTGAAGCCAAT--A-ATTCTAT--
1 CTCCCTGTATTTGGCAGTGGAATAGATTAAAG--ATTGCAGA-TCT-TGC
56357669 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGC
*
56357715 CTTCCTGTATTTGGCAG
1 CTCCCTGTATTTGGCAG
56357732 CGAAGCCGAT
Statistics
Matches: 108, Mismatches: 29, Indels: 28
0.65 0.18 0.17
Matches are distributed among these distances:
42 8 0.07
43 15 0.14
44 4 0.04
45 24 0.22
46 57 0.53
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGC
Found at i:56357663 original size:134 final size:134
Alignment explanation
Indices: 56357468--56357836 Score: 630
Period size: 134 Copynumber: 2.7 Consensus size: 134
56357458 AATAGATTGA
* *
56357468 AGATCAAGGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
56357533 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
56357598 CGAAGC
129 CGAAGC
* *
56357604 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCAATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
*
56357669 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
56357734 AAGC
131 AAGC
* * *
56357738 CGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
* *
56357803 CTCTCTGCATTTGGCAGTGGAATAGATTGAAGAT
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
56357837 CAAAGATGGC
Statistics
Matches: 220, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
134 194 0.88
136 26 0.12
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (134 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
AAGC
Found at i:56357847 original size:95 final size:95
Alignment explanation
Indices: 56357739--56357931 Score: 325
Period size: 95 Copynumber: 2.0 Consensus size: 95
56357729 CAGCGAAGCC
56357739 GATCAAAGATGGCAGATTTTACCTCCCTGACTACA-GTGGAGTACATTAAAGCCGATAACTCTAT
1 GATCAAAGATGGCAGATTTTACCTCCCTGACTACATG-GGAGTACATTAAAGCCGATAACTCTAT
* *
56357803 CTCTCTGCATTTGGCAGTGGAATAGATTGAA
65 CTCCCTGCATCTGGCAGTGGAATAGATTGAA
* *
56357834 GATCAAAGATGGCAGATTTTACTTCCCTGACTACATGGGAGTACATTGAAGCCGATAACTCTATC
1 GATCAAAGATGGCAGATTTTACCTCCCTGACTACATGGGAGTACATTAAAGCCGATAACTCTATC
*
56357899 TCCCTGTATCTGGCAGTGGAATAGATTGAA
66 TCCCTGCATCTGGCAGTGGAATAGATTGAA
56357929 GAT
1 GAT
56357932 TGTAGATCTT
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
95 91 0.99
96 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (95 bp):
GATCAAAGATGGCAGATTTTACCTCCCTGACTACATGGGAGTACATTAAAGCCGATAACTCTATC
TCCCTGCATCTGGCAGTGGAATAGATTGAA
Found at i:56357899 original size:229 final size:230
Alignment explanation
Indices: 56357604--56358161 Score: 931
Period size: 230 Copynumber: 2.4 Consensus size: 230
56357594 GCAGCGAAGC
* * *
56357604 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCAATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
56357669 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGCG
* * *
56357734 AAGCCGATC-AAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAAC
131 AAGCAGATCAAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACACTAAAGCCGATAAC
* *
56357798 TCTATCTCTCTGCATTTGGCAGTGGAATAGATTGA
196 TCTATCTCCCTGCATCTGGCAGTGGAATAGATTGA
*
56357833 AGATCAAAGATGGCAGATTTTACTTCCCTGACTACA-TGGGAGTACATTGAAGCCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGT-GGAGTACATTGAAGCCGATAACTCTA
* *
56357897 TCTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGTAGATCTTACCTTCCTGTATTTGGCAGC
65 TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGC
*
56357962 GAAGCAGATCAAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACACTGAAGCCGATAA
130 GAAGCAGATCAAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACACTAAAGCCGATAA
*
56358027 TTCTATCTCCCTGCATCTGGCAGTGGAATAGATTGA
195 CTCTATCTCCCTGCATCTGGCAGTGGAATAGATTGA
*
56358063 AGATCAAATATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
56358128 CTCTCTGCATTTGGCAGTGGAATAGATTGAAGAT
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
56358162 CAAAGATGGC
Statistics
Matches: 306, Mismatches: 20, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
228 1 0.00
229 128 0.42
230 176 0.58
231 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (230 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGCG
AAGCAGATCAAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACACTAAAGCCGATAAC
TCTATCTCCCTGCATCTGGCAGTGGAATAGATTGA
Found at i:56358064 original size:45 final size:45
Alignment explanation
Indices: 56358015--56358159 Score: 107
Period size: 45 Copynumber: 3.1 Consensus size: 45
56358005 TGGAGTACAC
56358015 TGAAGCCGATAATTCTATCTCCCTGCATCTGGCAGTGGAATAGAT
1 TGAAGCCGATAATTCTATCTCCCTGCATCTGGCAGTGGAATAGAT
** * * * * *
56358060 TGAAGATCAAATATGGCAGATTTTACCTCCCTG-A-CT-ACAGTGGAGTACAT
1 TGAAG--C--CGAT---A-ATTCTATCTCCCTGCATCTGGCAGTGGAATAGAT
* * *
56358110 TGAAGCCGATAACTCTATCTCTCTGCATTTGGCAGTGGAATAGAT
1 TGAAGCCGATAATTCTATCTCCCTGCATCTGGCAGTGGAATAGAT
56358155 TGAAG
1 TGAAG
56358160 ATCAAAGATG
Statistics
Matches: 72, Mismatches: 17, Indels: 22
0.65 0.15 0.20
Matches are distributed among these distances:
42 10 0.14
43 2 0.03
44 1 0.01
45 21 0.29
46 2 0.03
47 1 0.01
48 1 0.01
49 2 0.03
50 16 0.22
51 2 0.03
52 2 0.03
53 12 0.17
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (45 bp):
TGAAGCCGATAATTCTATCTCCCTGCATCTGGCAGTGGAATAGAT
Found at i:56358083 original size:95 final size:95
Alignment explanation
Indices: 56357967--56358256 Score: 483
Period size: 95 Copynumber: 3.0 Consensus size: 95
56357957 GCAGCGAAGC
* * *
56357967 AGATCAAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACACTGAAGCCGATAATTCTA
1 AGATC-AAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
*
56358032 TCTCCCTGCATCTGGCAGTGGAATAGATTGA
65 TCTCCCTGCATTTGGCAGTGGAATAGATTGA
*
56358063 AGATCAAATATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
56358128 CTCTCTGCATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
*
56358158 AGATCAAAGATGGCAGATTTTACTTCCCTGACTACA-TGGGAGTACATTGAAGCCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGT-GGAGTACATTGAAGCCGATAACTCTA
*
56358222 TCTCCCTGTATTTGGCAGTGGAATAGATTGA
65 TCTCCCTGCATTTGGCAGTGGAATAGATTGA
56358253 AGAT
1 AGAT
56358257 TGTAGATCTT
Statistics
Matches: 183, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
94 1 0.01
95 177 0.97
96 5 0.03
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGCATTTGGCAGTGGAATAGATTGA
Found at i:56358606 original size:132 final size:132
Alignment explanation
Indices: 56358369--56358761 Score: 689
Period size: 132 Copynumber: 3.0 Consensus size: 132
56358359 CCCGGGGCAA
* * * * * **
56358369 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGACGACGCAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
56358434 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
56358499 GT
131 GT
56358501 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
56358566 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
56358631 GT
131 GT
56358633 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
* * *
56358698 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTC-TCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
56358762 CCTCAGATCT
Statistics
Matches: 251, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
131 12 0.05
132 239 0.95
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (132 bp):
GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
GT
Found at i:56358760 original size:44 final size:45
Alignment explanation
Indices: 56358369--56358750 Score: 348
Period size: 44 Copynumber: 8.7 Consensus size: 45
56358359 CCCGGGGCAA
* * * *
56358369 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGC
* * * *
56358413 GAAGTGGATCGACGA-CGCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGC
* * * * * * *
56358457 GAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGC
* * * * *
56358501 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGC
* * *
56358545 GAAGTGGATCCAAGATA-CAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGC
* * * * * * *
56358589 GAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGC
* * * * *
56358633 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGC
* * *
56358677 GAAGTGGATCCAAGATA-CAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGC
* *
56358721 GAAGTAGATCGAAGAAAGTAGATCTTGTCT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCT
56358751 CATGTATTGG
Statistics
Matches: 262, Mismatches: 68, Indels: 15
0.76 0.20 0.04
Matches are distributed among these distances:
43 62 0.24
44 146 0.56
45 54 0.21
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (45 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTGGC
Found at i:56359659 original size:15 final size:15
Alignment explanation
Indices: 56359639--56359672 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
56359629 TTACTTTTTG
* *
56359639 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
56359654 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
56359669 TTAT
1 TTAT
56359673 CGTAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:56360787 original size:31 final size:31
Alignment explanation
Indices: 56360752--56360812 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
56360742 TTAGCCCTTC
* *
56360752 AACTTGACAATTGTTCTCATATCGGGGTTTG
1 AACTTGACAATTATTCTCACATCGGGGTTTG
*
56360783 AACTTGACAATTATTCTCACATTGGGGTTT
1 AACTTGACAATTATTCTCACATCGGGGTTT
56360813 AAATTTTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (31 bp):
AACTTGACAATTATTCTCACATCGGGGTTTG
Found at i:56364490 original size:15 final size:16
Alignment explanation
Indices: 56364464--56364494 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
56364454 TGTTGATTTC
56364464 GGGTTGACTTTGGGTT
1 GGGTTGACTTTGGGTT
56364480 GGGTT-ACTTTGGGTT
1 GGGTTGACTTTGGGTT
56364495 TTAAAATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.06, C:0.06, G:0.42, T:0.45
Consensus pattern (16 bp):
GGGTTGACTTTGGGTT
Found at i:56373627 original size:16 final size:17
Alignment explanation
Indices: 56373574--56373630 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 17
56373564 ACTAAACTTA
* *
56373574 AAAATCCATTAAAATTT
1 AAAACCCATTAAAAGTT
* *
56373591 AATACCC-TTAAAAGTC
1 AAAACCCATTAAAAGTT
*
56373607 CAAACCCATTAAAA-TT
1 AAAACCCATTAAAAGTT
56373623 AAAACCCA
1 AAAACCCA
56373631 ATATCCATTA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
16 20 0.65
17 11 0.35
ACGTcount: A:0.51, C:0.23, G:0.02, T:0.25
Consensus pattern (17 bp):
AAAACCCATTAAAAGTT
Found at i:56373799 original size:22 final size:22
Alignment explanation
Indices: 56373757--56373800 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
56373747 TTGGAATTCA
*
56373757 TTAAATTTGTTTAATTTAATTT
1 TTAAATTTGTTTAATTGAATTT
*
56373779 TTAATATTTTTTTAA-TGAATTT
1 TTAA-ATTTGTTTAATTGAATTT
56373801 GAAAGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (22 bp):
TTAAATTTGTTTAATTGAATTT
Found at i:56377382 original size:56 final size:56
Alignment explanation
Indices: 56377253--56377421 Score: 266
Period size: 56 Copynumber: 3.0 Consensus size: 56
56377243 AGTTCTTAAG
* * *
56377253 CAAACATGCTAACATAGTGTCTTTAACATATATAACCATGAAAAAATAATAATAATAAT
1 CAAACATTCTAACATAGCGTCTTTAACATATATAACCATG---AAATAACAATAATAAT
56377312 CAAACATTCTAACATAGCGTCTTTAACATATATAACCATGAAATAACAATAATAAT
1 CAAACATTCTAACATAGCGTCTTTAACATATATAACCATGAAATAACAATAATAAT
* *
56377368 CAAACATTCTAACATAGCGCCTTTAACATATATAACCATGAAATAACGATAATA
1 CAAACATTCTAACATAGCGTCTTTAACATATATAACCATGAAATAACAATAATA
56377422 GTAGTTACCG
Statistics
Matches: 105, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
56 67 0.64
59 38 0.36
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.28
Consensus pattern (56 bp):
CAAACATTCTAACATAGCGTCTTTAACATATATAACCATGAAATAACAATAATAAT
Found at i:56389911 original size:12 final size:12
Alignment explanation
Indices: 56389894--56389924 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
56389884 CCTCACACGC
56389894 CCGTGTGCTAGG
1 CCGTGTGCTAGG
56389906 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
56389918 TCGTGTG
1 CCGTGTG
56389925 AACACTAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.23, G:0.42, T:0.29
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:56393016 original size:51 final size:51
Alignment explanation
Indices: 56392955--56393108 Score: 292
Period size: 51 Copynumber: 3.0 Consensus size: 51
56392945 AAATTAAAAG
56392955 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
56393006 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
56393057 ATTATACATACACCAACAATGTTTTTTAGGG-ACAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTA-AATAACATTAAACCAACA
56393108 A
1 A
56393109 GTAATTTTAG
Statistics
Matches: 102, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
50 1 0.01
51 101 0.99
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (51 bp):
ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:56393117 original size:33 final size:34
Alignment explanation
Indices: 56393054--56393164 Score: 115
Period size: 33 Copynumber: 3.4 Consensus size: 34
56393044 CATTAAACCA
* *
56393054 ACAATTATACATACACCAACAATGT-TTTTTAGGG
1 ACAATTATACATAAACCAACAA-GTAATTTTAGGG
56393088 ACAA-TA-ACATTAAACCAACAAGTAATTTTA-GG
1 ACAATTATACA-TAAACCAACAAGTAATTTTAGGG
* * *
56393120 TCAATTATACATACACCAACAATTAATTTTA-GG
1 ACAATTATACATAAACCAACAAGTAATTTTAGGG
*
56393153 TCAATTATACAT
1 ACAATTATACAT
56393165 GCTTTATAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.15
33 51 0.75
34 7 0.10
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (34 bp):
ACAATTATACATAAACCAACAAGTAATTTTAGGG
Found at i:56396245 original size:29 final size:28
Alignment explanation
Indices: 56396212--56396298 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
56396202 TCATAAGAAC
56396212 ATTTTATGAAATTATATTTAATAATAATT
1 ATTTTAT-AAATTATATTTAATAATAATT
* * *
56396241 A-TTT-TAAATTGTATTAAATCAT-A-T
1 ATTTTATAAATTATATTTAATAATAATT
* *
56396265 ATTTTAATTAAAATATATTTAATATTAATT
1 ATTTT-A-TAAATTATATTTAATAATAATT
56396295 ATTT
1 ATTT
56396299 CAAATTTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
24 2 0.05
25 4 0.09
26 14 0.32
27 1 0.02
28 16 0.36
29 2 0.05
30 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTATAAATTATATTTAATAATAATT
Found at i:56396474 original size:67 final size:66
Alignment explanation
Indices: 56396399--56396611 Score: 150
Period size: 67 Copynumber: 3.2 Consensus size: 66
56396389 ATTATAATGT
56396399 ATTT-AATAATAATTATGTTTAAATACGATTAAATTATTTATTATTGATATTAATAATCTTATTA
1 ATTTAAATAATAATTATGTTTAAATACGATTAAA-TATTTATTATTGATATTAATAATCTTATTA
56396463 AA
65 AA
* * ** * * * * * * *
56396465 ATTTAAATAACAATAACAAATTT--CTGCTAATTATAAGAATT-TTATT-AAATT-ATATATTTT
1 ATTTAAATAATAAT--TATGTTTAAATAC-GATTA-AATATTTATTATTGATATTAATA-ATCTT
56396525 AATTAAAA
61 -ATT-AAA
* * * *
56396533 TATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAT
1 -AT-TTAAATAATAATTATGTTTAAATACGATT-AAATATTTATTATTGATATTAATAATCTTAT
56396598 TAAA
63 TAAA
56396602 ATTTAAATAA
1 ATTTAAATAA
56396612 CATTAACAAT
Statistics
Matches: 104, Mismatches: 27, Indels: 31
0.64 0.17 0.19
Matches are distributed among these distances:
65 3 0.03
66 12 0.12
67 25 0.24
68 16 0.15
69 19 0.18
70 19 0.18
71 7 0.07
72 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (66 bp):
ATTTAAATAATAATTATGTTTAAATACGATTAAATATTTATTATTGATATTAATAATCTTATTAA
A
Found at i:56396509 original size:137 final size:138
Alignment explanation
Indices: 56396355--56396620 Score: 426
Period size: 137 Copynumber: 1.9 Consensus size: 138
56396345 TAAGAATATG
* *
56396355 AATTATTAAGAATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
* * *
56396420 AATACGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAA
66 AATACGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
56396485 TTTCTGCT
131 TTTCTGCT
****
56396493 AATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
* *
56396557 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAA
66 AATACGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
56396621 TAATCATTTA
Statistics
Matches: 117, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
137 112 0.96
138 5 0.04
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (138 bp):
AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
AATACGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
TTTCTGCT
Found at i:56396531 original size:18 final size:17
Alignment explanation
Indices: 56396503--56396537 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56396493 AATTATAAGA
*
56396503 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
56396520 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
56396538 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:56396602 original size:70 final size:69
Alignment explanation
Indices: 56396389--56396603 Score: 167
Period size: 70 Copynumber: 3.1 Consensus size: 69
56396379 ATATACCAAA
* * * * *
56396389 ATTATAATGTATTTAATAATAATTATGTTTAAATACGATTAAATTATTTATTATTGATATTAATA
1 ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTA-TGATAATAATA
56396454 ATCTT
65 ATCTT
* ** * ** * * *
56396459 ATTAAAATTTAAATAACAATAACAAAT-TTCTGCTAAT-T-A-TAAGAAT-TTTATTA-AATTAT
1 ATTAAAATATATTTAATAATAA-TTATGTT-T--AAATATGATTAA-AATATTTATTATGATAAT
*
56396518 -AT-ATTTT
61 AATAATCTT
56396525 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
1 -ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTA-TGATAATAAT
56396590 AATCTT
64 AATCTT
56396596 ATTAAAAT
1 ATTAAAAT
56396604 TTAAATAACA
Statistics
Matches: 106, Mismatches: 24, Indels: 30
0.66 0.15 0.19
Matches are distributed among these distances:
64 3 0.03
65 1 0.01
66 11 0.10
67 32 0.30
68 3 0.03
69 4 0.04
70 39 0.37
71 10 0.09
73 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (69 bp):
ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTATGATAATAATAA
TCTT
Found at i:56396653 original size:137 final size:145
Alignment explanation
Indices: 56396388--56396806 Score: 473
Period size: 156 Copynumber: 2.9 Consensus size: 145
56396378 TATATACCAA
* * * * * *
56396388 AATTATAATGTATTTAATAATAATTATGTTTAAATACGATTAAATTATTTATTATTGATATTAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
* * ** * *
56396453 AATCTTATTAAAATTTAAATAACAATAACAA-ATTTC-TGCTAATTATAAGAATTTTAT--TAA-
66 AATCTTATTAAAATTTAAATAACAATAACAATA-ATCAT--TTACCAAAACAATTTTATGCTAAT
*
56396513 -ATTA-TA-T-ATT-T-T
128 TATAATTATTAATTATAT
56396525 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
* * *
56396590 AATCTTATTAAAATTTAAATAACATTAACAATAATCATTTACCAAAATAATTTTCTGCTAATTAT
66 AATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAATTAT
56396655 AAGAATTTTATTAAATTATATATTTT
131 ---AA--TTATT-AA-T-TATA---T
* *
56396681 AATTAAAATATATTTAATTATAATTATGTTTAAATATGATTAAAATATTTATTACTAATAATAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
56396746 AATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAA
66 AATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAA
56396807 GGGTATTCTA
Statistics
Matches: 240, Mismatches: 20, Indels: 25
0.84 0.07 0.09
Matches are distributed among these distances:
136 12 0.05
137 91 0.38
138 5 0.02
140 2 0.01
143 1 0.00
146 2 0.01
147 1 0.00
149 1 0.00
150 1 0.00
151 1 0.00
152 1 0.00
156 122 0.51
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (145 bp):
AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
AATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAATTAT
AATTATTAATTATAT
Found at i:56396661 original size:156 final size:156
Alignment explanation
Indices: 56396479--56396806 Score: 602
Period size: 156 Copynumber: 2.1 Consensus size: 156
56396469 AAATAACAAT
*
56396479 AACAAATTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
*
56396544 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTAATAATAATAATCTTATTAAAATTTAAA
*
56396609 TAACATTAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
* *
56396635 AATAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
56396700 ATAATTATGTTTAAATATGATTAAAATATTTATTACTAATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTAATAATAATAATCTTATTAAAATTTAAA
56396765 TAACAATAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
56396791 AACAATTTTATGCTAA
1 AACAATTTTCTGCTAA
56396807 GGGTATTCTA
Statistics
Matches: 165, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
156 165 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.43
Consensus pattern (156 bp):
AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
ATAATTATGTTTAAATATGATTAAAATATTTATTACTAATAATAATAATCTTATTAAAATTTAAA
TAACAATAACAATAATCATTTACCAA
Found at i:56396687 original size:18 final size:18
Alignment explanation
Indices: 56396659--56396707 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
56396649 AATTATAAGA
56396659 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
56396676 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
56396692 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
56396708 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:56396693 original size:16 final size:16
Alignment explanation
Indices: 56396659--56396713 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
56396649 AATTATAAGA
56396659 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
56396676 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
56396692 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
56396706 ATGTTTAA
1 AT-TTTAA
56396714 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:56396764 original size:50 final size:51
Alignment explanation
Indices: 56396553--56396766 Score: 131
Period size: 50 Copynumber: 4.2 Consensus size: 51
56396543 AATAATTATG
*
56396553 TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTT-ATTAAAA
1 TTTAAATATGATTAAAATATTTATTACTAATAATAATAATCTTAATTAAAA
** * * * ** *
56396603 TTTAAATAACATTAACAATAATCATTTACCAA-AATAATTTTCTGCTAATTATAA
1 TTTAAATATGATTAA-AATATTTA-TTACTAATAATAATAATCT--TAATTAAAA
* * * * * *
56396657 ---GAATTTTATTAAATTATATATT-TTAATTAA-AATATAT-TTAATTATAATTA
1 TTTAAATATGATTAAAATATTTATTACTAA-TAATAATA-ATCTTAATTA-AA--A
56396707 TGTTTAAATATGATTAAAATATTTATTACTAATAATAATAATCTT-ATTAAAA
1 --TTTAAATATGATTAAAATATTTATTACTAATAATAATAATCTTAATTAAAA
56396759 TTTAAATA
1 TTTAAATA
56396767 ACAATAACAA
Statistics
Matches: 117, Mismatches: 28, Indels: 38
0.64 0.15 0.21
Matches are distributed among these distances:
47 6 0.05
48 3 0.03
49 6 0.05
50 29 0.25
51 23 0.20
52 6 0.05
53 1 0.01
54 8 0.07
55 26 0.22
56 9 0.08
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (51 bp):
TTTAAATATGATTAAAATATTTATTACTAATAATAATAATCTTAATTAAAA
Found at i:56396923 original size:44 final size:45
Alignment explanation
Indices: 56396858--56396948 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
56396848 ACCTCTATTC
* * *
56396858 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
56396902 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
56396947 CA
1 CA
56396949 CATCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:56396954 original size:16 final size:16
Alignment explanation
Indices: 56396929--56396980 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
56396919 GATTAGCTAT
56396929 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
56396945 TACACATCTAATCCAA
1 TACACCTCTAATCCAA
56396961 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
56396977 TACA
1 TACA
56396981 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:56404295 original size:101 final size:101
Alignment explanation
Indices: 56404120--56404342 Score: 295
Period size: 101 Copynumber: 2.2 Consensus size: 101
56404110 CATGCATTTC
* * ** * *
56404120 CATGGCCCAGCCATGGTCTTACATTCGTAGTGTCATAACCCAGTTATGGTCTTATCATCAGAATG
1 CATGGTCCAACCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATG
* * *
56404185 CCACAGCCCAGCTGTGGTATTACTTATAAATACTGT
66 CCACAGCCCAGCTATGGTATTACATATAAACACTGT
* * *
56404221 CATGGTCCAACCATGGTCTTACGTTCAAAGTGCCATAACTCAGTTATGGTCTTTTCA-CTAAAAT
1 CATGGTCCAACCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATC-AAAAT
* * *
56404285 GCCATAGCCCAGCTATGGTCTTACATATAAACATTGT
65 GCCACAGCCCAGCTATGGTATTACATATAAACACTGT
56404322 CATGGTCCAACCATGGTCTTA
1 CATGGTCCAACCATGGTCTTA
56404343 TCCGTCAATT
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
100 1 0.01
101 105 0.99
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (101 bp):
CATGGTCCAACCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATG
CCACAGCCCAGCTATGGTATTACATATAAACACTGT
Found at i:56410029 original size:21 final size:21
Alignment explanation
Indices: 56410003--56410044 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
56409993 AATTTTTTAT
56410003 CCTAAACTCC-AAACTTAGAAC
1 CCTAAAC-CCTAAACTTAGAAC
*
56410024 CCTAAACCCTAAACTTTGAAC
1 CCTAAACCCTAAACTTAGAAC
56410045 ATCAGACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.40, C:0.33, G:0.05, T:0.21
Consensus pattern (21 bp):
CCTAAACCCTAAACTTAGAAC
Found at i:56423540 original size:28 final size:31
Alignment explanation
Indices: 56423509--56423570 Score: 85
Period size: 28 Copynumber: 2.1 Consensus size: 31
56423499 TGTACTTAAA
*
56423509 ATTTAAAAATT-AAAT-GTTTGTA-TTTTTT
1 ATTTAAAAATTAAAATCGTTAGTACTTTTTT
*
56423537 ATTTAATAATTAAAATCGTTAGTACTTTTTT
1 ATTTAAAAATTAAAATCGTTAGTACTTTTTT
56423568 ATT
1 ATT
56423571 AAATAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 10 0.34
29 4 0.14
30 6 0.21
31 9 0.31
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (31 bp):
ATTTAAAAATTAAAATCGTTAGTACTTTTTT
Found at i:56423569 original size:31 final size:28
Alignment explanation
Indices: 56423509--56423577 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 28
56423499 TGTACTTAAA
* *
56423509 ATTTAAAAATTAAATGTTTGTATTTTTT
1 ATTTAATAATTAAATGTTAGTATTTTTT
56423537 ATTTAATAATTAAAATCGTTAGTACTTTTTT
1 ATTTAATAATT-AAAT-GTTAGTA-TTTTTT
*
56423568 ATTAAATAAT
1 ATTTAATAAT
56423578 ATTTTGTGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 10 0.29
29 4 0.11
30 6 0.17
31 15 0.43
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (28 bp):
ATTTAATAATTAAATGTTAGTATTTTTT
Found at i:56428050 original size:21 final size:21
Alignment explanation
Indices: 56428026--56428070 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
56428016 CGGATTCGAG
*
56428026 TGTGAATGTTCGATATATGTA
1 TGTGAATGTTCGATATATATA
56428047 TGTGAATGTTCGATATATATA
1 TGTGAATGTTCGATATATATA
56428068 TGT
1 TGT
56428071 TTTCAATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.44
Consensus pattern (21 bp):
TGTGAATGTTCGATATATATA
Found at i:56434410 original size:22 final size:24
Alignment explanation
Indices: 56434364--56434413 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
56434354 TTAACTTTAA
*
56434364 AAAAAGCTTAATGTCAAGAAATTG
1 AAAAAGATTAATGTCAAGAAATTG
*
56434388 AAAAAGATTAAT-TTAA-AAATTG
1 AAAAAGATTAATGTCAAGAAATTG
56434410 AAAA
1 AAAA
56434414 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.42
23 3 0.12
24 11 0.46
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.26
Consensus pattern (24 bp):
AAAAAGATTAATGTCAAGAAATTG
Found at i:56434429 original size:16 final size:17
Alignment explanation
Indices: 56434399--56434437 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
56434389 AAAAGATTAA
*
56434399 TTTAAAAATTGAAAATT
1 TTTAAAAATTCAAAATT
56434416 TTTAAAAA-TCAAAATT
1 TTTAAAAATTCAAAATT
*
56434432 TATAAA
1 TTTAAA
56434438 TTTTATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
TTTAAAAATTCAAAATT
Found at i:56436332 original size:15 final size:16
Alignment explanation
Indices: 56436312--56436352 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
56436302 ATTAAATTGC
56436312 ATTATATTTTAAATA-
1 ATTATATTTTAAATAT
*
56436327 ATTATATATTAAATAT
1 ATTATATTTTAAATAT
*
56436343 AATATATTTT
1 ATTATATTTT
56436353 TTCAAATTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTATATTTTAAATAT
Found at i:56436626 original size:12 final size:12
Alignment explanation
Indices: 56436611--56436635 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56436601 TATAAAACCA
56436611 TATAGTAATATT
1 TATAGTAATATT
56436623 TATAGTAATATT
1 TATAGTAATATT
56436635 T
1 T
56436636 TTTAACTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TATAGTAATATT
Found at i:56447287 original size:5 final size:5
Alignment explanation
Indices: 56447279--56447308 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
56447269 GATATGATAG
56447279 ATGGC ATGGC ATGGC ATGGC ATGGC ATGGC
1 ATGGC ATGGC ATGGC ATGGC ATGGC ATGGC
56447309 TTGCTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.40, T:0.20
Consensus pattern (5 bp):
ATGGC
Found at i:56448417 original size:15 final size:16
Alignment explanation
Indices: 56448375--56448425 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
56448365 GTAAAAATAT
*
56448375 AATTTTTATTATTTTA
1 AATTTTTATTATTATA
*
56448391 ATAGTTTATATT-TTATA
1 A-A-TTTTTATTATTATA
*
56448408 AATTTTTATTATTTTA
1 AATTTTTATTATTATA
56448424 AA
1 AA
56448426 AAAAATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 7 0.25
16 8 0.29
17 6 0.21
18 7 0.25
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
AATTTTTATTATTATA
Found at i:56448420 original size:18 final size:17
Alignment explanation
Indices: 56448375--56448426 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
56448365 GTAAAAATAT
56448375 AATTTTTATTATTTTAA
1 AATTTTTATTATTTTAA
* *
56448392 TA-GTTTA-TATTTTATA
1 AATTTTTATTATTTTA-A
56448408 AATTTTTATTATTTTAA
1 AATTTTTATTATTTTAA
56448425 AA
1 AA
56448427 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 7 0.25
16 6 0.21
17 8 0.29
18 7 0.25
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
AATTTTTATTATTTTAA
Found at i:56449272 original size:22 final size:23
Alignment explanation
Indices: 56449248--56449295 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
56449238 AATGGAAGAT
56449248 AAAGAAAAAGAAAAGAA-AAATTA
1 AAAG-AAAAGAAAAGAAGAAATTA
* *
56449271 AAAGAACATAAAAGAAGAAATTA
1 AAAGAAAAGAAAAGAAGAAATTA
56449294 AA
1 AA
56449296 TTGCTCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.10
Consensus pattern (23 bp):
AAAGAAAAGAAAAGAAGAAATTA
Found at i:56460461 original size:95 final size:95
Alignment explanation
Indices: 56460350--56460542 Score: 386
Period size: 95 Copynumber: 2.0 Consensus size: 95
56460340 AAAATGAGCT
56460350 GTGTGATGATGTTTAACTTTTGTTTGAGTGATGAAGTAACGCAAAAAGTTGATTTTAAAAAGCCA
1 GTGTGATGATGTTTAACTTTTGTTTGAGTGATGAAGTAACGCAAAAAGTTGATTTTAAAAAGCCA
56460415 TTGACTTTTGCAATCTTCGAGTTGGTTCAA
66 TTGACTTTTGCAATCTTCGAGTTGGTTCAA
56460445 GTGTGATGATGTTTAACTTTTGTTTGAGTGATGAAGTAACGCAAAAAGTTGATTTTAAAAAGCCA
1 GTGTGATGATGTTTAACTTTTGTTTGAGTGATGAAGTAACGCAAAAAGTTGATTTTAAAAAGCCA
56460510 TTGACTTTTGCAATCTTCGAGTTGGTTCAA
66 TTGACTTTTGCAATCTTCGAGTTGGTTCAA
56460540 GTG
1 GTG
56460543 CAATCCATTT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 98 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (95 bp):
GTGTGATGATGTTTAACTTTTGTTTGAGTGATGAAGTAACGCAAAAAGTTGATTTTAAAAAGCCA
TTGACTTTTGCAATCTTCGAGTTGGTTCAA
Found at i:56473925 original size:3 final size:3
Alignment explanation
Indices: 56473917--56473943 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
56473907 TTATTCAAGG
56473917 AGC AGC AGC AGC AGC AGC AGC AGC AGC
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC
56473944 TTGGTATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:56478857 original size:45 final size:45
Alignment explanation
Indices: 56478780--56478867 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
56478770 TTCATCTTTT
*
56478780 ATCTTTGGCTCCTCAACATGATCAACGTTAGTTTCTTCATTGGCC
1 ATCTTTGGCTCCTCAACATGATCAACGGTAGTTTCTTCATTGGCC
* *** *
56478825 ATCTTTGGCTCCTCAACTTGATCTGTGGTAGTTTCTTCCTTGG
1 ATCTTTGGCTCCTCAACATGATCAACGGTAGTTTCTTCATTGG
56478868 TCACAATCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (45 bp):
ATCTTTGGCTCCTCAACATGATCAACGGTAGTTTCTTCATTGGCC
Found at i:56482430 original size:15 final size:15
Alignment explanation
Indices: 56482412--56482440 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56482402 ATATCCTTAT
56482412 AGTGTAGATAATAAC
1 AGTGTAGATAATAAC
56482427 AGTGTAGATAATAA
1 AGTGTAGATAATAA
56482441 AAGGAAACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.21, T:0.28
Consensus pattern (15 bp):
AGTGTAGATAATAAC
Found at i:56484627 original size:18 final size:18
Alignment explanation
Indices: 56484600--56484634 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56484590 GCGCTCTCGT
56484600 TCTCTCTCCTTCTCCCGC
1 TCTCTCTCCTTCTCCCGC
*
56484618 TCTCTTTCCTTCTCCCG
1 TCTCTCTCCTTCTCCCG
56484635 TCGCTCCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.51, G:0.06, T:0.43
Consensus pattern (18 bp):
TCTCTCTCCTTCTCCCGC
Found at i:56484707 original size:6 final size:6
Alignment explanation
Indices: 56484698--56484724 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
56484688 CTCGTTCTCG
56484698 CTCCCT CTCCCT CTCCCT CTCCCT CTC
1 CTCCCT CTCCCT CTCCCT CTCCCT CTC
56484725 TCTGTCTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
CTCCCT
Found at i:56493507 original size:13 final size:13
Alignment explanation
Indices: 56493489--56493513 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56493479 TCTACCATCT
56493489 CCATCCTTATCAG
1 CCATCCTTATCAG
56493502 CCATCCTTATCA
1 CCATCCTTATCA
56493514 TCCTCTTACA
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:0.24, C:0.40, G:0.04, T:0.32
Consensus pattern (13 bp):
CCATCCTTATCAG
Found at i:56494700 original size:154 final size:154
Alignment explanation
Indices: 56494490--56494864 Score: 390
Period size: 154 Copynumber: 2.5 Consensus size: 154
56494480 TTCATTATAA
* * * * * *
56494490 ATTAATTTCATTTGATAACTCGTATTGATTAATTGAGTTTGTTAAATTTATTAACTTTATAATTT
1 ATTAATTTAATTTGATAACTCATATTGATTAATTGAGCTTATTAAATTTATAAACTTTATAATTA
* * ** * * * *
56494555 ATCATATTAAAAAATATATTCTACTATGAGTTTGAAACGTTATAAACTTAAAAATTGATCACTTG
66 ATCATATGAAAAAATATATTCTAATACAAATTTAAAACATTATAAACTTAAAAATTGATCACTTA
56494620 AATTTAATAACTCGTGATTAATTG
131 AATTTAATAACTCGTGATTAATTG
* * *
56494644 ATTAATTTAATTTGGTAGCTCATATTGATTAATTGAGCTTATTAGATTTATAAACTTTATAATTA
1 ATTAATTTAATTTGATAACTCATATTGATTAATTGAGCTTATTAAATTTATAAACTTTATAATTA
* * * * * *
56494709 ATCATCTGAAAGAATGTATTCTAATACAAATTTAAAACATTATAAACTTATAAATTGGTTACTTA
66 ATCATATGAAAAAATATATTCTAATACAAATTTAAAACATTATAAACTTAAAAATTGATCACTTA
*
56494774 AATTTAAT-A-GC-T--TT-A---
131 AATTTAATAACTCGTGATTAATTG
* * * * * * * *
56494789 ATTCATTTAATGTGATAACTCATACTGATTAATTAAGCTTGTTAGATTTATGAACGTTATAATTA
1 ATTAATTTAATTTGATAACTCATATTGATTAATTGAGCTTATTAAATTTATAAACTTTATAATTA
*
56494854 ATCATGTGAAA
66 ATCATATGAAA
56494865 TAATGTAACC
Statistics
Matches: 187, Mismatches: 34, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
145 66 0.35
148 1 0.01
149 2 0.01
151 1 0.01
152 1 0.01
153 1 0.01
154 115 0.61
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (154 bp):
ATTAATTTAATTTGATAACTCATATTGATTAATTGAGCTTATTAAATTTATAAACTTTATAATTA
ATCATATGAAAAAATATATTCTAATACAAATTTAAAACATTATAAACTTAAAAATTGATCACTTA
AATTTAATAACTCGTGATTAATTG
Done.