Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 323 of 373
Found at i:108501710 original size:16 final size:16
Alignment explanation
Indices: 108501689--108501719 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
108501679 TTTCTTTTGT
*
108501689 TTCTTTATTTTATTTA
1 TTCTTTATTTCATTTA
108501705 TTCTTTATTTCATTT
1 TTCTTTATTTCATTT
108501720 TATTTACTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCTTTATTTCATTTA
Found at i:108508122 original size:9 final size:9
Alignment explanation
Indices: 108508108--108508140 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
108508098 TAAAAGAAGG
108508108 AAAAAAA-A
1 AAAAAAAGA
*
108508116 AAGAAAAGA
1 AAAAAAAGA
108508125 AAAAAAAGA
1 AAAAAAAGA
108508134 AAAAAAA
1 AAAAAAA
108508141 AGCTAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 6 0.27
9 16 0.73
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:108508127 original size:14 final size:13
Alignment explanation
Indices: 108508108--108508141 Score: 59
Period size: 14 Copynumber: 2.5 Consensus size: 13
108508098 TAAAAGAAGG
108508108 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
108508121 AAGAAAAAAAAGAA
1 AA-AAAAAAAAGAA
108508135 AAAAAAA
1 AAAAAAA
108508142 GCTAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAA
Found at i:108509935 original size:12 final size:12
Alignment explanation
Indices: 108509918--108509944 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
108509908 AATGATTGTT
108509918 CAACTCTAAAAA
1 CAACTCTAAAAA
108509930 CAACTCTAAAAA
1 CAACTCTAAAAA
108509942 CAA
1 CAA
108509945 AAAACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.15
Consensus pattern (12 bp):
CAACTCTAAAAA
Found at i:108511667 original size:2 final size:2
Alignment explanation
Indices: 108511660--108511707 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
108511650 ATATGAAATG
*
108511660 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
108511702 GA GA GA
1 GA GA GA
108511708 AGATTAAGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:108514937 original size:58 final size:58
Alignment explanation
Indices: 108514847--108514959 Score: 156
Period size: 58 Copynumber: 1.9 Consensus size: 58
108514837 TATTAAGGCC
* *
108514847 TGAAATTTTTTTGTCTAAGTTAGGTTCTGAACTTGACAATTATTCTCACATTGGGGTT
1 TGAAATTTTTTTGTCTAAATTAGGTTCTGAACTTGACAAATATTCTCACATTGGGGTT
* * * *
108514905 TGAAATTTTTTTTTCTAAATTAGG-TCTTGAACTTGGCAAATGTTTTCACATTGGG
1 TGAAATTTTTTTGTCTAAATTAGGTTC-TGAACTTGACAAATATTCTCACATTGGG
108514960 ACTTCAATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
57 2 0.04
58 46 0.96
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.45
Consensus pattern (58 bp):
TGAAATTTTTTTGTCTAAATTAGGTTCTGAACTTGACAAATATTCTCACATTGGGGTT
Found at i:108514972 original size:58 final size:58
Alignment explanation
Indices: 108514849--108514974 Score: 146
Period size: 58 Copynumber: 2.2 Consensus size: 58
108514839 TTAAGGCCTG
* * ** *
108514849 AAATTTTTTTGTCTAAGTTAGGTTCTGAACTTGACAATTATTCTCACATTGGGGTTTG
1 AAATTTTTTTGTCTAAATTAGGTTCTGAACTTGACAAATATTCTCACATTGGGACTTC
* * * *
108514907 AAATTTTTTTTTCTAAATTAGG-TCTTGAACTTGGCAAATGTTTTCACATTGGGACTTC
1 AAATTTTTTTGTCTAAATTAGGTTC-TGAACTTGACAAATATTCTCACATTGGGACTTC
*
108514965 AATTTTTTTT
1 AAATTTTTTT
108514975 ATCCAAGTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
57 2 0.04
58 55 0.96
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.48
Consensus pattern (58 bp):
AAATTTTTTTGTCTAAATTAGGTTCTGAACTTGACAAATATTCTCACATTGGGACTTC
Found at i:108516138 original size:24 final size:24
Alignment explanation
Indices: 108516089--108516140 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
108516079 GTTTATATTA
* *
108516089 AATATCTCATATTTAATTTAATTT
1 AATATCTCATATTTAATGTAAATT
*
108516113 AATATTTCATA-TTAATAGTAAATT
1 AATATCTCATATTTAAT-GTAAATT
108516137 AATA
1 AATA
108516141 AAATACTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (24 bp):
AATATCTCATATTTAATGTAAATT
Found at i:108516168 original size:31 final size:30
Alignment explanation
Indices: 108516126--108516230 Score: 113
Period size: 31 Copynumber: 3.4 Consensus size: 30
108516116 ATTTCATATT
*
108516126 AATAGTAAATTAATAAAATACTATATAGATA
1 AATATTAAATTAATAAAATA-TATATAGATA
** * * *
108516157 AATATTAAATTAAATTCAATAT-TTTATATT
1 AATATTAAATT-AATAAAATATATATAGATA
*
108516187 AATATTAAATTAATAAAATATTATCTAGATA
1 AATATTAAATTAATAAAATA-TATATAGATA
108516218 AATATTAAATTAA
1 AATATTAAATTAA
108516231 ATTCAATATA
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
29 7 0.12
30 17 0.28
31 29 0.48
32 7 0.12
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (30 bp):
AATATTAAATTAATAAAATATATATAGATA
Found at i:108516186 original size:61 final size:61
Alignment explanation
Indices: 108516097--108516248 Score: 232
Period size: 61 Copynumber: 2.5 Consensus size: 61
108516087 TAAATATCTC
* * *
108516097 ATATTTAATTTAATTTAATATTTCATATTAATAGTAAATTAATAAAATACTATATAGATAA
1 ATATTAAATTAAATTCAATATTTCATATTAATAGTAAATTAATAAAATACTATATAGATAA
* * * *
108516158 ATATTAAATTAAATTCAATATTTTATATTAATATTAAATTAATAAAATATTATCTAGATAA
1 ATATTAAATTAAATTCAATATTTCATATTAATAGTAAATTAATAAAATACTATATAGATAA
*
108516219 ATATTAAATTAAATTCAATATATCATATTA
1 ATATTAAATTAAATTCAATATTTCATATTA
108516249 GTACCTAAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 82 1.00
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (61 bp):
ATATTAAATTAAATTCAATATTTCATATTAATAGTAAATTAATAAAATACTATATAGATAA
Found at i:108516208 original size:16 final size:15
Alignment explanation
Indices: 108516126--108516230 Score: 51
Period size: 16 Copynumber: 6.9 Consensus size: 15
108516116 ATTTCATATT
*
108516126 AATAGTAAATTAATAA
1 AATATTAAATTAAT-A
* *
108516142 AATACTATA-TAGATA
1 AATATTAAATTA-ATA
*
108516157 AATATTAAATTAAATTC
1 AATATTAAATT-AA-TA
*
108516174 AATATT---TTATATT
1 AATATTAAATTA-ATA
108516187 AATATTAAATTAATAA
1 AATATTAAATTAAT-A
108516203 AATATT--ATCTAGATA
1 AATATTAAAT-TA-ATA
108516218 AATATTAAATTAA
1 AATATTAAATTAA
108516231 ATTCAATATA
Statistics
Matches: 69, Mismatches: 7, Indels: 27
0.67 0.07 0.26
Matches are distributed among these distances:
13 8 0.12
14 5 0.07
15 22 0.32
16 24 0.35
17 10 0.14
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (15 bp):
AATATTAAATTAATA
Found at i:108518541 original size:19 final size:19
Alignment explanation
Indices: 108518491--108518541 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
108518481 TTTTGTATTT
* *
108518491 TATTTTTGGGAATTTTATA
1 TATTTTTGAGATTTTTATA
**
108518510 TATTTTTCTGATTTTTA-A
1 TATTTTTGAGATTTTTATA
108518528 TAATTTTTGAGATT
1 T-ATTTTTGAGATT
108518542 CTTTGAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 2 0.08
19 24 0.92
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.61
Consensus pattern (19 bp):
TATTTTTGAGATTTTTATA
Found at i:108523253 original size:24 final size:24
Alignment explanation
Indices: 108523221--108523266 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
108523211 TCTTCTTTTT
* *
108523221 TATTTTTTAATATTATATATAATA
1 TATTTTTTAATAATATAAATAATA
108523245 TATTTTTTAATAATATAAATAA
1 TATTTTTTAATAATATAAATAA
108523267 ATCATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TATTTTTTAATAATATAAATAATA
Found at i:108523856 original size:14 final size:14
Alignment explanation
Indices: 108523837--108523870 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
108523827 TTTAATTATG
108523837 TAAAATTAT-AAAAT
1 TAAAATT-TGAAAAT
108523851 TAAAATTTGAAAAT
1 TAAAATTTGAAAAT
108523865 TAAAAT
1 TAAAAT
108523871 AAAGTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 1 0.05
14 18 0.95
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
TAAAATTTGAAAAT
Found at i:108524251 original size:22 final size:21
Alignment explanation
Indices: 108524226--108524268 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
108524216 TGAATTAATT
108524226 AATT-ATATTATAAAAATATAAA
1 AATTCATATT-TAAAAAT-TAAA
108524248 AATTCATATTTAAAAATTAAA
1 AATTCATATTTAAAAATTAAA
108524269 GTATAATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
22 11 0.55
23 5 0.25
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AATTCATATTTAAAAATTAAA
Found at i:108529556 original size:15 final size:15
Alignment explanation
Indices: 108529536--108529568 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
108529526 GTTGTAACTT
*
108529536 TAATAATAATGATAA
1 TAATAATAAAGATAA
108529551 TAATAATAAAGATAA
1 TAATAATAAAGATAA
108529566 TAA
1 TAA
108529569 AATGAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (15 bp):
TAATAATAAAGATAA
Found at i:108530802 original size:43 final size:43
Alignment explanation
Indices: 108530738--108530823 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
108530728 TATGTAATTG
* *
108530738 ATATTAAAATGGAAAAGATGAGAAAAGAATGTGAGATGAGAAA
1 ATATTAAAATGGAAAAGATGAGAAAAGAATATGAGAAGAGAAA
* * * *
108530781 ATATTGAAATGGAAAATATGAGAAATGATTATGAGAAGAGAAA
1 ATATTAAAATGGAAAAGATGAGAAAAGAATATGAGAAGAGAAA
108530824 TGAGATATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (43 bp):
ATATTAAAATGGAAAAGATGAGAAAAGAATATGAGAAGAGAAA
Found at i:108530860 original size:7 final size:7
Alignment explanation
Indices: 108530796--108530862 Score: 50
Period size: 7 Copynumber: 9.9 Consensus size: 7
108530786 GAAATGGAAA
108530796 ATATGAG
1 ATATGAG
*
108530803 AAATGA-
1 ATATGAG
*
108530809 TTATGAG
1 ATATGAG
108530816 A-A-GAG
1 ATATGAG
*
108530821 AAATGAG
1 ATATGAG
*
108530828 ATATGAA
1 ATATGAG
108530835 ATTATGAG
1 A-TATGAG
*
108530843 AAATGAG
1 ATATGAG
*
108530850 ATATGAT
1 ATATGAG
108530857 ATATGA
1 ATATGA
108530863 AATGATGAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
5 4 0.09
6 6 0.13
7 30 0.65
8 6 0.13
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (7 bp):
ATATGAG
Found at i:108530860 original size:29 final size:27
Alignment explanation
Indices: 108530808--108530870 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 27
108530798 ATGAGAAATG
108530808 ATTATGAGAAGAGAAATGAGATATGAA
1 ATTATGAGAAGAGAAATGAGATATGAA
* *
108530835 ATTATGAGAAATGAGATATGATATATGAA
1 ATTATGAG-AA-GAGAAATGAGATATGAA
*
108530864 ATGATGA
1 ATTATGA
108530871 ATTGAGATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 8 0.26
28 2 0.06
29 21 0.68
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (27 bp):
ATTATGAGAAGAGAAATGAGATATGAA
Found at i:108532542 original size:16 final size:16
Alignment explanation
Indices: 108532523--108532556 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
108532513 ATAAATTTAA
108532523 TTAAAATAATAATAAT
1 TTAAAATAATAATAAT
**
108532539 TTAAAATTTTAATAAT
1 TTAAAATAATAATAAT
108532555 TT
1 TT
108532557 TTAAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATAATAATAAT
Found at i:108532553 original size:19 final size:19
Alignment explanation
Indices: 108532529--108532567 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
108532519 TTAATTAAAA
108532529 TAATAATAATTTAAA-ATTT
1 TAATAAT-ATTTAAATATTT
*
108532548 TAATAATTTTTAAATATTT
1 TAATAATATTTAAATATTT
108532567 T
1 T
108532568 CTAACAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATAATATTTAAATATTT
Found at i:108532820 original size:3 final size:3
Alignment explanation
Indices: 108532812--108532842 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
108532802 ACAAAATGTG
108532812 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
108532843 CCCTCAAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:108537445 original size:10 final size:10
Alignment explanation
Indices: 108537430--108537495 Score: 80
Period size: 10 Copynumber: 6.4 Consensus size: 10
108537420 TCCTCTTATC
108537430 CAAATTCTCT
1 CAAATTCTCT
108537440 CAAATTCTCT
1 CAAATTCTCT
108537450 CAAATTCT-T
1 CAAATTCTCT
108537459 CCAAAAATTCTCT
1 -C--AAATTCTCT
*
108537472 CATATTCTCT
1 CAAATTCTCT
*
108537482 CAAATTTTCT
1 CAAATTCTCT
108537492 CAAA
1 CAAA
108537496 GCTCTCTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
9 1 0.02
10 39 0.80
12 8 0.16
13 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:108537468 original size:32 final size:32
Alignment explanation
Indices: 108537431--108537495 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 32
108537421 CCTCTTATCC
108537431 AAATTCTCTCAAATTCTCTCAAATTCTTC-CAA
1 AAATTCTCTCAAATTCTCTCAAATT-TTCTCAA
*
108537463 AAATTCTCTCATATTCTCTCAAATTTTCTCAA
1 AAATTCTCTCAAATTCTCTCAAATTTTCTCAA
108537495 A
1 A
108537496 GCTCTCTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 3 0.10
32 28 0.90
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (32 bp):
AAATTCTCTCAAATTCTCTCAAATTTTCTCAA
Found at i:108537485 original size:22 final size:22
Alignment explanation
Indices: 108537430--108537485 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
108537420 TCCTCTTATC
108537430 CAAATTCTCTC--AAATTCTCT
1 CAAATTCTCTCAAAAATTCTCT
108537450 CAAATTCT-TCCAAAAATTCTCT
1 CAAATTCTCT-CAAAAATTCTCT
*
108537472 CATATTCTCTCAAA
1 CAAATTCTCTCAAA
108537486 TTTTCTCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 1 0.03
20 9 0.29
22 20 0.65
23 1 0.03
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.38
Consensus pattern (22 bp):
CAAATTCTCTCAAAAATTCTCT
Found at i:108537696 original size:48 final size:49
Alignment explanation
Indices: 108537644--108537742 Score: 157
Period size: 49 Copynumber: 2.0 Consensus size: 49
108537634 AGTGATAATT
108537644 TTAATATTTCAATA-ATATTTAATA-TTTTTTTAATTTATGCAATTTTAA
1 TTAATATTTCAATACA-ATTTAATATTTTTTTTAATTTATGCAATTTTAA
* *
108537692 TTAATTTTTCAATACAATTTAATATTTTTTTTCATTTATGCAATTTTAA
1 TTAATATTTCAATACAATTTAATATTTTTTTTAATTTATGCAATTTTAA
108537741 TT
1 TT
108537743 TTAATTTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
48 21 0.45
49 26 0.55
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (49 bp):
TTAATATTTCAATACAATTTAATATTTTTTTTAATTTATGCAATTTTAA
Found at i:108539851 original size:56 final size:56
Alignment explanation
Indices: 108539790--108539978 Score: 342
Period size: 56 Copynumber: 3.4 Consensus size: 56
108539780 TTCTTTCATT
* *
108539790 TAATAAAATAAAAGTTTTTTTTAATATTTTAATTATAATTTACTCTTTTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
*
108539846 TAATAAAATAAAAGTTATTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
*
108539902 TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTGCTCTTTTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
108539958 TAATAAAATAAAAGTTGTTTT
1 TAATAAAATAAAAGTTGTTTT
108539979 GATAAGGAAA
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 129 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (56 bp):
TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
Found at i:108544510 original size:46 final size:46
Alignment explanation
Indices: 108544458--108544728 Score: 418
Period size: 46 Copynumber: 5.9 Consensus size: 46
108544448 GTGCTCTCTA
108544458 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
108544504 ATATGAAATGTGTAAGACCATGGTTGGAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
108544550 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
108544596 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*** * *
108544642 ATATGAAATGAACAAGACCATGGTTGAAAGATACCATGACAACATG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* * * * *
108544688 ACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
108544729 TCATGTCAAA
Statistics
Matches: 209, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 208 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:108547020 original size:126 final size:125
Alignment explanation
Indices: 108546789--108547177 Score: 465
Period size: 126 Copynumber: 3.1 Consensus size: 125
108546779 AATAGGAACT
* * * *
108546789 ACTGTAGAAAAAGAGTGTCCACGTGAGAGTTTTTCTCAGTAATTTTGCTGAAAGTGCATACTGCA
1 ACTGTAGAAAAAGAGTGTCCACGTGAGAGCTTTT-TCAGTAATTTTGCTGACAGTGCATCCTGCT
* ** * *
108546854 TAAAGCGTTTTTGACACTATTTGTTCAGAAAGGTCATCTCACAATTATTTTTTCAGATACC
65 TAAAGCGTTTTTGACACTATTTCTTCAGAAACTTCTTCTCAAAATTATTTTTTCAGATACC
** * * *
108546915 ACTGTATCAAAAGAGTGTCCACGTGAGAGCTTGTTTCAGTACTTTTGTTGACAGTGCATCCTACT
1 ACTGTAGAAAAAGAGTGTCCACGTGAGAGCTT-TTTCAGTAATTTTGCTGACAGTGCATCCTGCT
* * * *
108546980 TAAAGCATTTTTTACACTATTTTTTCAGAAACTTCTTCTCAAAATTATTTTCTCAGATACC
65 TAAAGCGTTTTTGACACTATTTCTTCAGAAACTTCTTCTCAAAATTATTTTTTCAGATACC
* * * * * *
108547041 ACTGTAGAAAAAAAGCGTCCACATGGGAGCAATTTTCAGTAATTTTGCTGGCAGTGCATCCTGCT
1 ACTGTAGAAAAAGAGTGTCCACGTGAGAGC-TTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
* * * * * *
108547106 TGAAGCGTTTTGGATACTATTTCTTCAGAAACTTCTTCTTAAAATT-TTTTTCCAGATACT
65 TAAAGCGTTTTTGACACTATTTCTTCAGAAACTTCTTCTCAAAATTATTTTTTCAGATACC
*
108547166 ACTGAAGAAAAA
1 ACTGTAGAAAAA
108547178 AAACCAAATA
Statistics
Matches: 222, Mismatches: 39, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
125 22 0.10
126 197 0.89
127 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (125 bp):
ACTGTAGAAAAAGAGTGTCCACGTGAGAGCTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTT
AAAGCGTTTTTGACACTATTTCTTCAGAAACTTCTTCTCAAAATTATTTTTTCAGATACC
Found at i:108547974 original size:20 final size:20
Alignment explanation
Indices: 108547937--108547974 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
108547927 TGATGGGGAG
*
108547937 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
108547957 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
108547975 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:108549926 original size:46 final size:46
Alignment explanation
Indices: 108549874--108550055 Score: 285
Period size: 46 Copynumber: 4.0 Consensus size: 46
108549864 AGTGTGCTCT
*
108549874 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
108549920 CTGATATGAAATGTGTAAGACCATGGTAGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
108549966 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
108550012 ATGATA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
108550056 TCATGTCAAA
Statistics
Matches: 127, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 126 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:108550747 original size:12 final size:12
Alignment explanation
Indices: 108550729--108550771 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
108550719 CTAAACTAAA
108550729 ATTTAATTAATT
1 ATTTAATTAATT
*
108550741 TTTTAATTAA-T
1 ATTTAATTAATT
108550752 ATTTAATTTAATT
1 ATTTAA-TTAATT
*
108550765 AATTAAT
1 ATTTAAT
108550772 CTTACACCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 6 0.23
12 14 0.54
13 6 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTTAATTAATT
Found at i:108550792 original size:26 final size:26
Alignment explanation
Indices: 108550756--108550822 Score: 134
Period size: 26 Copynumber: 2.6 Consensus size: 26
108550746 ATTAATATTT
108550756 AATTTAATTAATTAATCTTACACCCC
1 AATTTAATTAATTAATCTTACACCCC
108550782 AATTTAATTAATTAATCTTACACCCC
1 AATTTAATTAATTAATCTTACACCCC
108550808 AATTTAATTAATTAA
1 AATTTAATTAATTAA
108550823 ACCCTTACAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (26 bp):
AATTTAATTAATTAATCTTACACCCC
Found at i:108551328 original size:27 final size:27
Alignment explanation
Indices: 108551298--108551351 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
108551288 ACTAAAATAA
*
108551298 AACCAAAGACATAATTGGGTGAGTATT
1 AACCAAAGACATAATTGGGCGAGTATT
*
108551325 AACCAAAGGCATAATTGGGCGAGTATT
1 AACCAAAGACATAATTGGGCGAGTATT
108551352 CTTATAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (27 bp):
AACCAAAGACATAATTGGGCGAGTATT
Found at i:108561969 original size:21 final size:23
Alignment explanation
Indices: 108561936--108561983 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
108561926 TAATTTAATT
108561936 GATTACTTGTTATTTTTATTAAA
1 GATTACTTGTTATTTTTATTAAA
* *
108561959 GATTA-TT-TTATTTTTTTTTAA
1 GATTACTTGTTATTTTTATTAAA
108561980 GATT
1 GATT
108561984 GTTAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 16 0.70
22 2 0.09
23 5 0.22
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.62
Consensus pattern (23 bp):
GATTACTTGTTATTTTTATTAAA
Found at i:108565496 original size:38 final size:37
Alignment explanation
Indices: 108565451--108565572 Score: 110
Period size: 38 Copynumber: 3.4 Consensus size: 37
108565441 TTTTGAGGTG
108565451 AAAATATTTAAATACTTTTATTTATATTAATTAT-TTAA
1 AAAATATTTAAATA-TTTTATTTATATTAATTATATT-A
* * * *
108565489 AAAATATTTAAAAATTTAATTATATATCATTTATATTA
1 AAAATATTTAAATATTTTATT-TATATTAATTATATTA
* * *
108565527 AAATTATTAAAATATTTTATGT-T-TT-ATTATATT-
1 AAAATATTTAAATATTTTATTTATATTAATTATATTA
*
108565560 AAATTATTTAAAT
1 AAAATATTTAAAT
108565573 GTTACTTACA
Statistics
Matches: 70, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
33 12 0.17
34 7 0.10
35 1 0.01
36 1 0.01
37 7 0.10
38 40 0.57
39 2 0.03
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.52
Consensus pattern (37 bp):
AAAATATTTAAATATTTTATTTATATTAATTATATTA
Found at i:108571239 original size:113 final size:113
Alignment explanation
Indices: 108571037--108571242 Score: 351
Period size: 113 Copynumber: 1.8 Consensus size: 113
108571027 TTGGATTTTA
*
108571037 ATTTACTCTCTTTAGAGGTGATTCTCCTGCAGTTATTGTTATTTTCTGAAGTGACAATCATCGTT
1 ATTTACTCTCTTTAGAGGTGATTCTCCTGCAGTTATTGTTATTTTCTGAAGTGACAATCATCGCT
*
108571102 CATTGCTGTGTGTAAATTATCCAAATTGAGGTGATTCTTGGCGCAGTT
66 CATTGCTGTGTGTAAATTAACCAAATTGAGGTGATTCTTGGCGCAGTT
* * *
108571150 ATTTACTCTCTTTAGCA-GTGATTCTCCTGCAGTTATTTTTATTTTCTGAAGTGTCAATCATTGC
1 ATTTACTCTCTTTAG-AGGTGATTCTCCTGCAGTTATTGTTATTTTCTGAAGTGACAATCATCGC
108571214 TCATTGCTGTGTGTAAATTAACCAAATTG
65 TCATTGCTGTGTGTAAATTAACCAAATTG
108571243 GGGAGAAGTC
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
113 86 0.99
114 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.43
Consensus pattern (113 bp):
ATTTACTCTCTTTAGAGGTGATTCTCCTGCAGTTATTGTTATTTTCTGAAGTGACAATCATCGCT
CATTGCTGTGTGTAAATTAACCAAATTGAGGTGATTCTTGGCGCAGTT
Found at i:108581093 original size:18 final size:18
Alignment explanation
Indices: 108581070--108581127 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
108581060 CCAAGTATGA
108581070 TTATAATTTCTTATATAC
1 TTATAATTTCTTATATAC
*
108581088 TTATAA----TTAAATGA-
1 TTATAATTTCTTATAT-AC
108581102 TTATAATTTCTTATATAC
1 TTATAATTTCTTATATAC
108581120 TTATAATT
1 TTATAATT
108581128 AAAACACTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
14 11 0.34
15 1 0.03
17 1 0.03
18 19 0.59
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (18 bp):
TTATAATTTCTTATATAC
Found at i:108581107 original size:32 final size:32
Alignment explanation
Indices: 108581066--108581130 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
108581056 GGGTCCAAGT
108581066 ATGATTATAATTTCTTATATACTTATAATTAA
1 ATGATTATAATTTCTTATATACTTATAATTAA
108581098 ATGATTATAATTTCTTATATACTTATAATTAA
1 ATGATTATAATTTCTTATATACTTATAATTAA
108581130 A
1 A
108581131 ACACTAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (32 bp):
ATGATTATAATTTCTTATATACTTATAATTAA
Found at i:108585898 original size:9 final size:9
Alignment explanation
Indices: 108585884--108585908 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
108585874 GTATGTTGCA
108585884 GCCACAATT
1 GCCACAATT
108585893 GCCACAATT
1 GCCACAATT
108585902 GCCACAA
1 GCCACAA
108585909 ATGACCATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.36, G:0.12, T:0.16
Consensus pattern (9 bp):
GCCACAATT
Found at i:108589542 original size:37 final size:37
Alignment explanation
Indices: 108589481--108589636 Score: 174
Period size: 37 Copynumber: 4.0 Consensus size: 37
108589471 TACGTATGAT
*
108589481 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
108589516 CA-TCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACT-TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
108589553 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
108589596 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
108589636 C
1 C
108589637 GAAGCTATCA
Statistics
Matches: 104, Mismatches: 4, Indels: 24
0.79 0.03 0.18
Matches are distributed among these distances:
34 1 0.01
35 8 0.08
36 4 0.04
37 47 0.45
38 1 0.01
39 2 0.02
40 4 0.04
41 1 0.01
42 1 0.01
43 3 0.03
44 2 0.02
46 30 0.29
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:108589620 original size:46 final size:46
Alignment explanation
Indices: 108589553--108589821 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
108589543 TAAGTGTAGC
* **
108589553 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
108589599 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
108589645 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
108589697 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
108589743 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
108589795 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
108589822 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:108589672 original size:52 final size:52
Alignment explanation
Indices: 108589596--108589815 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
108589586 TAGCTAAAGC
* *
108589596 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
108589649 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
108589701 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
108589747 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
108589799 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
108589816 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:108589718 original size:98 final size:98
Alignment explanation
Indices: 108589553--108589821 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
108589543 TAAGTGTAGC
* * *
108589553 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
108589618 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
108589652 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
108589717 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
108589750 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
108589815 GATCAGA
66 GATCAGA
108589822 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:108593002 original size:49 final size:49
Alignment explanation
Indices: 108592947--108593092 Score: 229
Period size: 49 Copynumber: 3.0 Consensus size: 49
108592937 TTCGTTTTCT
* *
108592947 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
108592996 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
108593045 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-AATCACAT
108593093 GTTCACATGT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.93
50 6 0.07
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:108594405 original size:37 final size:37
Alignment explanation
Indices: 108594344--108594499 Score: 174
Period size: 37 Copynumber: 4.0 Consensus size: 37
108594334 TACGTATGAT
*
108594344 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
108594379 CA-TCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACT-TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
108594416 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
108594459 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
108594499 C
1 C
108594500 GAAGCTATCA
Statistics
Matches: 104, Mismatches: 4, Indels: 24
0.79 0.03 0.18
Matches are distributed among these distances:
34 1 0.01
35 8 0.08
36 4 0.04
37 47 0.45
38 1 0.01
39 2 0.02
40 4 0.04
41 1 0.01
42 1 0.01
43 3 0.03
44 2 0.02
46 30 0.29
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:108594483 original size:46 final size:46
Alignment explanation
Indices: 108594416--108594684 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
108594406 TAAGTGTAGC
* **
108594416 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
108594462 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
108594508 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
108594560 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
108594606 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
108594658 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
108594685 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:108594535 original size:52 final size:52
Alignment explanation
Indices: 108594459--108594678 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
108594449 TAGCTAAAGC
* *
108594459 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
108594512 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
108594564 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
108594610 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
108594662 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
108594679 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:108594581 original size:98 final size:98
Alignment explanation
Indices: 108594416--108594684 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
108594406 TAAGTGTAGC
* * *
108594416 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
108594481 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
108594515 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
108594580 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
108594613 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
108594678 GATCAGA
66 GATCAGA
108594685 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:108597148 original size:21 final size:20
Alignment explanation
Indices: 108597101--108597150 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
108597091 TTGGCTTTTT
108597101 TTTTATTTTTATCCTTATTA
1 TTTTATTTTTATCCTTATTA
*
108597121 TTGTTATTTTTTTCCATTATT-
1 TT-TTATTTTTATCC-TTATTA
108597142 TATTTATTT
1 T-TTTATTT
108597151 ATTTATTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 2 0.08
21 18 0.69
22 6 0.23
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTATTTTTATCCTTATTA
Found at i:108597200 original size:3 final size:3
Alignment explanation
Indices: 108597185--108597272 Score: 106
Period size: 3 Copynumber: 29.0 Consensus size: 3
108597175 AAAAATTTAG
* **
108597185 ATT ATT CATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ACC
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
108597231 ATT ATT ATT ATT ATT ATT ATC ATT -TT CATC ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
108597273 GTTTATGCAT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
2 2 0.03
3 68 0.92
4 4 0.05
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:108597507 original size:14 final size:14
Alignment explanation
Indices: 108597488--108597534 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
108597478 CCCAAATTAG
108597488 TAAAAATAAAATTT
1 TAAAAATAAAATTT
108597502 TAAAAAT--AA---
1 TAAAAATAAAATTT
108597511 TAAAAATAAAATTT
1 TAAAAATAAAATTT
108597525 TAAAAATAAA
1 TAAAAATAAA
108597535 GGCAATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
9 7 0.25
11 2 0.07
12 2 0.07
14 17 0.61
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAAAATAAAATTT
Found at i:108597541 original size:23 final size:23
Alignment explanation
Indices: 108597488--108597533 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
108597478 CCCAAATTAG
108597488 TAAAAATAAAATTTTAAAAATAA
1 TAAAAATAAAATTTTAAAAATAA
108597511 TAAAAATAAAATTTTAAAAATAA
1 TAAAAATAAAATTTTAAAAATAA
108597534 AGGCAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
TAAAAATAAAATTTTAAAAATAA
Found at i:108601034 original size:51 final size:51
Alignment explanation
Indices: 108600964--108601167 Score: 345
Period size: 51 Copynumber: 4.0 Consensus size: 51
108600954 TCAGTGACAG
108600964 GTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAA
1 GTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAA
* *
108601015 GTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAA
1 GTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAA
* *
108601066 ATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGGCAAGTGATAA
1 GTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAA
* * *
108601117 GTGATAAGTGATAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAA
1 GTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAA
108601168 ATGTGATCAG
Statistics
Matches: 142, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 142 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (51 bp):
GTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAA
Found at i:108601118 original size:102 final size:102
Alignment explanation
Indices: 108600965--108601170 Score: 394
Period size: 102 Copynumber: 2.0 Consensus size: 102
108600955 CAGTGACAGG
*
108600965 TGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATAAGTGGTAGT
1 TGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATAAGTGATAGT
108601030 TTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
66 TTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
*
108601067 TGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGGCAAGTGATAAGTGATAAGTGATAGT
1 TGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATAAGTGATAGT
108601132 TTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
66 TTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
108601169 TG
1 TG
108601171 TGATCAGTGT
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 102 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.33
Consensus pattern (102 bp):
TGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATAAGTGATAGT
TTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
Found at i:108604737 original size:51 final size:51
Alignment explanation
Indices: 108604661--108604772 Score: 206
Period size: 51 Copynumber: 2.2 Consensus size: 51
108604651 AACCAAGTTA
*
108604661 TCCGGATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTGTTGAAGCTAGAACAACAAAGTAATAAT
108604712 TCCGGATGAAATATGAAGCTCTTGTTGAAGCTAGAACAACAAAGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTGTTGAAGCTAGAACAACAAAGTAATAAT
*
108604763 TCTGGATGAA
1 TCCGGATGAA
108604773 GTATAAAGTA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.26
Consensus pattern (51 bp):
TCCGGATGAAATATGAAGCTCTTGTTGAAGCTAGAACAACAAAGTAATAAT
Found at i:108605664 original size:46 final size:46
Alignment explanation
Indices: 108605612--108605824 Score: 306
Period size: 46 Copynumber: 4.6 Consensus size: 46
108605602 GCTTTCTGAA
*
108605612 ATGAAATGTATAAGACCATGGTTGAAAGATCCCATGGCAACATGAT
1 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
108605658 ATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACATGAT
1 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * *
108605704 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
108605750 ATGAAATG-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTA-TAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
108605796 A-GAAAATG-AGTAAGACCATAGTTGAAAGA
1 ATG-AAATGTA-TAAGACCATGGTTGAAAGA
108605825 CACTATGACA
Statistics
Matches: 153, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 1 0.01
46 152 0.99
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:108605729 original size:21 final size:21
Alignment explanation
Indices: 108605659--108605730 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
108605649 CAACATGATA
*
108605659 TGAAATGTGTAAGACCATGGT
1 TGAAATATGTAAGACCATGGT
* ** * *
108605680 TGAAAGATACAATGGCAACATGAT
1 TGAAATATGTAA--G-ACCATGGT
108605704 ATGAAATATGTAAGACCATGGT
1 -TGAAATATGTAAGACCATGGT
108605726 TGAAA
1 TGAAA
108605731 GATACCATGG
Statistics
Matches: 36, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
21 13 0.36
22 6 0.17
23 2 0.06
24 6 0.17
25 9 0.25
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.25
Consensus pattern (21 bp):
TGAAATATGTAAGACCATGGT
Found at i:108608498 original size:17 final size:16
Alignment explanation
Indices: 108608470--108608513 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
108608460 TTAGTATAGG
108608470 TTTTCATTTTTCTCTTC
1 TTTTC-TTTTTCTCTTC
*
108608487 TCTTTCTTTTTCTTTTC
1 T-TTTCTTTTTCTCTTC
108608504 TTTTCTTTTT
1 TTTTCTTTTT
108608514 GGTGTAGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 9 0.36
17 12 0.48
18 4 0.16
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTCTTTTTCTCTTC
Found at i:108615011 original size:23 final size:23
Alignment explanation
Indices: 108614981--108615024 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
108614971 TATAAGTAGA
108614981 TTATTTTATATTTAAATAATATC
1 TTATTTTATATTTAAATAATATC
108615004 TTATTTTATATTTAAATAATA
1 TTATTTTATATTTAAATAATA
108615025 AATAACAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TTATTTTATATTTAAATAATATC
Found at i:108616962 original size:10 final size:10
Alignment explanation
Indices: 108616947--108616982 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
108616937 TATTTATGGG
108616947 ACTCTCTCAC
1 ACTCTCTCAC
*
108616957 ACTCTCTCTC
1 ACTCTCTCAC
108616967 ACTCTCTCAC
1 ACTCTCTCAC
*
108616977 TCTCTC
1 ACTCTC
108616983 ATTGTATAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.14, C:0.50, G:0.00, T:0.36
Consensus pattern (10 bp):
ACTCTCTCAC
Found at i:108619797 original size:46 final size:44
Alignment explanation
Indices: 108619693--108619800 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
108619683 TGTCTTTAAC
** * * *
108619693 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
108619737 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
108619783 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
108619801 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:108626158 original size:46 final size:44
Alignment explanation
Indices: 108626054--108626161 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
108626044 TGTCTTTAAC
** * * *
108626054 ATGGACTTACATGAATTATTCTTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCTTGTCTCCAAAGCCATATATAAT
*
108626098 ATGGACTTACATGGCTCAATCTTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCTTGTCTCCAAAGCCATA--TATAAT
108626144 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
108626162 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCTTGTCTCCAAAGCCATATATAAT
Found at i:108628110 original size:33 final size:33
Alignment explanation
Indices: 108628068--108628133 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
108628058 ATGGACACAT
108628068 AAATCTATTTACAC-AGCTTAAAAACTTTTAATG
1 AAATCTATTTACACAAG-TTAAAAACTTTTAATG
108628101 AAATCTATTTACACAAGTTAAAAACTTTTAATG
1 AAATCTATTTACACAAGTTAAAAACTTTTAATG
108628134 TCTTATCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (33 bp):
AAATCTATTTACACAAGTTAAAAACTTTTAATG
Found at i:108628892 original size:3 final size:3
Alignment explanation
Indices: 108628884--108628918 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
108628874 TGGAGAGTTT
108628884 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
108628919 GAAATTGACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:108631808 original size:15 final size:15
Alignment explanation
Indices: 108631788--108631817 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
108631778 TATTTTTGCA
108631788 AAAATTTCTATTGGT
1 AAAATTTCTATTGGT
108631803 AAAATTTCTATTGGT
1 AAAATTTCTATTGGT
108631818 TCGGGAGTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (15 bp):
AAAATTTCTATTGGT
Found at i:108632419 original size:6 final size:7
Alignment explanation
Indices: 108632388--108632417 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
108632378 TAATGAGTAC
108632388 AAATAAA
1 AAATAAA
108632395 AAATAAA
1 AAATAAA
108632402 AAATAAA
1 AAATAAA
108632409 AAATAAA
1 AAATAAA
108632416 AA
1 AA
108632418 TATTCAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAATAAA
Found at i:108649625 original size:5 final size:5
Alignment explanation
Indices: 108649615--108649659 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
108649605 ATGTATTATA
* * *
108649615 ATAAT ATAAT ATAGT ATAAT ATAAT ATAAT TTACTT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAA
108649660 GCAATACTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 30 0.91
6 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:108653612 original size:31 final size:31
Alignment explanation
Indices: 108653576--108653639 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
108653566 CCCTATGTCT
108653576 GTTTCCACAATATTCACATTCTAGAATTTTA
1 GTTTCCACAATATTCACATTCTAGAATTTTA
108653607 GTTTCCACAATATTCACATTCTAGAATTTTA
1 GTTTCCACAATATTCACATTCTAGAATTTTA
108653638 GT
1 GT
108653640 GTTCGGAGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (31 bp):
GTTTCCACAATATTCACATTCTAGAATTTTA
Found at i:108657273 original size:5 final size:5
Alignment explanation
Indices: 108657263--108657307 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
108657253 ATGTATTATA
* * *
108657263 ATAAT ATAAT ATAGT ATAAT ATAAT ATAAT TTACTT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAA
108657308 GCAAATACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 30 0.91
6 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:108662994 original size:46 final size:46
Alignment explanation
Indices: 108662942--108663037 Score: 183
Period size: 46 Copynumber: 2.1 Consensus size: 46
108662932 ACAAGTCAGT
108662942 ACATTTTATACAAAGCAATAATACAAAACAAGAAATAATAAATAGA
1 ACATTTTATACAAAGCAATAATACAAAACAAGAAATAATAAATAGA
*
108662988 ACATTTTATACAAAGCAATAATACAAAGCAAGAAATAATAAATAGA
1 ACATTTTATACAAAGCAATAATACAAAACAAGAAATAATAAATAGA
108663034 ACAT
1 ACAT
108663038 CTATTTGGGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (46 bp):
ACATTTTATACAAAGCAATAATACAAAACAAGAAATAATAAATAGA
Found at i:108664158 original size:58 final size:58
Alignment explanation
Indices: 108664088--108664205 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
108664078 AAAAAGAGAG
108664088 AAGGGACGTTTGATTATTTTGATTCAAGGAGAAAATCGTACCCCGTAAGTTGGGGCAC
1 AAGGGACGTTTGATTATTTTGATTCAAGGAGAAAATCGTACCCCGTAAGTTGGGGCAC
108664146 AAGGGACGTTTGATTATTTTGATTCAAGGAGAAAATCGTACCCCGTAAGTTGGGGCAC
1 AAGGGACGTTTGATTATTTTGATTCAAGGAGAAAATCGTACCCCGTAAGTTGGGGCAC
108664204 AA
1 AA
108664206 TTTCTCAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (58 bp):
AAGGGACGTTTGATTATTTTGATTCAAGGAGAAAATCGTACCCCGTAAGTTGGGGCAC
Found at i:108666308 original size:21 final size:21
Alignment explanation
Indices: 108666282--108666324 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
108666272 TTTGGGTGGA
108666282 TCAGCTCTCACGAGATTCTGT
1 TCAGCTCTCACGAGATTCTGT
* * *
108666303 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTCACGAGATTCTGT
108666324 T
1 T
108666325 GGTGTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.40
Consensus pattern (21 bp):
TCAGCTCTCACGAGATTCTGT
Found at i:108667023 original size:41 final size:39
Alignment explanation
Indices: 108666929--108667035 Score: 128
Period size: 41 Copynumber: 2.7 Consensus size: 39
108666919 CGACTTCAAG
* *
108666929 TCGATGAGGCATTGAGTGTCAATTTAC--TTCGGTATAA
1 TCGATGAGACATTGGGTGTCAATTTACTATTCGGTATAA
* * *
108666966 TCGATCAGACATTGGGTGTCAATTTACTATTTCGGATTTAT
1 TCGATGAGACATTGGGTGTCAATTTACTA-TTCGG-TATAA
*
108667007 TCGATGAGACACTGGGTGTCAATTTACTA
1 TCGATGAGACATTGGGTGTCAATTTACTA
108667036 CTTTGAATTA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
37 24 0.41
40 5 0.08
41 30 0.51
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.36
Consensus pattern (39 bp):
TCGATGAGACATTGGGTGTCAATTTACTATTCGGTATAA
Found at i:108671673 original size:38 final size:38
Alignment explanation
Indices: 108671566--108671916 Score: 522
Period size: 38 Copynumber: 9.1 Consensus size: 38
108671556 ATTTGATGTG
* *
108671566 TATCCGGGCTTAAAGACTCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAATA
*
108671606 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAATA
*
108671646 TATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
108671684 TATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
108671722 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * *
108671760 TATCCGGGCTTAAAAACCCGCAGGCTTTGTGCTGGTATTA
1 TATCCGGG-TT-AAATCCCGCAGGCTTCGTGCTGGTAATA
*
108671800 TATCCGGGTTAAATTCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
108671838 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * *
108671876 TATCCGGGTTAAATCCCGCAGGCCTAGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
108671914 TAT
1 TAT
108671917 TCAGGCCTTT
Statistics
Matches: 289, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
38 200 0.69
39 9 0.03
40 80 0.28
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:108671795 original size:116 final size:114
Alignment explanation
Indices: 108671584--108671921 Score: 541
Period size: 116 Copynumber: 2.9 Consensus size: 114
108671574 CTTAAAGACT
*
108671584 CGCAGGCTTCGTGCTGGTAATATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAATATAT
1 CGCAGGCTTCGTGCTGGTAATATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAATATAT
* *
108671649 CCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATATCCAGGTTAAATCC
64 CCGGGTTAAATCCCGCAGGCTTAGTACTGGTATTATATCCAGGTTAAATCC
108671700 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCC
1 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCC
* * * * *
108671765 GGGCTTAAAAACCCGCAGGCTTTGTGCTGGTATTATATCCGGGTTAAATTC
66 GGG-TT-AAATCCCGCAGGCTTAGTACTGGTATTATATCCAGGTTAAATCC
*
108671816 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAATATATCC
1 CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCC
* *
108671881 GGGTTAAATCCCGCAGGCCTAGTACTGGTATTATATTCAGG
66 GGGTTAAATCCCGCAGGCTTAGTACTGGTATTATATCCAGG
108671922 CCTTTGAGCC
Statistics
Matches: 206, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
114 62 0.30
115 9 0.04
116 135 0.66
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.29
Consensus pattern (114 bp):
CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCC
GGGTTAAATCCCGCAGGCTTAGTACTGGTATTATATCCAGGTTAAATCC
Found at i:108671864 original size:154 final size:154
Alignment explanation
Indices: 108671566--108671916 Score: 567
Period size: 154 Copynumber: 2.3 Consensus size: 154
108671556 ATTTGATGTG
* * *
108671566 TATCCGGGCTTAAAGACTCGCAGGCTTCGTGCTGGTAATATATCCGGGCTTAAAGACCCGCAGGC
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAATATATCCGGGCTTAAAAACCCGCAGGC
108671631 TTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATATCCAGGTTAA
64 TTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATATCCAGGTTAA
*
108671696 ATCCCGCAGGCTTCGTGCTGGTAATA
129 ATCCCGCAGGCTTCGTGCTAGTAATA
108671722 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGCTTAAAAACCCGCAGGCTT
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGCTTAAAAACCCGCAGGCTT
* * * * *
108671787 TGTGCTGGTATTATATCCGGGTTAAATTCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
66 CGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATATCCAGGTTAAAT
108671852 CCCGCAGGCTTCGTGCTAGTAATA
131 CCCGCAGGCTTCGTGCTAGTAATA
* * * *
108671876 TATCCGGGTTAAATCCCGCAGGCCTAGTACTGGTATTATAT
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
108671917 TCAGGCCTTT
Statistics
Matches: 182, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
154 169 0.93
155 5 0.03
156 8 0.04
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (154 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGCTTAAAAACCCGCAGGCTT
CGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATATCCAGGTTAAAT
CCCGCAGGCTTCGTGCTAGTAATA
Found at i:108671969 original size:45 final size:45
Alignment explanation
Indices: 108671913--108672044 Score: 148
Period size: 45 Copynumber: 3.0 Consensus size: 45
108671903 TACTGGTATT
* * *
108671913 ATATTCAGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGAT-
1 ATATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
*
108671957 ACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGACATG
1 A-TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
* * * *
108672003 AT-GTCGAGCC-TTGAGCCTAGCAGGCGA-AATGCCGATGA-ATG
1 ATATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
108672044 A
1 A
108672045 ATAAAAGTCT
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
41 4 0.05
42 10 0.13
43 15 0.19
44 7 0.09
45 40 0.52
46 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (45 bp):
ATATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
Found at i:108679087 original size:66 final size:66
Alignment explanation
Indices: 108678981--108679113 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
108678971 CCTCGTTAGG
* *
108678981 AGGACCAGGGGGATGAAGTGCTTTGCGCACCATTGTGGATGTCTTTTGGAGGGTTGTCGATGTTG
1 AGGACCAGGGGGATGAAGTGCTTTGCGCACCATTGTGGATGTCCTTCGGAGGGTTGTCGATGTTG
108679046 C
66 C
108679047 AGGACCAGGGGGATGAAGTGCTTTGCGCACCATTGTGGATGTCCTTCGGAGGGTTGTCGATGTTG
1 AGGACCAGGGGGATGAAGTGCTTTGCGCACCATTGTGGATGTCCTTCGGAGGGTTGTCGATGTTG
108679112 C
66 C
108679113 A
1 A
108679114 CCCTAAGTCG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.17, G:0.38, T:0.29
Consensus pattern (66 bp):
AGGACCAGGGGGATGAAGTGCTTTGCGCACCATTGTGGATGTCCTTCGGAGGGTTGTCGATGTTG
C
Found at i:108681447 original size:30 final size:30
Alignment explanation
Indices: 108681401--108681524 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
108681391 TTTTATTATG
*
108681401 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
108681432 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
108681462 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
108681492 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
108681522 CCA
1 CCA
108681525 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:108681456 original size:15 final size:15
Alignment explanation
Indices: 108681411--108681518 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
108681401 CCAATATCTC
108681411 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
108681426 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
108681441 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
108681456 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
108681471 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
108681486 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
108681501 GATACCCATATCTTT
1 GATACCCATATCTTT
108681516 GAT
1 GAT
108681519 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:108686136 original size:30 final size:30
Alignment explanation
Indices: 108686102--108686213 Score: 197
Period size: 30 Copynumber: 3.7 Consensus size: 30
108686092 CCAATATCTC
108686102 GATACCCATATCTTTGACTTTCTAATATTT
1 GATACCCATATCTTTGACTTTCTAATATTT
*
108686132 GATACCCATATCTTTGACTTTCCAATATTT
1 GATACCCATATCTTTGACTTTCTAATATTT
*
108686162 GATACCCATATCTTTGACTTTCTATTATTT
1 GATACCCATATCTTTGACTTTCTAATATTT
*
108686192 GATACCCATATCTTTGATTTTC
1 GATACCCATATCTTTGACTTTC
108686214 CATAAATATG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.25, C:0.21, G:0.07, T:0.46
Consensus pattern (30 bp):
GATACCCATATCTTTGACTTTCTAATATTT
Found at i:108686147 original size:15 final size:15
Alignment explanation
Indices: 108686102--108686209 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
108686092 CCAATATCTC
108686102 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
108686117 GACTTTCTA-ATATTT
1 GA-TACCCATATCTTT
108686132 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
108686147 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
108686162 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
108686177 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
108686192 GATACCCATATCTTT
1 GATACCCATATCTTT
108686207 GAT
1 GAT
108686210 TTTCCATAAA
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.66
16 11 0.17
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:108687654 original size:18 final size:18
Alignment explanation
Indices: 108687633--108687672 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
108687623 TTAAAATGCA
108687633 TGCAGGCTATT-TGCATGT
1 TGCA-GCTATTGTGCATGT
*
108687651 TGCAGCTCTTGTGCATGT
1 TGCAGCTATTGTGCATGT
108687669 TGCA
1 TGCA
108687673 CTAACAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.15, C:0.20, G:0.28, T:0.38
Consensus pattern (18 bp):
TGCAGCTATTGTGCATGT
Found at i:108690486 original size:28 final size:28
Alignment explanation
Indices: 108690454--108690531 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
108690444 TTTCTATATA
108690454 ATTTTTATAATGTTTACAAAA-TTTTAAT
1 ATTTTTATAAT-TTTACAAAATTTTTAAT
*
108690482 ATTTTTATATATTTTATAAAATTTTTAAT
1 ATTTTTATA-ATTTTACAAAATTTTTAAT
* *
108690511 TTTTTTATAA-TTTAAAAAATT
1 ATTTTTATAATTTTACAAAATT
108690532 ACATCTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.22
28 18 0.40
29 17 0.38
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (28 bp):
ATTTTTATAATTTTACAAAATTTTTAAT
Found at i:108691046 original size:14 final size:15
Alignment explanation
Indices: 108691027--108691067 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
108691017 TAAGACCAAC
108691027 AAAAATTAAATTT-T
1 AAAAATTAAATTTAT
*
108691041 AAAAATTAGATTTGAT
1 AAAAATTAAATTT-AT
108691057 AAAAA-TAAATT
1 AAAAATTAAATT
108691068 ACGGTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 12 0.52
15 5 0.22
16 6 0.26
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (15 bp):
AAAAATTAAATTTAT
Found at i:108695317 original size:106 final size:106
Alignment explanation
Indices: 108695119--108695331 Score: 320
Period size: 106 Copynumber: 2.0 Consensus size: 106
108695109 AAATATCGCT
*
108695119 AATTAAATCAAATTTTATGAAAAATGCCTTCGTATTTCGAGTTAATCGGGAAGAAAATCATGCAT
1 AATTAAATCAAATTTTATGAAAAATGCCTTCGTATTTCGAGTTAATCGGGAAGAAAATCATGCAC
** **
108695184 CGTAAGTTAGGGCATGATGTTTCAAATCTTTGAAAATAAGA
66 CGTAAGTTAGGGCACAATGTTTCAAATCCCTGAAAATAAGA
* * * * *
108695225 AATTAAATCAAATTTTATGAAGAATGTCTTTGTATTTCGAGTTAATTGGGAAGAGAATCATGCAC
1 AATTAAATCAAATTTTATGAAAAATGCCTTCGTATTTCGAGTTAATCGGGAAGAAAATCATGCAC
108695290 CGTAAGTTAGGGCACAATGTCTT-AAATCCCTGAAAATAAGA
66 CGTAAGTTAGGGCACAATGT-TTCAAATCCCTGAAAATAAGA
108695331 A
1 A
108695332 TGCTCATTTT
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
106 94 0.98
107 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.31
Consensus pattern (106 bp):
AATTAAATCAAATTTTATGAAAAATGCCTTCGTATTTCGAGTTAATCGGGAAGAAAATCATGCAC
CGTAAGTTAGGGCACAATGTTTCAAATCCCTGAAAATAAGA
Found at i:108698539 original size:20 final size:20
Alignment explanation
Indices: 108698514--108698552 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
108698504 AAAGTGAGCT
108698514 GAAGGATAGTGTGATTTTAC
1 GAAGGATAGTGTGATTTTAC
108698534 GAAGGATAGTGTGATTTTA
1 GAAGGATAGTGTGATTTTA
108698553 ATCCGACCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.31, T:0.36
Consensus pattern (20 bp):
GAAGGATAGTGTGATTTTAC
Found at i:108699209 original size:26 final size:26
Alignment explanation
Indices: 108699170--108699239 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
108699160 ACAATATCGA
*
108699170 GAAGCTC-CAAAGAGCCATTAATTAG
1 GAAGCTCACAAAGAGCCATTAATCAG
* *
108699195 GAAGCTCACAAAGAGCCTTTAGTCAG
1 GAAGCTCACAAAGAGCCATTAATCAG
*
108699221 GAAGCTCACGAAGAGCCAT
1 GAAGCTCACAAAGAGCCAT
108699240 GTAACGGGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 7 0.18
26 32 0.82
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCCATTAATCAG
Found at i:108714062 original size:55 final size:54
Alignment explanation
Indices: 108713995--108714115 Score: 156
Period size: 55 Copynumber: 2.2 Consensus size: 54
108713985 AAAAAAATGT
*
108713995 TTTGGGGGTTTGAGAGGAAATAAAAGTTTT-AG-GGGAAAGCAAAAGGAAAAAAAA
1 TTTGGGGGTTTGA-AGGAAATAAAAGTTTTGAGAGGGAAA-CAAAAGAAAAAAAAA
* *
108714049 TTTGAGGGGTTTGAAGGAAGTAAAAGTTTTGGGAGGGAAACAAAAGAAAAAAAAA
1 TTTG-GGGGTTTGAAGGAAATAAAAGTTTTGAGAGGGAAACAAAAGAAAAAAAAA
* *
108714104 TGTGGAGGTTTG
1 TTTGGGGGTTTG
108714116 GGGAATGATA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
54 26 0.44
55 27 0.46
56 6 0.10
ACGTcount: A:0.43, C:0.02, G:0.33, T:0.22
Consensus pattern (54 bp):
TTTGGGGGTTTGAAGGAAATAAAAGTTTTGAGAGGGAAACAAAAGAAAAAAAAA
Found at i:108731025 original size:17 final size:17
Alignment explanation
Indices: 108730999--108731048 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
108730989 TTTTCATACT
*
108730999 TTAAATAAATAATATAA
1 TTAAAAAAATAATATAA
*
108731016 TTAAAAAAAT--TATGAT
1 TTAAAAAAATAATAT-AA
*
108731032 TTAAAAAAATAAAATAA
1 TTAAAAAAATAATATAA
108731049 AAACTTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
15 3 0.12
16 11 0.42
17 10 0.38
18 2 0.08
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
TTAAAAAAATAATATAA
Found at i:108731773 original size:15 final size:15
Alignment explanation
Indices: 108731753--108731782 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
108731743 CATTTTATTT
*
108731753 ATATTAGGATAATTA
1 ATATTAAGATAATTA
108731768 ATATTAAGATAATTA
1 ATATTAAGATAATTA
108731783 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:108731824 original size:10 final size:10
Alignment explanation
Indices: 108731807--108731838 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
108731797 TTATAGGATT
108731807 TTAT-TTTAA
1 TTATCTTTAA
108731816 TTATCTTTAA
1 TTATCTTTAA
108731826 TTATCTTTAA
1 TTATCTTTAA
108731836 TTA
1 TTA
108731839 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:108738251 original size:5 final size:5
Alignment explanation
Indices: 108738201--108738280 Score: 55
Period size: 5 Copynumber: 16.4 Consensus size: 5
108738191 AATCTTTAAT
*
108738201 TTTTAA TTTTAA TTTTA -TTTA -TTTA -TTTA -TTTA TTATT- TCTTA
1 TTTT-A TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA
* *
108738244 TTTTA TTTTA TTTTG TTTTA TTTT- TAATTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TT
108738281 ATAATAATAA
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
4 19 0.30
5 31 0.49
6 13 0.21
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:108741101 original size:96 final size:95
Alignment explanation
Indices: 108740920--108741103 Score: 289
Period size: 96 Copynumber: 1.9 Consensus size: 95
108740910 ATTTCTAAGA
*
108740920 ATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGTTC
1 ATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTCTCTTCACGTCAAAAGGTTC
*
108740985 AATATGTTCTTAGGAAAAATAAAAATTAGGG
66 AATATGTTCCTA-GAAAAATAAAAATTAGGG
* *
108741016 ATGTGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAAAAGGTTC
1 ATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTCTCTTCACGTCAAAAGGTTC
*
108741081 AATATTTATCCT-GAATAAATAAA
66 AATATGT-TCCTAGAA-AAATAAA
108741104 TAAAGTTGAA
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 3 0.04
96 75 0.93
97 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (95 bp):
ATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTCTCTTCACGTCAAAAGGTTC
AATATGTTCCTAGAAAAATAAAAATTAGGG
Found at i:108741723 original size:15 final size:15
Alignment explanation
Indices: 108741703--108741732 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
108741693 CATTTTATTT
*
108741703 ATATTAGGATAATTA
1 ATATTAAGATAATTA
108741718 ATATTAAGATAATTA
1 ATATTAAGATAATTA
108741733 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:108741760 original size:27 final size:26
Alignment explanation
Indices: 108741699--108741761 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
108741689 ACTCCATTTT
108741699 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
108741726 ATAATTATTAGGATTATTAAATTTTAGG
1 AT-TTTATTAGGATAATT-AATATTAAG
108741754 ATTTTATT
1 ATTTTATT
108741762 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:108744268 original size:23 final size:22
Alignment explanation
Indices: 108744210--108744269 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 22
108744200 TCAATTAAAA
108744210 TATATTAAATT-ATTTTATAAT
1 TATATTAAATTAATTTTATAAT
*
108744231 TTTATATAAATTTAATTTTATAAT
1 TATAT-TAAA-TTAATTTTATAAT
*
108744255 TGATATTATATTAAT
1 T-ATATTAAATTAAT
108744270 CAGTTTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 4 0.12
22 4 0.12
23 7 0.22
24 14 0.44
25 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TATATTAAATTAATTTTATAAT
Found at i:108754592 original size:53 final size:53
Alignment explanation
Indices: 108754451--108754616 Score: 212
Period size: 53 Copynumber: 3.1 Consensus size: 53
108754441 GACGAAAAAT
* * **
108754451 ATGTGATAA-GTGCAC-CCGTTTAAGACCATAGCTAGGCTATGGCATCGGTGCA
1 ATGTGATAATGTG-ACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
108754503 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
108754556 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
108754610 TATGTGA
1 -ATGTGA
108754617 ACCATGTAAG
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
52 12 0.12
53 83 0.81
54 1 0.01
55 6 0.06
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:108755901 original size:23 final size:23
Alignment explanation
Indices: 108755874--108755921 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
108755864 TAAAGAAAGA
* *
108755874 AAATAACTTGTTCGATTGAGTTC
1 AAATAACTTGCTCAATTGAGTTC
108755897 AAATAACTTGCTCAATTGAGTTC
1 AAATAACTTGCTCAATTGAGTTC
108755920 AA
1 AA
108755922 GAAATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (23 bp):
AAATAACTTGCTCAATTGAGTTC
Found at i:108763426 original size:18 final size:16
Alignment explanation
Indices: 108763403--108763437 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
108763393 AATTTAACTT
108763403 TAATTAAATTATTTAAAA
1 TAATT-AATT-TTTAAAA
108763421 TAATTAATTTTTAAAA
1 TAATTAATTTTTAAAA
108763437 T
1 T
108763438 TATAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 4 0.24
18 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATTAATTTTTAAAA
Found at i:108768834 original size:9 final size:9
Alignment explanation
Indices: 108768822--108768852 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
108768812 GAAGATTGAA
*
108768822 GAAGCTAAG
1 GAAGCCAAG
108768831 GAAGCCAAG
1 GAAGCCAAG
108768840 GAAGCCAAG
1 GAAGCCAAG
108768849 GAAG
1 GAAG
108768853 AGAAAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.45, C:0.16, G:0.35, T:0.03
Consensus pattern (9 bp):
GAAGCCAAG
Found at i:108770890 original size:26 final size:26
Alignment explanation
Indices: 108770861--108770918 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
108770851 GTATAAACAG
*
108770861 ACTAAAAACTAATACAATCTAGGTTA
1 ACTAAAAACTAATACAATCTAGGCTA
* * *
108770887 ACTAAAAATTGATATAATCTAGGCTA
1 ACTAAAAACTAATACAATCTAGGCTA
108770913 ACTAAA
1 ACTAAA
108770919 CTAAAACTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.50, C:0.14, G:0.09, T:0.28
Consensus pattern (26 bp):
ACTAAAAACTAATACAATCTAGGCTA
Found at i:108786757 original size:22 final size:22
Alignment explanation
Indices: 108786732--108786773 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
108786722 ACAAACTGTT
*
108786732 AAACTATAATAAAAAAAACATA
1 AAACTACAATAAAAAAAACATA
* *
108786754 AAACTGCAATAAAACAAACA
1 AAACTACAATAAAAAAAACA
108786774 AGAAGCAACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.69, C:0.14, G:0.02, T:0.14
Consensus pattern (22 bp):
AAACTACAATAAAAAAAACATA
Found at i:108788011 original size:39 final size:39
Alignment explanation
Indices: 108787964--108788043 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
108787954 ATTCAATTTT
108787964 AAGCATATATCA-AATTACACATATAATCACATAACATTC
1 AAGCATATATCACAA-TACACATATAATCACATAACATTC
* *
108788003 AAGCATATATCACAATACTCATATAATTACATAACATTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
108788042 AA
1 AA
108788044 ACGTTTATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 36 0.95
40 2 0.05
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACACATATAATCACATAACATTC
Found at i:108788053 original size:39 final size:39
Alignment explanation
Indices: 108787967--108788062 Score: 122
Period size: 39 Copynumber: 2.5 Consensus size: 39
108787957 CAATTTTAAG
* *
108787967 CATATATCA-AATTACACATATAATCACATAACATTCAAG
1 CATATATCACAA-TACTCATATAATCACATAACATTCAAA
*
108788006 CATATATCACAATACTCATATAATTACATAACATTCAAA
1 CATATATCACAATACTCATATAATCACATAACATTCAAA
* * *
108788045 CGTTTATCACCATACTCA
1 CATATATCACAATACTCA
108788063 AAAACATCTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
39 48 0.96
40 2 0.04
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (39 bp):
CATATATCACAATACTCATATAATCACATAACATTCAAA
Found at i:108794374 original size:17 final size:17
Alignment explanation
Indices: 108794310--108794392 Score: 94
Period size: 17 Copynumber: 4.8 Consensus size: 17
108794300 TTGGTTAAAA
* *
108794310 ATTAACCGAATTAAACG
1 ATTACCCGAATTAACCG
* *
108794327 AATTACTCGAATTAACCAA
1 -ATTACCCGAATTAACC-G
* *
108794346 ATTAACCAAATTAACCG
1 ATTACCCGAATTAACCG
108794363 ATTACCCGAATTAACCG
1 ATTACCCGAATTAACCG
108794380 ATTACCCGAATTA
1 ATTACCCGAATTA
108794393 CTCGAATTGA
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
17 28 0.52
18 26 0.48
ACGTcount: A:0.43, C:0.23, G:0.08, T:0.25
Consensus pattern (17 bp):
ATTACCCGAATTAACCG
Found at i:108794400 original size:9 final size:9
Alignment explanation
Indices: 108794309--108794392 Score: 93
Period size: 9 Copynumber: 9.6 Consensus size: 9
108794299 TTTGGTTAAA
108794309 AATTAACCG
1 AATTAACCG
*
108794318 AATTAAACG
1 AATTAACCG
108794327 AATT-ACTCG
1 AATTAAC-CG
*
108794336 AATTAACCA
1 AATTAACCG
*
108794345 AATTAACCA
1 AATTAACCG
108794354 AATTAACCG
1 AATTAACCG
*
108794363 -ATTACCCG
1 AATTAACCG
108794371 AATTAACCG
1 AATTAACCG
*
108794380 -ATTACCCG
1 AATTAACCG
108794388 AATTA
1 AATTA
108794393 CTCGAATTGA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
8 15 0.23
9 47 0.73
10 2 0.03
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:108794430 original size:17 final size:17
Alignment explanation
Indices: 108794408--108794468 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
108794398 ATTGAATCAC
108794408 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
108794425 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
108794445 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
108794462 TACATAA
1 TACATAA
108794469 GTCTTGAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 20 0.61
20 13 0.39
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:108794440 original size:37 final size:37
Alignment explanation
Indices: 108794399--108794473 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
108794389 ATTACTCGAA
108794399 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
108794436 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
108794473 T
1 T
108794474 GAAATTAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:108794487 original size:37 final size:37
Alignment explanation
Indices: 108794399--108794490 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
108794389 ATTACTCGAA
*
108794399 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
*
108794436 TTGAATCACTACATAATTAAAAACATTACATAAGTC-
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
108794472 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
108794491 GAAATGTAAG
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
36 3 0.06
37 46 0.88
38 3 0.06
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATAACTACATAATTAAAAACATTACATAAGTCT
Found at i:108796919 original size:21 final size:21
Alignment explanation
Indices: 108796890--108796948 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
108796880 GCAAGAAAAA
108796890 AATTATATAATAAATTAAAATAC
1 AATT-TATAAT-AATTAAAATAC
108796913 -ATTTATAAT-ATTAAAATAC
1 AATTTATAATAATTAAAATAC
108796932 ATATTTATAAT-ATTAAA
1 A-ATTTATAATAATTAAA
108796949 CAATTTTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.29
21 21 0.62
22 3 0.09
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTATAATAATTAAAATAC
Found at i:108796925 original size:19 final size:20
Alignment explanation
Indices: 108796899--108796948 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
108796889 AAATTATATA
108796899 ATAA-ATTAAAATAC-ATTT
1 ATAATATTAAAATACAATTT
108796917 ATAATATTAAAATACATATTT
1 ATAATATTAAAATACA-ATTT
108796938 ATAATATTAAA
1 ATAATATTAAA
108796949 CAATTTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.14
19 10 0.34
21 15 0.52
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAATATTAAAATACAATTT
Found at i:108797016 original size:12 final size:11
Alignment explanation
Indices: 108796996--108797029 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
108796986 AGAATACTTG
108796996 TTAAATAAAAT
1 TTAAATAAAAT
*
108797007 TTACAATAAAAA
1 TTA-AATAAAAT
108797019 TTAAATAAAAT
1 TTAAATAAAAT
108797030 ATTGGTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (11 bp):
TTAAATAAAAT
Found at i:108797561 original size:6 final size:6
Alignment explanation
Indices: 108797550--108797594 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
108797540 CTGACTGTCT
*
108797550 GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA GTGTGA GTG
1 GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA GTG
108797595 ATTAGGGCTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.16, C:0.00, G:0.64, T:0.20
Consensus pattern (6 bp):
GTGGGA
Found at i:108813260 original size:21 final size:22
Alignment explanation
Indices: 108813226--108813267 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
108813216 TACCGATCAA
108813226 TCACAGAATAAATCATTCATTT
1 TCACAGAATAAATCATTCATTT
*
108813248 TCACATAA-AAATCATTCATT
1 TCACAGAATAAATCATTCATT
108813268 ACCGATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (22 bp):
TCACAGAATAAATCATTCATTT
Found at i:108813289 original size:51 final size:51
Alignment explanation
Indices: 108813213--108813312 Score: 200
Period size: 51 Copynumber: 2.0 Consensus size: 51
108813203 GGTTACGAGG
108813213 CATTACCGATCAATCACAGAATAAATCATTCATTTTCACATAAAAATCATT
1 CATTACCGATCAATCACAGAATAAATCATTCATTTTCACATAAAAATCATT
108813264 CATTACCGATCAATCACAGAATAAATCATTCATTTTCACATAAAAATCA
1 CATTACCGATCAATCACAGAATAAATCATTCATTTTCACATAAAAATCA
108813313 ATTATATATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.30
Consensus pattern (51 bp):
CATTACCGATCAATCACAGAATAAATCATTCATTTTCACATAAAAATCATT
Found at i:108821025 original size:23 final size:23
Alignment explanation
Indices: 108820998--108821042 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
108820988 CTTTTCTTTT
*
108820998 TTTTTAAAATTTTAAATTTTATGG
1 TTTTCAAAA-TTTAAATTTTATGG
* *
108821022 TTTTCATAATTTAATTTTTAT
1 TTTTCAAAATTTAAATTTTAT
108821043 TTCATAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTTCAAAATTTAAATTTTATGG
Found at i:108829731 original size:11 final size:11
Alignment explanation
Indices: 108829717--108829760 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
108829707 TAAAAAAATA
108829717 TGTTATTTTCT
1 TGTTATTTTCT
* **
108829728 TGTTGTTTTAA
1 TGTTATTTTCT
108829739 TGTTATTTTCT
1 TGTTATTTTCT
*
108829750 TATTATTTTCT
1 TGTTATTTTCT
108829761 CCTTATTTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.14, C:0.07, G:0.09, T:0.70
Consensus pattern (11 bp):
TGTTATTTTCT
Found at i:108829758 original size:22 final size:22
Alignment explanation
Indices: 108829716--108829758 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
108829706 ATAAAAAAAT
* *
108829716 ATGTTATTTTCTTGTTGTTTTA
1 ATGTTATTTTCTTATTATTTTA
108829738 ATGTTATTTTCTTATTATTTT
1 ATGTTATTTTCTTATTATTTT
108829759 CTCCTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.70
Consensus pattern (22 bp):
ATGTTATTTTCTTATTATTTTA
Done.