Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 11 of 85
Found at i:3571608 original size:253 final size:254
Alignment explanation
Indices: 3571160--3571671 Score: 936
Period size: 253 Copynumber: 2.0 Consensus size: 254
3571150 TAGGACTCTC
* *
3571160 AATTTGTAAATATGCACAAATCTCAACTATTGATATAACTTAATTTGTACCGTTGGATCTAGAGG
1 AATTTGTAAATATACACAAATCTCAACTATTGATATAACTCAATTTGTACCGTTGGATCTAGAGG
3571225 AGCTCAACTATGAATAGAGGTCTTCCCCCTCATTTGTAATCACTCAATTGTAATCCTTCAAAGTA
66 AGCTCAACTATGAATAGAGGTCTTCCCCCTCATTTGTAATCACTCAATTGTAATCCTTCAAAGTA
*
3571290 ATTGAGATACTTTGAGAGCATTTACTCAAACACATTGTGTGCGATATTTTTCTGTGACTTTTTGT
131 ATGGAGATACTTTGAGAGCATTTACTCAAACACATTGTGTGCGATATTTTTCTGTGACTTTTTGT
*
3571355 TCGTTTATGGCTTCTTTCTCTTTCGAGTTTGATTTCAA-TTTATTTCGATGCCTTAGAG
196 TCGTTCATGGCTTCTTTCTCTTTCGAGTTTGATTTCAATTTTATTTCGATGCCTTAGAG
3571413 AATTTGTAAATATACACAAATCTCAACTATTGATATAACTCAATTTGTACCGTTGGATCTAGAGG
1 AATTTGTAAATATACACAAATCTCAACTATTGATATAACTCAATTTGTACCGTTGGATCTAGAGG
3571478 AGCTCAACTATGAATAGAGGTCTTCCCCCTCATTTGTAATCACTCAATTGTAATCCTTCAAAGTA
66 AGCTCAACTATGAATAGAGGTCTTCCCCCTCATTTGTAATCACTCAATTGTAATCCTTCAAAGTA
* *
3571543 ATGGAGATACTTTGAGAGCATTTACTCAAACACCTTGTGTGCGCTATTTTTCTGTGACTTTTTGT
131 ATGGAGATACTTTGAGAGCATTTACTCAAACACATTGTGTGCGATATTTTTCTGTGACTTTTTGT
* * *
3571608 TTGTTCATGGCTTCTTTCTCTTTCGAGTTTGTTTTCAATTTTATTTTGATGCCTTAGAG
196 TCGTTCATGGCTTCTTTCTCTTTCGAGTTTGATTTCAATTTTATTTCGATGCCTTAGAG
3571667 AATTT
1 AATTT
3571672 CTATTGAGAA
Statistics
Matches: 249, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
253 225 0.90
254 24 0.10
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.40
Consensus pattern (254 bp):
AATTTGTAAATATACACAAATCTCAACTATTGATATAACTCAATTTGTACCGTTGGATCTAGAGG
AGCTCAACTATGAATAGAGGTCTTCCCCCTCATTTGTAATCACTCAATTGTAATCCTTCAAAGTA
ATGGAGATACTTTGAGAGCATTTACTCAAACACATTGTGTGCGATATTTTTCTGTGACTTTTTGT
TCGTTCATGGCTTCTTTCTCTTTCGAGTTTGATTTCAATTTTATTTCGATGCCTTAGAG
Found at i:3582057 original size:57 final size:54
Alignment explanation
Indices: 3581960--3582069 Score: 175
Period size: 57 Copynumber: 2.0 Consensus size: 54
3581950 TAAATTATAA
*
3581960 AAACAAAATATATTCTAATTTTTTCTTTTCTTATAATGGAAAAAGACTATGTAG
1 AAACAAAATATATTCTAATTTTTTCTTTTCTTATAATGGAAAAAAACTATGTAG
*
3582014 AAACAAATTATATTCTAATTTTTTTTTCTTTTCTTATAATGGAAAAAAACTATGTA
1 AAACAAAATATATTCTAA---TTTTTTCTTTTCTTATAATGGAAAAAAACTATGTA
3582070 AAGAAACAGA
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
54 17 0.33
57 34 0.67
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (54 bp):
AAACAAAATATATTCTAATTTTTTCTTTTCTTATAATGGAAAAAAACTATGTAG
Found at i:3583290 original size:32 final size:32
Alignment explanation
Indices: 3583254--3583316 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
3583244 TATAACATTA
3583254 TTGTTAGATAGCTTTCTCATTTT-GACCACTCG
1 TTGTTAGATAGCTTTCTCATTTTAG-CCACTCG
* *
3583286 TTGTTAGATAGTTTTTTCATTTTAGCCACTC
1 TTGTTAGATAGCTTTCTCATTTTAGCCACTC
3583317 CCCATTAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (32 bp):
TTGTTAGATAGCTTTCTCATTTTAGCCACTCG
Found at i:3583604 original size:141 final size:135
Alignment explanation
Indices: 3583368--3583622 Score: 293
Period size: 140 Copynumber: 1.8 Consensus size: 135
3583358 CATCTTTAAC
* * * *
3583368 TCATTTTATATTTTTAATTTCATTTTTTTATTTTTTTAGAATTAATTTTAACTTTTTCTAGTAAG
1 TCATTTTATATTTTAAATTTCATTTTTTTATTTTTTTAAAATCAATTTTAACTTTTTCTAGTAAA
* *
3583433 GGAAAAAAACATGAGTTTTTACAAAGAATTAATTGGGTTTTTGTAAGAAAATTTGGATTTTTACA
66 GGAAAAAAACATAAGTTTTTACAAAGAATTAATT-GGTTTTTAT-AGAAAATTTGGATTTTTACA
3583498 TGAAAAA
129 TGAAAAA
* * *
3583505 TCATTTTATCATTTTAAATTT-TTTTATATTTCTTCTTTTTAAAATCAATTTTAAGTTTTTCATA
1 TCATTTTAT-ATTTTAAATTTCATTT-T-TTTATT-TTTTTAAAATCAATTTTAACTTTTTC-TA
* *
3583569 GTAAAAGG-AAAAAAC-TCAAGTTTTTAC-ATGAAATTACTTGGTTTTTATAGAAAA
61 GT-AAAGGAAAAAAACAT-AAGTTTTTACAAAG-AATTAATTGGTTTTTATAGAAAA
3583623 AAAAACTTAG
Statistics
Matches: 99, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
137 12 0.12
138 11 0.11
139 11 0.11
140 34 0.34
141 27 0.27
142 4 0.04
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (135 bp):
TCATTTTATATTTTAAATTTCATTTTTTTATTTTTTTAAAATCAATTTTAACTTTTTCTAGTAAA
GGAAAAAAACATAAGTTTTTACAAAGAATTAATTGGTTTTTATAGAAAATTTGGATTTTTACATG
AAAAA
Found at i:3583639 original size:24 final size:23
Alignment explanation
Indices: 3583604--3583648 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
3583594 ACATGAAATT
* *
3583604 ACTTGGTTTTTATAGAAAAAAAA
1 ACTTAGTTTTTACAGAAAAAAAA
3583627 ACTTAGTTATTTACAGAAAAAA
1 ACTTAGTT-TTTACAGAAAAAA
3583649 TTATTTTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (23 bp):
ACTTAGTTTTTACAGAAAAAAAA
Found at i:3583943 original size:36 final size:35
Alignment explanation
Indices: 3583872--3583943 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 35
3583862 CCCCCAAATG
* *
3583872 TTTTAATAATAATGTATTAATATTAATCATTATTA
1 TTTTAATAATAATGTATTAATATTAATAATAATTA
* *
3583907 TTTTGAATAATAATGTTTTAAT-TTAGTTAATAATTA
1 TTTT-AATAATAATGTATTAATATTA-ATAATAATTA
3583943 T
1 T
3583944 ATATATATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
35 7 0.23
36 24 0.77
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (35 bp):
TTTTAATAATAATGTATTAATATTAATAATAATTA
Found at i:3584065 original size:10 final size:10
Alignment explanation
Indices: 3584050--3584086 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
3584040 AGACCTACAT
3584050 TTTTTATAGA
1 TTTTTATAGA
3584060 TTTTTATAGA
1 TTTTTATAGA
3584070 TTTGTTATA-A
1 TTT-TTATAGA
3584080 TTTTTAT
1 TTTTTAT
3584087 TTTGTTTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 4 0.15
10 17 0.65
11 5 0.19
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (10 bp):
TTTTTATAGA
Found at i:3584077 original size:21 final size:20
Alignment explanation
Indices: 3584048--3584086 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3584038 CCAGACCTAC
*
3584048 ATTTTTTATAGATTTTTATAG
1 ATTTGTTATA-ATTTTTATAG
3584069 ATTTGTTATAATTTTTAT
1 ATTTGTTATAATTTTTAT
3584087 TTTGTTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (20 bp):
ATTTGTTATAATTTTTATAG
Found at i:3584336 original size:19 final size:20
Alignment explanation
Indices: 3584312--3584349 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3584302 ACTTTTTAGA
3584312 CAAAAAA-TATATAATAAAG
1 CAAAAAATTATATAATAAAG
*
3584331 CAAAAAATTATATATTAAA
1 CAAAAAATTATATAATAAA
3584350 ATGAGACGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (20 bp):
CAAAAAATTATATAATAAAG
Found at i:3585110 original size:25 final size:25
Alignment explanation
Indices: 3585077--3585126 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
3585067 GCTGCAATCT
3585077 TCTCTCTAACAAAGAACAGATCTAA
1 TCTCTCTAACAAAGAACAGATCTAA
*
3585102 TCTCTCTAACAAAGAACATATCTAA
1 TCTCTCTAACAAAGAACAGATCTAA
3585127 CTCAACATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.24, G:0.06, T:0.26
Consensus pattern (25 bp):
TCTCTCTAACAAAGAACAGATCTAA
Found at i:3589977 original size:27 final size:28
Alignment explanation
Indices: 3589925--3589977 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
3589915 AAAAAAATTA
* * *
3589925 TATTTATAATAATTTTATGTATTTTTAT
1 TATTTATAATAATTTCATATAATTTTAT
3589953 TATTT-TAATAATTTCATATAATTTT
1 TATTTATAATAATTTCATATAATTTT
3589978 TTTTCTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
TATTTATAATAATTTCATATAATTTTAT
Found at i:3589988 original size:14 final size:15
Alignment explanation
Indices: 3589964--3589992 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3589954 ATTTTAATAA
3589964 TTTCATATAATTTTT
1 TTTCATATAATTTTT
3589979 TTTC-TATAATTTTT
1 TTTCATATAATTTTT
3589993 CTATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTCATATAATTTTT
Found at i:3605697 original size:102 final size:99
Alignment explanation
Indices: 3605524--3605722 Score: 281
Period size: 102 Copynumber: 2.0 Consensus size: 99
3605514 TAACAACCTG
*
3605524 CAAAGATGGACGCAAGGTTTGTGCATTGACTACAGGAGAAACAGTTCGCATGCTAGTACCTGAGC
1 CAAAGATGGACCCAAGGTTTGTGCATTGACTACAGGAGAAACAGTTCGCATGCTAGTACCTGAGC
*
3605589 TAGTTGAAGGGAGACCAGAAGCACCGGAAGGCCA
66 CAGTTGAAGGGAGACCAGAAGCACCGGAAGGCCA
* * * * **
3605623 CAAAGATGGACCCATGGTTTGTGTATTGACTACAGCTGGTGAAACAGTTTGCATGCTAGTGGCTG
1 CAAAGATGGACCCAAGGTTTGTGCATTGACTACA---GGAGAAACAGTTCGCATGCTAGTACCTG
**
3605688 AGCCAGTTGAAGGGAGACCAGAAGCAGTGGAAGGC
63 AGCCAGTTGAAGGGAGACCAGAAGCACCGGAAGGC
3605723 TGTTGAACCA
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
99 31 0.36
102 56 0.64
ACGTcount: A:0.30, C:0.19, G:0.32, T:0.20
Consensus pattern (99 bp):
CAAAGATGGACCCAAGGTTTGTGCATTGACTACAGGAGAAACAGTTCGCATGCTAGTACCTGAGC
CAGTTGAAGGGAGACCAGAAGCACCGGAAGGCCA
Found at i:3616026 original size:13 final size:13
Alignment explanation
Indices: 3616008--3616035 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3615998 TGTATGTAAG
3616008 TAGACCCATGATT
1 TAGACCCATGATT
3616021 TAGACCCATGATT
1 TAGACCCATGATT
3616034 TA
1 TA
3616036 ACTCAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (13 bp):
TAGACCCATGATT
Found at i:3622168 original size:122 final size:122
Alignment explanation
Indices: 3621951--3622190 Score: 480
Period size: 122 Copynumber: 2.0 Consensus size: 122
3621941 AAATCCGATG
3621951 AATAAAAATTTTTCCCGTTTAAGATTCGATTACCTTTTTATTTCAAAGCTCAGTTATGTTTCCTA
1 AATAAAAATTTTTCCCGTTTAAGATTCGATTACCTTTTTATTTCAAAGCTCAGTTATGTTTCCTA
3622016 ATAAAACAATCTTTGATTAACAAATGCGAGCAAACGTCCTTTTTTTTTTTTTTTCTA
66 ATAAAACAATCTTTGATTAACAAATGCGAGCAAACGTCCTTTTTTTTTTTTTTTCTA
3622073 AATAAAAATTTTTCCCGTTTAAGATTCGATTACCTTTTTATTTCAAAGCTCAGTTATGTTTCCTA
1 AATAAAAATTTTTCCCGTTTAAGATTCGATTACCTTTTTATTTCAAAGCTCAGTTATGTTTCCTA
3622138 ATAAAACAATCTTTGATTAACAAATGCGAGCAAACGTCCTTTTTTTTTTTTTT
66 ATAAAACAATCTTTGATTAACAAATGCGAGCAAACGTCCTTTTTTTTTTTTTT
3622191 CTACCCGAGA
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 118 1.00
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.44
Consensus pattern (122 bp):
AATAAAAATTTTTCCCGTTTAAGATTCGATTACCTTTTTATTTCAAAGCTCAGTTATGTTTCCTA
ATAAAACAATCTTTGATTAACAAATGCGAGCAAACGTCCTTTTTTTTTTTTTTTCTA
Found at i:3622684 original size:6 final size:6
Alignment explanation
Indices: 3622673--3622711 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
3622663 GGAAAATTTT
* *
3622673 CCTTTC CCTTTC CCTTCC CCTTCC CCTTCC CCTTCC CCT
1 CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCT
3622712 ATCCTTGACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
CCTTCC
Found at i:3625238 original size:14 final size:15
Alignment explanation
Indices: 3625216--3625292 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
3625206 CAATCAAACA
3625216 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
3625230 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
3625245 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
3625265 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
3625279 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
3625293 ACTGCCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:3625257 original size:20 final size:20
Alignment explanation
Indices: 3625232--3625271 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3625222 AATATTTTCC
*
3625232 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
3625252 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
3625272 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:3625277 original size:34 final size:35
Alignment explanation
Indices: 3625220--3625286 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
3625210 CAAACACCAG
*
3625220 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
3625255 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
3625287 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:3625293 original size:14 final size:14
Alignment explanation
Indices: 3625255--3625294 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
3625245 ACAGAAAAGT
*
3625255 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
3625269 AAATCATTTTACGG
1 AAAACATTTTACAG
3625283 AAAACATTTTAC
1 AAAACATTTTAC
3625295 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:3625755 original size:11 final size:11
Alignment explanation
Indices: 3625739--3625763 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3625729 AAGATGCTAA
3625739 TTGAGAAGAAT
1 TTGAGAAGAAT
3625750 TTGAGAAGAAT
1 TTGAGAAGAAT
3625761 TTG
1 TTG
3625764 TGAAATCGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (11 bp):
TTGAGAAGAAT
Found at i:3625969 original size:125 final size:125
Alignment explanation
Indices: 3625748--3626114 Score: 621
Period size: 125 Copynumber: 3.0 Consensus size: 125
3625738 ATTGAGAAGA
* *
3625748 ATTTGAGAAGAATTTGTG-AAATCGCGCCCTAGTGGACGCGCTTTTGCTACAGTAGGTCATGGAA
1 ATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGCTCATGGAA
3625812 GAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGGAGGATGCT
66 GAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGGAGGATGCT
* *
3625872 ATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGTGCTTTTGCTATAGTAGCTCATGGAA
1 ATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGCTCATGGAA
*
3625937 GAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGGAGTATGCT
66 GAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGGAGGATGCT
* * * *
3625997 ATTTGAGAAGAATTTGTGAAAATTGCGCCCTCGTGGATGCACTTTTACTACAGTAGCTCATGGAA
1 ATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGCTCATGGAA
* *
3626062 TAAATAA-TTTTTTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGGAG
66 GAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGGAG
3626115 NNNNNNNNNN
Statistics
Matches: 229, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
124 63 0.28
125 166 0.72
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (125 bp):
ATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGCTCATGGAA
GAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGGAGGATGCT
Found at i:3628616 original size:27 final size:27
Alignment explanation
Indices: 3628586--3628645 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
3628576 GCCTGATCAG
* *
3628586 GCCAATCACATTGGCGGCAGCAAAGGT
1 GCCAAACACATTGGCGGCACCAAAGGT
* * * *
3628613 GCCAAAGAGATTGGTGGCACCAATGGT
1 GCCAAACACATTGGCGGCACCAAAGGT
3628640 GCCAAA
1 GCCAAA
3628646 GTGATTGGCG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.30, T:0.15
Consensus pattern (27 bp):
GCCAAACACATTGGCGGCACCAAAGGT
Found at i:3628646 original size:27 final size:27
Alignment explanation
Indices: 3628595--3628655 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
3628585 GGCCAATCAC
*
3628595 ATTGGCGGCAGCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAAAGGTGCCAAAGAG
* * *
3628622 ATTGGTGGCACCAATGGTGCCAAAGTG
1 ATTGGCGGCACCAAAGGTGCCAAAGAG
3628649 ATTGGCG
1 ATTGGCG
3628656 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.18, G:0.36, T:0.18
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAGAG
Found at i:3632659 original size:7 final size:7
Alignment explanation
Indices: 3632649--3632673 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3632639 TTATATACAT
3632649 AATACTA
1 AATACTA
3632656 AATACTA
1 AATACTA
3632663 AATACTA
1 AATACTA
3632670 AATA
1 AATA
3632674 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:3632880 original size:20 final size:20
Alignment explanation
Indices: 3632843--3632880 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3632833 CTTATTTTTA
*
3632843 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
3632863 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
3632881 TGCCTCGTTA
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:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:3633733 original size:12 final size:11
Alignment explanation
Indices: 3633708--3633732 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3633698 TTTTTTACGG
3633708 TTTAAAAAATT
1 TTTAAAAAATT
3633719 TTTAAAAAATT
1 TTTAAAAAATT
3633730 TTT
1 TTT
3633733 TTTAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTAAAAAATT
Found at i:3634070 original size:42 final size:42
Alignment explanation
Indices: 3634010--3634100 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
3634000 CCTAGAGGGT
* *
3634010 GCGATTTCCTGGCACGTCCCCTGACATCGCGCGGACGTGGCC
1 GCGATTTCCTGGCACGTCCCCTAACATCGCGCGGACGTGGAC
* * * * *
3634052 GCGATTTCCTGGCGCGTCCCTTAACTTCGCGCTGACGTGGAT
1 GCGATTTCCTGGCACGTCCCCTAACATCGCGCGGACGTGGAC
3634094 GCGATTT
1 GCGATTT
3634101 TTCGGAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.12, C:0.33, G:0.30, T:0.25
Consensus pattern (42 bp):
GCGATTTCCTGGCACGTCCCCTAACATCGCGCGGACGTGGAC
Found at i:3638082 original size:13 final size:13
Alignment explanation
Indices: 3638066--3638090 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3638056 TTTAAACCAA
3638066 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
3638079 ACTTTTCAAAAG
1 ACTTTTCAAAAG
3638091 CAATGAAAAA
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:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:3638446 original size:25 final size:22
Alignment explanation
Indices: 3638407--3638456 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 22
3638397 TTATGGATAT
*
3638407 TATTTTTTAGGAATATATTATA
1 TATTTTTTAGGAATATATTAAA
3638429 TATTTTTTAGGCAAAATATATTAAA
1 TATTTTTTAGG---AATATATTAAA
3638454 TAT
1 TAT
3638457 CTATCATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 11 0.46
25 13 0.54
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (22 bp):
TATTTTTTAGGAATATATTAAA
Found at i:3638662 original size:18 final size:18
Alignment explanation
Indices: 3638639--3638673 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3638629 ATTATTTTTC
3638639 AAATATAAATTTTTTAAA
1 AAATATAAATTTTTTAAA
* *
3638657 AAATATTATTTTTTTAA
1 AAATATAAATTTTTTAA
3638674 TTTTTAAATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AAATATAAATTTTTTAAA
Found at i:3641147 original size:24 final size:25
Alignment explanation
Indices: 3641095--3641141 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
3641085 TAGCCCTCTT
* *
3641095 GAGCTTCCCGTTATATGGTTCTTAC
1 GAGCTTCCCGTTATATAGCTCTTAC
3641120 GAGCTTCCCGTTA-ATAGCTCTT
1 GAGCTTCCCGTTATATAGCTCTT
3641142 CAGAGCATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCTTAC
Found at i:3641330 original size:25 final size:25
Alignment explanation
Indices: 3641302--3641353 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
3641292 CTCGCTTGAA
3641302 CTTCCCGA-TATATGGCTATCCGGAG
1 CTTCCCGATTA-ATGGCTATCCGGAG
*
3641327 CTTCCTGATTAATGGCTATCCGGAG
1 CTTCCCGATTAATGGCTATCCGGAG
3641352 CT
1 CT
3641354 ACCCCTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (25 bp):
CTTCCCGATTAATGGCTATCCGGAG
Found at i:3642712 original size:223 final size:224
Alignment explanation
Indices: 3642317--3642760 Score: 881
Period size: 223 Copynumber: 2.0 Consensus size: 224
3642307 GAGATTTCAA
3642317 TTAATCAACCTAGAGTCAGTTGTTCTTACTCTCAAAATAGATATTAACATAATTTAAGGATTTCT
1 TTAATCAACCTAGAGTCAGTTGTTCTTACTCTCAAAATAGATATTAACATAATTTAAGGATTTCT
3642382 ACGGATTAAGACACAAGTGAATAAATTGTTTAAATTTAGAATCATAATAAGTGAATAAGTGAAGT
66 ACGGATTAAGACACAAGTGAATAAATTGTTTAAATTTAGAATCATAATAAGTGAATAAGTGAAGT
3642447 CTAGGTGGAGCCTTTCCTGGGTATTGTCTCTCTTATTGGTATTTTCGATTATTTTCTTATTTTAT
131 CTAGGTGGAGCCTTTCCTGGGTATTGTCTCTCTTATTGGTATTTTCGATTATTTTCTTATTTTAT
3642512 TCTCTGTTGAGTCCTTGGTTAAATTAAAT
196 TCTCTGTTGAGTCCTTGGTTAAATTAAAT
3642541 TTAATC-ACCTAGAGTCAGTTGTTCTTACTCTCAAAATAGATATTAACATAATTTAAGGATTTCT
1 TTAATCAACCTAGAGTCAGTTGTTCTTACTCTCAAAATAGATATTAACATAATTTAAGGATTTCT
3642605 ACGGATTAAGACACAAGTGAATAAATTGTTTAAATTTAGAATCATAATAAGTGAATAAGTGAAGT
66 ACGGATTAAGACACAAGTGAATAAATTGTTTAAATTTAGAATCATAATAAGTGAATAAGTGAAGT
3642670 CTAGGTGGAGCCTTTCCTGGGTATTGTCTCTCTTATTGGTATTTTCGATTATTTTCTTATTTTAT
131 CTAGGTGGAGCCTTTCCTGGGTATTGTCTCTCTTATTGGTATTTTCGATTATTTTCTTATTTTAT
3642735 TCTCTGTTGAGTCCTTGGTTAAATTA
196 TCTCTGTTGAGTCCTTGGTTAAATTA
3642761 GTTTAGTAAT
Statistics
Matches: 220, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
223 214 0.97
224 6 0.03
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (224 bp):
TTAATCAACCTAGAGTCAGTTGTTCTTACTCTCAAAATAGATATTAACATAATTTAAGGATTTCT
ACGGATTAAGACACAAGTGAATAAATTGTTTAAATTTAGAATCATAATAAGTGAATAAGTGAAGT
CTAGGTGGAGCCTTTCCTGGGTATTGTCTCTCTTATTGGTATTTTCGATTATTTTCTTATTTTAT
TCTCTGTTGAGTCCTTGGTTAAATTAAAT
Found at i:3643780 original size:12 final size:11
Alignment explanation
Indices: 3643761--3643794 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
3643751 AATGGGTGAG
3643761 AAAATGGCCTT
1 AAAATGGCCTT
3643772 AAAATTGGCCTT
1 AAAA-TGGCCTT
3643784 AAAAATGGCCT
1 -AAAATGGCCT
3643795 ATTTTCGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.19
12 13 0.62
13 4 0.19
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (11 bp):
AAAATGGCCTT
Found at i:3648469 original size:30 final size:31
Alignment explanation
Indices: 3648429--3648488 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 31
3648419 CAAAGTCATT
3648429 GTTGAACTATTCAAAA-ATTTTATTTAAGTC
1 GTTGAACTATTCAAAAGATTTTATTTAAGTC
*
3648459 GTTGAGCTATTCAAAAGATTTTATTTAAGT
1 GTTGAACTATTCAAAAGATTTTATTTAAGT
3648489 TACTAGGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 15 0.54
31 13 0.46
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.43
Consensus pattern (31 bp):
GTTGAACTATTCAAAAGATTTTATTTAAGTC
Found at i:3650437 original size:6 final size:6
Alignment explanation
Indices: 3650426--3650451 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3650416 GGTTTTTGGT
3650426 TTAGGG TTAGGG TTAGGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TT
3650452 TTGGTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (6 bp):
TTAGGG
Found at i:3650975 original size:25 final size:28
Alignment explanation
Indices: 3650946--3650997 Score: 83
Period size: 25 Copynumber: 2.0 Consensus size: 28
3650936 TATATTAGTA
3650946 AAGGTTAATATA-GTA-AAT-TAACAAT
1 AAGGTTAATATATGTATAATATAACAAT
3650971 AAGGTTAATATATGTATAATATAACAA
1 AAGGTTAATATATGTATAATATAACAA
3650998 ATTAAAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 12 0.50
26 3 0.12
27 3 0.12
28 6 0.25
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.33
Consensus pattern (28 bp):
AAGGTTAATATATGTATAATATAACAAT
Found at i:3652185 original size:41 final size:41
Alignment explanation
Indices: 3652128--3652805 Score: 1320
Period size: 41 Copynumber: 16.5 Consensus size: 41
3652118 NNNNNNNNNN
3652128 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
3652169 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
3652210 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
3652251 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
3652292 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
3652333 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
3652374 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
3652415 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
3652456 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
3652497 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
3652538 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
3652579 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
3652620 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
3652661 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
3652702 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
3652743 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
3652784 CTAGCAGGCTAAGTGCTGGTGA
1 CTAGCAGGCTACGTGCCGGTGA
3652806 ATATGTTAAA
Statistics
Matches: 633, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 633 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:3654887 original size:13 final size:14
Alignment explanation
Indices: 3654855--3654888 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3654845 ACTGTTTTTT
*
3654855 TATTCAAAACAACG
1 TATTCAAAACAACA
3654869 TATTCAAAACAA-A
1 TATTCAAAACAACA
3654882 TATTCAA
1 TATTCAA
3654889 CATATTGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.53, C:0.18, G:0.03, T:0.26
Consensus pattern (14 bp):
TATTCAAAACAACA
Found at i:3656119 original size:7 final size:7
Alignment explanation
Indices: 3656107--3656131 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3656097 TATTAGTTAT
3656107 ATACATA
1 ATACATA
3656114 ATACATA
1 ATACATA
3656121 ATACATA
1 ATACATA
3656128 ATAC
1 ATAC
3656132 TAAATACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:3664475 original size:25 final size:25
Alignment explanation
Indices: 3664450--3664496 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
3664440 AAGAAGGTTA
3664450 AAAGAACATAAAA-GAAAAAAATTT
1 AAAGAACATAAAATGAAAAAAATTT
**
3664474 AAATTACATAAAATGAAAAAAAT
1 AAAGAACATAAAATGAAAAAAAT
3664497 ATGAGGATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.19
Consensus pattern (25 bp):
AAAGAACATAAAATGAAAAAAATTT
Found at i:3664665 original size:29 final size:31
Alignment explanation
Indices: 3664604--3664671 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 31
3664594 CGGCTCAGTG
* *
3664604 ACTAAAATGTTACAATTTGATAATATAAGTA
1 ACTAAAATGTAACAATTTGATAATATAAATA
*
3664635 ACTAAAATGTAAC-ATTTTA-AATATAAATA
1 ACTAAAATGTAACAATTTGATAATATAAATA
3664664 ACTAAAAT
1 ACTAAAAT
3664672 ACAAGTTGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 17 0.50
30 5 0.15
31 12 0.35
ACGTcount: A:0.53, C:0.07, G:0.06, T:0.34
Consensus pattern (31 bp):
ACTAAAATGTAACAATTTGATAATATAAATA
Found at i:3667720 original size:2 final size:2
Alignment explanation
Indices: 3667713--3667737 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3667703 GTTGTTCTAC
3667713 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3667738 AAGCTCTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3667997 original size:151 final size:152
Alignment explanation
Indices: 3667712--3668014 Score: 590
Period size: 151 Copynumber: 2.0 Consensus size: 152
3667702 AGTTGTTCTA
*
3667712 CATATATATATATATATATATATATAAAGCTCTCTTTATTCTTTTAGACTGGTATGTGTGGTGTT
1 CATATATATATATATATATATATAGAAAGCTCTCTTTATTCTTTTAGACTGGTATGTGTGGTGTT
3667777 GTGAGCTTGTTAGCTGCCTAAGTAAGGTACTAAAAGCTCTTGTATTTGTGGGGCATTTAATCAAA
66 GTGAGCTTGTTAGCTGCCTAAGTAAGGTACTAAAAGCTCTTGTATTTGTGGGGCATTTAATCAAA
3667842 GGGATCATTCATTTTGATGGGC
131 GGGATCATTCATTTTGATGGGC
3667864 CATATATATA-ATATATATATATAGAAAGCTCTCTTTATTCTTTTAGACTGGTATGTGTGGTGTT
1 CATATATATATATATATATATATAGAAAGCTCTCTTTATTCTTTTAGACTGGTATGTGTGGTGTT
3667928 GTGAGCTTGTTAGCTGCCTAAGTAAGGTACTAAAAGCTCTTGTATTTGTGGGGCATTTAATCAAA
66 GTGAGCTTGTTAGCTGCCTAAGTAAGGTACTAAAAGCTCTTGTATTTGTGGGGCATTTAATCAAA
3667993 GGGATCATTCATTTTGATGGGC
131 GGGATCATTCATTTTGATGGGC
3668015 ATGCGTGCCA
Statistics
Matches: 150, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
151 140 0.93
152 10 0.07
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (152 bp):
CATATATATATATATATATATATAGAAAGCTCTCTTTATTCTTTTAGACTGGTATGTGTGGTGTT
GTGAGCTTGTTAGCTGCCTAAGTAAGGTACTAAAAGCTCTTGTATTTGTGGGGCATTTAATCAAA
GGGATCATTCATTTTGATGGGC
Found at i:3670252 original size:205 final size:206
Alignment explanation
Indices: 3669889--3670302 Score: 821
Period size: 205 Copynumber: 2.0 Consensus size: 206
3669879 GTCTCAAATG
3669889 TGTTTATTTATTTATTTATATATATATATATATATATTAAATTTATACCCTCTAATTTCAACTGC
1 TGTTTATTTATTTATTTATATATATATATATATATATTAAATTTATACCCTCTAATTTCAACTGC
3669954 TAGAAGCCCTATTGTGGAATATTATTAAACACTAGTTCTTAAAGAAAGATGCAAACAAAAACTAA
66 TAGAAGCCCTATTGTGGAATATTATTAAACACTAGTTCTTAAAGAAAGATGCAAACAAAAACTAA
3670019 GTCATAAAATAATACTCCCCAAACAAACTCTCAGAGCCTGTGAAAGGGTAAACAATGAGCTATAT
131 GTCATAAAATAATACTCCCCAAACAAACTCTCAGAGCCTGTGAAAGGGTAAACAATGAGCTATAT
3670084 CATAGACTTTC
196 CATAGACTTTC
3670095 TGTTTATTTA-TTATTTATATATATATATATATATATTAAATTTATACCCTCTAATTTCAACTGC
1 TGTTTATTTATTTATTTATATATATATATATATATATTAAATTTATACCCTCTAATTTCAACTGC
3670159 TAGAAGCCCTATTGTGGAATATTATTAAACACTAGTTCTTAAAGAAAGATGCAAACAAAAACTAA
66 TAGAAGCCCTATTGTGGAATATTATTAAACACTAGTTCTTAAAGAAAGATGCAAACAAAAACTAA
3670224 GTCATAAAATAATACTCCCCAAACAAACTCTCAGAGCCTGTGAAAGGGTAAACAATGAGCTATAT
131 GTCATAAAATAATACTCCCCAAACAAACTCTCAGAGCCTGTGAAAGGGTAAACAATGAGCTATAT
3670289 CATAGACTTTC
196 CATAGACTTTC
3670300 TGT
1 TGT
3670303 CTGCATCGAT
Statistics
Matches: 208, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
205 198 0.95
206 10 0.05
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.34
Consensus pattern (206 bp):
TGTTTATTTATTTATTTATATATATATATATATATATTAAATTTATACCCTCTAATTTCAACTGC
TAGAAGCCCTATTGTGGAATATTATTAAACACTAGTTCTTAAAGAAAGATGCAAACAAAAACTAA
GTCATAAAATAATACTCCCCAAACAAACTCTCAGAGCCTGTGAAAGGGTAAACAATGAGCTATAT
CATAGACTTTC
Found at i:3677350 original size:3 final size:3
Alignment explanation
Indices: 3677337--3677377 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
3677327 TTTATAATGC
* * *
3677337 TAT TGT TAT TAT TAT TAT TAT TGT TAT TAT TAC TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
3677378 ATATAAGTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:3677363 original size:15 final size:15
Alignment explanation
Indices: 3677345--3677393 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
3677335 GCTATTGTTA
*
3677345 TTATTATTATTATTG
1 TTATTATTACTATTG
*
3677360 TTATTATTACTATTA
1 TTATTATTACTATTG
* * *
3677375 TTAATATAAGTATTG
1 TTATTATTACTATTG
3677390 TTAT
1 TTAT
3677394 CGTGTTGGTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (15 bp):
TTATTATTACTATTG
Found at i:3677630 original size:45 final size:46
Alignment explanation
Indices: 3677562--3677663 Score: 172
Period size: 45 Copynumber: 2.2 Consensus size: 46
3677552 TATATCTTTC
3677562 TCATTACATATTTTCTATTTGTATAAAGGTTTTT-TTAACGTAGTAT
1 TCATTACATA-TTTCTATTTGTATAAAGGTTTTTCTTAACGTAGTAT
3677608 TCATTACATATTTCTATTTGTATAAAGGTTTTTCTTAACGTAGTAT
1 TCATTACATATTTCTATTTGTATAAAGGTTTTTCTTAACGTAGTAT
*
3677654 T-ATTATATAT
1 TCATTACATAT
3677664 ATATATGTAC
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
45 31 0.57
46 23 0.43
ACGTcount: A:0.29, C:0.09, G:0.10, T:0.52
Consensus pattern (46 bp):
TCATTACATATTTCTATTTGTATAAAGGTTTTTCTTAACGTAGTAT
Found at i:3697007 original size:124 final size:125
Alignment explanation
Indices: 3696866--3697117 Score: 497
Period size: 124 Copynumber: 2.0 Consensus size: 125
3696856 AAGTTCTCTA
3696866 TATTTTATTAAAAATTTAAAATTTAGTCCTTATACTTTCTTTTTTGCTGTTAGAATTTATGATAT
1 TATTTTATTAAAAATTTAAAATTTAGTCCTTATACTTTCTTTTTTGCTGTTAGAATTTATGATAT
3696931 GACTTTTATAAAACGAAAAAGTAAAATAACTCTTTAAGCCTTTAACAGTTAAAAGTAATT
66 GACTTTTATAAAACGAAAAAGTAAAATAACTCTTTAAGCCTTTAACAGTTAAAAGTAATT
3696991 TATTTTATT-AAAATTTAAAATTTAGTCCTTATACTTTCTTTTTTGCTGTTAGAATTTATGATAT
1 TATTTTATTAAAAATTTAAAATTTAGTCCTTATACTTTCTTTTTTGCTGTTAGAATTTATGATAT
3697055 GACTTTTATAAAACGAAAAAGTAAAATAACTCTTTAAGCCTTTAACAGTTAAAAGTAATT
66 GACTTTTATAAAACGAAAAAGTAAAATAACTCTTTAAGCCTTTAACAGTTAAAAGTAATT
3697115 TAT
1 TAT
3697118 CAATTTAGCC
Statistics
Matches: 127, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
124 118 0.93
125 9 0.07
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.44
Consensus pattern (125 bp):
TATTTTATTAAAAATTTAAAATTTAGTCCTTATACTTTCTTTTTTGCTGTTAGAATTTATGATAT
GACTTTTATAAAACGAAAAAGTAAAATAACTCTTTAAGCCTTTAACAGTTAAAAGTAATT
Found at i:3698294 original size:17 final size:17
Alignment explanation
Indices: 3698272--3698304 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
3698262 AATGAGAATG
3698272 TATAATAATCACATCTC
1 TATAATAATCACATCTC
3698289 TATAATAATCACATCT
1 TATAATAATCACATCT
3698305 TTCAATAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAATAATCACATCTC
Found at i:3698898 original size:16 final size:17
Alignment explanation
Indices: 3698877--3698909 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3698867 GAGTAATTAG
*
3698877 GTAT-AAGGATTAAATT
1 GTATAAAGGATGAAATT
3698893 GTATAAAGGATGAAATT
1 GTATAAAGGATGAAATT
3698910 TGAATTATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.33
Consensus pattern (17 bp):
GTATAAAGGATGAAATT
Found at i:3700267 original size:92 final size:92
Alignment explanation
Indices: 3700170--3700644 Score: 950
Period size: 92 Copynumber: 5.2 Consensus size: 92
3700160 TATTGTAAAA
3700170 TATGTATATATATATTAAGAAAATATAAGCATGTGCATACTTTATAATTATAAATAAAAATGCAT
1 TATGTATATATATATTAAGAAAATATAAGCATGTGCATACTTTATAATTATAAATAAAAATGCAT
3700235 GTATATATATAGATTATAAAATATATG
66 GTATATATATAGATTATAAAATATATG
3700262 TATGTATATATATATTAAGAAAATATAAGCATGTGCATACTTTATAATTATAAATAAAAATGCAT
1 TATGTATATATATATTAAGAAAATATAAGCATGTGCATACTTTATAATTATAAATAAAAATGCAT
3700327 GTATATATATAGATTATAAAATATATG
66 GTATATATATAGATTATAAAATATATG
3700354 TATGTATATATATATTAAGAAAATATAAGCATGTGCATACTTTATAATTATAAATAAAAATGCAT
1 TATGTATATATATATTAAGAAAATATAAGCATGTGCATACTTTATAATTATAAATAAAAATGCAT
3700419 GTATATATATAGATTATAAAATATATG
66 GTATATATATAGATTATAAAATATATG
3700446 TATGTATATATATATTAAGAAAATATAAGCATGTGCATACTTTATAATTATAAATAAAAATGCAT
1 TATGTATATATATATTAAGAAAATATAAGCATGTGCATACTTTATAATTATAAATAAAAATGCAT
3700511 GTATATATATAGATTATAAAATATATG
66 GTATATATATAGATTATAAAATATATG
3700538 TATGTATATATATATTAAGAAAATATAAGCATGTGCATACTTTATAATTATAAATAAAAATGCAT
1 TATGTATATATATATTAAGAAAATATAAGCATGTGCATACTTTATAATTATAAATAAAAATGCAT
3700603 GTATATATATAGATTATAAAATATATG
66 GTATATATATAGATTATAAAATATATG
3700630 TATGTATATATATAT
1 TATGTATATATATAT
3700645 GTGTTTTAAA
Statistics
Matches: 383, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 383 1.00
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.39
Consensus pattern (92 bp):
TATGTATATATATATTAAGAAAATATAAGCATGTGCATACTTTATAATTATAAATAAAAATGCAT
GTATATATATAGATTATAAAATATATG
Found at i:3700660 original size:32 final size:30
Alignment explanation
Indices: 3700233--3700643 Score: 306
Period size: 30 Copynumber: 13.4 Consensus size: 30
3700223 ATAAAAATGC
3700233 ATGTATATATATAGATTATAAAATATATGT
1 ATGTATATATATAGATTATAAAATATATGT
* * *
3700263 ATGTATATATAT--ATTAAGAAAATATAAGC
1 ATGTATATATATAGATT-ATAAAATATATGT
* * * *
3700292 ATGTGCATACTTTATA-ATTATAAATAAAAATGC
1 ATGT--ATA-TATATAGATTATAAA-ATATATGT
3700325 ATGTATATATATAGATTATAAAATATATGT
1 ATGTATATATATAGATTATAAAATATATGT
* * *
3700355 ATGTATATATAT--ATTAAGAAAATATAAGC
1 ATGTATATATATAGATT-ATAAAATATATGT
* * * *
3700384 ATGTGCATACTTTATA-ATTATAAATAAAAATGC
1 ATGT--ATA-TATATAGATTATAAA-ATATATGT
3700417 ATGTATATATATAGATTATAAAATATATGT
1 ATGTATATATATAGATTATAAAATATATGT
* * *
3700447 ATGTATATATAT--ATTAAGAAAATATAAGC
1 ATGTATATATATAGATT-ATAAAATATATGT
* * * *
3700476 ATGTGCATACTTTATA-ATTATAAATAAAAATGC
1 ATGT--ATA-TATATAGATTATAAA-ATATATGT
3700509 ATGTATATATATAGATTATAAAATATATGT
1 ATGTATATATATAGATTATAAAATATATGT
* * *
3700539 ATGTATATATAT--ATTAAGAAAATATAAGC
1 ATGTATATATATAGATT-ATAAAATATATGT
* * * *
3700568 ATGTGCATACTTTATA-ATTATAAATAAAAATGC
1 ATGT--ATA-TATATAGATTATAAA-ATATATGT
3700601 ATGTATATATATAGATTATAAAATATATGT
1 ATGTATATATATAGATTATAAAATATATGT
3700631 ATGTATATATATA
1 ATGTATATATATA
3700644 TGTGTTTTAA
Statistics
Matches: 305, Mismatches: 48, Indels: 56
0.75 0.12 0.14
Matches are distributed among these distances:
28 12 0.04
29 56 0.18
30 101 0.33
31 56 0.18
32 32 0.10
33 48 0.16
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.39
Consensus pattern (30 bp):
ATGTATATATATAGATTATAAAATATATGT
Found at i:3702948 original size:37 final size:38
Alignment explanation
Indices: 3702880--3702956 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 38
3702870 GTCAATTTAC
* * **
3702880 TACTTCGGATTAATTCGATGAGGCACTAGGTGGCAATT
1 TACTTCGGATTAATCCGATGAGACAAAAGGTGGCAATT
* *
3702918 TACTTCGGTTTAA-CCGATGAGACAAAAGGTGTCAATT
1 TACTTCGGATTAATCCGATGAGACAAAAGGTGGCAATT
3702955 TA
1 TA
3702957 TTACTTTGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
37 21 0.64
38 12 0.36
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (38 bp):
TACTTCGGATTAATCCGATGAGACAAAAGGTGGCAATT
Found at i:3703877 original size:20 final size:20
Alignment explanation
Indices: 3703852--3703889 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3703842 CAGACTGAGT
*
3703852 TTATTCTGTTTACTGTCTAA
1 TTATTCTGTATACTGTCTAA
3703872 TTATTCTGTATACTGTCT
1 TTATTCTGTATACTGTCT
3703890 GTTTGTTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.55
Consensus pattern (20 bp):
TTATTCTGTATACTGTCTAA
Found at i:3706887 original size:135 final size:135
Alignment explanation
Indices: 3706637--3706903 Score: 453
Period size: 135 Copynumber: 2.0 Consensus size: 135
3706627 ATGCATGGCC
* *
3706637 TTCGAATGCCTAAAATATTATTGAACATAAAGAACAAATCATTGTATACCAAATTCGCATGCTTT
1 TTCGAATGCCTAAAACATTATTGAACACAAAGAACAAATCATTGTATACCAAATTCGCATGCTTT
* * * *
3706702 ATAATTAATTCAAAGTACATATACCGAACCATTCAAGCATAATAACGTTGCATACTTTGCCATTA
66 ATAATCAATTCAAAGTACAAATACCGAACCATTCAAGCATAATAAAGTTGCATACATTGCCATTA
3706767 CACCT
131 CACCT
*
3706772 TTCGAATGCCTAAAACATTATTGAACACAAAGAACAAATCATTGTATACCAAATTTGCATGCTTT
1 TTCGAATGCCTAAAACATTATTGAACACAAAGAACAAATCATTGTATACCAAATTCGCATGCTTT
* *
3706837 ATAATCAATTCAAAGTACAAATACTGAACCATTCAAGCATTATAAAGTTGCATACATTGCCATTA
66 ATAATCAATTCAAAGTACAAATACCGAACCATTCAAGCATAATAAAGTTGCATACATTGCCATTA
3706902 CA
131 CA
3706904 ACTAAATCAA
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
135 123 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (135 bp):
TTCGAATGCCTAAAACATTATTGAACACAAAGAACAAATCATTGTATACCAAATTCGCATGCTTT
ATAATCAATTCAAAGTACAAATACCGAACCATTCAAGCATAATAAAGTTGCATACATTGCCATTA
CACCT
Found at i:3709466 original size:25 final size:25
Alignment explanation
Indices: 3709438--3709485 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
3709428 TTATTTGTTT
3709438 TATTATAA-CATTATAATATAATATA
1 TATTATAACCATTATAA-ATAATATA
*
3709463 TATTATAACCTTTATAAATAATA
1 TATTATAACCATTATAAATAATA
3709486 AAAAAACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (25 bp):
TATTATAACCATTATAAATAATATA
Found at i:3710839 original size:29 final size:29
Alignment explanation
Indices: 3710774--3710841 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 29
3710764 GCAATTTAAT
*
3710774 CCCGTTTTTGTTTTTTTATTTCGATTTTG
1 CCCGTTTTTGTTTTTTTATTTCGATTTAG
3710803 CCCAGTTTTT-TTGTTTTTATTTCGATTTAG
1 CCC-GTTTTTGTT-TTTTTATTTCGATTTAG
*
3710833 TCCGTTTTT
1 CCCGTTTTT
3710842 AGCAAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 11 0.31
30 24 0.69
ACGTcount: A:0.09, C:0.15, G:0.13, T:0.63
Consensus pattern (29 bp):
CCCGTTTTTGTTTTTTTATTTCGATTTAG
Found at i:3716115 original size:21 final size:18
Alignment explanation
Indices: 3716082--3716121 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
3716072 GTTTTTTTGT
3716082 TCATTTTTTATTCACATTA
1 TCATTTTTTATTC-CATTA
3716101 TCATGTTTATTATTCCATTA
1 TCAT-TTT-TTATTCCATTA
3716121 T
1 T
3716122 GCATATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.25, C:0.15, G:0.03, T:0.57
Consensus pattern (18 bp):
TCATTTTTTATTCCATTA
Found at i:3716435 original size:108 final size:110
Alignment explanation
Indices: 3716241--3716541 Score: 439
Period size: 113 Copynumber: 2.7 Consensus size: 110
3716231 NNNNNNNNNN
*
3716241 TTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTCGACCAA
1 TTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTTGACCAA
*
3716306 ATGACTTAATATCCTTTTC-AAAAA-TTTTC-AAAATAAGGCAATA
66 ATG-CTAAATATCCTTTTCAAAAAACTTTTCAAAAATAAGGCAATA
*
3716349 TTTTACGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTTGACCAA
1 TTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTTGACCAA
*
3716414 ATAGCTAAATATCCTTTTCAAAAAAAACTTTTCAAAAATAAGGCAATG
66 AT-GCTAAATATCCTTTTC--AAAAAACTTTTCAAAAATAAGGCAATA
* * * *
3716462 TTTTGCGTTTGGAAATTCGAGAAATGTGCCCTAAGGTGCTGGGTTTCGATTTCACGTTT-AGCCA
1 TTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTTGA-CCA
*
3716526 AATTGCTGAATATCCT
65 AA-TGCTAAATATCCT
3716542 CTTGAATTTT
Statistics
Matches: 175, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
108 79 0.45
109 1 0.01
111 5 0.03
112 6 0.03
113 83 0.47
114 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (110 bp):
TTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTTGACCAA
ATGCTAAATATCCTTTTCAAAAAACTTTTCAAAAATAAGGCAATA
Found at i:3719443 original size:19 final size:21
Alignment explanation
Indices: 3719409--3719456 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
3719399 TACATAATTT
3719409 TTTTAAATTATTATCAATATG
1 TTTTAAATTATTATCAATATG
*
3719430 TTTTAAA-T-TTATCAATATTA
1 TTTTAAATTATTATCAATA-TG
3719450 TTTTAAA
1 TTTTAAA
3719457 AATATATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 9 0.36
20 9 0.36
21 7 0.28
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTTAAATTATTATCAATATG
Found at i:3719589 original size:146 final size:147
Alignment explanation
Indices: 3719419--3719712 Score: 581
Period size: 146 Copynumber: 2.0 Consensus size: 147
3719409 TTTTAAATTA
3719419 TTATCAATATGTTTTAAATTTATCAATATTATTTTAAAAATATATAATTTATATGAAATTATTTT
1 TTATCAATATGTTTTAAATTTATCAATATTATTTTAAAAATATATAATTTATATGAAATTATTTT
3719484 TAGTATATATATGTATATAAAGTATATCATTAATTTCGGATTAACCTTTTTTTATATGATTTTTA
66 TAGTATATATATGTATATAAAGTATATCATTAATTTCGGATTAACCTTTTTTTATATGATTTTTA
3719549 TACATAAATGTTTCATT
131 TACATAAATGTTTCATT
3719566 TTATCAATATG-TTTAAATTTATCAATATTATTTTAAAAATATATAATTTATATGAAATTATTTT
1 TTATCAATATGTTTTAAATTTATCAATATTATTTTAAAAATATATAATTTATATGAAATTATTTT
3719630 TAGTATATATATGTATATAAAGTATATCATTAATTTCGGATTAACCTTTTTTTATATGATTTTTA
66 TAGTATATATATGTATATAAAGTATATCATTAATTTCGGATTAACCTTTTTTTATATGATTTTTA
3719695 TACATAAATGTTTCATT
131 TACATAAATGTTTCATT
3719712 T
1 T
3719713 CTTAAACCTT
Statistics
Matches: 147, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
146 136 0.93
147 11 0.07
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.51
Consensus pattern (147 bp):
TTATCAATATGTTTTAAATTTATCAATATTATTTTAAAAATATATAATTTATATGAAATTATTTT
TAGTATATATATGTATATAAAGTATATCATTAATTTCGGATTAACCTTTTTTTATATGATTTTTA
TACATAAATGTTTCATT
Found at i:3721389 original size:33 final size:33
Alignment explanation
Indices: 3721268--3721494 Score: 89
Period size: 33 Copynumber: 6.8 Consensus size: 33
3721258 TTACATTCGA
* * *
3721268 AGTGCCATAACCCAGTTATGGTCTTATC-ATCAG
1 AGTGCCATAACCCAGCTATGGTCTTA-CGTTCAT
* * * * *
3721301 AATGCCAT-AGCCAGCTATGGTCTTACATATAAAC
1 AGTGCCATAACCCAGCTATGGTCTTACGT-T-CAT
* *** * *
3721335 ACTGCCATGGTCCAACCATGGTCTTACGTTCAT
1 AGTGCCATAACCCAGCTATGGTCTTACGTTCAT
* ** *
3721368 AGTGCCATAACCCAGTTATGGTCTTACCATCAG
1 AGTGCCATAACCCAGCTATGGTCTTACGTTCAT
* * * * * *
3721401 AATGCCATAGCTCAGCTATGGTCTAACATATAAAT
1 AGTGCCATAACCCAGCTATGGTCTTACGT-T-CAT
* * *** * * *
3721436 ATTGCAATGGTCCAACCATTGTCTTACGTTCAT
1 AGTGCCATAACCCAGCTATGGTCTTACGTTCAT
* *
3721469 AGTGCCATAACCCGGTTATGGTCTTA
1 AGTGCCATAACCCAGCTATGGTCTTA
3721495 TCCATCAATT
Statistics
Matches: 134, Mismatches: 54, Indels: 12
0.67 0.27 0.06
Matches are distributed among these distances:
31 1 0.01
32 15 0.11
33 72 0.54
34 11 0.08
35 35 0.26
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (33 bp):
AGTGCCATAACCCAGCTATGGTCTTACGTTCAT
Found at i:3721464 original size:101 final size:100
Alignment explanation
Indices: 3721268--3721501 Score: 387
Period size: 101 Copynumber: 2.3 Consensus size: 100
3721258 TTACATTCGA
* *
3721268 AGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCAGCTATGGTCTTACATATAA
1 AGTGCCATAACCCAGTTATGGTCTTACCATCAGAATGCCATAGCCAGCTATGGTCTAACATATAA
*
3721333 ACACTGCCATGGTCCAACCATGGTCTTACGTTCAT
66 ACACTGCAATGGTCCAACCATGGTCTTACGTTCAT
3721368 AGTGCCATAACCCAGTTATGGTCTTACCATCAGAATGCCATAGCTCAGCTATGGTCTAACATATA
1 AGTGCCATAACCCAGTTATGGTCTTACCATCAGAATGCCATAGC-CAGCTATGGTCTAACATATA
* * *
3721433 AATATTGCAATGGTCCAACCATTGTCTTACGTTCAT
65 AACACTGCAATGGTCCAACCATGGTCTTACGTTCAT
*
3721469 AGTGCCATAACCCGGTTATGGTCTTATCCATCA
1 AGTGCCATAACCCAGTTATGGTCTTA-CCATCA
3721502 ATTCATCCTT
Statistics
Matches: 125, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
100 43 0.34
101 76 0.61
102 6 0.05
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (100 bp):
AGTGCCATAACCCAGTTATGGTCTTACCATCAGAATGCCATAGCCAGCTATGGTCTAACATATAA
ACACTGCAATGGTCCAACCATGGTCTTACGTTCAT
Found at i:3725753 original size:84 final size:83
Alignment explanation
Indices: 3725612--3725800 Score: 351
Period size: 84 Copynumber: 2.3 Consensus size: 83
3725602 CTCTTTTTTG
3725612 AATTTTCGAAAAAGATTATATTTTCATAGTTGTTTAGTTATCTAAAATGAATTTTATAATTTTTT
1 AATTTTCGAAAAAGATTATATTTTCATAGTTGTTTAGTTATCTAAAATGAATTTTATAATTTTTT
3725677 TAATTTTAAAGAGGTCTT
66 TAATTTTAAAGAGGTCTT
3725695 AAATTTTCGAAAAAGATTATATTTTCATAGTTGTTTAGTTATCTAAAATGAATTTTATAATTTTT
1 -AATTTTCGAAAAAGATTATATTTTCATAGTTGTTTAGTTATCTAAAATGAATTTTATAATTTTT
3725760 TTAATTTTAAAGAGGTCTT
65 TTAATTTTAAAGAGGTCTT
* *
3725779 AATTTTCAAAAAAAATTATATT
1 AATTTTCGAAAAAGATTATATT
3725801 CATTATTGAA
Statistics
Matches: 103, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
83 20 0.19
84 83 0.81
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (83 bp):
AATTTTCGAAAAAGATTATATTTTCATAGTTGTTTAGTTATCTAAAATGAATTTTATAATTTTTT
TAATTTTAAAGAGGTCTT
Found at i:3727511 original size:26 final size:27
Alignment explanation
Indices: 3727475--3727543 Score: 68
Period size: 32 Copynumber: 2.4 Consensus size: 27
3727465 NNNNNNNNNN
*
3727475 ATATATATATAAAATATTCATT-AAAA
1 ATATAAATATAAAATATTCATTAAAAA
*
3727501 ATATAAATATAGAAAAATATTCGTTAGAAAAA
1 ATATAAATAT---AAAATATTCATT--AAAAA
3727533 ATATAAATATA
1 ATATAAATATA
3727544 TATACAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
26 9 0.26
29 12 0.34
32 14 0.40
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.33
Consensus pattern (27 bp):
ATATAAATATAAAATATTCATTAAAAA
Found at i:3727518 original size:16 final size:17
Alignment explanation
Indices: 3727497--3727543 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
3727487 AATATTCATT
3727497 AAAAATATAAATATAG-
1 AAAAATATAAATATAGA
***
3727513 AAAAATATTCGT-TAGA
1 AAAAATATAAATATAGA
3727529 AAAAATATAAATATA
1 AAAAATATAAATATA
3727544 TATACAAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
15 3 0.13
16 18 0.78
17 2 0.09
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (17 bp):
AAAAATATAAATATAGA
Found at i:3727566 original size:22 final size:20
Alignment explanation
Indices: 3727528--3727584 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
3727518 TATTCGTTAG
* * *
3727528 AAAAAATATAAATATATATAC
1 AAAAAA-ATAATTACATATAT
3727549 AAAAAAATAATTACATATAT
1 AAAAAAATAATTACATATAT
3727569 AAAAAAATAATTACAT
1 AAAAAAATAATTACAT
3727585 TATTAATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 27 0.82
21 6 0.18
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAAAATAATTACATATAT
Found at i:3729444 original size:28 final size:28
Alignment explanation
Indices: 3729391--3729446 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
3729381 CGCATAAGTG
*
3729391 TATAGATTATAAAATTTTAAAGTTAAAA
1 TATAGATTATAAAATTATAAAGTTAAAA
* *
3729419 TATATATTATAATATTATAATA-TTAAAA
1 TATAGATTATAAAATTATAA-AGTTAAAA
3729447 CTTAAATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (28 bp):
TATAGATTATAAAATTATAAAGTTAAAA
Found at i:3729551 original size:6 final size:6
Alignment explanation
Indices: 3729494--3729572 Score: 52
Period size: 6 Copynumber: 12.7 Consensus size: 6
3729484 AATAACAATC
* * * * * *
3729494 AAAGAAA AAAGAA ATAGAAA GAAAGAA ACAGAG AAAGCCA AACGAA ACAGAA
1 AAAG-AA AAAGAA AAAG-AA -AAAGAA AAAGAA AAAG-AA AAAGAA AAAGAA
*
3729546 AAAGAA AAAG-G AAAGAA AAAGAA AAAG
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG
3729573 GAAGGAGAAA
Statistics
Matches: 54, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
5 4 0.07
6 36 0.67
7 11 0.20
8 3 0.06
ACGTcount: A:0.72, C:0.06, G:0.20, T:0.01
Consensus pattern (6 bp):
AAAGAA
Found at i:3729584 original size:17 final size:17
Alignment explanation
Indices: 3729542--3729575 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3729532 CAAACGAAAC
3729542 AGAAAAAGAAAAAGGAA
1 AGAAAAAGAAAAAGGAA
3729559 AGAAAAAGAAAAAGGAA
1 AGAAAAAGAAAAAGGAA
3729576 GGAGAAAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AGAAAAAGAAAAAGGAA
Found at i:3734807 original size:20 final size:20
Alignment explanation
Indices: 3734775--3734812 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3734765 TTTTTACTTA
3734775 CATTATCATAATTGTTATTC
1 CATTATCATAATTGTTATTC
*
3734795 CATTA-CATCAATTTTTAT
1 CATTATCAT-AATTGTTAT
3734813 CCAGATTCTT
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:0.32, C:0.16, G:0.03, T:0.50
Consensus pattern (20 bp):
CATTATCATAATTGTTATTC
Found at i:3735632 original size:26 final size:25
Alignment explanation
Indices: 3735595--3735643 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
3735585 AGCCATCGTT
*
3735595 TTTACTTACATTTTTTTATTATTTTC
1 TTTACTTACATTTTATT-TTATTTTC
3735621 TTTATCTT-CATTTTATTTTATTT
1 TTTA-CTTACATTTTATTTTATTT
3735644 AAGCTAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 6 0.29
26 12 0.57
27 3 0.14
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTACTTACATTTTATTTTATTTTC
Found at i:3739038 original size:23 final size:23
Alignment explanation
Indices: 3739002--3739047 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
3738992 AAAAAATATT
3739002 AAATATATA-TTTTTTATTTTTA
1 AAATATATATTTTTTTATTTTTA
3739024 AAATATAATATTTTTTTATTTTTA
1 AAATAT-ATATTTTTTTATTTTTA
3739048 GTTGATTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.27
23 3 0.14
24 13 0.59
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
AAATATATATTTTTTTATTTTTA
Found at i:3739153 original size:9 final size:9
Alignment explanation
Indices: 3739139--3739166 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
3739129 TTTTGTTACA
3739139 ACAATTAAT
1 ACAATTAAT
3739148 ACAATTAAT
1 ACAATTAAT
3739157 ACAATTAAT
1 ACAATTAAT
3739166 A
1 A
3739167 GTTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:3739188 original size:68 final size:68
Alignment explanation
Indices: 3739109--3739318 Score: 379
Period size: 68 Copynumber: 3.1 Consensus size: 68
3739099 TCAAGTTTGT
* *
3739109 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAGTTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
3739174 AAA
66 AAA
3739177 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
3739242 AAA
66 AAA
3739245 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
3739308 AAT
66 AAA
3739311 TTTACTAA
1 TTTACTAA
3739319 CAATTAATTT
Statistics
Matches: 139, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
66 27 0.19
67 1 0.01
68 111 0.80
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:3739219 original size:9 final size:9
Alignment explanation
Indices: 3739207--3739234 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
3739197 TTTTATTACA
3739207 ACAATTAAT
1 ACAATTAAT
3739216 ACAATTAAT
1 ACAATTAAT
3739225 ACAATTAAT
1 ACAATTAAT
3739234 A
1 A
3739235 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:3739328 original size:16 final size:16
Alignment explanation
Indices: 3739307--3739348 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
3739297 AATAATTTGA
*
3739307 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
3739323 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
3739339 TAGTTTTAAT
1 TAATTTTAAT
3739349 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:3739332 original size:22 final size:23
Alignment explanation
Indices: 3739322--3739377 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
3739312 TTACTAACAA
* * *
3739322 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
3739344 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
3739367 TTAATTTTAAT
1 TTAATTTTAAT
3739378 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:3740332 original size:17 final size:19
Alignment explanation
Indices: 3740292--3740340 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
3740282 ATCAATTTCC
*
3740292 AAAAAATATAAAAATAAAT
1 AAAAAATATAAAAAGAAAT
*
3740311 AAAAAATA-AAAAAGAACT
1 AAAAAATATAAAAAGAAAT
*
3740329 AAAAATTATAAA
1 AAAAAATATAAA
3740341 TATATATATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (19 bp):
AAAAAATATAAAAAGAAAT
Found at i:3751151 original size:24 final size:26
Alignment explanation
Indices: 3751121--3751216 Score: 107
Period size: 24 Copynumber: 3.9 Consensus size: 26
3751111 AAAGAGAGGG
3751121 AAAGAAAGAAA-AAGAAGGAAAG-AA
1 AAAGAAAGAAAGAAGAAGGAAAGAAA
*
3751145 AAGGAAAGGAGAAGAAGAA-G-AAGAAA
1 AAAGAAA-GA-AAGAAGAAGGAAAGAAA
*
3751171 AAAGAAAGAAAGGAGAA-G-AAGAAA
1 AAAGAAAGAAAGAAGAAGGAAAGAAA
3751195 AAAGAAAGAAAGAA-AAGGAAAG
1 AAAGAAAGAAAGAAGAAGGAAAG
3751217 GAGAAGAGAA
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
23 2 0.03
24 34 0.55
25 10 0.16
26 11 0.18
27 5 0.08
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (26 bp):
AAAGAAAGAAAGAAGAAGGAAAGAAA
Found at i:3751252 original size:34 final size:34
Alignment explanation
Indices: 3751122--3751234 Score: 137
Period size: 30 Copynumber: 3.4 Consensus size: 34
3751112 AAGAGAGGGA
3751122 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAG
1 AAGAAA-AAAAA-AA-GAAAGAAAAGGAAAGGAGAAG
* *
3751159 AAG-AAGAAGAAA-AAAG-AAA-GAAAGGAGAAG
1 AAGAAAAAAAAAAGAAAGAAAAGGAAAGGAGAAG
*
3751189 AAGAAAAAAGAAAGAAAGAAAAGGAAAGGAGAAG
1 AAGAAAAAAAAAAGAAAGAAAAGGAAAGGAGAAG
3751223 -AGAAAAAAAAAA
1 AAGAAAAAAAAAA
3751235 AGAAGAGGGG
Statistics
Matches: 68, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
30 14 0.21
31 11 0.16
32 8 0.12
33 14 0.21
34 13 0.19
35 3 0.04
36 2 0.03
37 3 0.04
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (34 bp):
AAGAAAAAAAAAAGAAAGAAAAGGAAAGGAGAAG
Found at i:3751325 original size:27 final size:28
Alignment explanation
Indices: 3751293--3751346 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
3751283 TTTTATTATG
* *
3751293 TTATTTAGCAT-ATAAATTTTATGAAAT
1 TTATTTAGCATGACAAAATTTATGAAAT
3751320 TTATTTAGCATGACAAAATTTATGAAA
1 TTATTTAGCATGACAAAATTTATGAAA
3751347 AAATTCATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (28 bp):
TTATTTAGCATGACAAAATTTATGAAAT
Found at i:3751916 original size:286 final size:286
Alignment explanation
Indices: 3751589--3752195 Score: 1045
Period size: 286 Copynumber: 2.1 Consensus size: 286
3751579 AAAGTAAAAA
3751589 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGAAA-TTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
* *
3751654 GGCCAAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTAA
65 AGCCAAGGTAAGAGTGTTTTACAAAAATTTTTAAAAATTCAGAAATAATTAATACAAATATTTAA
3751719 AACAAAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTA
130 AACAAAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTA
** * *
3751784 ATAAAATTTGGGAAAATAATACGAGCAAATGGCGGGAATAATGG-TTTTTTTACACTAAATTAAT
195 ATAAAATTCAGGAAAATAATACGAGCAAATGGCGAGAATAAGGGTTTTTTTTACACTAAATTAAT
*
3751848 TTTAAAAACACACTAAATTAATAAATT
260 TTAAAAAACACACTAAATTAATAAATT
3751875 TATAAAATTAGAAATTATGAAACTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGAAA-TTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
* * *
3751940 AGCCGAGGTAAGAGTGTTTTACAAAAATTTTTAAAACTTCAGAAATAATTAATACAAATATTTGA
65 AGCCAAGGTAAGAGTGTTTTACAAAAATTTTTAAAAATTCAGAAATAATTAATACAAATATTTAA
* * **
3752005 AACAAAATGTATTGAAATAATATAAAATAATAAAATACGTCAATAAAATTATTTTATTGAAAGTA
130 AACAAAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTA
3752070 ATAAAATTCAGGAAAATAATACGAGCAAATGGCGAGAATAAGGGTTTTTTTTACACTAAATTAAT
195 ATAAAATTCAGGAAAATAATACGAGCAAATGGCGAGAATAAGGGTTTTTTTTACACTAAATTAAT
*
3752135 TTAAAAAACACATTAAATTAATAAATT
260 TTAAAAAACACACTAAATTAATAAATT
*
3752162 TATAAAATTAGAAATTATGAAATTTTTAAGGTAA
1 TATAAAATTAGAAATTATGAAATTTTTAAAGTAA
3752196 GAGTGTTTTA
Statistics
Matches: 303, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
286 236 0.78
287 67 0.22
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (286 bp):
TATAAAATTAGAAATTATGAAATTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAATA
GCCAAGGTAAGAGTGTTTTACAAAAATTTTTAAAAATTCAGAAATAATTAATACAAATATTTAAA
ACAAAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTAA
TAAAATTCAGGAAAATAATACGAGCAAATGGCGAGAATAAGGGTTTTTTTTACACTAAATTAATT
TAAAAAACACACTAAATTAATAAATT
Found at i:3752435 original size:245 final size:245
Alignment explanation
Indices: 3751945--3752432 Score: 854
Period size: 245 Copynumber: 2.0 Consensus size: 245
3751935 GAAATAGCCG
*
3751945 AGGTAAGAGTGTTTTACAAAAATTTTTAAAACTTCAGAAATAATTAATACAAATATTTGAAACAA
1 AGGTAAGAGTGTTTTACAAAAATTTTTAAAAATTCAGAAATAATTAATACAAATATTTGAAACAA
* * **
3752010 AATGTATTGAAATAATATAAAATAATAAAATACGTCAATAAAATTATTTTATTGAAAGTAATAAA
66 AATGTACTAAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTAATAAA
*
3752075 ATTCAGGAAAATAATACGAGCAAATGGCGAGAATAAGGGTTTTTTTTACACTAAATTAATTTAAA
131 ATTCAGGAAAATAATACGAGCAAATGGCGAGAATAAGAGTTTTTTTTACACTAAATTAATTTAAA
*
3752140 AAACACATTAAATTAATAAATTTATAAAATTAGAAATTATGAAATTTTTA
196 AAACACACTAAATTAATAAATTTATAAAATTAGAAATTATGAAATTTTTA
*
3752190 AGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTGAAACAA
1 AGGTAAGAGTGTTTTACAAAAATTTTTAAAAATTCAGAAATAATTAATACAAATATTTGAAACAA
3752255 AATGTACTAAAATAATATAAAAATAAT-AAATACGAAAATAAAATTATTTTATTGAAAGTAATAA
66 AATGTACTAAAATAATAT-AAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTAATAA
* *
3752319 AATTCCGGAAAATAATACGAGCAAATGGCGGGAATAAGAG-TTTTTTTACACTAAATTAATTTAA
130 AATTCAGGAAAATAATACGAGCAAATGGCGAGAATAAGAGTTTTTTTTACACTAAATTAATTTAA
*
3752383 AAAACACACTAAATTAATAAATTTATAAAATTAGAAATTATGATATTTTT
195 AAAACACACTAAATTAATAAATTTATAAAATTAGAAATTATGAAATTTTT
3752433 TAAAGTAATA
Statistics
Matches: 231, Mismatches: 11, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
244 72 0.31
245 151 0.65
246 8 0.03
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.33
Consensus pattern (245 bp):
AGGTAAGAGTGTTTTACAAAAATTTTTAAAAATTCAGAAATAATTAATACAAATATTTGAAACAA
AATGTACTAAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTAATAAA
ATTCAGGAAAATAATACGAGCAAATGGCGAGAATAAGAGTTTTTTTTACACTAAATTAATTTAAA
AAACACACTAAATTAATAAATTTATAAAATTAGAAATTATGAAATTTTTA
Found at i:3753737 original size:3 final size:3
Alignment explanation
Indices: 3753702--3753754 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
3753692 TTTAGGTTTT
* * *
3753702 TTA TTA TT- TTA ATA GTA TTA TCA TTA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
3753747 TTA TTA TT
1 TTA TTA TT
3753755 TCTATACATA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:3753913 original size:13 final size:12
Alignment explanation
Indices: 3753895--3753934 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
3753885 ATTTTCATAG
3753895 TTTATTTATATA
1 TTTATTTATATA
*
3753907 TTATATTTATACA
1 TT-TATTTATATA
*
3753920 TTTTTTTATATA
1 TTTATTTATATA
3753932 TTT
1 TTT
3753935 TGTGAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTATTTATATA
Found at i:3755887 original size:88 final size:88
Alignment explanation
Indices: 3755738--3755903 Score: 260
Period size: 88 Copynumber: 1.9 Consensus size: 88
3755728 TGTTAGGATT
* * * *
3755738 ACGACTTTTGTAGTATGTAACATCATTCACAATAGTGTAATTTATAGCTAAACTAATGGGTAAAT
1 ACGACTTCTGTAATATGTAACATCATTCACAATAGTGAAATTCATAGCTAAACTAATGGGTAAAT
*
3755803 GATATCTTCTCATTTTACATTAC
66 GATATATTCTCATTTTACATTAC
* * *
3755826 ACGACTTCTGTAATATGTAGCATCATTCACAATAGTGAAATTCATAGTTAAATTAATGGGTAAAT
1 ACGACTTCTGTAATATGTAACATCATTCACAATAGTGAAATTCATAGCTAAACTAATGGGTAAAT
3755891 GATATATTCTCAT
66 GATATATTCTCAT
3755904 CGACATTACA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 70 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (88 bp):
ACGACTTCTGTAATATGTAACATCATTCACAATAGTGAAATTCATAGCTAAACTAATGGGTAAAT
GATATATTCTCATTTTACATTAC
Found at i:3757328 original size:16 final size:17
Alignment explanation
Indices: 3757307--3757342 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
3757297 AAAACATAAT
*
3757307 AATTAAGAAAT-AAATA
1 AATTAAAAAATAAAATA
3757323 AATTAAAAAATAAAATA
1 AATTAAAAAATAAAATA
3757340 AAT
1 AAT
3757343 CCATAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
AATTAAAAAATAAAATA
Found at i:3758287 original size:138 final size:139
Alignment explanation
Indices: 3758113--3758391 Score: 524
Period size: 138 Copynumber: 2.0 Consensus size: 139
3758103 TAATCATCAC
3758113 TTTCACATATCACAATCCATAGAAAAAGAAGAACCAATTTACCTACAATGTAAAATTATTTATGC
1 TTTCACATAT-ACAATCCATAGAAAAAGAAGAACCAATTTACCTACAATGTAAAATTATTTATGC
* *
3758178 ATTTTAATCTCTTTATTAAAAATTAAATAAATTGTTTTTTTTATAATTTTTATATATTTTTTTAA
65 ATTTTAATCTCTTTATTAAAAATTAAAAAAAATGTTTTTTTTATAATTTTTATATATTTTTTTAA
3758243 AAATTTTAAA
130 AAATTTTAAA
3758253 TTTCACATAT-CAATCCATAGAAAAAGAAGAACCAATTTACCTACAATGTAAAATTATTTATGCA
1 TTTCACATATACAATCCATAGAAAAAGAAGAACCAATTTACCTACAATGTAAAATTATTTATGCA
3758317 TTTTAATCTCTTTATTAAAAATTAAAAAAAATGTTTTTTTTATAATTTTTATATATTTTTTTAAA
66 TTTTAATCTCTTTATTAAAAATTAAAAAAAATGTTTTTTTTATAATTTTTATATATTTTTTTAAA
3758382 AATTTTAAA
131 AATTTTAAA
3758391 T
1 T
3758392 AACTTTTTAA
Statistics
Matches: 137, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
138 127 0.93
140 10 0.07
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (139 bp):
TTTCACATATACAATCCATAGAAAAAGAAGAACCAATTTACCTACAATGTAAAATTATTTATGCA
TTTTAATCTCTTTATTAAAAATTAAAAAAAATGTTTTTTTTATAATTTTTATATATTTTTTTAAA
AATTTTAAA
Found at i:3762927 original size:13 final size:12
Alignment explanation
Indices: 3762909--3762948 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
3762899 ATTTTCATAG
3762909 TTTATTTATATA
1 TTTATTTATATA
*
3762921 TTATATTTATACA
1 TT-TATTTATATA
*
3762934 TTTTTTTATATA
1 TTTATTTATATA
3762946 TTT
1 TTT
3762949 TGTGAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTATTTATATA
Found at i:3764901 original size:88 final size:88
Alignment explanation
Indices: 3764752--3764917 Score: 260
Period size: 88 Copynumber: 1.9 Consensus size: 88
3764742 TGTTAGGATT
* * * *
3764752 ACGACTTTTGTAGTATGTAACATCATTCACAATAGTGTAATTTATAGCTAAACTAATGGGTAAAT
1 ACGACTTCTGTAATATGTAACATCATTCACAATAGTGAAATTCATAGCTAAACTAATGGGTAAAT
*
3764817 GATATCTTCTCATTTTACATTAC
66 GATATATTCTCATTTTACATTAC
* * *
3764840 ACGACTTCTGTAATATGTAGCATCATTCACAATAGTGAAATTCATAGTTAAATTAATGGGTAAAT
1 ACGACTTCTGTAATATGTAACATCATTCACAATAGTGAAATTCATAGCTAAACTAATGGGTAAAT
3764905 GATATATTCTCAT
66 GATATATTCTCAT
3764918 CGACATTACA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 70 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (88 bp):
ACGACTTCTGTAATATGTAACATCATTCACAATAGTGAAATTCATAGCTAAACTAATGGGTAAAT
GATATATTCTCATTTTACATTAC
Found at i:3766342 original size:16 final size:17
Alignment explanation
Indices: 3766321--3766356 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
3766311 AAAACATAAT
*
3766321 AATTAAGAAAT-AAATA
1 AATTAAAAAATAAAATA
3766337 AATTAAAAAATAAAATA
1 AATTAAAAAATAAAATA
3766354 AAT
1 AAT
3766357 CCATAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
AATTAAAAAATAAAATA
Found at i:3770910 original size:44 final size:43
Alignment explanation
Indices: 3770862--3771321 Score: 341
Period size: 44 Copynumber: 10.6 Consensus size: 43
3770852 ATTTTAATCC
* * *
3770862 GCTCCACTACAACTTCAGGGAGATAGGATTAGTAGATTTTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGT-GATTTTGTCT
* * *
3770906 GCTCCACTGCAACTTCAGGGAGATAAGACT-G-GA-TATGATTT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTGATTTTG-TCT
* * * * *
3770947 GCTCTACTGCAACTTCAGAGAGATAAGATCTTGTGGTTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TGGTGATTTT-GTCT
* * * **
3770992 GCTCTACTGCAACTTCAGGGAGATAGGATTGGTTTATTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGG-TGATTTTGTCT
* *
3771036 GCTCCACTGCAACTTCAGGGAGATAAGACT-G-GA-TGTGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTGATTTTG-TCT
* * * * * *
3771077 ACTCTACTGCAACTTCAGAGAGATAAGATCTTGTGGTTTTAGTCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TGGTGATTTT-GTCT
* * * **
3771122 GCTCTACTGCAACTTCAGGGAGATAGGATTGGTTTATTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGG-TGATTTTGTCT
* *
3771166 GCTCCACTGCAACTTCAGGGAGATAAGACT-G-GA-TGTGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTGATTTTG-TCT
* * * * * * *
3771207 ACTCTACTGCAACTTTAGAGAAATAAGATCT-GTGATTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TGGTGATTTT-GTCT
*
3771251 GCTCCACTGCAACTTCAGGGAGATAGGATTGGT--TTCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTGATT-TT--GTCT
*
3771295 GCTCCACTGCAACTTCAGTGAGATAAG
1 GCTCCACTGCAACTTCAGGGAGATAAG
3771322 GCTTGATATG
Statistics
Matches: 327, Mismatches: 67, Indels: 44
0.75 0.15 0.10
Matches are distributed among these distances:
40 7 0.02
41 86 0.26
42 6 0.02
43 10 0.03
44 150 0.46
45 67 0.20
46 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.31
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGGTGATTTTGTCT
Found at i:3770960 original size:85 final size:84
Alignment explanation
Indices: 3770862--3771321 Score: 381
Period size: 85 Copynumber: 5.3 Consensus size: 84
3770852 ATTTTAATCC
* * *
3770862 GCTCCACTACAACTTCAGGGAGATAGGATTAGTAGATTTTGTCTGCTCCACTGCAACTTCAGGGA
1 GCTCTACTGCAACTTCAGGGAGATAAGATT-GT-GATTTTGTCTGCTCCACTGCAACTTCAGGGA
*
3770927 GATAAGACTGGATATGA-TTT
64 GATAAGACTGGATATGAGTCT
* * * *
3770947 GCTCTACTGCAACTTCAGAGAGATAAGATCTTGTGGTTTTAATCTGCTCTACTGCAACTTCAGGG
1 GCTCTACTGCAACTTCAGGGAGATAAGA--TTGTGATTTT-GTCTGCTCCACTGCAACTTCAGGG
* * * *
3771012 AGATAGGATTGGTTTATTCAGTCT
63 AGATAAGACTGG-ATA-TGAGTCT
* * * * * *
3771036 GCTCCACTGCAACTTCAGGGAGATAAGACTG-GA-TGTGATCTACTCTACTGCAACTTCAGAGAG
1 GCTCTACTGCAACTTCAGGGAGATAAGATTGTGATTTTG-TCTGCTCCACTGCAACTTCAGGGAG
* * * *
3771099 ATAAGATCTTGTGGTTTTAGTCC
65 ATAAGA-C-TG-GATATGAGTCT
* *
3771122 GCTCTACTGCAACTTCAGGGAGATAGGATTG-GTTTATTCAGTCTGCTCCACTGCAACTTCAGGG
1 GCTCTACTGCAACTTCAGGGAGATAAGATTGTGATT-TT--GTCTGCTCCACTGCAACTTCAGGG
*
3771186 AGATAAGACTGGATGTGA-TCT
63 AGATAAGACTGGATATGAGTCT
* * * * * *
3771207 ACTCTACTGCAACTTTAGAGAAATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGA
1 GCTCTACTGCAACTTCAGGGAGATAAGAT-TGTGATTTT-GTCTGCTCCACTGCAACTTCAGGGA
* * * * *
3771272 GATAGGATTGGTTTCTTCAGTCT
64 GATAAGACTGG-AT-ATGAGTCT
* *
3771295 GCTCCACTGCAACTTCAGTGAGATAAG
1 GCTCTACTGCAACTTCAGGGAGATAAG
3771322 GCTTGATATG
Statistics
Matches: 300, Mismatches: 56, Indels: 35
0.77 0.14 0.09
Matches are distributed among these distances:
85 118 0.39
86 78 0.26
87 17 0.06
88 30 0.10
89 56 0.19
90 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.31
Consensus pattern (84 bp):
GCTCTACTGCAACTTCAGGGAGATAAGATTGTGATTTTGTCTGCTCCACTGCAACTTCAGGGAGA
TAAGACTGGATATGAGTCT
Found at i:3771046 original size:130 final size:130
Alignment explanation
Indices: 3770772--3771366 Score: 834
Period size: 130 Copynumber: 4.6 Consensus size: 130
3770762 TTGTGATTTT
* * * * * * * *
3770772 AGTCTACTTCACTGCAACTTTAGGGAAATAAGGCTGGATGCGATCTGCTCTACCGCAACTTCATA
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGA
* * ** * * * ** *
3770837 GATATATGAT-TCATCATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTAGTAGATTT
66 GAGATAAGATCTTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTATTC
* * *
3770901 TGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATATGATTTGCTCTACTGCAACTTCAGA
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGA
* * *
3770966 GAGATAAGATCTTGTGGTTTTAATCTGCTCTACTGCAACTTCAGGGAGATAGGATTGGTTTATTC
66 GAGATAAGATCTTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTATTC
*
3771031 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTACTCTACTGCAACTTCAGA
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGA
* * *
3771096 GAGATAAGATCTTGTGGTTTTAGTCCGCTCTACTGCAACTTCAGGGAGATAGGATTGGTTTATTC
66 GAGATAAGATCTTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTATTC
* *
3771161 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTACTCTACTGCAACTTTAGA
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGA
* *
3771226 GAAATAAGATC-TGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTC
66 GAGATAAGATCTTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTATTC
* * * * * *
3771290 AGTCTGCTCCACTGCAACTTCAGTGAGATAAGGCTTGATATGATCTGCTCTACTGTAACTTTAGA
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGA
3771355 GAGATAAGATCT
66 GAGATAAGATCT
3771367 GCAATGTATA
Statistics
Matches: 421, Mismatches: 43, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
129 180 0.43
130 241 0.57
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (130 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGA
GAGATAAGATCTTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTATTC
Found at i:3771301 original size:259 final size:260
Alignment explanation
Indices: 3770772--3771366 Score: 843
Period size: 259 Copynumber: 2.3 Consensus size: 260
3770762 TTGTGATTTT
* * * * * * *
3770772 AGTCTACTTCACTGCAACTTTAGGGAAATAAGGCTGGATGCGATCTGCTCTACCGCAACTTCATA
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGATGTGATCTGCTCTACTGCAACTTCAGA
* * *
3770837 GATATATGAT-TCATCATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTAGTAGATTT
66 GAGATAAGATCTCATCATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTAGTAGATTC
* * *
3770901 TGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATATGATTTGCTCTACTGCAACTTCAGA
131 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATATGATCTACTCTACTGCAACTTCAGA
* * * *
3770966 GAGATAAGATCTTGTGGTTTTAATCTGCTCTACTGCAACTTCAGGGAGATAGGATTGGTTTATTC
196 GAAATAAGATCTTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTATTC
* *
3771031 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTACTCTACTGCAACTTCAGA
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGATGTGATCTGCTCTACTGCAACTTCAGA
** ** * * * * **
3771096 GAGATAAGATCTTGTGGTTTTAGTCCGCTCTACTGCAACTTCAGGGAGATAGGATTGGTTTATTC
66 GAGATAAGATCTCATCATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTAGTAGATTC
* *
3771161 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTACTCTACTGCAACTTTAGA
131 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATATGATCTACTCTACTGCAACTTCAGA
*
3771226 GAAATAAGATC-TGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTC
196 GAAATAAGATCTTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTATTC
* * * * *
3771290 AGTCTGCTCCACTGCAACTTCAGTGAGATAAGGCTTGATATGATCTGCTCTACTGTAACTTTAGA
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGATGTGATCTGCTCTACTGCAACTTCAGA
3771355 GAGATAAGATCT
66 GAGATAAGATCT
3771367 GCAATGTATA
Statistics
Matches: 296, Mismatches: 39, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
259 183 0.62
260 113 0.38
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (260 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGATGTGATCTGCTCTACTGCAACTTCAGA
GAGATAAGATCTCATCATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTAGTAGATTC
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATATGATCTACTCTACTGCAACTTCAGA
GAAATAAGATCTTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTATTC
Found at i:3771555 original size:100 final size:99
Alignment explanation
Indices: 3771377--3772194 Score: 978
Period size: 100 Copynumber: 8.2 Consensus size: 99
3771367 GCAATGTATA
* * * * *
3771377 GCTTCAATCTTTTTAAACTGCAATGTCGGGGAAACAAAATTCACCGTTGTAGCTTCAACCTATTC
1 GCTTCAATC-TTTT-AATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTC
* * * * *
3771442 CGCTACACCGCCAGGGAAGTAAGATTCGCCATTGCG
64 CACTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTG
* * * * * **
3771478 GCTTCAATCTTTTAAATTGCAATATCTGGTAAGCAAGATTCACCGTCGTAGCTTTAATCTACTCC
1 GCTTCAATCTTTT-AATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCC
** * * * *
3771543 ACTGCATTGCCAGAGAAGTAAGATTCGCCATTGCG
65 ACTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTG
* * * * * * *
3771578 GCTTCAA--TATT--TTGCAATATCGGGGAAGTAAGATTCACCATCGTAGCTTTAATCTGCTCCA
1 GCTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCA
* * * *
3771639 CTGCACCGCTTGAGAAAGTAAGATTTGTCGTTGTG
66 CTGCACCGCCTG-GGAAGTAAGATTCGCCGTTGTG
* *
3771674 GCTTCAATCTTTCAATTGCAATGTCGGGGAAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCA
1 GCTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCA
*
3771739 CTGCACCGCCTGGGAAAGTAAGATTCGCTGTTGTG
66 CTGCACCGCCTGGG-AAGTAAGATTCGCCGTTGTG
* *
3771774 GCTTCAATCTTTCAATTGCAATGTCGGGGAAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCA
1 GCTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCA
*
3771839 CTGCACCGCCTGGGAAAGTAAGATTCGCTGTTGTG
66 CTGCACCGCCTGGG-AAGTAAGATTCGCCGTTGTG
*
3771874 GCTTCAATCTTTCAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCA
1 GCTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCA
* ** *
3771939 TTGCAAAGCCTGGGAAAGTAAGATTTGCCGTTGTG
66 CTGCACCGCCTGGG-AAGTAAGATTCGCCGTTGTG
** * **
3771974 GCTTCAATCTTTTAATTGCAATGTCGGGGAAGTGAGATTTACCGTCATAGCTTCAATCTGTTCCA
1 GCTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCA
* *
3772039 CTGCATCGCCTGGGAAGGTAAGATTCTCCGTTGTG
66 CTGCACCGCCTGGGAA-GTAAGATTCGCCGTTGTG
* * * ** *
3772074 GCCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCGTTGCGGTTTCAATCTGTTCCA
1 GCTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCA
* * *
3772139 CTGCACCGCTTGGAAGAGTAAGATTCGCTGTTGTG
66 CTGCACCGCCTGGGA-AGTAAGATTCGCCGTTGTG
3772174 GCTTCAATCTTTTAATTGCAA
1 GCTTCAATCTTTTAATTGCAA
3772195 ACTATGGTTT
Statistics
Matches: 634, Mismatches: 75, Indels: 17
0.87 0.10 0.02
Matches are distributed among these distances:
95 53 0.08
96 23 0.04
98 5 0.01
99 3 0.00
100 540 0.85
101 10 0.02
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (99 bp):
GCTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCA
CTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTG
Found at i:3771683 original size:51 final size:51
Alignment explanation
Indices: 3771603--3772183 Score: 410
Period size: 51 Copynumber: 11.6 Consensus size: 51
3771593 AATATCGGGG
* * * * * * * * *
3771603 AAGTAAGATTCACCATCGTAGCTTTAATCTGCTCCACTGCACCGCTTGAGA
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCCATTGCAACGCTTGGGA
* * * * * *
3771654 AAGTAAGATTTGTCGTTGTGGCTTCAATCT-TTCAATTGCAATG-TCGGGG
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCCATTGCAACGCTTGGGA
* * * * * * *
3771703 AAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGA
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCCATTGCAACGCTTGGGA
* * * * *
3771754 AAGTAAGATTCGCTGTTGTGGCTTCAATCT-TTCAATTGCAATG-TCGGGG
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCCATTGCAACGCTTGGGA
* * * * * * *
3771803 AAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGA
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCCATTGCAACGCTTGGGA
* * * * *
3771854 AAGTAAGATTCGCTGTTGTGGCTTCAATCT-TTCAATTGCAATG-TCGGGG
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCCATTGCAACGCTTGGGA
* * * * *
3771903 AAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCATTGCAAAGCCTGGGA
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCCATTGCAACGCTTGGGA
* ** * * *
3771954 AAGTAAGATTTGCCGTTGTGGCTTCAATCT-TTTAATTGCAATG-TCGGGG
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCCATTGCAACGCTTGGGA
* ** ** * * * *
3772003 AAGTGAGATTTACCGTCATAGCTTCAATCTGTTCCACTGCATCGCCTGGGA
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCCATTGCAACGCTTGGGA
* * * ** * * *
3772054 AGGTAAGATTCTCCGTTGTGGCCTCAATCT-TTTAATTGCAATG-TCGGGG
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCCATTGCAACGCTTGGGA
** * * * *
3772103 AAGCGAGATTCGCCGTTGCGGTTTCAATCTGTTCCACTGCACCGCTT-GGA
1 AAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCCATTGCAACGCTTGGGA
*
3772153 AGAGTAAGATTCGCTGTTGTGGCTTCAATCT
1 A-AGTAAGATTCGCCGTTGTGGCTTCAATCT
3772184 TTTAATTGCA
Statistics
Matches: 388, Mismatches: 131, Indels: 22
0.72 0.24 0.04
Matches are distributed among these distances:
49 138 0.36
50 92 0.24
51 158 0.41
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (51 bp):
AAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCCATTGCAACGCTTGGGA
Found at i:3773625 original size:12 final size:11
Alignment explanation
Indices: 3773605--3773644 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
3773595 TGGCTTCTCC
3773605 TTTTTTCTTTT
1 TTTTTTCTTTT
3773616 TTTCTTTCTTCTT
1 TTT-TTTCTT-TT
*
3773629 TTTTTTGTTTT
1 TTTTTTCTTTT
3773640 TTTTT
1 TTTTT
3773645 GAATTCGCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 10 0.38
12 11 0.42
13 5 0.19
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:3773627 original size:15 final size:15
Alignment explanation
Indices: 3773604--3773633 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3773594 TTGGCTTCTC
*
3773604 CTTTTTTCTTTTTTT
1 CTTTCTTCTTTTTTT
3773619 CTTTCTTCTTTTTTT
1 CTTTCTTCTTTTTTT
3773634 TGTTTTTTTT
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:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
CTTTCTTCTTTTTTT
Found at i:3773629 original size:22 final size:23
Alignment explanation
Indices: 3773599--3773641 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
3773589 TCACCTTGGC
3773599 TTCTCCTTTTTTCT-TTTTTTCT
1 TTCTCCTTTTTTCTGTTTTTTCT
* *
3773621 TTCTTCTTTTTTTTGTTTTTT
1 TTCTCCTTTTTTCTGTTTTTT
3773642 TTTGAATTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.81
Consensus pattern (23 bp):
TTCTCCTTTTTTCTGTTTTTTCT
Found at i:3781573 original size:2 final size:2
Alignment explanation
Indices: 3781566--3781603 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
3781556 TATGTAAGAG
*
3781566 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3781604 CACATATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:3782599 original size:3 final size:3
Alignment explanation
Indices: 3782591--3782645 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
3782581 ATATATATAG
3782591 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3782639 TAA TAA T
1 TAA TAA T
3782646 GACATAATTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:3784250 original size:44 final size:44
Alignment explanation
Indices: 3784137--3784801 Score: 486
Period size: 44 Copynumber: 15.0 Consensus size: 44
3784127 GTAAGACTTG
* * **
3784137 TATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTC-ACACCAATACAGGAAGACAAGATCTGC
* * *
3784182 TTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG-
1 TATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGC
* * * * * *
3784225 TATATTCGATCCACTTCGCTACCAATATAGGAAGACAGGACCTGC
1 TATCTTCGATCTACTTCAC-ACCAATACAGGAAGACAAGATCTGC
* *
3784270 TATCTTCGATCTACTTCACACCAGTACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGC
* * * **
3784314 TTTCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCA-CACCAATACAGGAAGACAAGATCTGC
* * * * * * * *
3784359 TATTTTTGATCTACTTCACGCCAGTCCATGAAGATAAGATCTGT
1 TATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGC
* * * **
3784403 TTTCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCA-CACCAATACAGGAAGACAAGATCTGC
* * * * * * *
3784448 TATTTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTT
1 TATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTG-C
* * * * ** * *
3784493 TTTCTTCGAACTACTCCACCACCAGTATGGGGAGACAAGATCTGT
1 TATCTTCGATCTACTTCA-CACCAATACAGGAAGACAAGATCTGC
* * * * *
3784538 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGT
1 TATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGC
* * * * * *
3784582 TTTCTTCAATCTACTTCACGCCAATACATGAAGATAAGATTTGC
1 TATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGC
* * * ** * *
3784626 TCTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGT
1 TATCTTCGATCTACTTC-ACACCAATACAGGAAGACAAGATCTGC
* * * * ** *
3784671 TGTCTTTGATCTACTTCACGCCAGTACATAAAGATAAGATCTGC
1 TATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGC
* * * * ** *
3784715 TTTCTTGGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
1 TATCTTCGATCTACTTC-ACACCAATACAGGAAGACAAGATCTGC
* * * * *
3784760 TATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCT
1 TATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCT
3784802 TTTGTATTCA
Statistics
Matches: 493, Mismatches: 119, Indels: 17
0.78 0.19 0.03
Matches are distributed among these distances:
43 15 0.03
44 257 0.52
45 202 0.41
46 19 0.04
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
TATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGC
Found at i:3784376 original size:89 final size:88
Alignment explanation
Indices: 3784139--3784778 Score: 651
Period size: 89 Copynumber: 7.2 Consensus size: 88
3784129 AAGACTTGTA
*
3784139 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCT-TTCTTCGATCTACTTCACGC
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATT-TTCGATCTACTTCACGC
* *
3784203 CAATACATGAAGACAAGATCTGTA
65 CAGTACATGAAGACAAGATCTGTT
* * * * * * * * * *
3784227 TATTCGATCCACTTCGCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACACC
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATTTTCGATCTACTTCACGCC
3784292 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTG-TT
* *
3784316 TCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATTTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATTTTCGATCTACTTCACGCC
* *
3784381 AGTCCATGAAGATAAGATCTGTTT
66 AGTACATGAAGACAAGATCTG-TT
* *
3784405 TCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATTTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATTTTCGATCTACTTCACGCC
*
3784470 AGTACATGAAGACACGATCTGTTTT
66 AGTACATGAAGACAAGATCTG--TT
* * * *
3784495 TCTTCGAACTACTCCACCACCAGTATGGGGAGACAAGATCTGTTATCTTT-GATCTACTTCACGC
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTAT-TTTCGATCTACTTCACGC
3784559 CAGTACATGAAGACAAGATCTGTTT
65 CAGTACATGAAGACAAGATCTG-TT
* * * *** * * * * * *
3784584 TCTTCAATCTACTTCA-CGCCAATACATGAAGATAAGATTTGCTCTCTTCGATCTACTTCGCCAC
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATTTTCGATCTACTTC-ACGC
*** *
3784648 CAGTATGGGAAGATAAGATCTGTT
65 CAGTACATGAAGACAAGATCTGTT
* * **** * * *
3784672 GTCTTTGATCTACTTCA-CGCCAGTACATAAAGATAAGATCTGCT-TTCTTGGATCTACTTCGCC
1 -TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATT-TTCGATCTACTTC-AC
* ***
3784735 ACCAGTATGGGAAGACAAGATCTGTT
63 GCCAGTACATGAAGACAAGATCTGTT
*
3784761 ATCTTTGATCTACTTCAC
1 -TCTTCGATCTACTTCAC
3784779 GCCAGTACAT
Statistics
Matches: 479, Mismatches: 64, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
87 2 0.00
88 106 0.22
89 289 0.60
90 79 0.16
91 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (88 bp):
TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATTTTCGATCTACTTCACGCC
AGTACATGAAGACAAGATCTGTT
Found at i:3785920 original size:16 final size:16
Alignment explanation
Indices: 3785899--3785931 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3785889 TCTGGTACAG
*
3785899 CAAGACCACTGTATAT
1 CAAGACCACTGCATAT
3785915 CAAGACCACTGCATAT
1 CAAGACCACTGCATAT
3785931 C
1 C
3785932 CCATTCTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.21
Consensus pattern (16 bp):
CAAGACCACTGCATAT
Found at i:3786143 original size:48 final size:48
Alignment explanation
Indices: 3786066--3786163 Score: 146
Period size: 48 Copynumber: 2.0 Consensus size: 48
3786056 CACCTTAGCC
* *
3786066 TCTCCATTTTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCTTGG
1 TCTCCATTTTTTTTTACTCAAAGCTCCCTTTGTAGGCTTTCACCTTGG
3786114 TCTCC-TTTTTTTTTGACTCAAAG-TGCCCTTTGTAGGCTTTCACCTTGG
1 TCTCCATTTTTTTTT-ACTCAAAGCT-CCCTTTGTAGGCTTTCACCTTGG
3786162 TC
1 TC
3786164 CCACCCTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 10 0.22
48 36 0.78
ACGTcount: A:0.12, C:0.26, G:0.16, T:0.46
Consensus pattern (48 bp):
TCTCCATTTTTTTTTACTCAAAGCTCCCTTTGTAGGCTTTCACCTTGG
Found at i:3786174 original size:48 final size:48
Alignment explanation
Indices: 3786074--3786175 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 48
3786064 CCTCTCCATT
* * * ***
3786074 TTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCTTGGTCTCCTTT
1 TTTTTTGACTCAAAGCTCCCTTTGTAGGCTTTCACCTTGGTCTCCCCC
3786122 TTTTTTGACTCAAAG-TGCCCTTTGTAGGCTTTCACCTTGGTC-CCACCC
1 TTTTTTGACTCAAAGCT-CCCTTTGTAGGCTTTCACCTTGGTCTCC-CCC
3786170 TTTTTT
1 TTTTTT
3786176 AAGCAGAGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 3 0.07
48 43 0.93
ACGTcount: A:0.12, C:0.26, G:0.16, T:0.46
Consensus pattern (48 bp):
TTTTTTGACTCAAAGCTCCCTTTGTAGGCTTTCACCTTGGTCTCCCCC
Found at i:3786975 original size:24 final size:24
Alignment explanation
Indices: 3786944--3786989 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
3786934 AGTTTGGCAG
3786944 AAAAAATC-CAAAGTAATGAAAGCA
1 AAAAAATCGCAAAG-AATGAAAGCA
*
3786968 AAAAAATCGTAAAGAATGAAAG
1 AAAAAATCGCAAAGAATGAAAG
3786990 AACATTTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.63, C:0.09, G:0.15, T:0.13
Consensus pattern (24 bp):
AAAAAATCGCAAAGAATGAAAGCA
Found at i:3790854 original size:3 final size:3
Alignment explanation
Indices: 3790846--3790905 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
3790836 ATAGTAACAG
3790846 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3790894 TAA TAA TAA TAA
1 TAA TAA TAA TAA
3790906 CATAATTAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3794311 original size:4 final size:4
Alignment explanation
Indices: 3794296--3794343 Score: 87
Period size: 4 Copynumber: 11.8 Consensus size: 4
3794286 TAAAATCATA
3794296 AAAT ATAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
3794344 CAAACAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 39 0.91
5 4 0.09
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:3803542 original size:23 final size:23
Alignment explanation
Indices: 3803516--3803563 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
3803506 AAAAAAAAGG
3803516 TTTAAGTGCCAACTTGCTTCCAA
1 TTTAAGTGCCAACTTGCTTCCAA
3803539 TTTAAGTGCCAACTTGCTTCCAA
1 TTTAAGTGCCAACTTGCTTCCAA
3803562 TT
1 TT
3803564 AAAAAGTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (23 bp):
TTTAAGTGCCAACTTGCTTCCAA
Found at i:3806769 original size:12 final size:12
Alignment explanation
Indices: 3806752--3806785 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3806742 CTTGTTGAAG
*
3806752 TCTACCTCTACC
1 TCTACCTCGACC
3806764 TCTACCTCGACC
1 TCTACCTCGACC
*
3806776 TCGACCTCGA
1 TCTACCTCGA
3806786 TCTCAAACTC
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:0.18, C:0.47, G:0.09, T:0.26
Consensus pattern (12 bp):
TCTACCTCGACC
Found at i:3816895 original size:2 final size:2
Alignment explanation
Indices: 3816888--3816913 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3816878 TTATAACTAT
3816888 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
3816914 AAAGAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3821531 original size:20 final size:21
Alignment explanation
Indices: 3821506--3821551 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
3821496 TATATTTTTT
*
3821506 AAAAATTATAAA-AAAATTTA
1 AAAAATTATAAAGAAAATATA
* *
3821526 AAAAATTCTAAAGAATATATA
1 AAAAATTATAAAGAAAATATA
3821547 AAAAA
1 AAAAA
3821552 AGTTAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
AAAAATTATAAAGAAAATATA
Found at i:3821560 original size:29 final size:28
Alignment explanation
Indices: 3821505--3821567 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
3821495 ATATATTTTT
*
3821505 TAAAAATTATAAAAAAATTTAAAAAATTC
1 TAAAAATTATAAAAAAAGTT-AAAAATTC
*
3821534 TAAAGAATATATAAAAAAAGTT-AAAATTT
1 TAAA-AAT-TATAAAAAAAGTTAAAAATTC
3821563 TAAAA
1 TAAAA
3821568 TTTTTCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 1 0.03
29 14 0.47
30 3 0.10
31 12 0.40
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (28 bp):
TAAAAATTATAAAAAAAGTTAAAAATTC
Found at i:3824476 original size:5 final size:5
Alignment explanation
Indices: 3824466--3824501 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
3824456 AGTTATACAT
3824466 ATATA ATATA ATATA ATATA ATAT- A-ATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
3824502 CTTATTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.07
4 2 0.07
5 25 0.86
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:3824486 original size:15 final size:13
Alignment explanation
Indices: 3824466--3824501 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 13
3824456 AGTTATACAT
3824466 ATATAATATAATATA
1 ATATAATAT-A-ATA
3824481 ATATAATATAATA
1 ATATAATATAATA
3824494 ATATAATA
1 ATATAATA
3824502 CTTATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 11 0.52
14 1 0.05
15 9 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATATAATATAATA
Done.