Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 117 of 208
Found at i:38253498 original size:17 final size:16
Alignment explanation
Indices: 38253476--38253534 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
38253466 ATTATACTTC
38253476 ATTTTTCTTTTTCTTTT
1 ATTTTT-TTTTTCTTTT
*
38253493 ATTTTTTATTTTCTTTC
1 ATTTTTT-TTTTCTTTT
***
38253510 A-TTTTCGCTTCTTTT
1 ATTTTTTTTTTCTTTT
38253525 ATTTTTTTTT
1 ATTTTTTTTT
38253535 CTGGGTCTTC
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
15 7 0.22
16 10 0.31
17 15 0.47
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.78
Consensus pattern (16 bp):
ATTTTTTTTTTCTTTT
Found at i:38258672 original size:16 final size:18
Alignment explanation
Indices: 38258639--38258677 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
38258629 TAAAATATTG
38258639 AAAAATTATAAGAATTAA
1 AAAAATTATAAGAATTAA
*
38258657 AAAAATT-TAA-ATTTAA
1 AAAAATTATAAGAATTAA
38258673 AAAAA
1 AAAAA
38258678 AAACTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 3 0.15
18 7 0.35
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAAATTATAAGAATTAA
Found at i:38259036 original size:21 final size:21
Alignment explanation
Indices: 38259010--38259066 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
38259000 CCTTAAAACG
38259010 AGATGTCTCGATACATCCCTT
1 AGATGTCTCGATACATCCCTT
* * *
38259031 AGATGT-TCAATATATCCTTT
1 AGATGTCTCGATACATCCCTT
*
38259051 AGTTGTGC-CGATACAT
1 AGATGT-CTCGATACAT
38259067 ATTTAAATGT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (21 bp):
AGATGTCTCGATACATCCCTT
Found at i:38259906 original size:22 final size:23
Alignment explanation
Indices: 38259868--38259913 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
38259858 ATTCATAAAA
*
38259868 ATATATGATGATTTTTT-TAATT
1 ATATATGACGATTTTTTATAATT
38259890 ATATATGACG-TTATTTTATAATT
1 ATATATGACGATT-TTTTATAATT
38259913 A
1 A
38259914 AATAAATCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 13 0.62
23 6 0.29
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (23 bp):
ATATATGACGATTTTTTATAATT
Found at i:38260267 original size:46 final size:46
Alignment explanation
Indices: 38260200--38260294 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
38260190 AAGAATACCC
*
38260200 TTTGTGGGATCAATGCTTGTGATATTATGTATAGTTTTTATGCATG
1 TTTGTGGGATCAATGCTTGTGATATTAGGTATAGTTTTTATGCATG
38260246 TTTGTGGGATCAATGCTTGTGATATTAGGTATAGTTTTTATGCATG
1 TTTGTGGGATCAATGCTTGTGATATTAGGTATAGTTTTTATGCATG
38260292 TTT
1 TTT
38260295 ATTATATCTC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.21, C:0.06, G:0.24, T:0.48
Consensus pattern (46 bp):
TTTGTGGGATCAATGCTTGTGATATTAGGTATAGTTTTTATGCATG
Found at i:38265491 original size:43 final size:41
Alignment explanation
Indices: 38265425--38265542 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 41
38265415 AGCCTTTACA
* *
38265425 ATGCCAATGTCCTAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ATGTCCCAGACAG-GGTCTTACACGTAATCAAATA-CG
* **
38265468 ATGCCATTGTCCCAGACAGGGTCTTACACGAAATCGTATACG
1 ATGCCA-TGTCCCAGACAGGGTCTTACACGTAATCAAATACG
* *
38265510 ATGTCGATGTCCCAGACATGGTCTTACACGTAA
1 ATG-CCATGTCCCAGACAGGGTCTTACACGTAA
38265543 ATCTCAAATC
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
42 30 0.47
43 33 0.52
44 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (41 bp):
ATGCCATGTCCCAGACAGGGTCTTACACGTAATCAAATACG
Found at i:38272997 original size:40 final size:39
Alignment explanation
Indices: 38272933--38273144 Score: 237
Period size: 40 Copynumber: 5.3 Consensus size: 39
38272923 TCTTCGGAAT
* *
38272933 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
38272972 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
38273012 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGAGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * * *
38273052 TTAACCCGGGTATAGCAACTCGTACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * * *
38273092 TTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
38273132 TTAGCCCGGATAT
1 TTAGCCCGGATAT
38273145 CATTCAAATG
Statistics
Matches: 142, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
39 10 0.07
40 125 0.88
41 7 0.05
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:38273060 original size:80 final size:79
Alignment explanation
Indices: 38272933--38273144 Score: 316
Period size: 80 Copynumber: 2.7 Consensus size: 79
38272923 TCTTCGGAAT
* * * * *
38272933 TTAGCCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACA
1 TTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACA
38272998 AATGCCTTCGGGTC
66 AATGCCTTCGGGTC
* * * *
38273012 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGAGTCTTAACCCGGGTATAGCAACTCGTAC
1 TTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
38273077 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
*
38273092 TTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
38273145 CATTCAAATG
Statistics
Matches: 118, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
79 4 0.03
80 114 0.97
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (79 bp):
TTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:38281049 original size:40 final size:39
Alignment explanation
Indices: 38280985--38281196 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 39
38280975 TCTTCGGAAT
* *
38280985 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
38281024 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
38281064 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
38281104 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
38281144 TTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGAT-
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGG-TC
38281184 TTAGCCCGGATAT
1 TTAGCCCGGATAT
38281197 CATTCAAATG
Statistics
Matches: 146, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
39 10 0.07
40 128 0.88
41 8 0.05
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:38281112 original size:80 final size:79
Alignment explanation
Indices: 38280985--38281196 Score: 327
Period size: 80 Copynumber: 2.7 Consensus size: 79
38280975 TCTTCGGAAT
* * * * *
38280985 TTAGCCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACA
1 TTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACA
38281050 AATGCCTTCGGGTC
66 AATGCCTTCGGGTC
* *
38281064 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
38281129 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
38281144 TTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGAT-TTAGCCCGGATAT
1 TTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
38281197 CATTCAAATG
Statistics
Matches: 121, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
79 4 0.03
80 116 0.96
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
TTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:38284878 original size:20 final size:21
Alignment explanation
Indices: 38284855--38284895 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
38284845 AAGCATTGTG
38284855 TTAAAA-ATAAAACGAAATAA
1 TTAAAACATAAAACGAAATAA
* *
38284875 TTAAAACATGAAACGAGATAA
1 TTAAAACATAAAACGAAATAA
38284896 AATTAACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.63, C:0.07, G:0.10, T:0.20
Consensus pattern (21 bp):
TTAAAACATAAAACGAAATAA
Found at i:38287150 original size:224 final size:225
Alignment explanation
Indices: 38286760--38287199 Score: 846
Period size: 224 Copynumber: 2.0 Consensus size: 225
38286750 TAATTAGATC
* *
38286760 ATTCAACAAAACAAGAAATTTGAATCCTATGTTTTTCGGATTTGGGTGAGTTTGTGTTCAGTTTT
1 ATTCAACAAAACAAGAAATTTGAATCCTATGTTATTCGGATTTGGGTGAGTTTGAGTTCAGTTTT
*
38286825 TCATGTATTTGGTGGGTTCTTGGGGTCCTATCCCTATATATATGTCGAAATGTGTTGTATACAGG
66 TCATGTATTTGGTGGGTTCTTGGGGTCCTATCCCTATATATATGTCGAAATGTGTTGAATACAGG
38286890 TATTTCAGTCAGAATGAACAGTTGAAGCAGCACAGTCTGAATTTTCTAGTAGTTTTAGCACCA-C
131 TATTTCAGTCAGAATGAACAGTTGAAGCAGCACAGTCTGAATTTTCTAGTAGTTTTAGCACCATC
38286954 CATATTGGTAATAATAATGAATCCTATGTT
196 CATATTGGTAATAATAATGAATCCTATGTT
38286984 ATTCAACAAAACAAGAAATTTGAATCCTATGTTATTCGGATTTGGGTGAGTTTGAGTTCAGTTTT
1 ATTCAACAAAACAAGAAATTTGAATCCTATGTTATTCGGATTTGGGTGAGTTTGAGTTCAGTTTT
38287049 TCATGTATTTGGTGGGTTCTTGGGGTCCTATCCCTATATATATGTCGAAATGTGTTGAATACAGG
66 TCATGTATTTGGTGGGTTCTTGGGGTCCTATCCCTATATATATGTCGAAATGTGTTGAATACAGG
38287114 TATTTCAGTCAGAATGAACAGTTGAAGCAGCACAGTCTGAATTTTCTAGTAGTTTTAGCACCATC
131 TATTTCAGTCAGAATGAACAGTTGAAGCAGCACAGTCTGAATTTTCTAGTAGTTTTAGCACCATC
38287179 CATATTGGTAATAATAATGAA
196 CATATTGGTAATAATAATGAA
38287200 ATTACGATGC
Statistics
Matches: 212, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
224 190 0.90
225 22 0.10
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.37
Consensus pattern (225 bp):
ATTCAACAAAACAAGAAATTTGAATCCTATGTTATTCGGATTTGGGTGAGTTTGAGTTCAGTTTT
TCATGTATTTGGTGGGTTCTTGGGGTCCTATCCCTATATATATGTCGAAATGTGTTGAATACAGG
TATTTCAGTCAGAATGAACAGTTGAAGCAGCACAGTCTGAATTTTCTAGTAGTTTTAGCACCATC
CATATTGGTAATAATAATGAATCCTATGTT
Found at i:38290534 original size:26 final size:24
Alignment explanation
Indices: 38290497--38290550 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
38290487 GAAAATAAAC
38290497 AAATTTGAATTTCAAAGCAAATTTGT
1 AAATTTGAATTTCAAAG--AATTTGT
* *
38290523 AAATTT-ATATTTTATAGAATTTGT
1 AAATTTGA-ATTTCAAAGAATTTGT
38290547 AAAT
1 AAAT
38290551 ATCCAACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 11 0.44
25 1 0.04
26 13 0.52
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (24 bp):
AAATTTGAATTTCAAAGAATTTGT
Found at i:38292811 original size:56 final size:56
Alignment explanation
Indices: 38292691--38292803 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 56
38292681 GAAGAACCCC
* *
38292691 TATAATCAAGGATTGACTCAATCCTAAATAAAGAAATAAATAAAATATCATCAAAT
1 TATAATCAAGGATTGACTCAATCCTAAAGAAAGAAAGAAATAAAATATCATCAAAT
* *
38292747 TATAATCAAGGATTGACTCAATCCTAAAGAAAGAAAGAAATAAAATCTTATCAAAT
1 TATAATCAAGGATTGACTCAATCCTAAAGAAAGAAAGAAATAAAATATCATCAAAT
38292803 T
1 T
38292804 TGTATCAATC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (56 bp):
TATAATCAAGGATTGACTCAATCCTAAAGAAAGAAAGAAATAAAATATCATCAAAT
Found at i:38295738 original size:41 final size:42
Alignment explanation
Indices: 38295667--38295786 Score: 138
Period size: 41 Copynumber: 2.9 Consensus size: 42
38295657 CCGGATTTAT
* * * *
38295667 TGCCAGTG-AAATAATTCAGACTTTAGGTCTAGCAGGCTTGA
1 TGCCAGTGAAAATTATTCAGACTATAAGTCTAGCAGGCTTAA
* *
38295708 TGCCGGT-AAAATTATTCAGACTATACGTCTAGCAGGCTTAA
1 TGCCAGTGAAAATTATTCAGACTATAAGTCTAGCAGGCTTAA
* **
38295749 TGCCAGTGATACGT-TTCAGACTATAAGTCTAGCAGGCT
1 TGCCAGTGAAAATTATTCAGACTATAAGTCTAGCAGGCT
38295787 AAAAGGCGGT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
41 64 0.96
42 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (42 bp):
TGCCAGTGAAAATTATTCAGACTATAAGTCTAGCAGGCTTAA
Found at i:38298596 original size:34 final size:34
Alignment explanation
Indices: 38298553--38298627 Score: 150
Period size: 34 Copynumber: 2.2 Consensus size: 34
38298543 GGAGTGAACC
38298553 AAGGAAAATGACATACTTGTTTTATTTTCATTTA
1 AAGGAAAATGACATACTTGTTTTATTTTCATTTA
38298587 AAGGAAAATGACATACTTGTTTTATTTTCATTTA
1 AAGGAAAATGACATACTTGTTTTATTTTCATTTA
38298621 AAGGAAA
1 AAGGAAA
38298628 GTGAGCACGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (34 bp):
AAGGAAAATGACATACTTGTTTTATTTTCATTTA
Found at i:38302060 original size:2 final size:2
Alignment explanation
Indices: 38302053--38302077 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38302043 CTAGAGTTAA
38302053 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
38302078 TTATTATTAT
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:38305283 original size:6 final size:7
Alignment explanation
Indices: 38305268--38305293 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
38305258 AATAACCTAG
38305268 AAAATAA
1 AAAATAA
38305275 AAAATAA
1 AAAATAA
38305282 AAAATAA
1 AAAATAA
38305289 AAAAT
1 AAAAT
38305294 TTATTACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:38305458 original size:16 final size:15
Alignment explanation
Indices: 38305433--38305463 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
38305423 ACTTTATTTT
38305433 TAAAATATTTTTTAA
1 TAAAATATTTTTTAA
38305448 TAAATATATTTTTTAA
1 TAAA-ATATTTTTTAA
38305464 AATTTATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TAAAATATTTTTTAA
Found at i:38305466 original size:14 final size:14
Alignment explanation
Indices: 38305429--38305472 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
38305419 ATAGACTTTA
38305429 TTTTTAAAATAT-T
1 TTTTTAAAATATAT
*
38305442 TTTTAATAAATATAT
1 TTTTTA-AAATATAT
*
38305457 TTTTTAAAATTTAT
1 TTTTTAAAATATAT
38305471 TT
1 TT
38305473 AAAATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 5 0.19
14 15 0.58
15 6 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTTAAAATATAT
Found at i:38307426 original size:76 final size:75
Alignment explanation
Indices: 38307341--38307491 Score: 257
Period size: 76 Copynumber: 2.0 Consensus size: 75
38307331 ATCATCGAAG
* *
38307341 CAATAAAAAAAACATGCAAGGTTTCGTGATTTCATCCAAATAAGTTTCACCCAAAACATTGCCCA
1 CAATAAAAAAAACATGCAAGATTTCATGATTTCATCCAAATAAGTTTCACCCAAAACATTGCCCA
38307406 TATCAAAAGA
66 TATCAAAAGA
* *
38307416 CAATAAAAAAAAACATGCAAGATTTCATGATTTCATCTAAATAAGTTTCATCCAAAACATTGCCC
1 CAAT-AAAAAAAACATGCAAGATTTCATGATTTCATCCAAATAAGTTTCACCCAAAACATTGCCC
38307481 ATATCAAAAGA
65 ATATCAAAAGA
38307492 GGGATATGCA
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
75 4 0.06
76 67 0.94
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.25
Consensus pattern (75 bp):
CAATAAAAAAAACATGCAAGATTTCATGATTTCATCCAAATAAGTTTCACCCAAAACATTGCCCA
TATCAAAAGA
Found at i:38321560 original size:17 final size:17
Alignment explanation
Indices: 38321538--38321576 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
38321528 AATCACAAAA
38321538 CACAAATGTGAGTTACT
1 CACAAATGTGAGTTACT
38321555 CACAAATGTGAGTTACT
1 CACAAATGTGAGTTACT
38321572 CACAA
1 CACAA
38321577 GGCCAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (17 bp):
CACAAATGTGAGTTACT
Found at i:38325194 original size:20 final size:19
Alignment explanation
Indices: 38325145--38325196 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
38325135 TAACAGATGA
*
38325145 ATCGAAGTGCTAACAGAGGC
1 ATCGAAGTGC-AACAGAAGC
*
38325165 A-CGATTGTGCAATCAGAAGC
1 ATCGA-AGTGCAA-CAGAAGC
38325185 ATCGAAGTGCAA
1 ATCGAAGTGCAA
38325197 ACATAGACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
19 5 0.19
20 18 0.69
21 3 0.12
ACGTcount: A:0.37, C:0.19, G:0.27, T:0.17
Consensus pattern (19 bp):
ATCGAAGTGCAACAGAAGC
Found at i:38325245 original size:20 final size:19
Alignment explanation
Indices: 38325187--38325246 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
38325177 TCAGAAGCAT
* *
38325187 CGAAGTGCAAACATAGACAC
1 CGAAGTGCAAA-AAAGGCAC
* *
38325207 CGAAGTGTAACAAAGGCAC
1 CGAAGTGCAAAAAAGGCAC
*
38325226 TGAAGTGCAAAAAGAGGCAC
1 CGAAGTGCAAAAA-AGGCAC
38325246 C
1 C
38325247 AAATTTCAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (19 bp):
CGAAGTGCAAAAAAGGCAC
Found at i:38326989 original size:42 final size:42
Alignment explanation
Indices: 38326914--38327025 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
38326904 TTGTGCTTGT
* * * * *
38326914 GCCACAAGGGCGTGTGTCCAGGTCGTTTGAGCCACTGACTTGA
1 GCCACAAGGGCGTGTG-CCAGGCCGTGTAAGCCACTGAATTAA
* *
38326957 GGCACACGGGCGTGTGCCAGGCCGTGTAAGCCACTGAATTAA
1 GCCACAAGGGCGTGTGCCAGGCCGTGTAAGCCACTGAATTAA
* **
38326999 TCCACAAGGGCGTGTGTGAGGCCGTGT
1 GCCACAAGGGCGTGTGCCAGGCCGTGT
38327026 GGGCTACATG
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
42 43 0.75
43 14 0.25
ACGTcount: A:0.20, C:0.25, G:0.35, T:0.21
Consensus pattern (42 bp):
GCCACAAGGGCGTGTGCCAGGCCGTGTAAGCCACTGAATTAA
Found at i:38334710 original size:20 final size:20
Alignment explanation
Indices: 38334654--38334773 Score: 100
Period size: 20 Copynumber: 6.0 Consensus size: 20
38334644 AGATGCGTAA
* *
38334654 CAGATGCACCAAAGTGCTGAT
1 CAGAGGCACCAAAGTGC-AAT
* **
38334675 -AGAGGCACGATTGTGCAAT
1 CAGAGGCACCAAAGTGCAAT
*
38334694 CAGAGGCACCAAAGTGCAAA
1 CAGAGGCACCAAAGTGCAAT
* * *
38334714 CATAGACACCAAAGTGTAAT
1 CAGAGGCACCAAAGTGCAAT
* *
38334734 -AGAGGCACTAAAGTGCAAA
1 CAGAGGCACCAAAGTGCAAT
* *
38334753 CAGAGGCACCGAAGTTCAAT
1 CAGAGGCACCAAAGTGCAAT
38334773 C
1 C
38334774 CTGTACAAGC
Statistics
Matches: 75, Mismatches: 22, Indels: 5
0.74 0.22 0.05
Matches are distributed among these distances:
19 16 0.21
20 59 0.79
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (20 bp):
CAGAGGCACCAAAGTGCAAT
Found at i:38335913 original size:43 final size:43
Alignment explanation
Indices: 38335850--38335950 Score: 157
Period size: 43 Copynumber: 2.3 Consensus size: 43
38335840 GACATTGAAA
*
38335850 AAACGCCGCTAAAGATCATGACCTTTAGCGGCACTTTTATAAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTATAAC
* * *
38335893 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTATAAC
*
38335936 AAACGCCACTAAAGA
1 AAACGCCGCTAAAGA
38335951 TCTTAACTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTATAAC
Found at i:38338805 original size:8 final size:8
Alignment explanation
Indices: 38338792--38338816 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
38338782 GGAAAAAAAA
38338792 ATTTAACC
1 ATTTAACC
38338800 ATTTAACC
1 ATTTAACC
38338808 ATTTAACC
1 ATTTAACC
38338816 A
1 A
38338817 AGGGGATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (8 bp):
ATTTAACC
Found at i:38339262 original size:19 final size:19
Alignment explanation
Indices: 38339236--38339282 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
38339226 CTGAAACCAA
38339236 AATTTATAATAGGCATTCT
1 AATTTATAATAGGCATTCT
*
38339255 AGTTTATAATAGGCATTCT
1 AATTTATAATAGGCATTCT
38339274 AATTTATAA
1 AATTTATAA
38339283 CAGATTCCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.43
Consensus pattern (19 bp):
AATTTATAATAGGCATTCT
Found at i:38340875 original size:149 final size:149
Alignment explanation
Indices: 38340573--38340915 Score: 433
Period size: 149 Copynumber: 2.3 Consensus size: 149
38340563 AATGGCACTA
* * *
38340573 TTTTTTACGAAGT-AAATTTTGTTTTGCGGCGTTTTTAATAAAAACGCTGCTATTTCTTACCTTT
1 TTTTTTA--AAGTAAAATTTTGTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTTCTTACCTTT
* * * *
38340637 TGTGTCATTTTTAAGAAAAACGCCGTAAAAAAAATATTTTATTTGGAATAAAACGACACTGTTTT
64 TGCGGCATTTTTAAGAAAAACACCGTAAAAAAAATATTTCATTTGGAATAAAACGACACTGTTTT
* *
38340702 GCTATGATAAAAATGTGTTAT
129 GCTATGATAAAAAGGTGCTAT
* *
38340723 TTTTTTGAGGTAAAATTTTGTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGT-TTACCTTTT
1 TTTTTTAAAGTAAAATTTTGTTTTGTGGCGTTTTTTATAAAAACGCCGCTATT-TCTTACCTTTT
* * * * * *
38340787 GCGGCATTTTTCATAAAAACACCG-CAAAAAATTATTTCATTTGGTATAAAACGGCACTGTTTTG
65 GCGGCATTTTTAAGAAAAACACCGTAAAAAAAATATTTCATTTGGAATAAAACGACACTGTTTTG
* *
38340851 CTATGTTAAAAGGGTGCTATT
130 CTATGATAAAAAGGTGCTA-T
38340872 TTTTTTAAAGTAAAATTATT-TTTTGTGGCGTTTTTTTATAAAAA
1 TTTTTTAAAGTAAAATT-TTGTTTTGTGGCG-TTTTTTATAAAAA
38340916 TGCAACGCCG
Statistics
Matches: 167, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
148 53 0.32
149 92 0.55
150 22 0.13
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.43
Consensus pattern (149 bp):
TTTTTTAAAGTAAAATTTTGTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTTCTTACCTTTTG
CGGCATTTTTAAGAAAAACACCGTAAAAAAAATATTTCATTTGGAATAAAACGACACTGTTTTGC
TATGATAAAAAGGTGCTAT
Found at i:38340934 original size:115 final size:108
Alignment explanation
Indices: 38340783--38341084 Score: 460
Period size: 115 Copynumber: 2.7 Consensus size: 108
38340773 ATTGTTTACC
* * * * * *
38340783 TTTTGCGGCATTTTTCATAAAAACACCGCAAAAAATTATTTCATTTGGTATAAAACGGCACTGTT
1 TTTTGTGGCGTTTTTTATAAAAACGCCGCAAAAAATTATTTCATTTGGAATAAAACGACACTGTT
*
38340848 TTGCTATGTTAAAAGGGTGCTATTTTTTTTAAAGTAAAATTATT
66 TTGCTATGCTAAAAGGGTGCTA-TTTTTTTAAAGTAAAATTATT
38340892 TTTTGTGGCGTTTTTTTATAAAAATGCAACGCCGCAAAAAATTATTTCATTTGGAATAAAACGAC
1 TTTTGTGGCG-TTTTTTAT--AAA---AACGCCGCAAAAAATTATTTCATTTGGAATAAAACGAC
*
38340957 ATTGTTTTGCTATGCTAAAAGGGTGCTATTTTTTTAAAGTAAAATTATT
60 ACTGTTTTGCTATGCTAAAAGGGTGCTATTTTTTTAAAGTAAAATTATT
*
38341006 TTTTGTGGCGTTTTTTATAAAAACGCCGCAAAAAATTATTTCATTTGGAATAAAATGACACTGTT
1 TTTTGTGGCGTTTTTTATAAAAACGCCGCAAAAAATTATTTCATTTGGAATAAAACGACACTGTT
38341071 TTGCTATGCTAAAA
66 TTGCTATGCTAAAA
38341085 ATCTTTTATT
Statistics
Matches: 177, Mismatches: 10, Indels: 13
0.88 0.05 0.06
Matches are distributed among these distances:
108 56 0.32
109 8 0.05
110 7 0.04
111 3 0.02
112 3 0.02
113 8 0.05
114 31 0.18
115 61 0.34
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (108 bp):
TTTTGTGGCGTTTTTTATAAAAACGCCGCAAAAAATTATTTCATTTGGAATAAAACGACACTGTT
TTGCTATGCTAAAAGGGTGCTATTTTTTTAAAGTAAAATTATT
Found at i:38341805 original size:21 final size:20
Alignment explanation
Indices: 38341756--38341805 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
38341746 AACCATAAAT
38341756 CACTAACTCTTAACCCCAAAC
1 CACTAAC-CTTAACCCCAAAC
* * *
38341777 CCCAAACCTTAAACCCCTAAC
1 CACTAACCTT-AACCCCAAAC
38341798 CACTAACC
1 CACTAACC
38341806 CCTAAACCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.16
Consensus pattern (20 bp):
CACTAACCTTAACCCCAAAC
Found at i:38341904 original size:7 final size:7
Alignment explanation
Indices: 38341861--38341911 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
38341851 AATCCTAAAT
*
38341861 CCTAAAC
1 CCTAACC
38341868 CCTAA-C
1 CCTAACC
38341874 CCTAA-C
1 CCTAACC
38341880 CC-AACC
1 CCTAACC
* *
38341886 CCAAATC
1 CCTAACC
38341893 CCTAACC
1 CCTAACC
38341900 CCTAACC
1 CCTAACC
38341907 CCTAA
1 CCTAA
38341912 ACATTATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
5 2 0.05
6 12 0.31
7 25 0.64
ACGTcount: A:0.35, C:0.51, G:0.00, T:0.14
Consensus pattern (7 bp):
CCTAACC
Found at i:38342016 original size:7 final size:7
Alignment explanation
Indices: 38342006--38342059 Score: 81
Period size: 7 Copynumber: 7.7 Consensus size: 7
38341996 CCCTAACTCT
38342006 TAACCTC
1 TAACCTC
38342013 TAACCTC
1 TAACCTC
38342020 TAACCTC
1 TAACCTC
38342027 TAACCTC
1 TAACCTC
*
38342034 TAACCCC
1 TAACCTC
*
38342041 TAACCCC
1 TAACCTC
*
38342048 TAACCCC
1 TAACCTC
38342055 TAACC
1 TAACC
38342060 CATAAACCTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.30, C:0.48, G:0.00, T:0.22
Consensus pattern (7 bp):
TAACCTC
Found at i:38342022 original size:21 final size:20
Alignment explanation
Indices: 38341996--38342071 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 20
38341986 AACCTTAAAT
38341996 CCCTAACTCTTAACCTCTAAC
1 CCCTAAC-CTTAACCTCTAAC
*
38342017 CTCTAACCTCTAACCTCTAAC
1 CCCTAACCT-TAACCTCTAAC
* *
38342038 CCCTAACCCCTAACCCCTAAC
1 CCCTAA-CCTTAACCTCTAAC
*
38342059 CCATAAACCTTAA
1 CCCT-AACCTTAA
38342072 ATCACAACCC
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
20 2 0.04
21 40 0.87
22 4 0.09
ACGTcount: A:0.32, C:0.45, G:0.00, T:0.24
Consensus pattern (20 bp):
CCCTAACCTTAACCTCTAAC
Found at i:38342023 original size:14 final size:14
Alignment explanation
Indices: 38341996--38342059 Score: 85
Period size: 14 Copynumber: 4.6 Consensus size: 14
38341986 AACCTTAAAT
38341996 CCCTAA-CTCTTAAC
1 CCCTAACCTC-TAAC
*
38342010 CTCTAACCTCTAAC
1 CCCTAACCTCTAAC
*
38342024 CTCTAACCTCTAAC
1 CCCTAACCTCTAAC
*
38342038 CCCTAACCCCTAAC
1 CCCTAACCTCTAAC
38342052 CCCTAACC
1 CCCTAACC
38342060 CATAAACCTT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
14 43 0.93
15 3 0.07
ACGTcount: A:0.28, C:0.48, G:0.00, T:0.23
Consensus pattern (14 bp):
CCCTAACCTCTAAC
Found at i:38342060 original size:7 final size:7
Alignment explanation
Indices: 38341996--38342060 Score: 76
Period size: 7 Copynumber: 9.3 Consensus size: 7
38341986 AACCTTAAAT
38341996 CCCTAAC
1 CCCTAAC
* *
38342003 TCTTAAC
1 CCCTAAC
*
38342010 CTCTAAC
1 CCCTAAC
*
38342017 CTCTAAC
1 CCCTAAC
*
38342024 CTCTAAC
1 CCCTAAC
*
38342031 CTCTAAC
1 CCCTAAC
38342038 CCCTAAC
1 CCCTAAC
38342045 CCCTAAC
1 CCCTAAC
38342052 CCCTAAC
1 CCCTAAC
38342059 CC
1 CC
38342061 ATAAACCTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.28, C:0.49, G:0.00, T:0.23
Consensus pattern (7 bp):
CCCTAAC
Found at i:38342188 original size:29 final size:29
Alignment explanation
Indices: 38342155--38342212 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
38342145 TCTTAAACTG
38342155 GCCCTAAATCCTAAATTAACCATATATAT
1 GCCCTAAATCCTAAATTAACCATATATAT
38342184 GCCCTAAATCCTAAATTAACCATATATAT
1 GCCCTAAATCCTAAATTAACCATATATAT
38342213 ACTCTAAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.31
Consensus pattern (29 bp):
GCCCTAAATCCTAAATTAACCATATATAT
Found at i:38342219 original size:29 final size:29
Alignment explanation
Indices: 38342156--38342220 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
38342146 CTTAAACTGG
*
38342156 CCCTAAATCCTAAATTAACCATATATATG
1 CCCTAAATCCTAAATTAACCATATATATA
38342185 CCCTAAATCCTAAATTAACCATATATATA
1 CCCTAAATCCTAAATTAACCATATATATA
*
38342214 CTCTAAA
1 CCCTAAA
38342221 CCATATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.43, C:0.25, G:0.02, T:0.31
Consensus pattern (29 bp):
CCCTAAATCCTAAATTAACCATATATATA
Found at i:38342669 original size:41 final size:40
Alignment explanation
Indices: 38342560--38342673 Score: 140
Period size: 41 Copynumber: 2.8 Consensus size: 40
38342550 AAATGTTTTT
*
38342560 GCGGCGCTTTTCAAAAAATGCCGCTAAAGCCCCAGCATTA
1 GCGGCGCTTTTCCAAAAATGCCGCTAAAGCCCCAGCATTA
* * **
38342600 GCGGCG-TTTTCCAAGAAATGCCGTTAAAGATCTGAGCATTA
1 GCGGCGCTTTTCCAA-AAATGCCGCTAAAG-CCCCAGCATTA
**
38342641 GCGGCGCTTTTCCAAAACCGCCGCTAAAGCCCC
1 GCGGCGCTTTTCCAAAAATGCCGCTAAAGCCCC
38342674 GAAAGGTAGA
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
39 7 0.12
40 20 0.33
41 25 0.42
42 8 0.13
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (40 bp):
GCGGCGCTTTTCCAAAAATGCCGCTAAAGCCCCAGCATTA
Found at i:38357884 original size:15 final size:15
Alignment explanation
Indices: 38357854--38357899 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
38357844 AAAATCAGGG
*
38357854 GAAGACAAAA-GATT
1 GAAGATAAAATGATT
38357868 G-AGATTAAAATGATT
1 GAAGA-TAAAATGATT
38357883 GAAGATAAAGATGATT
1 GAAGATAAA-ATGATT
38357899 G
1 G
38357900 GTTGATCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 3 0.11
14 5 0.19
15 9 0.33
16 10 0.37
ACGTcount: A:0.50, C:0.02, G:0.24, T:0.24
Consensus pattern (15 bp):
GAAGATAAAATGATT
Found at i:38358803 original size:6 final size:6
Alignment explanation
Indices: 38358792--38358816 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
38358782 TTTATTTGTG
38358792 TCATGT TCATGT TCATGT TCATGT T
1 TCATGT TCATGT TCATGT TCATGT T
38358817 TTTCTTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TCATGT
Found at i:38364625 original size:123 final size:124
Alignment explanation
Indices: 38364452--38364684 Score: 346
Period size: 123 Copynumber: 1.9 Consensus size: 124
38364442 AAAAATCATT
* * *
38364452 TTTATCCGGCTATAAACTAATTTATACTTCCCTTTTATTGTTTTTCTTTCCATATTTTGAATTTT
1 TTTATCCAGCAATAAACTAATTTACACTTCCCTTTTATTGTTTTTCTTTCCATATTTTGAATTTT
*
38364517 ATTACTATCATATTAGGAAAATAAAATAT-CATTTTTTAAGAAAATGATTACACTACTG
66 ATTACTATCATATTAGGAAAATAAAATATCCATTTTTTAAAAAAATGATTACACTACTG
* *
38364575 TTTATCCAGCAATAAACTAATTTACACTTCCTTTTTATT-TTTCATT-TTTCCTTATTTTGAATT
1 TTTATCCAGCAATAAACTAATTTACACTTCCCTTTTATTGTTT--TTCTTTCCATATTTTGAATT
* * *
38364638 TTATTACTATTATATTAGGAAAGTAAAATATCCCTTTTTTAAAAAAA
64 TTATTACTATCATATTAGGAAAATAAAATATCCATTTTTTAAAAAAA
38364685 AAAGTAGTTA
Statistics
Matches: 98, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
122 3 0.03
123 80 0.82
124 15 0.15
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (124 bp):
TTTATCCAGCAATAAACTAATTTACACTTCCCTTTTATTGTTTTTCTTTCCATATTTTGAATTTT
ATTACTATCATATTAGGAAAATAAAATATCCATTTTTTAAAAAAATGATTACACTACTG
Found at i:38369245 original size:15 final size:15
Alignment explanation
Indices: 38369225--38369258 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
38369215 ATTTACTTTC
*
38369225 AATAAATTGGTTATT
1 AATAAATTGGTGATT
38369240 AATAAATTGGTGATT
1 AATAAATTGGTGATT
38369255 AATA
1 AATA
38369259 TATAGGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (15 bp):
AATAAATTGGTGATT
Found at i:38392449 original size:21 final size:21
Alignment explanation
Indices: 38392414--38392480 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
38392404 GTGAATATCT
*
38392414 ACACACCCATGTGAAAGAGGC
1 ACACGCCCATGTGAAAGAGGC
* * *
38392435 ACACGCCCCTTTGAAAGAAGC
1 ACACGCCCATGTGAAAGAGGC
*
38392456 ATACGCCCATGTGAAAAGAGGC
1 ACACGCCCATGTG-AAAGAGGC
38392478 ACA
1 ACA
38392481 TGGCCGTGTG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
21 27 0.75
22 9 0.25
ACGTcount: A:0.37, C:0.28, G:0.22, T:0.12
Consensus pattern (21 bp):
ACACGCCCATGTGAAAGAGGC
Found at i:38393316 original size:7 final size:7
Alignment explanation
Indices: 38393298--38393339 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
38393288 TTCCCAAGTA
38393298 AAATAA-
1 AAATAAT
38393304 AAATAAT
1 AAATAAT
38393311 AAATAAT
1 AAATAAT
38393318 AAATAGAT
1 AAATA-AT
*
38393326 AAAAATAT
1 AAATA-AT
38393334 AAATAA
1 AAATAA
38393340 GTAACTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
6 6 0.19
7 13 0.42
8 12 0.39
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (7 bp):
AAATAAT
Found at i:38393320 original size:16 final size:17
Alignment explanation
Indices: 38393299--38393339 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
38393289 TCCCAAGTAA
38393299 AATAAA-AATAATAAAT
1 AATAAATAATAATAAAT
38393315 AATAAATAGATAA-AAAT
1 AATAAATA-ATAATAAAT
38393332 -ATAAATAA
1 AATAAATAA
38393340 GTAACTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 13 0.57
17 5 0.22
18 4 0.17
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AATAAATAATAATAAAT
Found at i:38405747 original size:52 final size:51
Alignment explanation
Indices: 38405686--38405816 Score: 185
Period size: 50 Copynumber: 2.6 Consensus size: 51
38405676 TGAACAAATC
*
38405686 AGTTACATAATGCATGACTTAATTTAATGATGCAAACTTTAAATAACATGGG
1 AGTTACATAATGCATGACTTAATTTAATGATGCAAAC-TTAAATAACATGAG
* *
38405738 AGTTACATAATGCAT-ATCATAATTT-ATGATGCAAACTTAACTAACATGAG
1 AGTTACATAATGCATGA-CTTAATTTAATGATGCAAACTTAAATAACATGAG
* *
38405788 AGTTACATAATGCATGACTTTATTAAATG
1 AGTTACATAATGCATGACTTAATTTAATG
38405817 CAGAACGCAT
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
50 32 0.46
51 16 0.23
52 22 0.31
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (51 bp):
AGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAAATAACATGAG
Found at i:38410320 original size:17 final size:17
Alignment explanation
Indices: 38410298--38410334 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
38410288 AATTATATAA
38410298 AAATAAATAATG-AAAAT
1 AAATAAATAA-GAAAAAT
38410315 AAATAAATAAGAAAAAT
1 AAATAAATAAGAAAAAT
38410332 AAA
1 AAA
38410335 AAAACGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (17 bp):
AAATAAATAAGAAAAAT
Found at i:38417390 original size:13 final size:13
Alignment explanation
Indices: 38417372--38417397 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38417362 AGGAGCAACA
38417372 GGAACTCCCACTT
1 GGAACTCCCACTT
38417385 GGAACTCCCACTT
1 GGAACTCCCACTT
38417398 TAATAGGCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.23
Consensus pattern (13 bp):
GGAACTCCCACTT
Found at i:38419246 original size:26 final size:26
Alignment explanation
Indices: 38419197--38419246 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
38419187 ACCTAAGTCC
*
38419197 ATAACAGAAACAGACATCAGAATCAG
1 ATAACAGAAACAGACATCAAAATCAG
*
38419223 ATAACAG-ATCAGACATACAAAATC
1 ATAACAGAAACAGACAT-CAAAATC
38419247 CTACCCCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.54, C:0.20, G:0.12, T:0.14
Consensus pattern (26 bp):
ATAACAGAAACAGACATCAAAATCAG
Found at i:38420800 original size:29 final size:29
Alignment explanation
Indices: 38420749--38420836 Score: 72
Period size: 29 Copynumber: 3.1 Consensus size: 29
38420739 GGACATTACA
* * * *
38420749 ACTGGTACACAGTACCTAGAACTGTAATC
1 ACTGGCACAAAGTACTTGGAACTGTAATC
* * *
38420778 A-TGGGCACAGAGTTCTTGGAACTATAA-C
1 ACT-GGCACAAAGTACTTGGAACTGTAATC
* *
38420806 ACTGGTACAAAGTACTTGAAACTGTAATC
1 ACTGGCACAAAGTACTTGGAACTGTAATC
38420835 AC
1 AC
38420837 CTGCAACTAG
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
28 22 0.49
29 23 0.51
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (29 bp):
ACTGGCACAAAGTACTTGGAACTGTAATC
Found at i:38425162 original size:24 final size:24
Alignment explanation
Indices: 38425135--38425181 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
38425125 CAAAGGCTTA
38425135 ACCTTTAATTCAGCTAAAATAAAC
1 ACCTTTAATTCAGCTAAAATAAAC
38425159 ACCTTTAATTCAGCTAAAATAAA
1 ACCTTTAATTCAGCTAAAATAAA
38425182 ACCGTCACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.30
Consensus pattern (24 bp):
ACCTTTAATTCAGCTAAAATAAAC
Found at i:38425193 original size:24 final size:24
Alignment explanation
Indices: 38425141--38425193 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
38425131 CTTAACCTTT
* *
38425141 AATTCAGCTAAAATAAACACCTTT
1 AATTCAGCTAAAATAAACACCGTC
38425165 AATTCAGCTAAAATAAA-ACCGTC
1 AATTCAGCTAAAATAAACACCGTC
38425188 ACATTC
1 A-ATTC
38425194 CAACTTAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.26
Consensus pattern (24 bp):
AATTCAGCTAAAATAAACACCGTC
Found at i:38427488 original size:25 final size:25
Alignment explanation
Indices: 38427450--38427516 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
38427440 TCCTATACAT
* * *
38427450 GTATGCTCATACGAGCTGTAGATTG
1 GTATGCTCACACGAGCTATAGATCG
*
38427475 GTATGCTCACACGAGATATAGATCG
1 GTATGCTCACACGAGCTATAGATCG
* *
38427500 GTATGCTCTCATGAGCT
1 GTATGCTCACACGAGCT
38427517 TTGGGTCAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (25 bp):
GTATGCTCACACGAGCTATAGATCG
Found at i:38430480 original size:33 final size:32
Alignment explanation
Indices: 38430443--38430593 Score: 125
Period size: 33 Copynumber: 4.6 Consensus size: 32
38430433 TACGGTGGGT
38430443 TCAGCACTTAGCAACCGCCAATGATTCGGGGAA
1 TCAGCACTTAGCAACC-CCAATGATTCGGGGAA
38430476 TCAGCACTTAGCAACCCC------TCGGGGAA
1 TCAGCACTTAGCAACCCCAATGATTCGGGGAA
*
38430502 TCAGCACTTAGCAACCCCTTCACATTTCAGATGCGGTGGAA
1 TCAGCACTTAGCAA-CCC--CA-A--T--GATTCGG-GGAA
* *
38430543 TCAGCACTTAGCAACCACCAATGAATAGGGGAA
1 TCAGCACTTAGCAACC-CCAATGATTCGGGGAA
*
38430576 TTAGCACTTAGCAACCCC
1 TCAGCACTTAGCAACCCC
38430594 TCGGGGGAAC
Statistics
Matches: 97, Mismatches: 5, Indels: 33
0.72 0.04 0.24
Matches are distributed among these distances:
26 22 0.23
27 3 0.03
29 1 0.01
32 4 0.04
33 35 0.36
34 4 0.04
36 1 0.01
38 1 0.01
39 2 0.02
40 5 0.05
41 19 0.20
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (32 bp):
TCAGCACTTAGCAACCCCAATGATTCGGGGAA
Found at i:38430497 original size:26 final size:26
Alignment explanation
Indices: 38430468--38430520 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
38430458 CGCCAATGAT
38430468 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACTTAGCAACCCC
38430494 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACTTAGCAACCCC
38430520 T
1 T
38430521 TCACATTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (26 bp):
TCGGGGAATCAGCACTTAGCAACCCC
Found at i:38430677 original size:103 final size:102
Alignment explanation
Indices: 38430395--38430723 Score: 464
Period size: 103 Copynumber: 3.2 Consensus size: 102
38430385 CCAATGAATC
** ** *
38430395 GGGGAATCAGCACACAGCAACCCCTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCG
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
*
38430460 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTC-
66 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCG
* *
38430496 GGGGAATCAGCACTTAGCAACCCC-TTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
* *
38430560 CCAATGAATAGGGGAATTAGCACTTAGCAACCCCTCG
66 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCG
* * * *
38430597 GGGGAACCAGCACTTCGCAACCCCTTTTCACATTTAAAATAAGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCC-TTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACC
* * ** *
38430662 ACCGATAAATCGGGGAATCAGCACACAGCAACCCCTTG
65 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCG
38430700 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
38430724 CTTTATATGC
Statistics
Matches: 200, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
100 68 0.34
101 44 0.22
103 88 0.44
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCG
Found at i:38430684 original size:33 final size:27
Alignment explanation
Indices: 38430642--38430723 Score: 83
Period size: 27 Copynumber: 2.8 Consensus size: 27
38430632 AAAATAAGGT
38430642 GGAATCAGCACTTAGCAACCACCGATAAATCGG
1 GGAATCAGCACTTAGCAACC-CC--T---TCGG
** *
38430675 GGAATCAGCACACAGCAACCCCTTGGG
1 GGAATCAGCACTTAGCAACCCCTTCGG
38430702 GGAATCAGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
38430724 CTTTATATGC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 23 0.52
30 1 0.02
32 2 0.05
33 18 0.41
ACGTcount: A:0.33, C:0.32, G:0.22, T:0.13
Consensus pattern (27 bp):
GGAATCAGCACTTAGCAACCCCTTCGG
Found at i:38433640 original size:22 final size:22
Alignment explanation
Indices: 38433615--38433658 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
38433605 GATCAGTGAA
38433615 GATTCAGCACTTTACACCATAC
1 GATTCAGCACTTTACACCATAC
* *
38433637 GATTCGGCACTTTTCACCATAC
1 GATTCAGCACTTTACACCATAC
38433659 AAATAATGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.32, G:0.11, T:0.30
Consensus pattern (22 bp):
GATTCAGCACTTTACACCATAC
Found at i:38438262 original size:103 final size:103
Alignment explanation
Indices: 38437978--38438312 Score: 494
Period size: 102 Copynumber: 3.3 Consensus size: 103
38437968 CCAATGAATC
** * **
38437978 GGGGAATCAGCACACAGCAA-CCCCTTTCACATTTAAGATATGGTGGGTTCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACC
* * *
38438042 ACCAATGATTCAGGGAATCAGTACTTAGCAACCCCTCG
66 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCG
* *
38438080 GGGGAATCAGCACTTAGCAACCCCC-TTCACATTTCAGATTCGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACC
* *
38438144 ACCAATGAATAGGGGAATTAGCACTTAGCAACCCCTCG
66 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCG
* *
38438182 GGGGAACCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACC
** *
38438247 ACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTG
66 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCG
*
38438285 GGGGAATCAACACTTAGCAACCCCCTTT
1 GGGGAATCAGCACTTAGCAACCCCCTTT
38438313 ATATGCAATA
Statistics
Matches: 208, Mismatches: 23, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
102 109 0.52
103 99 0.48
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACC
ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCG
Found at i:38445970 original size:29 final size:29
Alignment explanation
Indices: 38445878--38445970 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
38445868 TATGGTATCC
* *
38445878 ATCACCGGTACATAGTACCTGAAACTATA
1 ATCACTGGTACAAAGTACCTGAAACTATA
* * *
38445907 ATCA-TGG-ACACAGAGTGCTTGGAACTATA
1 ATCACTGGTACA-A-AGTACCTGAAACTATA
* *
38445936 A-CACTGGTACAAAGTATCTGAAACTCTA
1 ATCACTGGTACAAAGTACCTGAAACTATA
38445964 ATCACTG
1 ATCACTG
38445971 AAAACTAGTA
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
27 3 0.06
28 16 0.33
29 27 0.55
30 3 0.06
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.25
Consensus pattern (29 bp):
ATCACTGGTACAAAGTACCTGAAACTATA
Found at i:38446843 original size:12 final size:12
Alignment explanation
Indices: 38446826--38446851 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38446816 CTCAACAATG
38446826 TTGTTTTTTTCT
1 TTGTTTTTTTCT
38446838 TTGTTTTTTTCT
1 TTGTTTTTTTCT
38446850 TT
1 TT
38446852 TTAGAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (12 bp):
TTGTTTTTTTCT
Found at i:38449469 original size:27 final size:27
Alignment explanation
Indices: 38449438--38449615 Score: 207
Period size: 27 Copynumber: 6.6 Consensus size: 27
38449428 TAAATTGTAC
38449438 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
38449465 TGCACTAAGTGTGCGAAATGAAC-ATG-
1 AGCACTAAGTGTGCGATTTG-ACTATGT
* * *
38449491 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
38449519 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
38449547 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38449574 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38449601 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38449616 GACTCGATAT
Statistics
Matches: 132, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.02
27 103 0.78
28 27 0.20
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38449605 original size:82 final size:81
Alignment explanation
Indices: 38449435--38449615 Score: 231
Period size: 82 Copynumber: 2.2 Consensus size: 81
38449425 GATTAAATTG
*
38449435 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAACATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
38449500 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* ** *
38449516 TGCAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACATGATGCAC
* **
38449579 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
38449598 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38449616 GACTCGATAT
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
81 18 0.21
82 64 0.74
83 1 0.01
84 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38457676 original size:26 final size:26
Alignment explanation
Indices: 38457643--38457810 Score: 175
Period size: 26 Copynumber: 6.5 Consensus size: 26
38457633 ATTAATGTAC
38457643 AGCACTAAGTGTGCGATTGACTATGT
1 AGCACTAAGTGTGCGATTGACTATGT
* *
38457669 TGCACTAAGTGTGCGAAATGAC-ATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
38457694 AG-ACTAAGTG-GCGAATTGACCATGC
1 AGCACTAAGTGTGCG-ATTGACTATGT
*
38457719 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
38457747 AGCACTAAGTGTGCGATTGATTACGT
1 AGCACTAAGTGTGCGATTGACTATGT
*
38457773 AGCACTAAGTGTGCGAGTTGA-TATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
38457799 AGCACTGAGTGT
1 AGCACTAAGTGT
38457811 CGGACTCGAA
Statistics
Matches: 121, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
23 9 0.07
24 11 0.09
25 2 0.02
26 64 0.53
27 12 0.10
28 23 0.19
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:38457702 original size:50 final size:54
Alignment explanation
Indices: 38457643--38457810 Score: 179
Period size: 50 Copynumber: 3.2 Consensus size: 54
38457633 ATTAATGTAC
*
38457643 AGCACTAAGTGTGCGATTGACTATGTTGCACTAAGTGTGCGA-AATGAC-ATG-
1 AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAGAATGACTATGT
* ** **
38457694 AG-ACTAAGTG-GCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGAGAATGACTATGT
* * * *
38457747 AGCACTAAGTGTGCGATTGATTACGTAGCACTAAGTGTGCGAG-TTGA-TATAT
1 AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAGAATGACTATGT
*
38457799 AGCACTGAGTGT
1 AGCACTAAGTGT
38457811 CGGACTCGAA
Statistics
Matches: 99, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
49 3 0.03
50 32 0.32
51 6 0.06
52 18 0.18
53 6 0.06
54 31 0.31
55 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAGAATGACTATGT
Found at i:38473921 original size:27 final size:27
Alignment explanation
Indices: 38473890--38474067 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
38473880 TAAATTGTAC
38473890 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
38473917 TGCACTAAGTGTGCGAAATGAAC-ATG-
1 AGCACTAAGTGTGCGATTTG-ACTATGT
* * *
38473943 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
38473971 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
38473999 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38474026 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38474053 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38474068 GACTCATATA
Statistics
Matches: 130, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
26 2 0.02
27 103 0.79
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38474058 original size:82 final size:81
Alignment explanation
Indices: 38473887--38474067 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
38473877 GATTAAATTG
*
38473887 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAACATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
38473952 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
38473968 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACATGATGCAC
* **
38474031 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
38474050 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38474068 GACTCATATA
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 17 0.20
82 63 0.75
83 1 0.01
84 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38480931 original size:26 final size:26
Alignment explanation
Indices: 38480902--38480955 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
38480892 GATACAAGTG
*
38480902 TTTTGTTTTATCCTCTTTTTATTAAA
1 TTTTGTTTTATCCTCTTTTTACTAAA
38480928 TTTTGTTTTATCCTCTTTTTACTAAA
1 TTTTGTTTTATCCTCTTTTTACTAAA
38480954 TT
1 TT
38480956 AACCAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.13, G:0.04, T:0.65
Consensus pattern (26 bp):
TTTTGTTTTATCCTCTTTTTACTAAA
Found at i:38481363 original size:29 final size:29
Alignment explanation
Indices: 38481330--38481392 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
38481320 AGAAGAAACT
*
38481330 AAATTAATTAATTTTAATATCATGGTAAC
1 AAATTAATTAATTTTAATATCATAGTAAC
38481359 AAATTAATTAATTTTAATATCATAGTAAC
1 AAATTAATTAATTTTAATATCATAGTAAC
38481388 AAATT
1 AAATT
38481393 GAGTGACATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (29 bp):
AAATTAATTAATTTTAATATCATAGTAAC
Found at i:38481451 original size:17 final size:16
Alignment explanation
Indices: 38481426--38481459 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38481416 TTAATAATTT
38481426 ATTTAATTAATTTAAAA
1 ATTTAATT-ATTTAAAA
*
38481443 ATTTTATTATTTAAAA
1 ATTTAATTATTTAAAA
38481459 A
1 A
38481460 AAATATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTAATTATTTAAAA
Found at i:38512554 original size:40 final size:40
Alignment explanation
Indices: 38512456--38512757 Score: 378
Period size: 40 Copynumber: 7.6 Consensus size: 40
38512446 TCCTCGTTCA
* * * * *
38512456 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
38512495 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
38512535 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38512575 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
38512615 AATGCCTTC-GGACTTAACCCGGATATAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
38512654 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
38512694 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
38512734 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38512758 CAGCATTCAA
Statistics
Matches: 236, Mismatches: 22, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
39 75 0.32
40 153 0.65
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:38512557 original size:79 final size:79
Alignment explanation
Indices: 38512456--38512757 Score: 365
Period size: 79 Copynumber: 3.8 Consensus size: 79
38512446 TCCTCGTTCA
* * * * * *
38512456 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTC-GGACTTAACCCGGATATAATAACTCACACGAATGCCTTCGGGACTTAACCCGGAT
*
38512520 TTAACAACTCGCACG
65 TTAATAACTCGCACG
* * *
38512535 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTC-GGACTTAACCCGGATATAATAACTCACACGAATGCCTTCGGGACTTAACCCGGAT
38512600 TTAATAACTCGCACG
65 TTAATAACTCGCACG
*
38512615 AATGCCTTCGGACTTAACCCGGATATAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGACTTAACCCGGATATAATAACTCACACGAATGCCTTCGGGACTTAACCCGGATT
* * *
38512680 TAGTATCTCGCACA
66 TAATAACTCGCACG
* * * * * * *
38512694 AAGGCCTTCGGATCTTAATCCGGATATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGA-CTTAACCCGGATATAATAACTCA-CACGAATGCCTTCGGGACTTAACCCGGA
38512758 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
79 109 0.55
80 87 0.44
81 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGACTTAACCCGGATATAATAACTCACACGAATGCCTTCGGGACTTAACCCGGATT
TAATAACTCGCACG
Found at i:38512633 original size:119 final size:119
Alignment explanation
Indices: 38512454--38512757 Score: 378
Period size: 119 Copynumber: 2.5 Consensus size: 119
38512444 GCTCCTCGTT
* * * *
38512454 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGA
*
38512519 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
66 TATAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * *
38512573 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTC-GGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCACAC-AATGCCTTCGGGACATAACCCGG
* ** *
38512637 ATATAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
65 ATATAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * * * * * * * *
38512692 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAACTCA-CACAATGCCTTCGGGACATAACCCG
38512756 GA
64 GA
38512758 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
118 3 0.02
119 131 0.82
120 25 0.16
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGA
TATAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
Found at i:38529090 original size:47 final size:47
Alignment explanation
Indices: 38528926--38529105 Score: 240
Period size: 47 Copynumber: 3.8 Consensus size: 47
38528916 NNNNNNNNNN
* *
38528926 GCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAAGGCCGAATG
1 GCCAATGTGATGAATGTGAACATGTATATATGTGAT-AAGGCCGAATG
* * *
38528974 GCCAATGTAATGAATGTGAACATGCATATATGAGATAAGGCCGAAT-
1 GCCAATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATG
38529020 GCCAATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATG
1 GCCAATGTGATGAATGTGAACA-TGTATATATGTGATAAGGCCGAATG
* * *
38529067 GCCAATGTGATGGATGTGGAA-GTGTATAAATGTGATAAG
1 GCCAATGTGATGAATGT-GAACATGTATATATGTGATAAG
38529106 TTCCGAAGGC
Statistics
Matches: 118, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
45 1 0.01
46 41 0.35
47 42 0.36
48 34 0.29
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.27
Consensus pattern (47 bp):
GCCAATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATG
Found at i:38532834 original size:26 final size:26
Alignment explanation
Indices: 38532805--38532912 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
38532795 TGGTACAAAT
38532805 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
38532831 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38532857 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
38532883 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38532909 TGAT
1 TGAT
38532913 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:38538538 original size:120 final size:120
Alignment explanation
Indices: 38538290--38538588 Score: 372
Period size: 120 Copynumber: 2.5 Consensus size: 120
38538280 CCAGCATGAT
* * * *
38538290 TGCTCTTTGGGATTTAGCACGGATATATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
* * ** **
38538355 CATCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAA
66 CATCACTAGCATGAATGCACTTCGGGACTTAGCCCGGATACATAACTAGCACCAA
38538410 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
** *
38538475 CATCACTAGCATGAATGCACTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
66 CATCACTAGCATGAATGCACTTCGGGACTTAGCCCGGATACA-TAACTAGCACCAA
* ** * *
38538531 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGC-CTTCGGGACTTAGCC
1 TGCTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCATGAATGCTCTTCGGGACTTAGCC
38538589 TGGACATCAT
Statistics
Matches: 157, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
119 3 0.02
120 130 0.83
121 19 0.12
122 5 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (120 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
CATCACTAGCATGAATGCACTTCGGGACTTAGCCCGGATACATAACTAGCACCAA
Found at i:38538539 original size:40 final size:40
Alignment explanation
Indices: 38538277--38538513 Score: 393
Period size: 40 Copynumber: 5.9 Consensus size: 40
38538267 CGAATACACG
* * * * * *
38538277 TCACCAGCATGATTGCTCTTTGGGATTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
38538317 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
38538357 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
38538397 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
38538437 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
38538477 TCACTAGCATGAATGCACTTCGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
38538514 TTAGTAACTC
Statistics
Matches: 188, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 188 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:38538586 original size:40 final size:40
Alignment explanation
Indices: 38538298--38538588 Score: 311
Period size: 40 Copynumber: 7.3 Consensus size: 40
38538288 ATTGCTCTTT
* * * * *
38538298 GGGATTTAGCACGGATATATCACTAGCATGAATGCTCTTC
1 GGGACTTAGCCCGGATACATCACTAGCATCAATGCACTTC
* * *
38538338 GGGACTTAGCCCGGATACATCGCTAGCATGAATGCTCTTC
1 GGGACTTAGCCCGGATACATCACTAGCATCAATGCACTTC
* * *
38538378 GGGACTTAGCCCGGATACATCGCTAGCATGAATGCTCTTC
1 GGGACTTAGCCCGGATACATCACTAGCATCAATGCACTTC
* *
38538418 GGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTC
1 GGGACTTAGCCCGGATACATCACTAGCATCAATGCACTTC
*
38538458 GGGACTTAGCCCGGATACATCACTAGCATGAATGCACTTC
1 GGGACTTAGCCCGGATACATCACTAGCATCAATGCACTTC
** * * *
38538498 GGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTC
1 GGGACTTAGCCCGGATACA-TCACTAGCATCAATGCACTTC
* ** *
38538538 -GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGC-CTTC
1 GGGA-CTTAGCCCGGATA-CATCAC-TAGCATCAATGCACTTC
38538578 GGGACTTAGCC
1 GGGACTTAGCC
38538589 TGGACATCAT
Statistics
Matches: 226, Mismatches: 20, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.01
40 204 0.90
41 19 0.08
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
GGGACTTAGCCCGGATACATCACTAGCATCAATGCACTTC
Found at i:38538936 original size:29 final size:29
Alignment explanation
Indices: 38538897--38538975 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
38538887 CTTAATAATC
*
38538897 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
38538927 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
38538956 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
38538976 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:38539006 original size:43 final size:43
Alignment explanation
Indices: 38538958--38539102 Score: 272
Period size: 43 Copynumber: 3.4 Consensus size: 43
38538948 GCATTTCAAG
*
38538958 CCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATTA
1 CCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTA
38539001 CCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTA
1 CCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTA
*
38539044 CCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTG
1 CCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTA
38539087 CCCGCACACTTAGTGC
1 CCCGCACACTTAGTGC
38539103 TGAAAACCAA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.29, C:0.36, G:0.12, T:0.23
Consensus pattern (43 bp):
CCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTA
Found at i:38541234 original size:47 final size:47
Alignment explanation
Indices: 38541156--38541516 Score: 544
Period size: 47 Copynumber: 7.6 Consensus size: 47
38541146 CCCTTCGGGA
* * * * * *
38541156 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38541202 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38541250 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38541297 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38541344 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38541391 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38541442 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38541491 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
38541517 CACAATTATC
Statistics
Matches: 291, Mismatches: 16, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
46 2 0.01
47 194 0.67
48 2 0.01
49 47 0.16
51 46 0.16
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38545339 original size:120 final size:120
Alignment explanation
Indices: 38545094--38545393 Score: 380
Period size: 120 Copynumber: 2.5 Consensus size: 120
38545084 CCAGCATGAT
* *
38545094 TGCTCTT-GGGA-TTAGCACGGATATATCACTAGCATGAATGCTCTTCGGGACTTAG-CCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
* * **
38545156 CATCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
66 CATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATAACTAGCACCAA
38545211 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
** *
38545276 CATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
66 CATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA-TAACTAGCACCAA
* * ** **
38545332 TGC-CTTC-GGATCTTAGTCCGAATATGGTCACTTAGCACAAAT-C-CTTCGGGACTTAGCCCGG
1 TGCTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGG
38545393 A
63 A
38545394 CATCATTCGA
Statistics
Matches: 161, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
117 7 0.04
118 4 0.02
119 45 0.28
120 80 0.50
121 17 0.11
122 8 0.05
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (120 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
CATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATAACTAGCACCAA
Found at i:38545340 original size:40 final size:40
Alignment explanation
Indices: 38545081--38545314 Score: 402
Period size: 40 Copynumber: 5.9 Consensus size: 40
38545071 CGAATACACG
* * * *
38545081 TCACCAGCATGATTGCTCTT-GGGA-TTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
38545119 TCACTAGCATGAATGCTCTTCGGGACTTAG-CCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
38545158 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
38545198 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
38545238 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
38545278 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
38545315 TTAGTAACTC
Statistics
Matches: 187, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
38 18 0.10
39 40 0.21
40 129 0.69
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:38545736 original size:29 final size:29
Alignment explanation
Indices: 38545697--38545774 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
38545687 CTTAATAATC
*
38545697 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
38545727 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
38545756 AGCCCGCA-ACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
38545775 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 14 0.33
29 26 0.60
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:38545812 original size:43 final size:43
Alignment explanation
Indices: 38545758--38545944 Score: 340
Period size: 43 Copynumber: 4.4 Consensus size: 43
38545748 GCATTTCAAG
38545758 CCCGCA-ACTTAGTGCCAATCTCACAACCATGAACACTTATTA
1 CCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATTA
38545800 CCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATTA
1 CCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATTA
*
38545843 CCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTA
1 CCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATTA
* *
38545886 CCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTG
1 CCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATTA
38545929 CCCGCACACTTAGTGC
1 CCCGCACACTTAGTGC
38545945 TGAAAACCAA
Statistics
Matches: 142, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
42 6 0.04
43 136 0.96
ACGTcount: A:0.30, C:0.35, G:0.12, T:0.23
Consensus pattern (43 bp):
CCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATTA
Found at i:38547747 original size:40 final size:40
Alignment explanation
Indices: 38547649--38547951 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
38547639 TCCTCGTTCA
* * * * * *
38547649 AATGCCTTTGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
38547688 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38547728 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38547768 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38547808 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
38547848 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
38547888 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
38547928 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38547952 CAGCATTCAA
Statistics
Matches: 239, Mismatches: 21, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
39 36 0.15
40 195 0.82
41 8 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:38551305 original size:25 final size:25
Alignment explanation
Indices: 38551277--38551687 Score: 152
Period size: 25 Copynumber: 16.3 Consensus size: 25
38551267 GTTACATAAT
* *
38551277 TTATGTATTAAGTAAATTATTTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
38551302 TTATGTACGTGT-A-TAAGTTATGTAAG
1 TTATGTA--T-TAAGTAAGTTATGTAAG
*
38551328 TTATGTATTAAGTAAGCTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* * * *
38551353 TTGTGTATTATGTAACTTATGTTAG
1 TTATGTATTAAGTAAGTTATGTAAG
** ** *
38551378 TTATCAAAGAAATGTATGTTATGTAAG
1 TTAT-GTATTAA-GTAAGTTATGTAAG
* *
38551405 -T-TGTAAGTTATGT-A-TTATGTAAC
1 TTATGT-A-TTAAGTAAGTTATGTAAG
*** * * *
38551428 TTATGTAAGTTATCAAAGTAACGTATG
1 TTATGT-A-TTAAGTAAGTTATGTAAG
* * *
38551455 TTATG---TAAGT-TG-TAAGTTA-
1 TTATGTATTAAGTAAGTTATGTAAG
*
38551474 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* * *
38551499 TTATGTATTATGCAGGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* * **
38551524 TTGTGTAAGCTATTTAAGTTATGTAAG
1 TTATGT-A-TTAAGTAAGTTATGTAAG
* *
38551551 TTTTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
38551576 TTATGTATGCTATGT-A-TTATGTAAG
1 TTATGTAT--TAAGTAAGTTATGTAAG
* *
38551601 TTTTTATGTTATTATGTAAGTTATGTATG
1 ---TTATG-TATTAAGTAAGTTATGTAAG
* * *
38551630 CTATGTACTATGT-A-TTATGTAAGTTG
1 TTATGTATTAAGTAAGTTATGTAA---G
* *
38551656 TTATGTATTATGTAGGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
38551681 TTGTGTA
1 TTATGTA
38551688 AGCTATGTAT
Statistics
Matches: 291, Mismatches: 61, Indels: 68
0.69 0.15 0.16
Matches are distributed among these distances:
19 5 0.02
20 3 0.01
21 1 0.00
22 6 0.02
23 17 0.06
24 9 0.03
25 130 0.45
26 42 0.14
27 52 0.18
28 15 0.05
29 11 0.04
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:38551394 original size:59 final size:58
Alignment explanation
Indices: 38551330--38551502 Score: 222
Period size: 59 Copynumber: 2.9 Consensus size: 58
38551320 TATGTAAGTT
* * *
38551330 ATGTA-TTAAGTAAGCTATGTAAGTTGTGTATTATGTAACTTATGTTAGTTATCAAAGAA
1 ATGTAGTTATGTAAG-T-TGTAAGTTATGTATTATGTAACTTATGTAAGTTATCAAAGAA
*
38551389 ATGTATGTTATGTAAGTTGTAAGTTATGTATTATGTAACTTATGTAAGTTATCAAAGTA
1 ATGTA-GTTATGTAAGTTGTAAGTTATGTATTATGTAACTTATGTAAGTTATCAAAGAA
* *
38551448 ACGTATGTTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTAT
1 ATGTA-GTTATGTAAGTTGTAAG---TTATGTATTATGTAACTTATGTAAGTTAT
38551503 GTATTATGCA
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
59 66 0.64
60 1 0.01
61 8 0.08
62 28 0.27
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (58 bp):
ATGTAGTTATGTAAGTTGTAAGTTATGTATTATGTAACTTATGTAAGTTATCAAAGAA
Found at i:38551414 original size:16 final size:17
Alignment explanation
Indices: 38551298--38551733 Score: 155
Period size: 16 Copynumber: 25.5 Consensus size: 17
38551288 GTAAATTATT
* * *
38551298 TAAGTTATGTACGTGTA
1 TAAGTTATGTAAGTATG
38551315 TAAGTTATGTAAGTTATG
1 TAAGTTATGTAAG-TATG
*
38551333 T-A-TTAAGTAAGCTATG
1 TAAGTTATGTAAG-TATG
* *
38551349 TAAGTTGTGT-ATTATG
1 TAAGTTATGTAAGTATG
* * *
38551365 TAACTTATGTTAGTTATC
1 TAAGTTATGTAAG-TATG
* ** *
38551383 AAAGAAATGTATGTTATG
1 TAAGTTATGTAAG-TATG
38551401 TAAG-T-TGTAAGTTATG
1 TAAGTTATGTAAG-TATG
*
38551417 T-A-TTATGTAACTTATG
1 TAAGTTATGTAA-GTATG
** *
38551433 TAAGTTATCAAAGTAACG
1 TAAGTTATGTAAGT-ATG
*
38551451 TATGTTATGTAAGT-TG
1 TAAGTTATGTAAGTATG
*
38551467 TAAGTTAT-TATGTATTATG
1 TAAGTTATGTA---AGTATG
38551486 TAAGTTATGTAAGTTATG
1 TAAGTTATGTAAG-TATG
* *
38551504 T-A-TTATGCAGGTTATG
1 TAAGTTATGTAAG-TATG
* *
38551520 TAAGTTGTGTAAGCTATT
1 TAAGTTATGTAAG-TATG
*
38551538 TAAGTTATGTAAGTTTTG
1 TAAGTTATGTAAG-TATG
38551556 T-A-TTATGTAAGTTATG
1 TAAGTTATGTAAG-TATG
*
38551572 TAAGTTATGTATGCTATG
1 TAAGTTATGTAAG-TATG
38551590 T-A-TTATGTAAGTTTTTATG
1 TAAGTTATGTAAG----TATG
*
38551609 TTA-TTATGTAAGTTATG
1 TAAGTTATGTAAG-TATG
* * *
38551626 TATGCTATGT-ACTATG
1 TAAGTTATGTAAGTATG
38551642 T-A-TTATGTAAGT-TG
1 TAAGTTATGTAAGTATG
* *
38551656 TTATGTATTATGTAGGTTATG
1 -TAAG--TTATGTAAG-TATG
*
38551677 TAAGTTGTGTAAGCTATG
1 TAAGTTATGTAAG-TATG
38551695 T-A-TTATGTAAGT-TG
1 TAAGTTATGTAAGTATG
* *
38551709 TTATGTTAT-TATGTATG
1 -TAAGTTATGTAAGTATG
38551726 TAAGTTAT
1 TAAGTTAT
38551734 ATATAAGTTT
Statistics
Matches: 314, Mismatches: 67, Indels: 77
0.69 0.15 0.17
Matches are distributed among these distances:
14 9 0.03
15 9 0.03
16 113 0.36
17 38 0.12
18 104 0.33
19 23 0.07
20 16 0.05
21 2 0.01
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (17 bp):
TAAGTTATGTAAGTATG
Found at i:38551479 original size:19 final size:19
Alignment explanation
Indices: 38551455--38551493 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
38551445 GTAACGTATG
38551455 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
38551474 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
38551493 T
1 T
38551494 GTAAGTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:38551544 original size:43 final size:41
Alignment explanation
Indices: 38551473--38551654 Score: 145
Period size: 43 Copynumber: 4.3 Consensus size: 41
38551463 GTTGTAAGTT
38551473 ATTATGT-A-TTATGTAAGTTATGTAAGTTATGTATTATGC
1 ATTATGTAAGTTATGTAAGTTATGTAAGTTATGTATTATGC
* * * * *
38551512 AGGTTATGTAAGTTGTGTAAGCTATTTAAGTTATGTAAGTTTTGT
1 A--TTATGTAAGTTATGTAAGTTATGTAAGTTATGT-A-TTATGC
* * *
38551557 ATTATGTAAGTTATGTAAGTTATGTATGCTATGTATTATGTA
1 ATTATGTAAGTTATGTAAGTTATGTAAGTTATGTATTATG-C
* * * * *
38551599 AGTTTTTATGTTA-TTATGTAAGTTATGTATGCTATGTACTATGT
1 A----TTATGTAAGTTATGTAAGTTATGTAAGTTATGTATTATGC
38551643 ATTATGTAAGTT
1 ATTATGTAAGTT
38551655 GTTATGTATT
Statistics
Matches: 115, Mismatches: 16, Indels: 22
0.75 0.10 0.14
Matches are distributed among these distances:
39 1 0.01
40 7 0.06
41 12 0.10
42 3 0.03
43 49 0.43
44 2 0.02
45 34 0.30
46 7 0.06
ACGTcount: A:0.29, C:0.03, G:0.20, T:0.49
Consensus pattern (41 bp):
ATTATGTAAGTTATGTAAGTTATGTAAGTTATGTATTATGC
Found at i:38551546 original size:52 final size:50
Alignment explanation
Indices: 38551490--38551707 Score: 251
Period size: 52 Copynumber: 4.2 Consensus size: 50
38551480 ATTATGTAAG
* * * *
38551490 TTATGTAAGTTATGTATTATGCAGGTTATGTAAGTTGTGTAAGCTATTTAA
1 TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTAAGCTATGT-A
* *
38551541 GTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATGTATGCTATGTA
1 -TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTAAGCTATGTA
* *
38551592 TTATGTAAGTTTTTATGTTATTATGTAAGTTATGTATGCTATGT-A-CTATGTA
1 TTATGTAAG---TTATG-TATTATGTAAGTTATGTAAGTTATGTAAGCTATGTA
* *
38551644 TTATGTAAGTTGTTATGTATTATGTAGGTTATGTAAGTTGTGTAAGCTATGTA
1 TTATGTAA---GTTATGTATTATGTAAGTTATGTAAGTTATGTAAGCTATGTA
38551697 TTATGTAAGTT
1 TTATGTAAGTT
38551708 GTTATGTTAT
Statistics
Matches: 143, Mismatches: 14, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
50 12 0.08
51 23 0.16
52 64 0.45
53 19 0.13
54 24 0.17
55 1 0.01
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.49
Consensus pattern (50 bp):
TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTAAGCTATGTA
Found at i:38551618 original size:45 final size:49
Alignment explanation
Indices: 38551455--38551707 Score: 219
Period size: 52 Copynumber: 4.9 Consensus size: 49
38551445 GTAACGTATG
*
38551455 TTATGTAAG-T-TGTAAGTTAT-TATGTATTATGTAAGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTATG--CTATGT-A-TTATGTAAGTT-TGTA
* * * * *
38551506 TTATGCAGGTTATGTAAGTTGTGTAAGCTATTTAAGTTATGTAAGTTTTGTA
1 TTATGTAAGTTATGTAAGTTATGTATGCTATGT-A-TTATGTAAG-TTTGTA
38551558 TTATGTAAGTTATGTAAGTTATGTATGCTATGTATTATGTAAGTTTTTATGTTA
1 TTATGTAAGTTATGTAAGTTATGTATGCTATGTATTATGTAAG---TT-TG-TA
* *
38551612 TTATGTAAGTTATGTATGCTATGTA--CTATGTATTATGTAAGTTGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTATGCTATGTATTATGTAA---GTT-TGTA
* * *
38551663 TTATGTAGGTTATGTAAGTTGTGTAAGCTATGTATTATGTAAGTT
1 TTATGTAAGTTATGTAAGTTATGTATGCTATGTATTATGTAAGTT
38551708 GTTATGTTAT
Statistics
Matches: 172, Mismatches: 17, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
50 12 0.07
51 31 0.18
52 72 0.42
53 28 0.16
54 28 0.16
55 1 0.01
ACGTcount: A:0.28, C:0.02, G:0.21, T:0.49
Consensus pattern (49 bp):
TTATGTAAGTTATGTAAGTTATGTATGCTATGTATTATGTAAGTTTGTA
Found at i:38551660 original size:19 final size:17
Alignment explanation
Indices: 38551638--38551723 Score: 77
Period size: 19 Copynumber: 4.8 Consensus size: 17
38551628 TGCTATGTAC
38551638 TATGTATTATGTAAGTTGT
1 TATGTATTATGTAAG--GT
38551657 TATGTATTATGT-AGGT
1 TATGTATTATGTAAGGT
* *
38551673 TATGTAAGTTGTGTAA-GC
1 TATGT-A-TTATGTAAGGT
38551691 TATGTATTATGTAAGTTGT
1 TATGTATTATGTAAG--GT
38551710 TATGTTATTATGTA
1 TATG-TATTATGTA
38551724 TGTAAGTTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
16 14 0.25
17 2 0.04
18 13 0.23
19 18 0.32
20 9 0.16
ACGTcount: A:0.27, C:0.01, G:0.22, T:0.50
Consensus pattern (17 bp):
TATGTATTATGTAAGGT
Found at i:38551745 original size:12 final size:12
Alignment explanation
Indices: 38551726--38551754 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
38551716 ATTATGTATG
38551726 TAAG-TTATATA
1 TAAGTTTATATA
38551737 TAAGTTTATATA
1 TAAGTTTATATA
38551749 TAAGTT
1 TAAGTT
38551755 ATGTAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (12 bp):
TAAGTTTATATA
Found at i:38551763 original size:9 final size:9
Alignment explanation
Indices: 38551288--38551733 Score: 252
Period size: 9 Copynumber: 52.0 Consensus size: 9
38551278 TATGTATTAA
*
38551288 GTAAATTAT
1 GTAAGTTAT
*
38551297 TTAAGTTAT
1 GTAAGTTAT
*
38551306 GTACGTGTA-
1 GTAAGT-TAT
38551315 -TAAGTTAT
1 GTAAGTTAT
38551323 GTAAGTTAT
1 GTAAGTTAT
*
38551332 GT-A-TTAA
1 GTAAGTTAT
*
38551339 GTAAGCTAT
1 GTAAGTTAT
*
38551348 GTAAGTTGT
1 GTAAGTTAT
38551357 GT-A-TTAT
1 GTAAGTTAT
*
38551364 GTAACTTAT
1 GTAAGTTAT
*
38551373 GTTAGTTAT
1 GTAAGTTAT
** **
38551382 CAAAGAAAT
1 GTAAGTTAT
*
38551391 GTATGTTAT
1 GTAAGTTAT
38551400 GTAAG-T-T
1 GTAAGTTAT
38551407 GTAAGTTAT
1 GTAAGTTAT
38551416 GT-A-TTAT
1 GTAAGTTAT
*
38551423 GTAACTTAT
1 GTAAGTTAT
38551432 GTAAGTTAT
1 GTAAGTTAT
** * *
38551441 CAAAGTAAC
1 GTAAGTTAT
*
38551450 GTATGTTAT
1 GTAAGTTAT
38551459 GTAAG-T-T
1 GTAAGTTAT
38551466 GTAAGTTAT
1 GTAAGTTAT
*
38551475 -TATGTATTAT
1 GTAAG--TTAT
38551485 GTAAGTTAT
1 GTAAGTTAT
38551494 GTAAGTTAT
1 GTAAGTTAT
38551503 GT-A-TTAT
1 GTAAGTTAT
* *
38551510 GCAGGTTAT
1 GTAAGTTAT
*
38551519 GTAAGTTGT
1 GTAAGTTAT
*
38551528 GTAAGCTAT
1 GTAAGTTAT
*
38551537 TTAAGTTAT
1 GTAAGTTAT
*
38551546 GTAAGTTTT
1 GTAAGTTAT
38551555 GT-A-TTAT
1 GTAAGTTAT
38551562 GTAAGTTAT
1 GTAAGTTAT
38551571 GTAAGTTAT
1 GTAAGTTAT
* *
38551580 GTATGCTAT
1 GTAAGTTAT
38551589 GT-A-TTAT
1 GTAAGTTAT
38551596 GTAAGTTTTTAT
1 GTAAG---TTAT
*
38551608 GTTA-TTAT
1 GTAAGTTAT
38551616 GTAAGTTAT
1 GTAAGTTAT
* *
38551625 GTATGCTAT
1 GTAAGTTAT
*
38551634 GT-A-CTAT
1 GTAAGTTAT
38551641 GT-A-TTAT
1 GTAAGTTAT
38551648 GTAAGTTGTTAT
1 GTAA---GTTAT
38551660 GT-A-TTAT
1 GTAAGTTAT
*
38551667 GTAGGTTAT
1 GTAAGTTAT
*
38551676 GTAAGTTGT
1 GTAAGTTAT
*
38551685 GTAAGCTAT
1 GTAAGTTAT
38551694 GT-A-TTAT
1 GTAAGTTAT
*
38551701 GTAAGTTGT
1 GTAAGTTAT
*
38551710 -TATGTTAT
1 GTAAGTTAT
*
38551718 -TATG-TAT
1 GTAAGTTAT
38551725 GTAAGTTAT
1 GTAAGTTAT
38551734 ATATAAGTTT
Statistics
Matches: 331, Mismatches: 69, Indels: 74
0.70 0.15 0.16
Matches are distributed among these distances:
7 71 0.21
8 44 0.13
9 193 0.58
10 6 0.02
11 4 0.01
12 13 0.04
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:38551867 original size:20 final size:19
Alignment explanation
Indices: 38551842--38551900 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 19
38551832 TATGATTGAT
38551842 AAATTTT-TCAAATATATATA
1 AAATTTTAT-AAATATAT-TA
38551862 AAATTTTAATAAATATATTA
1 AAATTTT-ATAAATATATTA
38551882 AAATTGTATATAAATATAT
1 AAATT-T-TATAAATATAT
38551901 ATATCAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
20 14 0.40
21 19 0.54
22 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
AAATTTTATAAATATATTA
Found at i:38551877 original size:19 final size:20
Alignment explanation
Indices: 38551855--38551901 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
38551845 TTTTTCAAAT
*
38551855 ATATATAAAATTTTA-ATAA
1 ATATATAAAATTGTATATAA
38551874 ATATATTAAAATTGTATATAA
1 ATATA-TAAAATTGTATATAA
38551895 ATATATA
1 ATATATA
38551902 TATCAAAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 5 0.20
20 11 0.44
21 9 0.36
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATATATAAAATTGTATATAA
Found at i:38551877 original size:21 final size:22
Alignment explanation
Indices: 38551851--38551903 Score: 83
Period size: 21 Copynumber: 2.5 Consensus size: 22
38551841 TAAATTTTTC
*
38551851 AAATATATATAAAATTTTA-AT
1 AAATATATATAAAATTGTATAT
38551872 AAATATAT-TAAAATTGTATAT
1 AAATATATATAAAATTGTATAT
38551893 AAATATATATA
1 AAATATATATA
38551904 TCAAAGATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 9 0.31
21 18 0.62
22 2 0.07
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AAATATATATAAAATTGTATAT
Found at i:38554504 original size:27 final size:27
Alignment explanation
Indices: 38554472--38554523 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
38554462 TCTTACATTT
*
38554472 AAAT-AATTAATTACCTATTTATTTAAC
1 AAATAAATT-ATTACCTACTTATTTAAC
38554499 AAATAAATTATTACCTACTTATTTA
1 AAATAAATTATTACCTACTTATTTA
38554524 TTTGTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (27 bp):
AAATAAATTATTACCTACTTATTTAAC
Found at i:38555869 original size:30 final size:31
Alignment explanation
Indices: 38555833--38555892 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
38555823 TTTCTGTCTT
38555833 ACATATAAATAATTA-ATACCTATTTATTTA
1 ACATATAAATAATTACATACCTATTTATTTA
* *
38555863 ACATATAAATAATTACCTACTTATTTATTT
1 ACATATAAATAATTACATACCTATTTATTT
38555893 GTTTATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.56
31 12 0.44
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (31 bp):
ACATATAAATAATTACATACCTATTTATTTA
Found at i:38555887 original size:27 final size:29
Alignment explanation
Indices: 38555833--38555889 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
38555823 TTTCTGTCTT
*
38555833 ACATATAAATAATTAATACCTATTTATTTA
1 ACATATAAATAATT-ATACCTACTTATTTA
38555863 ACATATAAATAA-T-TACCTACTTATTTA
1 ACATATAAATAATTATACCTACTTATTTA
38555890 TTTGTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 13 0.50
29 1 0.04
30 12 0.46
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (29 bp):
ACATATAAATAATTATACCTACTTATTTA
Found at i:38556641 original size:41 final size:41
Alignment explanation
Indices: 38556580--38556734 Score: 165
Period size: 41 Copynumber: 3.8 Consensus size: 41
38556570 TTTTGTTACT
* * * *
38556580 ATTAGCAGCGCTTCGTCAAAAACGCCGCTAAAGCTAC-ATTC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGCTCCGA-TC
* * *
38556621 ATTAGCGGCGCTTAGACAAAAGCGCCACTAAAGC-CCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGCTCCGATC
*
38556661 ATTAGCGGCGCTTA-ACTAAAAACGCCGCTAAAGGTCCGATC
1 ATTAGCGGCGCTTAGAC-AAAAACGCCGCTAAAGCTCCGATC
* *
38556702 ATTAGCGTCGCATTCG-CAAAAACGCCGCTAAAG
1 ATTAGCGGCGC-TTAGACAAAAACGCCGCTAAAG
38556735 GCTCGAAAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
39 2 0.02
40 30 0.31
41 61 0.64
42 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.18
Consensus pattern (41 bp):
ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGCTCCGATC
Found at i:38556856 original size:40 final size:40
Alignment explanation
Indices: 38556779--38556879 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
38556769 GCGCTTTATA
* * *
38556779 AAAAACGCCGCTGATTC-CTATTTTTAGCGGCGATTTTGG
1 AAAAACGCCGCTGATGCTCGATCTTTAGCGGCGATTTTGG
* * * *
38556818 AAATACGCCGCTGATGCTCGATCTTTAGCGGTGCTTTTGT
1 AAAAACGCCGCTGATGCTCGATCTTTAGCGGCGATTTTGG
*
38556858 AAAAACGCCGCTAATGCTCGAT
1 AAAAACGCCGCTGATGCTCGAT
38556880 TTTGAGTGGC
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
39 15 0.29
40 37 0.71
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (40 bp):
AAAAACGCCGCTGATGCTCGATCTTTAGCGGCGATTTTGG
Found at i:38556895 original size:40 final size:40
Alignment explanation
Indices: 38556779--38556912 Score: 110
Period size: 40 Copynumber: 3.4 Consensus size: 40
38556769 GCGCTTTATA
* * * * ** *
38556779 AAAAACGCCGCTGATTC-CTATTTTTAGCGGCGATTTTGG
1 AAAAACGCCGCTAATGCTCGATCTTTAGCGGCCCTTTTGT
* * **
38556818 AAATACGCCGCTGATGCTCGATCTTTAGCGGTGCTTTTGT
1 AAAAACGCCGCTAATGCTCGATCTTTAGCGGCCCTTTTGT
*
38556858 AAAAACGCCGCTAATGCTCGAT-TTTGAGTGGCCCTTTTGTT
1 AAAAACGCCGCTAATGCTCGATCTTT-AGCGGCCCTTTTG-T
**
38556899 CCAAACGCCGCTAA
1 AAAAACGCCGCTAA
38556913 ATGTGCCGCT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
39 18 0.23
40 47 0.60
41 13 0.17
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (40 bp):
AAAAACGCCGCTAATGCTCGATCTTTAGCGGCCCTTTTGT
Found at i:38557518 original size:8 final size:9
Alignment explanation
Indices: 38557497--38557532 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
38557487 AATTATAAGT
*
38557497 TTTTTATAA
1 TTTTTAAAA
38557506 TTTTTAAAA
1 TTTTTAAAA
38557515 TTTTTAAAA
1 TTTTTAAAA
38557524 TTTTTAAAA
1 TTTTTAAAA
38557533 AAAATTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:38576802 original size:50 final size:51
Alignment explanation
Indices: 38576685--38576977 Score: 226
Period size: 50 Copynumber: 5.7 Consensus size: 51
38576675 TGATAATAAC
* * * *
38576685 ATGCCAAAGCCATGTCCTAGACATGGTCTTACACGGGATGTT-TC-T-T-G
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACGTTCTCATATCG
* *
38576732 TACTGCCAATGCCATATCCCAGATATGGTCTTACATGGGA-GTTCTCATATCG
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACGTTCTCATATCG
* * * *
38576784 ATGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGAGAC-CTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGG-GACGTTCTCATATCG
* * * * * * *
38576834 GTGCCAACGTCATGCCCCAAACATGGTCTTACATGGGACCTT-TCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACGTTCTCATATCG
* * * * * *
38576884 GTGCCAACT-CTATGTCCCAGACATGGTCTTGCATGGGACCTCTCATAATATTAATG
1 ATGCCAA-TGCCATGTCCCAGACATGGTCTTACATGGGACGT-TC-TCATA-T--CG
*
38576940 ATGCCAATGCCATGTCTCAGACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
38576978 TCTCATTCCC
Statistics
Matches: 196, Mismatches: 32, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
48 4 0.02
49 36 0.18
50 111 0.57
51 6 0.03
52 1 0.01
53 3 0.02
54 1 0.01
55 1 0.01
56 33 0.17
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (51 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACGTTCTCATATCG
Found at i:38581856 original size:25 final size:25
Alignment explanation
Indices: 38581824--38581971 Score: 131
Period size: 25 Copynumber: 6.0 Consensus size: 25
38581814 AGCATCTTGA
*
38581824 TATATGGCTCTCTTGAGCTTCCCGT
1 TATATGGCTCTCATGAGCTTCCCGT
* * * *
38581849 TATTTGGCTTTCACGAGCTTCCCGA
1 TATATGGCTCTCATGAGCTTCCCGT
38581874 TA-ACTGGCTCTCATGAGCTTCCCGAT
1 TATA-TGGCTCTCATGAGCTTCCCG-T
* * *
38581900 TACA--GCTCTTATGAGCTTCCCAT
1 TATATGGCTCTCATGAGCTTCCCGT
* * *
38581923 TACATGGCTCACATGAGCTTCTCGT
1 TATATGGCTCTCATGAGCTTCCCGT
** *
38581948 TATATGGCTCGAAAGAGCTTCCCG
1 TATATGGCTCTCATGAGCTTCCCG
38581972 ATTACATGCA
Statistics
Matches: 98, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
23 5 0.05
24 16 0.16
25 74 0.76
26 2 0.02
27 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.20, T:0.33
Consensus pattern (25 bp):
TATATGGCTCTCATGAGCTTCCCGT
Found at i:38581931 original size:74 final size:74
Alignment explanation
Indices: 38581837--38581977 Score: 167
Period size: 74 Copynumber: 1.9 Consensus size: 74
38581827 ATGGCTCTCT
* ** ** ** *
38581837 TGAGCTTCCCGTTATTTGGCTTTCACGAGCTTCCCGATA-ACTGGCTCTCATGAGCTTCCCGATT
1 TGAGCTTCCCATTACATGGCTCACACGAGCTTCCCGATATA-TGGCTCGAAAGAGCTTCCCGATT
38581901 ACAGCTCTTA
65 ACAGCTCTTA
* * *
38581911 TGAGCTTCCCATTACATGGCTCACATGAGCTTCTCGTTATATGGCTCGAAAGAGCTTCCCGATTA
1 TGAGCTTCCCATTACATGGCTCACACGAGCTTCCCGATATATGGCTCGAAAGAGCTTCCCGATTA
38581976 CA
66 CA
38581978 TGCACGCATG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
74 54 0.98
75 1 0.02
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (74 bp):
TGAGCTTCCCATTACATGGCTCACACGAGCTTCCCGATATATGGCTCGAAAGAGCTTCCCGATTA
CAGCTCTTA
Found at i:38581990 original size:25 final size:26
Alignment explanation
Indices: 38581827--38581990 Score: 126
Period size: 25 Copynumber: 6.6 Consensus size: 26
38581817 ATCTTGATAT
* * *
38581827 ATGGCTCTCTTGAGCTTCCCG-TTAT
1 ATGGCTCGCATGAGCTTCCCGATTAC
* ** * *
38581852 TTGGCTTTCACGAGCTTCCCGATAAC
1 ATGGCTCGCATGAGCTTCCCGATTAC
*
38581878 -TGGCTCTCATGAGCTTCCCGATTAC
1 ATGGCTCGCATGAGCTTCCCGATTAC
**
38581903 A--GCTCTTATGAGCTTCCC-ATTAC
1 ATGGCTCGCATGAGCTTCCCGATTAC
* * *
38581926 ATGGCTCACATGAGCTTCTCG-TTAT
1 ATGGCTCGCATGAGCTTCCCGATTAC
* *
38581951 ATGGCTCGAAAGAGCTTCCCGATTAC
1 ATGGCTCGCATGAGCTTCCCGATTAC
*
38581977 AT-GCACGCATGAGC
1 ATGGCTCGCATGAGC
38581991 ATACCTGTAT
Statistics
Matches: 111, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
23 6 0.05
24 16 0.14
25 82 0.74
26 7 0.06
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.31
Consensus pattern (26 bp):
ATGGCTCGCATGAGCTTCCCGATTAC
Found at i:38584259 original size:179 final size:179
Alignment explanation
Indices: 38583941--38584316 Score: 630
Period size: 179 Copynumber: 2.1 Consensus size: 179
38583931 TTACTTAATT
* *
38583941 AATTTAATCACAATTTAC-TTAATCTTATTTATCTACAAATCAAACAAATTGGATTCCATCATGA
1 AATTTAAT-A-AAATTACTTTAATCTTATTTATCTACAAATCAAACAAAGTGGATTCCATCATGA
* *
38584005 AATTCCACTATCCACTATTAATAATTGCTCTTTTGTTCTATTAGCTAATTAAAAATCTATAGTGA
64 AATTCCACTATCCACTATTAACAATTGCTCTTTTATTCTATTAGCTAATTAAAAATCTATAGTGA
*
38584070 TTAAACTTTTATCATTTTTACGATTTAATCCTTATACTTTAATTAACTATC
129 TTAAACTTTTACCATTTTTACGATTTAATCCTTATACTTTAATTAACTATC
* *
38584121 AATTTAATAAAATTACTTTAATCTTATTTATCTACTAATCAAACAACGTGGATTCCATCATGAAA
1 AATTTAATAAAATTACTTTAATCTTATTTATCTACAAATCAAACAAAGTGGATTCCATCATGAAA
38584186 TTCCACTATCCACTATTAACAATTGCTCTTTTATTCTATTAGCTAATTAAAAATCTATA-TCGAT
66 TTCCACTATCCACTATTAACAATTGCTCTTTTATTCTATTAGCTAATTAAAAATCTATAGT-GAT
* *
38584250 TAAACTTTTACCATTTTTATGATTTAATCCTTATACTTTAATTAGCTATC
130 TAAACTTTTACCATTTTTACGATTTAATCCTTATACTTTAATTAACTATC
38584300 AATTTAATAAAATTACT
1 AATTTAATAAAATTACT
38584317 AGACCGAAAT
Statistics
Matches: 185, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
178 7 0.04
179 170 0.92
180 8 0.04
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (179 bp):
AATTTAATAAAATTACTTTAATCTTATTTATCTACAAATCAAACAAAGTGGATTCCATCATGAAA
TTCCACTATCCACTATTAACAATTGCTCTTTTATTCTATTAGCTAATTAAAAATCTATAGTGATT
AAACTTTTACCATTTTTACGATTTAATCCTTATACTTTAATTAACTATC
Found at i:38609064 original size:16 final size:16
Alignment explanation
Indices: 38609018--38609065 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 16
38609008 TCATCCTAAT
38609018 TATA-AAAAAAT-TAA
1 TATATAAAAAATATAA
38609032 TATATAAAAATATATAA
1 TATATAAAAA-ATATAA
* *
38609049 TATTTTAAAAATATAA
1 TATATAAAAAATATAA
38609065 T
1 T
38609066 GATAAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 4 0.14
15 5 0.17
16 9 0.31
17 11 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TATATAAAAAATATAA
Found at i:38610306 original size:15 final size:15
Alignment explanation
Indices: 38610282--38610315 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
38610272 TATGTGTTTG
*
38610282 TATTTATTTATTATT
1 TATTTATTTATCATT
*
38610297 TATTTGTTTATCATT
1 TATTTATTTATCATT
38610312 TATT
1 TATT
38610316 AACATTGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (15 bp):
TATTTATTTATCATT
Found at i:38610390 original size:23 final size:23
Alignment explanation
Indices: 38610321--38610403 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 23
38610311 TTATTAACAT
38610321 TGTTCATGAACATATTTAATTATA
1 TGTTCATGAACATATTTAATTA-A
* ***
38610345 TGTTTATGAACATATTCGTTTAA
1 TGTTCATGAACATATTTAATTAA
* *
38610368 TGTTCGTGAACATGTTTAATTAA
1 TGTTCATGAACATATTTAATTAA
38610391 -GTTACATGAACAT
1 TGTT-CATGAACAT
38610404 GTTTGTGAAC
Statistics
Matches: 47, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
22 3 0.06
23 26 0.55
24 18 0.38
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (23 bp):
TGTTCATGAACATATTTAATTAA
Found at i:38612330 original size:12 final size:11
Alignment explanation
Indices: 38612313--38612347 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
38612303 AACAAATCCT
38612313 CTCTCATATTTC
1 CTCTCA-ATTTC
38612325 CTCTCAA-TTC
1 CTCTCAATTTC
38612335 CTCTCAATTTC
1 CTCTCAATTTC
38612346 CT
1 CT
38612348 TCCAAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:38612392 original size:51 final size:53
Alignment explanation
Indices: 38612328--38612451 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 53
38612318 ATATTTCCTC
* * *
38612328 TCAATTCCTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATA-TTT-A-ATT
1 TCAATTTCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTTAATATT
*
38612378 TCAAATTTCTCTCAATTTTCTTCAAAAATTCTCTCAAATCCATATTTTGAATATT
1 TC-AATTTCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTT-AATATT
38612433 TCAATTTCCTCTCAATTTC
1 TCAATTT-CTCTCAATTTC
38612452 TTTTTTTAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
50 2 0.03
51 37 0.59
52 3 0.05
54 6 0.10
55 15 0.24
ACGTcount: A:0.30, C:0.24, G:0.01, T:0.45
Consensus pattern (53 bp):
TCAATTTCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTTAATATT
Found at i:38614830 original size:29 final size:29
Alignment explanation
Indices: 38614774--38614862 Score: 118
Period size: 23 Copynumber: 3.2 Consensus size: 29
38614764 ATGTAATAAA
38614774 AACCCTAACCTAATTTAATT--AAA----
1 AACCCTAACCTAATTTAATTAAAAACCCT
38614797 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
38614826 AACCCTAACCTAATTTAATTAAAAAACCCT
1 AACCCTAACCTAATTTAATT-AAAAACCCT
38614856 AAACCCT
1 -AACCCT
38614863 TAACTTAAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
23 20 0.34
25 3 0.05
29 20 0.34
30 9 0.16
31 6 0.10
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (29 bp):
AACCCTAACCTAATTTAATTAAAAACCCT
Found at i:38614871 original size:52 final size:50
Alignment explanation
Indices: 38614774--38614879 Score: 142
Period size: 52 Copynumber: 2.0 Consensus size: 50
38614764 ATGTAATAAA
* *
38614774 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACC--ACTTAATTAAAAAACCT
38614826 AACCCTAACCTAATTTAATTAAAAAACCCTAAACC-CTTAACTTAAAAAACCT
1 AACCCTAACCTAATTTAATT-AAAAACCCT-AACCACTTAA-TTAAAAAACCT
38614878 AA
1 AA
38614880 TCTAATTTAC
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
51 4 0.08
52 32 0.65
53 9 0.18
54 4 0.08
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.26
Consensus pattern (50 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCACTTAATTAAAAAACCT
Done.