Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 196 of 362
Found at i:65793759 original size:42 final size:42
Alignment explanation
Indices: 65793655--65793891 Score: 243
Period size: 42 Copynumber: 5.7 Consensus size: 42
65793645 AAGTGCCATA
* *
65793655 CTCGATATCTCACACACTAAGTGTCGTACATAGCCGAAGCTAT
1 CTCGA-ATCTCACACACTAAGTGTCATATATAGCCGAAGCTAT
* * *
65793698 CTC-AA-ATCACACACTAAGTGTCATATATAGCTGAAACTAT
1 CTCGAATCTCACACACTAAGTGTCATATATAGCCGAAGCTAT
* * * * *
65793738 GTCGAATCTCGCACACTAAGTGTCGTACATAGCTGAAGCTAT
1 CTCGAATCTCACACACTAAGTGTCATATATAGCCGAAGCTAT
* * *
65793780 CTC-AA-ATCGCACACTAAGTGCCATATATAGCCGAAGCTAT
1 CTCGAATCTCACACACTAAGTGTCATATATAGCCGAAGCTAT
* * *
65793820 GT-GAAATCTCACACACTAAGGGCCATATATAGCCGAAGCTAT
1 CTCG-AATCTCACACACTAAGTGTCATATATAGCCGAAGCTAT
*
65793862 CTCG-ATCTCGCACACTAAGTGCTACATATA
1 CTCGAATCTCACACACTAAGTG-T-CATATA
65793892 GTTGATTCAC
Statistics
Matches: 161, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
40 63 0.39
41 22 0.14
42 66 0.41
43 10 0.06
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
CTCGAATCTCACACACTAAGTGTCATATATAGCCGAAGCTAT
Found at i:65793798 original size:82 final size:82
Alignment explanation
Indices: 65793656--65793891 Score: 312
Period size: 82 Copynumber: 2.8 Consensus size: 82
65793646 AGTGCCATAC
*
65793656 TCGATATCTCACACACTAAGTGTCGTACATAGCCGAAGCTATCTCAAATCACACACTAAGTGTCA
1 TCGA-ATCTCACACACTAAGTGTCGTACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGTCA
*
65793721 TATATAGCTGAAACTATG
65 TATATAGCCGAAACTATG
* * *
65793739 TCGAATCTCGCACACTAAGTGTCGTACATAGCTGAAGCTATCTCAAATCGCACACTAAGTGCCAT
1 TCGAATCTCACACACTAAGTGTCGTACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGTCAT
*
65793804 ATATAGCCGAAGCTATG
66 ATATAGCCGAAACTATG
* * * * **
65793821 T-GAAATCTCACACACTAAGGGCCATATATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCT
1 TCG-AATCTCACACACTAAGTGTCGTACATAGCCGAAGCTATCTC-AAATCGCACACTAAGTG-T
65793885 ACATATA
63 -CATATA
65793892 GTTGATTCAC
Statistics
Matches: 134, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
81 1 0.01
82 108 0.81
83 19 0.14
85 6 0.04
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (82 bp):
TCGAATCTCACACACTAAGTGTCGTACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGTCAT
ATATAGCCGAAACTATG
Found at i:65799742 original size:23 final size:23
Alignment explanation
Indices: 65799716--65799760 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
65799706 TTCTAAAACC
65799716 TAATAAAAATAAAAAATAAAAAG
1 TAATAAAAATAAAAAATAAAAAG
*** *
65799739 TAATTTTAATAAAAATTAAAAA
1 TAATAAAAATAAAAAATAAAAA
65799761 CATAAAATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
TAATAAAAATAAAAAATAAAAAG
Found at i:65809068 original size:30 final size:30
Alignment explanation
Indices: 65809034--65809094 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
65809024 TCCTTAACTC
65809034 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
65809064 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
65809094 A
1 A
65809095 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:65820494 original size:30 final size:30
Alignment explanation
Indices: 65820460--65820520 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
65820450 TCCTTAACTC
65820460 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
65820490 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
65820520 A
1 A
65820521 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:65828516 original size:14 final size:15
Alignment explanation
Indices: 65828499--65828527 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
65828489 ACACAAAAAT
65828499 TTCACACAT-ATAAA
1 TTCACACATGATAAA
65828513 TTCACACATGATAAA
1 TTCACACATGATAAA
65828528 CACAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (15 bp):
TTCACACATGATAAA
Found at i:65829101 original size:19 final size:20
Alignment explanation
Indices: 65829060--65829101 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
65829050 TTTCAAAAAT
65829060 ACTTTGTCCCCGATCTGAAA
1 ACTTTGTCCCCGATCTGAAA
65829080 ACTTTGTCCCCGATCT-AAA
1 ACTTTGTCCCCGATCTGAAA
65829099 ACT
1 ACT
65829102 CTATATCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (20 bp):
ACTTTGTCCCCGATCTGAAA
Found at i:65832548 original size:29 final size:29
Alignment explanation
Indices: 65832482--65832600 Score: 143
Period size: 29 Copynumber: 4.2 Consensus size: 29
65832472 CACATACCTA
* * * *
65832482 TATATGGCCCACTAGACCC-AATTATATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
65832510 CACATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
65832539 TATATGGCCCTTTAGGCCTAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
65832568 TATGTGGCCCATTAGGCCCAAATCACA-T
1 TATATGGCCCATTAGGCCCAAATCACATT
65832596 TATAT
1 TATAT
65832601 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 20 0.26
29 56 0.74
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:65839931 original size:40 final size:39
Alignment explanation
Indices: 65839809--65840020 Score: 201
Period size: 40 Copynumber: 5.3 Consensus size: 39
65839799 TCTTCGAAAT
* * *
65839809 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
* * * * *
65839848 TTAACCCGGGTGTAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
*
65839888 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
** * * *
65839928 TTAGCGGGGATAAAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * * *
65839968 TTAGCCCAGATAAAATCACTAGCATAAATGCCCTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
65840008 TTAGCCCGGATAT
1 TTAGCCCGGATAT
65840021 CATTCAAATG
Statistics
Matches: 147, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
39 6 0.04
40 137 0.93
41 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:65848014 original size:40 final size:39
Alignment explanation
Indices: 65847906--65848113 Score: 219
Period size: 39 Copynumber: 5.3 Consensus size: 39
65847896 TTCTTCGAAT
* * *
65847906 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
* * *
65847945 TTAACCCGG-TATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
*
65847984 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
65848024 TTAG-CCGG-TAAAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * *
65848062 TTAGCCCGGATAAAATCACTAGCATAAATGCC-TCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
65848101 TTAGCCCGGATAT
1 TTAGCCCGGATAT
65848114 CATTCAAATG
Statistics
Matches: 151, Mismatches: 12, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 28 0.19
39 64 0.42
40 59 0.39
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:65851052 original size:6 final size:6
Alignment explanation
Indices: 65851022--65851165 Score: 73
Period size: 6 Copynumber: 23.3 Consensus size: 6
65851012 AAGAAATATC
* * * *
65851022 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAAA ATCAGA ATTAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
65851069 GTGACAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGG ATCAGA ATTAG-
1 AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
* * *
65851119 GTGACAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATTAGA ATCAGA AT
1 AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
65851166 GTGAATGCAA
Statistics
Matches: 102, Mismatches: 22, Indels: 28
0.67 0.14 0.18
Matches are distributed among these distances:
5 7 0.07
6 80 0.78
7 11 0.11
8 4 0.04
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:65851077 original size:25 final size:25
Alignment explanation
Indices: 65851048--65851165 Score: 155
Period size: 25 Copynumber: 4.7 Consensus size: 25
65851038 AAATGAGAAT
* * *
65851048 CAGAATCAAAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
65851073 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* * *
65851098 CAGAATCAGGATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
65851123 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
65851148 CAGAATTAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
65851166 GTGAATGCAA
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 79 1.00
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:65851112 original size:50 final size:50
Alignment explanation
Indices: 65851048--65851165 Score: 209
Period size: 50 Copynumber: 2.4 Consensus size: 50
65851038 AAATGAGAAT
*
65851048 CAGAATCAAAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
*
65851098 CAGAATCAGGATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
*
65851148 CAGAATTAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
65851166 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (50 bp):
CAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
Found at i:65851365 original size:27 final size:27
Alignment explanation
Indices: 65851283--65851390 Score: 85
Period size: 27 Copynumber: 4.0 Consensus size: 27
65851273 AGCATGGCTG
* * *
65851283 CCAG-AACAGATATTGTGACAGAGTCA
1 CCAGAAACAGATATTGTGGCAAAGCCA
* * * ** *
65851309 CTAGATATAGATATTGTGGCAGGGCTA
1 CCAGAAACAGATATTGTGGCAAAGCCA
*
65851336 CCA-AAACAGATATTTGTGGCATAGCCA
1 CCAGAAACAGATA-TTGTGGCAAAGCCA
* *
65851363 CCAGAAATAGATAATGTGGCAAAGCCA
1 CCAGAAACAGATATTGTGGCAAAGCCA
65851390 C
1 C
65851391 TTAACAAAAT
Statistics
Matches: 63, Mismatches: 16, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
26 10 0.16
27 45 0.71
28 8 0.13
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (27 bp):
CCAGAAACAGATATTGTGGCAAAGCCA
Found at i:65851373 original size:54 final size:53
Alignment explanation
Indices: 65851278--65851383 Score: 131
Period size: 54 Copynumber: 2.0 Consensus size: 53
65851268 TTTGCAGCAT
* * * * * *
65851278 GGCTGCCAGAACAGATATTGTGACAGAGTCACTAGATATAGATATTGTGGCAG
1 GGCTACCAAAACAGATATTGTGACAGAGCCACCAGAAATAGATAATGTGGCAG
* *
65851331 GGCTACCAAAACAGATATTTGTGGCATAGCCACCAGAAATAGATAATGTGGCA
1 GGCTACCAAAACAGATA-TTGTGACAGAGCCACCAGAAATAGATAATGTGGCA
65851384 AAGCCACTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
53 15 0.34
54 29 0.66
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (53 bp):
GGCTACCAAAACAGATATTGTGACAGAGCCACCAGAAATAGATAATGTGGCAG
Found at i:65851577 original size:22 final size:22
Alignment explanation
Indices: 65851549--65851612 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
65851539 GCAAATACGT
65851549 TTGGCACAAAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
65851571 TTGGCACAGAGCCAT-TTGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
65851593 TTGGCGCAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
65851613 AAATAATTGG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:65852030 original size:27 final size:27
Alignment explanation
Indices: 65852001--65852195 Score: 257
Period size: 27 Copynumber: 7.2 Consensus size: 27
65851991 GGGTAAAATG
* * * * *
65852001 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
65852028 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* ** *
65852055 GTATTTCTACTTTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
65852081 GATAATTCTACCCTACAGGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTCA
65852109 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
65852136 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
65852163 GTAATTCTACCCTATAGGGTTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
65852190 GTAATT
1 GTAATT
65852196 TTGTAAATCG
Statistics
Matches: 149, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 147 0.99
28 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:65859988 original size:37 final size:37
Alignment explanation
Indices: 65859935--65860111 Score: 318
Period size: 37 Copynumber: 4.8 Consensus size: 37
65859925 CGAATAGTCC
* *
65859935 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
65859972 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
65860009 CCACACGTAGTCATCGGGTCTTACCCAGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
65860046 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
65860083 CCACACGTAGTCATCGGGTCTTACTCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
65860112 ATATATTTCC
Statistics
Matches: 135, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 135 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:65860338 original size:48 final size:48
Alignment explanation
Indices: 65860284--65860553 Score: 486
Period size: 48 Copynumber: 5.6 Consensus size: 48
65860274 GCCGAATCAC
*
65860284 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
65860332 TAGCCATTCGGCTTTACCACATATACAGATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
65860380 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
65860428 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
**
65860476 TAGCCATTCGGCTTTACCGTATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
65860524 TGGCCATTCGGCTTTACCACATATACATAT
1 TAGCCATTCGGCTTTACCACATATACATAT
65860554 ATATTTATCT
Statistics
Matches: 214, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 214 1.00
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.35
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:65863423 original size:42 final size:42
Alignment explanation
Indices: 65863326--65863492 Score: 171
Period size: 43 Copynumber: 3.9 Consensus size: 42
65863316 TCATAAAATA
* *
65863326 CCAATGTCCCAGACGAGGTCTTACATGAAATCAAATATTGATG
1 CCAATGTCCCAGACGAGGTCTTACACGAAATCATATA-TGATG
* *
65863369 CCACTATCCCAGAC-AGGGTCTTACACGAAATCATATATGATG
1 CCAATGTCCCAGACGA-GGTCTTACACGAAATCATATATGATG
*
65863411 CCAATGTCCCAGAC-ATGGTCTTACACGCAAATC-TCAAATCGATG
1 CCAATGTCCCAGACGA-GGTCTTACACG-AAATCAT-ATAT-GATG
* * *
65863455 CC-ATCGTCCTAGACGTGGTCTTACACGAAATCACATAT
1 CCAAT-GTCCCAGACGAGGTCTTACACGAAATCATATAT
65863493 TGGAATCCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
42 31 0.30
43 49 0.47
44 25 0.24
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (42 bp):
CCAATGTCCCAGACGAGGTCTTACACGAAATCATATATGATG
Found at i:65863476 original size:86 final size:85
Alignment explanation
Indices: 65863326--65863492 Score: 207
Period size: 86 Copynumber: 2.0 Consensus size: 85
65863316 TCATAAAATA
* *
65863326 CCAATGTCCCAGACGAGGTCTTACATGAAATCAAATATTGATGCCACTATCCCAGACAGGGTCTT
1 CCAATGTCCCAGACGAGGTCTTACACGAAATCAAATATCGATGCCACTATCCCAGACAGGGTCTT
*
65863391 ACACGAAATCATATATGATG
66 ACACGAAATCACATATGATG
* * *
65863411 CCAATGTCCCAGAC-ATGGTCTTACACGCAAATCTCAA-ATCGATGCCA-TCGTCCTAGAC-GTG
1 CCAATGTCCCAGACGA-GGTCTTACACG-AAATC-AAATATCGATGCCACT-ATCCCAGACAG-G
65863472 GTCTTACACGAAATCACATAT
61 GTCTTACACGAAATCACATAT
65863493 TGGAATCCAA
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
84 1 0.01
85 26 0.37
86 42 0.59
87 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (85 bp):
CCAATGTCCCAGACGAGGTCTTACACGAAATCAAATATCGATGCCACTATCCCAGACAGGGTCTT
ACACGAAATCACATATGATG
Found at i:65866890 original size:43 final size:43
Alignment explanation
Indices: 65866734--65866891 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 43
65866724 ATGTGATTTC
* * * *
65866734 GTGTAAGACCGCATCTGGGACGTTGGCATCGACT-TATGATTTAT
1 GTGTAAGACCACGTCTGGGACGTTGGCATC-AATATTTGA-TTAT
* * * ** * *
65866778 GTGTAAGACCATGTTTGGGACATCAGCATC-GTATTTGATTTT
1 GTGTAAGACCACGTCTGGGACGTTGGCATCAATATTTGATTAT
* *
65866820 GTGTAAGACC-CTGTCTAGGACAG-TGGCATCAATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCAATATTTGATTAT
*
65866863 ATGTAAGACCACGTCTGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
65866892 TGTATGAGCT
Statistics
Matches: 87, Mismatches: 21, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
42 27 0.31
43 36 0.41
44 24 0.28
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCAATATTTGATTAT
Found at i:65871626 original size:20 final size:21
Alignment explanation
Indices: 65871601--65871640 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65871591 CACTTCAAAT
65871601 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
65871621 AGGGCAACATGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
65871641 CCCTGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:65872839 original size:44 final size:43
Alignment explanation
Indices: 65872789--65872927 Score: 133
Period size: 42 Copynumber: 3.2 Consensus size: 43
65872779 TTAATTATCG
* *
65872789 TGTAAGACCGTGTCTGGGACACAGGCATCGAATTGAAATTTACC
1 TGTAAGACCATGTCTGGGACACAGGCATCGAATTG-AATTTACA
* *
65872833 TGTAAGACCATGTCTGGGACATC-GGCATCGTATCTG-ATTT-CG
1 TGTAAGACCATGTCTGGGACA-CAGGCATCGAAT-TGAATTTACA
* * * * *
65872875 TATAAGACCCTGTCTGGGATAGAGGCATCGATACTGAA-TTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGA-ATTGAATTTACA
65872918 TGTAAGACCA
1 TGTAAGACCA
65872928 CATCCGGGAT
Statistics
Matches: 77, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
42 30 0.39
43 15 0.19
44 29 0.38
45 3 0.04
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGAATTGAATTTACA
Found at i:65872902 original size:42 final size:42
Alignment explanation
Indices: 65872781--65872927 Score: 136
Period size: 44 Copynumber: 3.4 Consensus size: 42
65872771 TATTGATCTT
*
65872781 AATTATCGTGTAAGACCGTGTCTGGGACACAGGCATCGAATTG
1 AATT-TCGTGTAAGACCATGTCTGGGACACAGGCATCGAATTG
* *
65872824 AAATTTACCTGTAAGACCATGTCTGGGACATC-GGCATCGTATCTG
1 -AATTT-CGTGTAAGACCATGTCTGGGACA-CAGGCATCGAAT-TG
* * * * *
65872869 -ATTTCGTATAAGACCCTGTCTGGGATAGAGGCATCGATACTG
1 AATTTCGTGTAAGACCATGTCTGGGACACAGGCATCGA-ATTG
* *
65872911 AATTACATGTAAGACCA
1 AATTTCGTGTAAGACCA
65872928 CATCCGGGAT
Statistics
Matches: 83, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
42 28 0.34
43 18 0.22
44 34 0.41
45 3 0.04
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (42 bp):
AATTTCGTGTAAGACCATGTCTGGGACACAGGCATCGAATTG
Found at i:65880083 original size:44 final size:43
Alignment explanation
Indices: 65880033--65880170 Score: 124
Period size: 42 Copynumber: 3.2 Consensus size: 43
65880023 TGAATTATCG
*
65880033 TGTAAGACCGTGTCTGGGACACAGGCATCGAATTGAAATTTACC
1 TGTAAGACCGTGTCTGGGACACAGGCATCGAATTG-AATTTACA
* *
65880077 TGTAAGA-CGATGTCTGGGACATC-GGCATCGTATCTG-ATTT-CG
1 TGTAAGACCG-TGTCTGGGACA-CAGGCATCGAAT-TGAATTTACA
* * * * *
65880119 TATAAGACCCTGTCTGGGATAGAGGCATCGATACTGAA-TTACA
1 TGTAAGACCGTGTCTGGGACACAGGCATCGA-ATTGAATTTACA
65880162 TGTAAGACC
1 TGTAAGACC
65880171 ACATCTGGGA
Statistics
Matches: 76, Mismatches: 10, Indels: 17
0.74 0.10 0.17
Matches are distributed among these distances:
42 28 0.37
43 18 0.24
44 27 0.36
45 3 0.04
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (43 bp):
TGTAAGACCGTGTCTGGGACACAGGCATCGAATTGAATTTACA
Found at i:65880146 original size:42 final size:43
Alignment explanation
Indices: 65880020--65880180 Score: 141
Period size: 44 Copynumber: 3.7 Consensus size: 43
65880010 GTTGGTATTG
*
65880020 ATCTGAATTATCGTGTAAGACCGTGTCTGGGACACAGGCATCGA
1 ATCTGAATT-TCGTGTAAGACCATGTCTGGGACACAGGCATCGA
* * *
65880064 AT-TGAAATTTACCTGTAAGACGATGTCTGGGACATC-GGCATCGT
1 ATCTG-AATTT-CGTGTAAGACCATGTCTGGGACA-CAGGCATCGA
* * * *
65880108 ATCTG-ATTTCGTATAAGACCCTGTCTGGGATAGAGGCATCG-
1 ATCTGAATTTCGTGTAAGACCATGTCTGGGACACAGGCATCGA
* * **
65880149 ATACTGAATTACATGTAAGACCACATCTGGGA
1 AT-CTGAATTTCGTGTAAGACCATGTCTGGGA
65880181 TGTTGGCATT
Statistics
Matches: 94, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
41 2 0.02
42 28 0.30
43 26 0.28
44 35 0.37
45 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (43 bp):
ATCTGAATTTCGTGTAAGACCATGTCTGGGACACAGGCATCGA
Found at i:65880429 original size:35 final size:35
Alignment explanation
Indices: 65880390--65880460 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
65880380 AATATGAATA
65880390 CAAATAAACGAGGATGGTTAAACTTATAAACTACT
1 CAAATAAACGAGGATGGTTAAACTTATAAACTACT
*
65880425 CAAATAAACGAGGATGGTTAAACTTATGAACTACT
1 CAAATAAACGAGGATGGTTAAACTTATAAACTACT
65880460 C
1 C
65880461 TGAGAAATGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (35 bp):
CAAATAAACGAGGATGGTTAAACTTATAAACTACT
Found at i:65882585 original size:49 final size:49
Alignment explanation
Indices: 65882494--65882622 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 49
65882484 ATTAAAGTCA
* *
65882494 ATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-ACCG
1 ATGCCATATCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTACCG
* * * * **
65882543 ATGTCATATCCCAGACAGGTCTTACACTGGCTCTCCTCTATCGGTGTCG
1 ATGCCATATCCCAGACAGGTCTTACACTGACTCTCATATATCGGTACCG
* * *
65882592 ATGCCGTGTCCCAGAAAGGTCTTACACTGAC
1 ATGCCATATCCCAGACAGGTCTTACACTGAC
65882623 ACACAACAAG
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
48 1 0.02
49 65 0.98
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (49 bp):
ATGCCATATCCCAGACAGGTCTTACACTGACTCTCATATATCGGTACCG
Found at i:65882747 original size:46 final size:45
Alignment explanation
Indices: 65882685--65882813 Score: 163
Period size: 46 Copynumber: 2.8 Consensus size: 45
65882675 CCCGAGGCTG
*
65882685 ATGCATGTCCCGGACATGTCTTACACTAGCTCTCATCTCAA-T-GCCA
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCA--T-AAGTGGCCA
* *
65882731 ATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAA-GTGGCCA
* *
65882777 ATGCATGTCCCAGACATGTCCTACACTAGCTCACATA
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATA
65882814 CTGTGTAACA
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
43 2 0.03
44 1 0.01
45 1 0.01
46 70 0.95
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGTGGCCA
Found at i:65884255 original size:40 final size:40
Alignment explanation
Indices: 65884209--65884353 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
65884199 CTCGCACAAG
* * * * *
65884209 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
65884249 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
65884289 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
65884330 GCCTTCGAGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
65884354 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.65
41 27 0.30
42 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:65885584 original size:38 final size:38
Alignment explanation
Indices: 65885542--65885617 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
65885532 CAAGAACTCC
65885542 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
65885580 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
65885618 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:65889339 original size:18 final size:18
Alignment explanation
Indices: 65889316--65889352 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
65889306 CTTGGCCCAT
*
65889316 TGCAGTAATAGTAAACAG
1 TGCAGTAACAGTAAACAG
*
65889334 TGCAGTAGCAGTAAACAG
1 TGCAGTAACAGTAAACAG
65889352 T
1 T
65889353 ATGCAAGTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAG
Found at i:65894667 original size:47 final size:47
Alignment explanation
Indices: 65894609--65894800 Score: 285
Period size: 47 Copynumber: 4.1 Consensus size: 47
65894599 TTAGGATTTT
* * *
65894609 AATGCGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
65894656 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
65894703 AATGTGATGAATGTGAACATGCATATATGAGATAAGGGCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
65894750 AATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
65894797 AATG
1 AATG
65894801 CGAAATGTGT
Statistics
Matches: 134, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 134 1.00
ACGTcount: A:0.32, C:0.12, G:0.31, T:0.25
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:65894890 original size:46 final size:46
Alignment explanation
Indices: 65894774--65894910 Score: 157
Period size: 46 Copynumber: 3.0 Consensus size: 46
65894764 GAACATGTAT
* * *
65894774 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGTTAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * *
65894820 ATATGAGATAAATCTGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * *
65894866 ATATGTGGTAAAGCCAAATTGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
65894911 TGTATATATA
Statistics
Matches: 73, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.28
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:65904000 original size:16 final size:16
Alignment explanation
Indices: 65903981--65904011 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65903971 CTTCTTCACT
65903981 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
65903997 TACTTACTTACTTAA
1 TACTCACTTACTTAA
65904012 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:65904017 original size:20 final size:20
Alignment explanation
Indices: 65903978--65904017 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
65903968 AAACTTCTTC
* *
65903978 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
65903998 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
65904018 TTATTAATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:65904128 original size:23 final size:24
Alignment explanation
Indices: 65904090--65904134 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
65904080 TTTGCTCCTC
*
65904090 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
65904114 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
65904135 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:65904137 original size:5 final size:5
Alignment explanation
Indices: 65904127--65904154 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
65904117 CATAACTCGT
65904127 CTTAC CTTAC CTTAC CTTAC CTTAC CTT
1 CTTAC CTTAC CTTAC CTTAC CTTAC CTT
65904155 GACATTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.39, G:0.00, T:0.43
Consensus pattern (5 bp):
CTTAC
Found at i:65904412 original size:108 final size:110
Alignment explanation
Indices: 65904260--65904460 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
65904250 ATCCTTTTTA
* * * *
65904260 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTA-GAAACCTCAACAA
65904323 -TGCCATGCATTGGCATGGTCTTACATGGGACCTTTGCTTTATAGT
65 TTGCCATGCATTGGCATGGTCTTACATGGGACCTTTGCTTTATAGT
* * *
65904368 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTAGAAACCTTAACAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAGAAACCTCAACAAT
*
65904433 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCATTGGCATGGTCTTACATGG
65904461 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.59
109 6 0.07
110 27 0.33
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAGAAACCTCAACAAT
TGCCATGCATTGGCATGGTCTTACATGGGACCTTTGCTTTATAGT
Found at i:65904437 original size:55 final size:52
Alignment explanation
Indices: 65904223--65904468 Score: 187
Period size: 55 Copynumber: 4.7 Consensus size: 52
65904213 CTTACCATTT
* * * * * * *
65904223 CCATGACTTGTCATGGTCTTACGTGGTATCCTT--TTTA-AACTTACCATTG
1 CCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAGAACTTAACAATG
* * * *
65904272 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGATATCCTTACCTTA-GAACTTAACAATG
* ** * * *
65904325 CCATG-CATTGGCATGGTCTTACATGGGA-CCTTTGCTTTATAGTAACTTATCAATG
1 CCATGTC-TTGACATGGTCTTACATGATATCC-TTAC-CT-TAG-AACTTAACAATG
*
65904380 CCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTAGAAACCTTAACAATTG
1 CCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAG-AA-CTTAACAA-TG
* * *
65904435 CCATGCCTTGGCATGGTCTTACATGGTATCCTTA
1 CCATGTCTTGACATGGTCTTACATGATATCCTTA
65904469 AACCCTAATG
Statistics
Matches: 161, Mismatches: 23, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
49 30 0.19
51 3 0.02
52 3 0.02
53 43 0.27
54 10 0.06
55 69 0.43
56 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.37
Consensus pattern (52 bp):
CCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAGAACTTAACAATG
Found at i:65911949 original size:23 final size:23
Alignment explanation
Indices: 65911923--65911975 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
65911913 ATACATTTTA
65911923 CTTACCTGTTTAGCATAACTCGT
1 CTTACCTGTTTAGCATAACTCGT
65911946 CTTACCTGTTTAGCATAACTCGT
1 CTTACCTGTTTAGCATAACTCGT
65911969 CTTACCT
1 CTTACCT
65911976 TTCCTTACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.21, C:0.28, G:0.11, T:0.40
Consensus pattern (23 bp):
CTTACCTGTTTAGCATAACTCGT
Found at i:65912229 original size:55 final size:53
Alignment explanation
Indices: 65912045--65912236 Score: 171
Period size: 53 Copynumber: 3.7 Consensus size: 53
65912035 ACATGGGTAC
* * * * *
65912045 CTTACCATTGCCATGACTTGCCATGGTCTTACGT-GG-T--AT-CCTTTTGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCATCCCTTATG-AA
* * * *
65912094 CTTACCATTGCGATGTCTTGACATGGTCTTACGTGGTATCCATCCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCATCCCTTATGAA
* * * * *
65912147 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-ATCCCTTAT-G-AA
*
65912202 CTTATCAATGCCATGTCTTGACATGGTCTTACATG
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATG
65912237 ATTTTCTTGC
Statistics
Matches: 117, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
49 31 0.26
50 1 0.01
51 1 0.01
52 2 0.02
53 42 0.36
54 7 0.06
55 33 0.28
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCATCCCTTATGAA
Found at i:65912247 original size:55 final size:54
Alignment explanation
Indices: 65912092--65912291 Score: 172
Period size: 55 Copynumber: 3.7 Consensus size: 54
65912082 ATCCTTTTGA
* * * * * * * *
65912092 AACTTACCATTGCGATGTCTTGACATGGTCTTACGTGGTATCCATCCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATTCTTGCCTTATAG
* * ** *
65912145 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATTC-TTGCCTTATAG
* * * *
65912199 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATTCTTGCCTTATAG
* *
65912253 AACCTTACCAATTTCCATGCCTTGGCATGGTCTTACATG
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATG
65912292 GTATCCTTAA
Statistics
Matches: 119, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
52 2 0.02
53 42 0.35
54 8 0.07
55 66 0.55
56 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATTCTTGCCTTATAG
Found at i:65912250 original size:108 final size:110
Alignment explanation
Indices: 65912092--65912292 Score: 273
Period size: 108 Copynumber: 1.8 Consensus size: 110
65912082 ATCCTTTTGA
* * * *
65912092 AACTTACCATTGCGATGTCTTGACATGGTCTTACGTGGTATCCATCCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCATCCCTTA-GAAACCTCACCAA
65912155 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * * * *
65912200 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCATCCCTTAGAAACCTCACCAAT
*
65912265 TTCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
65912293 TATCCTTAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
107 1 0.01
108 44 0.56
109 7 0.09
110 27 0.34
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCATCCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:65916288 original size:13 final size:13
Alignment explanation
Indices: 65916270--65916294 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65916260 CAAACGATCA
65916270 AATTTTCATACAG
1 AATTTTCATACAG
65916283 AATTTTCATACA
1 AATTTTCATACA
65916295 TACTAATTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (13 bp):
AATTTTCATACAG
Found at i:65922044 original size:42 final size:41
Alignment explanation
Indices: 65921943--65922098 Score: 152
Period size: 43 Copynumber: 3.7 Consensus size: 41
65921933 TGTGTTATCG
* *
65921943 TGTAAGACCATGTCTGGGACATTGACATCGATTTGTGATTTACG
1 TGTAAGACCATGTCTGGGACATTGGCATC-ATTT-TGATTT-CA
* *
65921987 TGTAACA-CATGTCTGGGACATTGGTATCATTTATGATTTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCATTT-TGATTTCA
* * * * *
65922028 TGTAAGACCCTCTCTGGGACAGTGGCATTGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCA-TCAT-TTTGATTTCA
* *
65922071 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
65922099 TGTACAAGCT
Statistics
Matches: 92, Mismatches: 17, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
41 7 0.08
42 26 0.28
43 51 0.55
44 8 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATTGGCATCATTTTGATTTCA
Found at i:65923113 original size:28 final size:26
Alignment explanation
Indices: 65923066--65923127 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 26
65923056 CACAAATGAC
*
65923066 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGACTATGCCACAAA-ATCT
* *
65923093 GTATCTGGTGACTCTGTCACAAAATCT
1 GT-TCTGGTGACTATGCCACAAAATCT
65923120 GTTCTGGT
1 GTTCTGGT
65923128 AGCCATGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.19
27 8 0.26
28 17 0.55
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGACTATGCCACAAAATCT
Found at i:65924216 original size:11 final size:13
Alignment explanation
Indices: 65924188--65924217 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
65924178 TGATGTTTGG
65924188 ATATAGAAATTTT
1 ATATAGAAATTTT
65924201 ATATAGAAATTTT
1 ATATAGAAATTTT
65924214 ATAT
1 ATAT
65924218 GTGTGATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (13 bp):
ATATAGAAATTTT
Found at i:65925311 original size:27 final size:27
Alignment explanation
Indices: 65925281--65925550 Score: 333
Period size: 27 Copynumber: 10.0 Consensus size: 27
65925271 CAAAATTATT
* *
65925281 GAAATACCCCTGTAGGGTAGAGTTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
65925308 GAAATACCCTTATAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* **
65925335 AAAATACCCCTGTAGGGTAGAATTAGT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
65925362 GAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
65925389 GAAATACCCCTGTAGAGTAAAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACC
**
65925416 GAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
65925443 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
65925470 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
65925497 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
65925524 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
65925551 ATTTTGCCCC
Statistics
Matches: 207, Mismatches: 36, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 207 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:65925413 original size:81 final size:81
Alignment explanation
Indices: 65925274--65925550 Score: 392
Period size: 81 Copynumber: 3.4 Consensus size: 81
65925264 TAATTTACAA
* * * *
65925274 AATTATTGAAATACCCCTGTAGGGTAGAGTTATCGAAATACCCTTATAGGGTAGAAATACCAAAA
1 AATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
65925339 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * * * * *
65925355 AATTAGTGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGAGTAAAAATACTGAAA
1 AATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
65925420 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* *
65925436 AATTATTGAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAA
1 AATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
65925501 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
** * * * *
65925517 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTATTGAAATACCCCTGTAGGGTAGAATTACC
65925551 ATTTTGCCCC
Statistics
Matches: 170, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 170 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (81 bp):
AATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
TACCCCTGTAGGGTAG
Found at i:65936666 original size:13 final size:13
Alignment explanation
Indices: 65936648--65936672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65936638 AACGAAGTAG
65936648 GACATGGCCGTGC
1 GACATGGCCGTGC
65936661 GACATGGCCGTG
1 GACATGGCCGTG
65936673 TGTACCAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.28, G:0.40, T:0.16
Consensus pattern (13 bp):
GACATGGCCGTGC
Found at i:65942547 original size:18 final size:18
Alignment explanation
Indices: 65942519--65942555 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
65942509 TTGAGATTAA
65942519 TGGGCCACATGGG-CGTG
1 TGGGCCACATGGGCCGTG
65942536 TGGGCTCACATGGGCCGTG
1 TGGGC-CACATGGGCCGTG
65942555 T
1 T
65942556 TATGGGCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 8 0.44
19 5 0.28
ACGTcount: A:0.11, C:0.24, G:0.43, T:0.22
Consensus pattern (18 bp):
TGGGCCACATGGGCCGTG
Found at i:65942708 original size:26 final size:26
Alignment explanation
Indices: 65942668--65942759 Score: 89
Period size: 26 Copynumber: 3.5 Consensus size: 26
65942658 CTGTACTGTC
* *
65942668 AAAATGACTGTTATACCTCTAAAGGT
1 AAAATGACTGATATACCCCTAAAGGT
* *
65942694 AAAATGACTGATATACCCCT--ATGC
1 AAAATGACTGATATACCCCTAAAGGT
* * *
65942718 AATATTTAACTGTTATACCCCTAAAGGT
1 AA-A-ATGACTGATATACCCCTAAAGGT
65942746 AAAATGACTGATAT
1 AAAATGACTGATAT
65942760 TATGACATGA
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
24 4 0.08
25 1 0.02
26 40 0.80
27 1 0.02
28 4 0.08
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (26 bp):
AAAATGACTGATATACCCCTAAAGGT
Found at i:65954038 original size:12 final size:11
Alignment explanation
Indices: 65954021--65954101 Score: 65
Period size: 12 Copynumber: 6.9 Consensus size: 11
65954011 TCCTCTTATT
65954021 TTTTTATTCTTA
1 TTTTTATT-TTA
65954033 TTTTTATTTTA
1 TTTTTATTTTA
*
65954044 -TTTTATTTTTC
1 TTTTTA-TTTTA
*
65954055 TTTTTCTTTTGA
1 TTTTTATTTT-A
65954067 TTTTTATTTTCA
1 TTTTTATTTT-A
**
65954079 TTTCAATTTTA
1 TTTTTATTTTA
65954090 TTATTTTATTTT
1 -T-TTTTATTTT
65954102 GAAAGACATA
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 5 0.09
11 12 0.22
12 31 0.56
13 7 0.13
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:65954071 original size:7 final size:6
Alignment explanation
Indices: 65954021--65954081 Score: 63
Period size: 6 Copynumber: 10.5 Consensus size: 6
65954011 TCCTCTTATT
* * * *
65954021 TTTTTA TTCTTA TTTTTA -TTTTA -TTTTA TTTTTC TTTTTC TTTTGA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
65954067 TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTT
65954082 CAATTTTATT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
5 10 0.21
6 37 0.79
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:65954077 original size:17 final size:16
Alignment explanation
Indices: 65954030--65954091 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 16
65954020 TTTTTTATTC
*
65954030 TTATTTTTATTTTATT
1 TTATTTTTATTTTCTT
*
65954046 TTATTTTTCTTTTTCTT
1 TTATTTTT-ATTTTCTT
65954063 TTGATTTTTATTTTCATT
1 TT-ATTTTTATTTTC-TT
* *
65954081 TCAATTTTATT
1 TTATTTTTATT
65954092 ATTTTATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.21
17 21 0.55
18 9 0.24
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (16 bp):
TTATTTTTATTTTCTT
Found at i:65965476 original size:27 final size:27
Alignment explanation
Indices: 65965445--65965622 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
65965435 TAAATTGTAC
65965445 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
65965472 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
65965498 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
65965526 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
65965554 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
65965581 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
65965608 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
65965623 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:65965559 original size:82 final size:81
Alignment explanation
Indices: 65965446--65965601 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
65965436 AAATTGTACA
* *
65965446 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
65965510 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
65965527 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
65965592 TGCGAGTTGA
65 TGCGAATTGA
65965602 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:65965613 original size:82 final size:81
Alignment explanation
Indices: 65965442--65965622 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
65965432 GATTAAATTG
* *
65965442 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
65965507 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
65965523 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
65965587 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
65965605 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
65965623 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:65973519 original size:27 final size:27
Alignment explanation
Indices: 65973488--65973665 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
65973478 TAAATTGTAC
65973488 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
65973515 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
65973541 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
65973569 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
65973597 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
65973624 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
65973651 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
65973666 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:65973602 original size:82 final size:81
Alignment explanation
Indices: 65973489--65973644 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
65973479 AAATTGTACA
* *
65973489 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
65973553 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
65973570 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
65973635 TGCGAGTTGA
65 TGCGAATTGA
65973645 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:65973656 original size:82 final size:81
Alignment explanation
Indices: 65973485--65973665 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
65973475 GATTAAATTG
* *
65973485 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
65973550 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
65973566 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
65973630 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
65973648 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
65973666 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:65981966 original size:43 final size:42
Alignment explanation
Indices: 65981883--65981990 Score: 108
Period size: 43 Copynumber: 2.5 Consensus size: 42
65981873 CGAAAAACTC
* * * ***
65981883 ATACAATACCAACATCCCAGACAAGGTCTTACATGTAATCAA
1 ATACAATGCCAATATCCCAAACAAGGTCTTACACAAAATCAA
* * * *
65981925 ATATCAATGTCACTATCCCAAACAGGGTCTTACACAAAATCAT
1 ATA-CAATGCCAATATCCCAAACAAGGTCTTACACAAAATCAA
*
65981968 ATACAATGCCAATGTCCCAAACA
1 ATACAATGCCAATATCCCAAACA
65981991 TAGTTTACAT
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 20 0.38
43 32 0.62
ACGTcount: A:0.42, C:0.27, G:0.09, T:0.22
Consensus pattern (42 bp):
ATACAATGCCAATATCCCAAACAAGGTCTTACACAAAATCAA
Found at i:65984512 original size:68 final size:67
Alignment explanation
Indices: 65984440--65984589 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
65984430 CATCATGTGT
* * * *
65984440 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
65984502 ATGTAG
62 ATGTAG
** * *
65984508 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
65984573 AG
66 AG
65984575 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
65984590 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:65984545 original size:64 final size:64
Alignment explanation
Indices: 65984464--65984647 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
65984454 AGACATTATG
* *
65984464 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
65984528 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
65984593 AA
63 AA
* * * *
65984595 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
65984648 CAACTATATG
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:65991662 original size:17 final size:18
Alignment explanation
Indices: 65991640--65991673 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
65991630 ACTTGAGTTA
65991640 ATTATTATAA-TTTAAAC
1 ATTATTATAACTTTAAAC
*
65991657 ATTATTTTAACTTTAAA
1 ATTATTATAACTTTAAA
65991674 ATCACCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTATTATAACTTTAAAC
Found at i:65993200 original size:47 final size:48
Alignment explanation
Indices: 65993075--65993205 Score: 192
Period size: 48 Copynumber: 2.8 Consensus size: 48
65993065 GGAATAAAAA
*
65993075 AACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCATGGTTACACATATTGATACATGT
* * * * *
65993123 ATCGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT-T
1 AACGTGGTGCTAAGTGGATATACCATGGTTACACATATTGATACATGT
*
65993170 AACGTGGTGCTAAGTGGATATACCATGGTTAAACAT
1 AACGTGGTGCTAAGTGGATATACCATGGTTACACAT
65993206 GTAACATGGT
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 32 0.44
48 40 0.56
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (48 bp):
AACGTGGTGCTAAGTGGATATACCATGGTTACACATATTGATACATGT
Found at i:65993244 original size:38 final size:38
Alignment explanation
Indices: 65993169--65993245 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
65993159 ATTGATTCAT
* * *
65993169 TAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
1 TAACATGGTGCTAAGTGGATATACCACGATTAAACATG
* * *
65993207 TAACATGGTGCTAAGTTGATATGCCACGATTATACATG
1 TAACATGGTGCTAAGTGGATATACCACGATTAAACATG
65993245 T
1 T
65993246 TAATTTGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (38 bp):
TAACATGGTGCTAAGTGGATATACCACGATTAAACATG
Found at i:66000023 original size:50 final size:50
Alignment explanation
Indices: 65999968--66000073 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 50
65999958 ATTGGAACAC
* * * *
65999968 CACATAAATACTTACCTATATGA-CTGGATATACCAA-GTTCATTATATCAT
1 CACATAAATACATACCTATAAGATC-GAATATA-CAAGGTTCAATATATCAT
* *
66000018 TACATAAGTACATACCTATAAGATCGAATATACAAGGTTCAATATATCAT
1 CACATAAATACATACCTATAAGATCGAATATACAAGGTTCAATATATCAT
66000068 CACATA
1 CACATA
66000074 TGGCTGATTA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
49 3 0.06
50 43 0.91
51 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (50 bp):
CACATAAATACATACCTATAAGATCGAATATACAAGGTTCAATATATCAT
Found at i:66000192 original size:70 final size:72
Alignment explanation
Indices: 66000042--66000204 Score: 208
Period size: 70 Copynumber: 2.3 Consensus size: 72
66000032 CCTATAAGAT
* * * *
66000042 CGAATATACAAGGTTCAATATATCATCACATATGGCTGATTATACAAAATTCAATATATCCTCAC
1 CGAATATACAAGATTCAATATATCATCACATATGGATGAATATACAAAATTCAATATATCATCAC
66000107 ATATAAC
66 ATATAAC
*
66000114 CGAATATACAA-ATTCAATATATCATCACATAT-GATAGAATATAC-GAATTCAATATATCATCA
1 CGAATATACAAGATTCAATATATCATCACATATGGAT-GAATATACAAAATTCAATATATCATCA
**
66000176 CATATGGC
65 CATATAAC
* *
66000184 CGATTATACAAGGTTC-ATATA
1 CGAATATACAAGATTCAATATA
66000205 GCTCGATTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
70 39 0.49
71 30 0.38
72 11 0.14
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (72 bp):
CGAATATACAAGATTCAATATATCATCACATATGGATGAATATACAAAATTCAATATATCATCAC
ATATAAC
Found at i:66000204 original size:35 final size:35
Alignment explanation
Indices: 66000042--66000194 Score: 189
Period size: 35 Copynumber: 4.3 Consensus size: 35
66000032 CCTATAAGAT
* *
66000042 CGAATATACAAGGTTCAATATATCATCACATATGGC
1 CGAATATACAA-ATTCAATATATCATCACATATGAC
* * * *
66000078 TGATTATACAAAATTCAATATATCCTCACATATAAC
1 CGAATATAC-AAATTCAATATATCATCACATATGAC
*
66000114 CGAATATACAAATTCAATATATCATCACATATGAT
1 CGAATATACAAATTCAATATATCATCACATATGAC
* * *
66000149 AGAATATACGAATTCAATATATCATCACATATGGC
1 CGAATATACAAATTCAATATATCATCACATATGAC
*
66000184 CGATTATACAA
1 CGAATATACAA
66000195 GGTTCATATA
Statistics
Matches: 98, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
35 62 0.63
36 34 0.35
37 2 0.02
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.30
Consensus pattern (35 bp):
CGAATATACAAATTCAATATATCATCACATATGAC
Found at i:66009310 original size:43 final size:43
Alignment explanation
Indices: 66009238--66009330 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
66009228 TCACATAAAT
**
66009238 CATA-CAATGCCAATGTCCCAAACGTGGTCTTACAT-GTAGCCA
1 CATATCAATGCCAATGTCCCAAACGTGGTCTTAC-TCGTAAACA
* *
66009280 CATATCAATGCCACTGTCCCAGACAG-GGTCTTACTCGTAAACA
1 CATATCAATGCCAATGTCCCAAAC-GTGGTCTTACTCGTAAACA
66009323 CATATCAA
1 CATATCAA
66009331 AATCACATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
42 5 0.11
43 38 0.86
44 1 0.02
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (43 bp):
CATATCAATGCCAATGTCCCAAACGTGGTCTTACTCGTAAACA
Found at i:66013699 original size:23 final size:24
Alignment explanation
Indices: 66013660--66013704 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
66013650 AGGATGTCAA
*
66013660 TGCAGAGTTTTTTCAAA-AATCAG
1 TGCAGAGTTTTTACAAACAATCAG
66013683 TGCA-AGTTTTTCACAAACAATC
1 TGCAGAGTTTTT-ACAAACAATC
66013705 CTACCTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (24 bp):
TGCAGAGTTTTTACAAACAATCAG
Found at i:66013796 original size:24 final size:24
Alignment explanation
Indices: 66013767--66013862 Score: 129
Period size: 24 Copynumber: 4.0 Consensus size: 24
66013757 ATAACACTCC
*
66013767 ACATTGTGGCCAAGCCACTCAATA
1 ACATTGTGGTCAAGCCACTCAATA
*
66013791 GCATTGTGGTCAAGCCACTCAATA
1 ACATTGTGGTCAAGCCACTCAATA
* * *
66013815 ACGTTGTGGTCAAGCTACTGAATA
1 ACATTGTGGTCAAGCCACTCAATA
* *
66013839 ACGTTGTGATCAAGCCACTCAATA
1 ACATTGTGGTCAAGCCACTCAATA
66013863 TAACAGATAA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (24 bp):
ACATTGTGGTCAAGCCACTCAATA
Found at i:66019612 original size:42 final size:43
Alignment explanation
Indices: 66019489--66019616 Score: 120
Period size: 42 Copynumber: 3.0 Consensus size: 43
66019479 TGGAAGATCG
* *
66019489 TGTCTGGGACAGAGGCCTCGAT-T-TGAGATTTACGTGTAAGACCA
1 TGTCTGGGACAGAGGCATC-ATATCTGA-A-TTACATGTAAGACCA
* * * ** *
66019533 TGTCTGGGACATAGGCATCGTATCTGATTTTGA-GTAAGACCC
1 TGTCTGGGACAGAGGCATCATATCTGAATTACATGTAAGACCA
*
66019575 TGTCTGGGATAGAGGCATCATA-CTGAATTACATGTAAGACCA
1 TGTCTGGGACAGAGGCATCATATCTGAATTACATGTAAGACCA
66019617 CATCCGGGAC
Statistics
Matches: 66, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
41 7 0.11
42 35 0.53
43 3 0.05
44 18 0.27
45 3 0.05
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
TGTCTGGGACAGAGGCATCATATCTGAATTACATGTAAGACCA
Found at i:66021147 original size:40 final size:40
Alignment explanation
Indices: 66021073--66021374 Score: 500
Period size: 40 Copynumber: 7.6 Consensus size: 40
66021063 AACCCAAGTA
* *
66021073 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
66021112 CCTTTGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
66021152 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
66021192 CCTTCGGGACTTAGCTCAGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
66021232 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
66021272 CCTTCGGGACTTAGCTCAGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
66021312 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCCCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
66021352 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
66021375 CATTCGAATA
Statistics
Matches: 246, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 11 0.04
40 232 0.94
41 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:66033609 original size:27 final size:27
Alignment explanation
Indices: 66033579--66033635 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
66033569 TATGCTTAGA
66033579 TTTAATAAACAGGATTGGTAAGTTCAG
1 TTTAATAAACAGGATTGGTAAGTTCAG
66033606 TTTAATAAACAGGATTGGTAAGTTCAG
1 TTTAATAAACAGGATTGGTAAGTTCAG
66033633 TTT
1 TTT
66033636 CCATTATACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (27 bp):
TTTAATAAACAGGATTGGTAAGTTCAG
Found at i:66035187 original size:29 final size:30
Alignment explanation
Indices: 66035134--66035191 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
66035124 CGGAAGTTTT
66035134 GGCACTAAGTGTGCGATTTAAACTAGCTTG
1 GGCACTAAGTGTGCGATTTAAACTAGCTTG
66035164 GGCACTAAGTGTGCGATTT-AACTAGCTT
1 GGCACTAAGTGTGCGATTTAAACTAGCTT
66035192 CGGCTATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (30 bp):
GGCACTAAGTGTGCGATTTAAACTAGCTTG
Found at i:66039377 original size:81 final size:81
Alignment explanation
Indices: 66039246--66039415 Score: 202
Period size: 81 Copynumber: 2.1 Consensus size: 81
66039236 CAAATTACCA
* * * *
66039246 AAATACCCTCGATTAGCAAAATTACCAAAATACCTCTAATTTGTGAAATTACTGAAATACCCTC-
1 AAATACCCTCGATTAGCAAAATTACCAAAATACCCCCAATTTATGAAATTACCGAAATACCCTCG
*
66039310 ATCTTGTAAAATTATTG
66 AT-TTATAAAATTATTG
* * ***
66039327 AAATACCCTCGACTT-GTAAAATTACCAAAGTACCCCCAATTTAT-AGAATTACCGTTTTACCCT
1 AAATACCCTCGA-TTAGCAAAATTACCAAAATACCCCCAATTTATGA-AATTACCGAAATACCCT
66039390 CGATTTATAAAATTATTG
64 CGATTTATAAAATTATTG
66039408 AAATACCC
1 AAATACCC
66039416 CTGTAGGGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
80 1 0.01
81 71 0.93
82 4 0.05
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (81 bp):
AAATACCCTCGATTAGCAAAATTACCAAAATACCCCCAATTTATGAAATTACCGAAATACCCTCG
ATTTATAAAATTATTG
Found at i:66039414 original size:27 final size:27
Alignment explanation
Indices: 66039237--66039415 Score: 105
Period size: 27 Copynumber: 6.6 Consensus size: 27
66039227 TTAGTTTACC
** *
66039237 AAATTACCAAAATACCCTCGA-TTAGCA
1 AAATTACTGAAATACCCTCGATTTA-TA
** * * *
66039264 AAATTACCAAAATA-CCTCTAATTTGTG
1 AAATTACTGAAATACCCTC-GATTTATA
*
66039291 AAATTACTGAAATACCCTC-ATCTTGTA
1 AAATTACTGAAATACCCTCGAT-TTATA
* * *
66039318 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTATA
* * *
66039345 AAATTAC-CAAAGTACCCCCAATTTATA
1 AAATTACTGAAA-TACCCTCGATTTATA
* * ***
66039372 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACTGAAATACCCTCGATTTATA
*
66039399 AAATTATTGAAATACCC
1 AAATTACTGAAATACCC
66039416 CTGTAGGGTA
Statistics
Matches: 117, Mismatches: 28, Indels: 14
0.74 0.18 0.09
Matches are distributed among these distances:
26 9 0.08
27 101 0.86
28 7 0.06
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTATA
Found at i:66039430 original size:27 final size:27
Alignment explanation
Indices: 66039400--66039514 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 27
66039390 CGATTTATAA
*
66039400 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** *
66039427 AATTACTGAAATACCATTGTAGGGTAT
1 AATTACTGAAATACCCCTGTAGGGTAG
*
66039454 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
66039481 AATTA-TCGAGATACCCTTGTGGGGTAA
1 AATTACT-GAAATACCCCTGTAGGGTAG
66039508 AATTACT
1 AATTACT
66039515 ATTTTTCCCC
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 71 0.97
28 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.30
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:66039525 original size:54 final size:54
Alignment explanation
Indices: 66039406--66039510 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 54
66039396 ATAAAATTAT
66039406 TGAAATACCCCTGTAGGGTAGAATTACTGAAATACCATTGTAGGGTATAAATAC
1 TGAAATACCCCTGTAGGGTAGAATTACTGAAATACCATTGTAGGGTATAAATAC
* * *
66039460 TGAAATACCCCTGTAGGGTAGAATTA-TCGAGATACCCTTGTGGGGTA-AAAT
1 TGAAATACCCCTGTAGGGTAGAATTACT-GAAATACCATTGTAGGGTATAAAT
66039511 TACTATTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
53 5 0.11
54 42 0.89
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (54 bp):
TGAAATACCCCTGTAGGGTAGAATTACTGAAATACCATTGTAGGGTATAAATAC
Found at i:66040233 original size:27 final size:27
Alignment explanation
Indices: 66040180--66040261 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 27
66040170 ATTCTGTTAA
* *
66040180 GTGGCTTTGCCACATTATCTG-ATTCTG
1 GTGGCTCTGCCACAATATCTGTA-TCTG
66040207 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* ** * *
66040234 ATAACTCTGTCACAATATCTAT-TCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
66040260 GT
1 GT
66040262 AGCCATGCTG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.11
27 40 0.87
28 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:66040413 original size:25 final size:25
Alignment explanation
Indices: 66040377--66040462 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 25
66040367 TTGCATTCAC
* *
66040377 ATTCTGACTCTGTTACCTGATACAG
1 ATTCTGATTCTGTTACCTGATACTG
* * *
66040402 ATTCTGATTCTGTCACCTAATATTG
1 ATTCTGATTCTGTTACCTGATACTG
* * *
66040427 ATCCTGATTCTGATACATGATACTG
1 ATTCTGATTCTGTTACCTGATACTG
66040452 ATTCTGATTCT
1 ATTCTGATTCT
66040463 CATTATGATT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (25 bp):
ATTCTGATTCTGTTACCTGATACTG
Found at i:66042250 original size:40 final size:40
Alignment explanation
Indices: 66042171--66042347 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 40
66042161 CGGATGATAA
* * ** * *
66042171 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTTGTTATAT
* * *
66042211 CTGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTTG-TTATAT
*
66042251 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTTGTTATAT
* * *
66042291 CCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTTGTTATAT
66042331 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
66042348 ATACTTGGGT
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 99 0.85
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTTGTTATAT
Found at i:66049629 original size:47 final size:47
Alignment explanation
Indices: 66049546--66049890 Score: 523
Period size: 47 Copynumber: 7.4 Consensus size: 47
66049536 GATGTACAAG
* * *
66049546 GTGTGTATATGTGATAAGG-CTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
66049592 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGCGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * **
66049639 GTGTGTATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
66049686 GTGTATATATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
66049733 GTGTATATATGTGATAAGGCCG-ATGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * *
66049779 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
66049826 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
66049873 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
66049891 TCCCGAAGGG
Statistics
Matches: 270, Mismatches: 27, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
46 60 0.22
47 210 0.78
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:66049802 original size:140 final size:141
Alignment explanation
Indices: 66049546--66049890 Score: 532
Period size: 140 Copynumber: 2.5 Consensus size: 141
66049536 GATGTACAAG
* * * *
66049546 GTGTGTATATGTGAT-AAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GTGTATATATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* * * * **
66049610 GCCGAATGGCCAATGTGATGAATGCGAAAGTGTGTATATGTGATAAGGCCTAATGGCTGATGTGA
66 GCCGAATGGCCAACGTGATGAATGCGAAAGTGTATATATGAGATAAGACCTAATGGCCAATGTGA
66049675 TGAATGTGAAA
131 TGAATGTGAAA
66049686 GTGTATATATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GTGTATATATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
*
66049751 GCCG-ATGGCCAACGTGATGAATGTGAAAGTGTATATATGAGATAAGACCTAATGGCCAATGTGA
66 GCCGAATGGCCAACGTGATGAATGCGAAAGTGTATATATGAGATAAGACCTAATGGCCAATGTGA
* *
66049815 TGGATGTGAAG
131 TGAATGTGAAA
* * *
66049826 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
66049891 TCCCGAAGGG
Statistics
Matches: 188, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
140 138 0.73
141 50 0.27
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (141 bp):
GTGTATATATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCGAATGGCCAACGTGATGAATGCGAAAGTGTATATATGAGATAAGACCTAATGGCCAATGTGA
TGAATGTGAAA
Found at i:66049871 original size:187 final size:187
Alignment explanation
Indices: 66049546--66049889 Score: 535
Period size: 187 Copynumber: 1.8 Consensus size: 187
66049536 GATGTACAAG
* * * * * *
66049546 GTGTGTATATGTGATAAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 GTGTATATATGTGATAAGGCCAATGGCCAACGTGATGAATGTGAAAGTGTATATATGAGATAAGA
* * **
66049611 CCGAATGGCCAATGTGATGAATGCGAAAGTGTGTATATGTGATAAGGCCTAATGGCTGATGTGAT
66 CCGAATGGCCAATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
*
66049676 GAATGTGAAAGTGTATATATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAAA
131 GAATGTGAAAGTGTATAAATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAAA
*
66049733 GTGTATATATGTGATAAGGCCGATGGCCAACGTGATGAATGTGAAAGTGTATATATGAGATAAGA
1 GTGTATATATGTGATAAGGCCAATGGCCAACGTGATGAATGTGAAAGTGTATATATGAGATAAGA
* * * *
66049798 CCTAATGGCCAATGTGATGGATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
66 CCGAATGGCCAATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
*
66049863 GGATGTGAAAGTGTATAAATGTGATAA
131 GAATGTGAAAGTGTATAAATGTGATAA
66049890 GTCCCGAAGG
Statistics
Matches: 140, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
187 140 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (187 bp):
GTGTATATATGTGATAAGGCCAATGGCCAACGTGATGAATGTGAAAGTGTATATATGAGATAAGA
CCGAATGGCCAATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
GAATGTGAAAGTGTATAAATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:66051796 original size:40 final size:40
Alignment explanation
Indices: 66051741--66052012 Score: 411
Period size: 40 Copynumber: 6.8 Consensus size: 40
66051731 CAGTATGTTA
66051741 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
66051781 TATCCGGGCTAAGTCCCAAAGAGCATCCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * * * *
66051821 TATCCGGGCAAAGTTCCGAAAAGCGTTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * *
66051861 TATTCGGGCTAAGTTCCAAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * *
66051901 TATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
66051941 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
66051981 TATCCGGGCTAAGCCCCGAAG-GCATTCGTGCT
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
66052013 TGGACAAAAT
Statistics
Matches: 207, Mismatches: 25, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
39 11 0.05
40 196 0.95
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
Found at i:66056000 original size:47 final size:47
Alignment explanation
Indices: 66055941--66056287 Score: 541
Period size: 47 Copynumber: 7.4 Consensus size: 47
66055931 GATGTACAAG
* **
66055941 GTGTGTATATGTGATAAGGCTTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
66055988 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGCGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * *
66056035 GTGTGTATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
66056082 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
66056129 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
66056176 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
66056223 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
66056270 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
66056288 TCCCGAAGGG
Statistics
Matches: 273, Mismatches: 27, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 273 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:66056046 original size:25 final size:25
Alignment explanation
Indices: 66055971--66056049 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
66055961 TTAATGGCCA
* *
66055971 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCGAAAGTGTGTAT
* *
66055996 ATGTGAT-AAGGCCG-AA-TG-GCCA-
1 ATGTGATGAATG-CGAAAGTGTG-TAT
66056018 ATGTGATGAATGCGAAAGTGTGTAT
1 ATGTGATGAATGCGAAAGTGTGTAT
66056043 ATGTGAT
1 ATGTGAT
66056050 AAGGCCTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 9 0.22
23 8 0.20
24 8 0.20
25 16 0.39
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.30
Consensus pattern (25 bp):
ATGTGATGAATGCGAAAGTGTGTAT
Found at i:66059614 original size:17 final size:17
Alignment explanation
Indices: 66059592--66059626 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
66059582 AGTTGTGTTG
66059592 ATGTCATTAGCATGCTA
1 ATGTCATTAGCATGCTA
66059609 ATGTCATTAGCATGCTA
1 ATGTCATTAGCATGCTA
66059626 A
1 A
66059627 GTGTGAAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (17 bp):
ATGTCATTAGCATGCTA
Found at i:66060722 original size:40 final size:40
Alignment explanation
Indices: 66060643--66060819 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
66060633 CGGATGATAA
* * * * *
66060643 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * *
66060683 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATAT
* *
66060723 CCGGGCTAAGACCCAAAGGCATTTGTGCTAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
*
66060763 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
66060803 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
66060820 ATACTTGGGT
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 100 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
Found at i:66062213 original size:33 final size:34
Alignment explanation
Indices: 66062169--66062243 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
66062159 GGGTGTTACA
66062169 AAGGCCCATCTGGTACTATCT-GTATAATGGGCT
1 AAGGCCCATCTGGTACTATCTAGTATAATGGGCT
* * *
66062202 AAGGCCTATCTGGTACTGTCTATTATAATGGGCT
1 AAGGCCCATCTGGTACTATCTAGTATAATGGGCT
66062236 AAGGCCCA
1 AAGGCCCA
66062244 ATTGATACTG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 19 0.51
34 18 0.49
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (34 bp):
AAGGCCCATCTGGTACTATCTAGTATAATGGGCT
Found at i:66065806 original size:39 final size:39
Alignment explanation
Indices: 66065762--66065920 Score: 255
Period size: 39 Copynumber: 4.1 Consensus size: 39
66065752 ATTATATTAT
* * *
66065762 CAGCACAAAGCCTGCGAGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
66065801 CAGCACGAAGCCTGCGGGACTTTGGCCCGAATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
66065840 CAGCACGAAGCCTGCGGGACTTTAGCCCAGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
66065879 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATGCATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
66065918 CAG
1 CAG
66065921 TGTCTTGCAT
Statistics
Matches: 110, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 110 1.00
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:66067506 original size:20 final size:20
Alignment explanation
Indices: 66067481--66067521 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
66067471 GGTCTCGATA
66067481 CCTCATTTTCTAAACCCACT
1 CCTCATTTTCTAAACCCACT
66067501 CCTCATTTTCTAAACCCACT
1 CCTCATTTTCTAAACCCACT
66067521 C
1 C
66067522 GAACTTAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.41, G:0.00, T:0.34
Consensus pattern (20 bp):
CCTCATTTTCTAAACCCACT
Found at i:66070572 original size:29 final size:30
Alignment explanation
Indices: 66070519--66070576 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
66070509 CGAAAGTTTT
66070519 GGCACTAAGTGTGCGATTTAAACTAGCTTG
1 GGCACTAAGTGTGCGATTTAAACTAGCTTG
*
66070549 GGCACTAAGTGTGCTATTT-AACTAGCTT
1 GGCACTAAGTGTGCGATTTAAACTAGCTT
66070577 CGGCTATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (30 bp):
GGCACTAAGTGTGCGATTTAAACTAGCTTG
Found at i:66077792 original size:49 final size:50
Alignment explanation
Indices: 66077712--66077957 Score: 280
Period size: 49 Copynumber: 4.9 Consensus size: 50
66077702 ATCTATTGTG
* *
66077712 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
* * *
66077762 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAA-TT
* * * * * * **
66077812 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
* * *
66077862 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCATACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
* * * * *
66077912 -GGTCGCAGGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATA
66077958 GCTTTGGCTA
Statistics
Matches: 163, Mismatches: 31, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
49 80 0.49
50 45 0.28
51 38 0.23
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
Found at i:66083277 original size:20 final size:20
Alignment explanation
Indices: 66083252--66083304 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
66083242 ACATGCCTGT
*
66083252 GTGCTTTGGGACACGCCCGC
1 GTGCTTTGGGACACACCCGC
* *
66083272 GTGCTTTGGGACTCACCCGT
1 GTGCTTTGGGACACACCCGC
66083292 GTGCTTTGGGACA
1 GTGCTTTGGGACA
66083305 TGTTTGTGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.11, C:0.28, G:0.34, T:0.26
Consensus pattern (20 bp):
GTGCTTTGGGACACACCCGC
Found at i:66087384 original size:40 final size:40
Alignment explanation
Indices: 66087321--66087411 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
66087311 CTATGTTCGA
* * *
66087321 CACTAAGGGTGCGATTTGAAATAGCTTCGGCTATAAGT-A-G
1 CACTAAGTGTGCGAATTGAAATAGCTTCAGCTAT--GTGAGG
* *
66087361 CACTAAGTGTGTGAATTGGAATAGCTTCAGCTATGTGAGG
1 CACTAAGTGTGCGAATTGAAATAGCTTCAGCTATGTGAGG
66087401 CACTAAGTGTG
1 CACTAAGTGTG
66087412 GGATAACGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.05
39 1 0.02
40 41 0.93
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (40 bp):
CACTAAGTGTGCGAATTGAAATAGCTTCAGCTATGTGAGG
Found at i:66095540 original size:13 final size:13
Alignment explanation
Indices: 66095522--66095546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66095512 AAATTGATAT
66095522 GTGTGAAAATTTC
1 GTGTGAAAATTTC
66095535 GTGTGAAAATTT
1 GTGTGAAAATTT
66095547 TATTGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:66096343 original size:43 final size:43
Alignment explanation
Indices: 66096183--66096353 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 43
66096173 ATAGGATTTT
* * * *
66096183 GATATGTGA-TTTCGTGTAAGACCACGTCCGGGACGTTGGCATC
1 GATATGTGAGTTACATGTAAGACCACGTCTGGGAAG-TGGCATC
* * ** *
66096226 GATTTGTGATTTACATGTAAGACCGTGTCTGGGACATTGGCATC
1 GATATGTGAGTTACATGTAAGACCACGTCTGGGA-AGTGGCATC
* **
66096270 -ATATATGAGTT-TGTGTAAGACC-CTGTCTGGGATAGTGGCATC
1 GATATGTGAGTTACATGTAAGACCAC-GTCTGGGA-AGTGGCATC
*
66096312 GATATGTG-GTTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATGTGAGTTACATGTAAGACCACGTCTGGGAAG-TGGCAT
66096354 TATACAAGCT
Statistics
Matches: 101, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
42 29 0.29
43 45 0.45
44 27 0.27
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (43 bp):
GATATGTGAGTTACATGTAAGACCACGTCTGGGAAGTGGCATC
Found at i:66100208 original size:43 final size:43
Alignment explanation
Indices: 66100105--66100229 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 43
66100095 AATTAAGAAG
* * ** *
66100105 TCCGAACTCGTTGAGTGGTCTGAGTTCGTGATATATGTG-GCA
1 TCCGAACTCGTTGAGTGGTCCGAGTTCGTAATGGATGCGAGCA
* * * *
66100147 TCCGAGCTCGTTGAGTGGTCCAAGTTCATTATGGATGCGAGCA
1 TCCGAACTCGTTGAGTGGTCCGAGTTCGTAATGGATGCGAGCA
*
66100190 TTCGAACTCGTTGAGTGGTCCGAGTTCGTAATGGATGCGA
1 TCCGAACTCGTTGAGTGGTCCGAGTTCGTAATGGATGCGA
66100230 TACATGTGAT
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 31 0.45
43 38 0.55
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.30
Consensus pattern (43 bp):
TCCGAACTCGTTGAGTGGTCCGAGTTCGTAATGGATGCGAGCA
Found at i:66106279 original size:26 final size:26
Alignment explanation
Indices: 66106250--66106299 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
66106240 TGTGTTACTG
66106250 TTACTGGCAGCTTTGCTGCGATATGT
1 TTACTGGCAGCTTTGCTGCGATATGT
66106276 TTACTGGCAGCTTTGCTGCGATAT
1 TTACTGGCAGCTTTGCTGCGATAT
66106300 TGGTGTGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.38
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCGATATGT
Found at i:66112494 original size:40 final size:40
Alignment explanation
Indices: 66112424--66112641 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
66112414 AAACCAAGTA
* * *
66112424 CCTTCGGGATTTAG-CCGGATAGAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
66112463 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
66112503 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
**
66112543 CCTTCGGGACTTAGCCCGGATATAGTAACTTTCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
66112583 CCTCCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
66112623 ACTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
66112642 TTATCATCTG
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 15 0.09
40 146 0.91
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:66120519 original size:40 final size:40
Alignment explanation
Indices: 66120443--66120666 Score: 337
Period size: 40 Copynumber: 5.6 Consensus size: 40
66120433 ATTCCCAAAC
* * *
66120443 CAAATACCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCT
1 CAAATGCCTTCGGGACTTAGCCCGGATATAG-TAACTCGCA
*
66120482 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
66120522 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
66120562 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
66120602 CAAATGCCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
66120642 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
66120667 TTATCATCTG
Statistics
Matches: 171, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 19 0.11
40 152 0.89
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:66122669 original size:19 final size:19
Alignment explanation
Indices: 66122645--66122689 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
66122635 TGAAGCGTAA
66122645 GGAGATTGAGTATTCTGTG
1 GGAGATTGAGTATTCTGTG
66122664 GGAGATTGAGTATTCTGTG
1 GGAGATTGAGTATTCTGTG
*
66122683 GGGGATT
1 GGAGATT
66122690 ATGTCTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.20, C:0.04, G:0.40, T:0.36
Consensus pattern (19 bp):
GGAGATTGAGTATTCTGTG
Found at i:66127976 original size:43 final size:43
Alignment explanation
Indices: 66127907--66128021 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
66127897 AATTAAGAAG
* ** * * *
66127907 TCCGAACTCGTTGAGTGGTCTGAGTTCGTGATATATGTG-GCA
1 TCCGAGCTCGTTGAGTGGTCCAAGTTCATGATAGATGCGAGCA
* *
66127949 TACCGAGCTCGTTGAGTGGTCCAAGTTCATTATGGATGCGAGCA
1 T-CCGAGCTCGTTGAGTGGTCCAAGTTCATGATAGATGCGAGCA
66127993 TCCGAGCTCGTTGAGTGGTCCAAGTTCAT
1 TCCGAGCTCGTTGAGTGGTCCAAGTTCAT
66128022 AACGGATGTG
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 1 0.02
43 58 0.92
44 4 0.06
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (43 bp):
TCCGAGCTCGTTGAGTGGTCCAAGTTCATGATAGATGCGAGCA
Found at i:66128029 original size:43 final size:44
Alignment explanation
Indices: 66127946--66128029 Score: 143
Period size: 43 Copynumber: 1.9 Consensus size: 44
66127936 GATATATGTG
* *
66127946 GCATACCGAGCTCGTTGAGTGGTCCAAGTTCATTATGGATGCGA
1 GCATACCGAGCTCGTTGAGTGGTCCAAGTTCATAACGGATGCGA
66127990 GCAT-CCGAGCTCGTTGAGTGGTCCAAGTTCATAACGGATG
1 GCATACCGAGCTCGTTGAGTGGTCCAAGTTCATAACGGATG
66128030 TGAAACATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 34 0.89
44 4 0.11
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (44 bp):
GCATACCGAGCTCGTTGAGTGGTCCAAGTTCATAACGGATGCGA
Found at i:66134472 original size:48 final size:48
Alignment explanation
Indices: 66134420--66134683 Score: 329
Period size: 48 Copynumber: 5.7 Consensus size: 48
66134410 CCTATCAGTG
*
66134420 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCA
1 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAACA
*
66134468 TCGATGCCATGTCCGAAACATGGTCTTACACTGGCACACATATC-A-A
1 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAACA
*
66134514 -CG-T-CGATG---C---CATGGTCTTACACTGGCACACATATCAACA
1 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAACA
* *
66134553 CCGATGCCATGTCCCAAACATGTTCTTACACTGGCACACATATCAAC-
1 TCGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAACA
* * *
66134600 TCTGATGCCACGTCCCAGAA-ATGGTCTTACACTAGCACACATATCAACG
1 TC-GATGCCATGTCCCA-AACATGGTCTTACACTGGCACACATATCAACA
* *
66134649 TCGATGCCATGTCTCAGACATGGTCTTACACTGGC
1 TCGATGCCATGTCCCAAACATGGTCTTACACTGGC
66134684 TCTCATGTCA
Statistics
Matches: 187, Mismatches: 14, Indels: 30
0.81 0.06 0.13
Matches are distributed among these distances:
37 26 0.14
38 1 0.01
39 1 0.01
40 2 0.01
41 1 0.01
42 4 0.02
43 4 0.02
44 1 0.01
45 3 0.02
46 1 0.01
47 2 0.01
48 137 0.73
49 4 0.02
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (48 bp):
TCGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAACA
Found at i:66134536 original size:37 final size:37
Alignment explanation
Indices: 66134486--66134563 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
66134476 ATGTCCGAAA
**
66134486 CATGGTCTTACACTGGCACACATATCAACGTCGATGC
1 CATGGTCTTACACTGGCACACATATCAACACCGATGC
66134523 CATGGTCTTACACTGGCACACATATCAACACCGATGC
1 CATGGTCTTACACTGGCACACATATCAACACCGATGC
66134560 CATG
1 CATG
66134564 TCCCAAACAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
CATGGTCTTACACTGGCACACATATCAACACCGATGC
Found at i:66134581 original size:85 final size:85
Alignment explanation
Indices: 66134438--66134683 Score: 296
Period size: 85 Copynumber: 2.8 Consensus size: 85
66134428 ATGTCCCAAA
* * *
66134438 CATGGTCTTACACTGGCACACATATCATCATCGATGCCATGTCCGAAACATGGTCTTACACTGGC
1 CATGGTCTTACACTGGCACACATATCAACACCGATGCCATGTCCCAAACATGGTCTTACACTGGC
66134503 ACACATATCAACGTC-GATGC
66 ACACATATCAAC-TCTGATGC
*
66134523 CATGGTCTTACACTGGCACACATATCAACACCGATGCCATGTCCCAAACATGTTCTTACACTGGC
1 CATGGTCTTACACTGGCACACATATCAACACCGATGCCATGTCCCAAACATGGTCTTACACTGGC
66134588 ACACATATCAACTCTGATGCCACGTCC
66 ACACATATCAACTCTGAT-----G--C
* ** * *
66134615 CAGAAATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCTCAGACATGGTCTTACAC
1 C----ATGGTCTTACACTGGCACACATATCAACACCGATGCCATGTCCCAAACATGGTCTTACAC
66134680 TGGC
62 TGGC
66134684 TCTCATGTCA
Statistics
Matches: 139, Mismatches: 10, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
84 2 0.01
85 76 0.55
90 1 0.01
92 2 0.01
96 58 0.42
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (85 bp):
CATGGTCTTACACTGGCACACATATCAACACCGATGCCATGTCCCAAACATGGTCTTACACTGGC
ACACATATCAACTCTGATGC
Found at i:66142145 original size:47 final size:46
Alignment explanation
Indices: 66142075--66142342 Score: 219
Period size: 47 Copynumber: 5.7 Consensus size: 46
66142065 TATGGTGCCA
* ** *
66142075 ATGCCATGTCCTAGACACAGTCTTACACTAGCTCAT-ATCTCATGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCATCT-ATGTCG
* ** *
66142122 ATGCCACGTCCCAGACATGGTCTTAC-CCCGACTATCATCT-TGTAACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATCTATGT---CG
* * *
66142170 ATG-CATGTCCCAGACAT-GTCTTACGCTAGCACTCGTCTCAATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCT--ATGTCG
* *
66142216 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-CTATGTC-G
* * *
66142264 ATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-CTATGTC-G
*
66142311 ATG-CATGTCCCAAACAT-GTCTTACACTAGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC
66142343 ACATAAGTGA
Statistics
Matches: 186, Mismatches: 22, Indels: 27
0.79 0.09 0.11
Matches are distributed among these distances:
45 3 0.02
46 35 0.19
47 120 0.65
48 24 0.13
49 4 0.02
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTATGTCG
Found at i:66150055 original size:47 final size:48
Alignment explanation
Indices: 66149857--66150078 Score: 185
Period size: 47 Copynumber: 4.7 Consensus size: 48
66149847 GGATATATTA
* * * *
66149857 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCAT-G
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATCTCTG-ATAG
* *
66149907 CTGATGCATGTCCCAGACATGTCTTACACTAGCA--CAACTCT--TAG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGATAG
* * * * * *
66149951 CCGGTACGTGTCCCAGACACGTCTTACACT-G-GCT-ATCTCTGTTGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGAT-A-G
*
66149998 CCGATGCATGTCCCAGACATGTCTTACTCTAGCACTCATCTCTG-T-G
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGATAG
*
66150044 TCGATGCCATGTCCCAGACATGGTCTTACACTAGC
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGC
66150079 GCACAAATCA
Statistics
Matches: 139, Mismatches: 21, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
43 7 0.05
44 26 0.19
45 1 0.01
46 11 0.08
47 40 0.29
48 25 0.18
49 17 0.12
50 12 0.09
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.28
Consensus pattern (48 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGATAG
Found at i:66153437 original size:40 final size:40
Alignment explanation
Indices: 66153378--66153594 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
66153368 GGATTGATAA
*
66153378 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
66153417 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
66153457 CCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
* *
66153498 -CGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
66153537 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
66153577 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
66153595 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
39 27 0.17
40 133 0.83
41 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:66156766 original size:13 final size:13
Alignment explanation
Indices: 66156750--66156782 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
66156740 TTTGATTAAA
*
66156750 TTAGTTAATTAGT
1 TTAGATAATTAGT
66156763 TTAGATAATTAGT
1 TTAGATAATTAGT
66156776 TTA-ATAA
1 TTAGATAA
66156783 ACAACCACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:66162130 original size:6 final size:6
Alignment explanation
Indices: 66162097--66162143 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
66162087 CTCTTATGTT
* * *
66162097 TTTTTA TTTCTA TTTCTA TTTTTA TTTTTA TTTTTA TGTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
66162144 CGTTATAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:66165060 original size:13 final size:13
Alignment explanation
Indices: 66165044--66165076 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
66165034 TTTGATTAAA
*
66165044 TTAGTTAATTAGT
1 TTAGATAATTAGT
66165057 TTAGATAATTAGT
1 TTAGATAATTAGT
66165070 TTA-ATAA
1 TTAGATAA
66165077 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:66171116 original size:31 final size:31
Alignment explanation
Indices: 66171078--66171141 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
66171068 CCTTTTCATA
*
66171078 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAACCT
**
66171109 TTTCATATTTCATATTACTGGGCCGAAACCT
1 TTTCATATTTCATAACACTGGGCCGAAACCT
66171140 TT
1 TT
66171142 ACTGTAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAACCT
Done.