Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 252 of 333
Found at i:83017962 original size:17 final size:17
Alignment explanation
Indices: 83017940--83017974 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
83017930 GATAATTTAT
83017940 TTAAATATTCTAGGCTA
1 TTAAATATTCTAGGCTA
83017957 TTAAATATTCTAGGCTA
1 TTAAATATTCTAGGCTA
83017974 T
1 T
83017975 CATACAGCAT
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:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (17 bp):
TTAAATATTCTAGGCTA
Found at i:83021296 original size:37 final size:37
Alignment explanation
Indices: 83021242--83021343 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
83021232 ATCCAACCAA
* *
83021242 AACACGCCAAACGCTCATAAGAGCTAATCCAATCGAT
1 AACATGCCAAACACTCATAAGAGCTAATCCAATCGAT
*
83021279 AACATGCCAAACACTCATAAAAGCTAATCCAATCGAT
1 AACATGCCAAACACTCATAAGAGCTAATCCAATCGAT
83021316 AACATGCCAAACACTCATAAGAGCTAAT
1 AACATGCCAAACACTCATAAGAGCTAAT
83021344 GCAACCAATA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.44, C:0.27, G:0.11, T:0.18
Consensus pattern (37 bp):
AACATGCCAAACACTCATAAGAGCTAATCCAATCGAT
Found at i:83021355 original size:37 final size:37
Alignment explanation
Indices: 83021230--83021356 Score: 175
Period size: 37 Copynumber: 3.5 Consensus size: 37
83021220 AGTACACAAG
* *
83021230 TAATCCAACCAA-AACACGCCAAACGCTCATAAGAGC
1 TAATCCAACCAATAACATGCCAAACACTCATAAGAGC
* * *
83021266 TAATCCAATCGATAACATGCCAAACACTCATAAAAGC
1 TAATCCAACCAATAACATGCCAAACACTCATAAGAGC
* *
83021303 TAATCCAATCGATAACATGCCAAACACTCATAAGAGC
1 TAATCCAACCAATAACATGCCAAACACTCATAAGAGC
*
83021340 TAATGCAACCAATAACA
1 TAATCCAACCAATAACA
83021357 CGTCACAGCA
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
36 10 0.12
37 71 0.88
ACGTcount: A:0.46, C:0.28, G:0.09, T:0.17
Consensus pattern (37 bp):
TAATCCAACCAATAACATGCCAAACACTCATAAGAGC
Found at i:83024555 original size:46 final size:46
Alignment explanation
Indices: 83024368--83024541 Score: 269
Period size: 46 Copynumber: 3.8 Consensus size: 46
83024358 CACAATATAT
* * * *
83024368 ATATACATCTCATACATATCTCACATTAGCCATTCGACTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGACTTTACCTC
*
83024414 ATATCCATCTCATACACGTTTCGCATTAGCCATTC-AGCTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGA-CTTTACCTC
* *
83024460 ATATCCATCTCATACACGTTTCGCATTAGCCATTTGACTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGACTTTACCTC
83024506 ATATCCATCTCATACACATTTCGCATTAGCCATTCG
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCG
83024542 GCTTCGCCAC
Statistics
Matches: 118, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
45 1 0.01
46 116 0.98
47 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.07, T:0.35
Consensus pattern (46 bp):
ATATCCATCTCATACACATTTCGCATTAGCCATTCGACTTTACCTC
Found at i:83024600 original size:47 final size:47
Alignment explanation
Indices: 83024569--83024809 Score: 428
Period size: 47 Copynumber: 5.1 Consensus size: 47
83024559 CACTTCCACG
**
83024569 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
83024616 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * *
83024663 TTCATCACTTTGGCCATTCGGCCTTATCACACATATGCAAGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
83024710 TTCATCACATTGGCCATTCGGCCTTATCACGTATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
83024757 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
83024804 TTCATC
1 TTCATC
83024810 TCATAAAATC
Statistics
Matches: 184, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 184 1.00
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:83031423 original size:12 final size:13
Alignment explanation
Indices: 83031377--83031426 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
83031367 CAAGTAAAAC
83031377 ATAATAAATATTAT
1 ATAATAAATA-TAT
83031391 ATAATAAA-ATAT
1 ATAATAAATATAT
***
83031403 ATGGGAAATA-AT
1 ATAATAAATATAT
83031415 ATAATAAATATA
1 ATAATAAATATA
83031427 GCATATAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
12 17 0.61
13 3 0.11
14 8 0.29
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (13 bp):
ATAATAAATATAT
Found at i:83031503 original size:20 final size:21
Alignment explanation
Indices: 83031456--83031520 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
83031446 TATATGTAAA
* *
83031456 AATAATATGTATAAATA-AAT
1 AATAATATATATAAAAATAAT
* *
83031476 GTATAATATATGTAAAAAT-AT
1 -AATAATATATATAAAAATAAT
*
83031497 AATAATATATATATAAATAAT
1 AATAATATATATAAAAATAAT
83031518 AAT
1 AAT
83031521 TATGAGAGAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
20 15 0.43
21 20 0.57
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (21 bp):
AATAATATATATAAAAATAAT
Found at i:83031640 original size:19 final size:19
Alignment explanation
Indices: 83031601--83031650 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
83031591 GAAGTAAAAT
* *
83031601 TAAAATAAA-ACA-AATAG
1 TAAAATAAATATAGAATAA
*
83031618 TAAAATATATATAGAATAA
1 TAAAATAAATATAGAATAA
83031637 TAAAATAAATATAG
1 TAAAATAAATATAG
83031651 GACTAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 8 0.30
18 2 0.07
19 17 0.63
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (19 bp):
TAAAATAAATATAGAATAA
Found at i:83033580 original size:119 final size:119
Alignment explanation
Indices: 83033312--83033755 Score: 627
Period size: 119 Copynumber: 3.7 Consensus size: 119
83033302 CTTGAGTCTG
* * * * **
83033312 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACATAAGAATGT
1 TTTGAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* ** * * *
83033377 CAAATCATCTTGGACCTTAATTTAGTATAAACCTCTGAAGGCTAGATCTGCCATG
66 CAAATCATCTTGGATC-TGCTTTAGTATAAACATCTGAAGGCTAGATCTGCTATA
* ** * *
83033432 TTTGAGAACATCTAAGAGTCAAATTTGCTATGTCCTTAATTTGTTCCTTGTAAACATAAGAATAT
1 TTTGAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
83033497 CAAATCATCTTGGATCTGCTTTAGTATAAACATCTGAAAGCTAGATCCGCTATA
66 CAAATCATCTTGGATCTGCTTTAGTATAAACATCTGAAGGCTAGATCTGCTATA
* * *
83033551 TTTGAGAACATCTAAAAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTATAAACACAAGAATAC
1 TTTGAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
83033616 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTTAGTATAAACATCTGAAGGCTAGATCTGCTATA
* * * *
83033670 TCTGAGAACGTCTGAGAGTCAAATCTGGTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
83033735 CAAATCATCTTGGATCTGCTT
66 CAAATCATCTTGGATCTGCTT
83033756 CAGTCTAATT
Statistics
Matches: 292, Mismatches: 32, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
119 217 0.74
120 75 0.26
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (119 bp):
TTTGAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTTAGTATAAACATCTGAAGGCTAGATCTGCTATA
Found at i:83041742 original size:15 final size:15
Alignment explanation
Indices: 83041700--83041749 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
83041690 ATAACTTTGA
*
83041700 ATGCAAATG-ATGTG
1 ATGCAAATGCATGAG
83041714 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
83041729 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
83041743 ATGCAAA
1 ATGCAAA
83041750 AAGAATATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:83045540 original size:7 final size:7
Alignment explanation
Indices: 83045528--83045561 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
83045518 CAATTTTAAA
83045528 ATAATAT
1 ATAATAT
83045535 ATAATAT
1 ATAATAT
83045542 ATAATAT
1 ATAATAT
83045549 ATAATAT
1 ATAATAT
83045556 ATAATA
1 ATAATA
83045562 ACAAGAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATAATAT
Found at i:83045571 original size:21 final size:21
Alignment explanation
Indices: 83045528--83045571 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
83045518 CAATTTTAAA
* *
83045528 ATAATATATAATATATAATAT
1 ATAATATATAATATACAAAAT
83045549 ATAATATATAATA-ACAAGAAT
1 ATAATATATAATATACAA-AAT
83045570 AT
1 AT
83045572 TTACAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
ATAATATATAATATACAAAAT
Found at i:83045979 original size:18 final size:18
Alignment explanation
Indices: 83045909--83046032 Score: 78
Period size: 18 Copynumber: 6.8 Consensus size: 18
83045899 AATGAAAATT
*
83045909 TATATGTAAAAATAAT-A
1 TATATATAAAAATAATAA
* *
83045926 TGTATA-AATAAATGTATAA
1 TATATATAA-AAAT-AATAA
*
83045945 TATATGTAAAAATATAATAA
1 TATATAT-AAAA-ATAATAA
83045965 TATATATAAAAATAATAA
1 TATATATAAAAATAATAA
* * *
83045983 T-TATGAGAGAATTAAT-A
1 TATAT-ATAAAAATAATAA
*
83046000 TATA-ATAAACAATTATAA
1 TATATATAAA-AATAATAA
*
83046018 TACATATAAAAATAA
1 TATATATAAAAATAA
83046033 CACTTATAAA
Statistics
Matches: 80, Mismatches: 16, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
16 5 0.06
17 17 0.21
18 28 0.35
19 14 0.17
20 12 0.15
21 4 0.05
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.34
Consensus pattern (18 bp):
TATATATAAAAATAATAA
Found at i:83045982 original size:21 final size:21
Alignment explanation
Indices: 83045919--83045983 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
83045909 TATATGTAAA
* *
83045919 AATAATATGTATAAATA-AAT
1 AATAATATATATAAAAATAAT
* *
83045939 GTATAATATATGTAAAAAT-AT
1 -AATAATATATATAAAAATAAT
83045960 AATAATATATATAAAAATAAT
1 AATAATATATATAAAAATAAT
83045981 AAT
1 AAT
83045984 TATGAGAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
AATAATATATATAAAAATAAT
Found at i:83046100 original size:19 final size:19
Alignment explanation
Indices: 83046064--83046113 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
83046054 GAAGTAAAAT
*
83046064 TAAAATAAA-ACA-AATAA
1 TAAAATAAATATAGAATAA
*
83046081 TAAAATATATATAGAATAA
1 TAAAATAAATATAGAATAA
83046100 TAAAATAAATATAG
1 TAAAATAAATATAG
83046114 GACTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 8 0.29
18 2 0.07
19 18 0.64
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (19 bp):
TAAAATAAATATAGAATAA
Found at i:83047807 original size:20 final size:21
Alignment explanation
Indices: 83047764--83047808 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
83047754 CCATTTAATA
* *
83047764 TAAAAAAATTCTAAAATTTTT
1 TAAAAAAATTCTAAAATATCT
*
83047785 TAAAAAATTTC-AAAATATCT
1 TAAAAAAATTCTAAAATATCT
83047805 TAAA
1 TAAA
83047809 TTTTCTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAAAAATTCTAAAATATCT
Found at i:83049167 original size:27 final size:27
Alignment explanation
Indices: 83049113--83049171 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
83049103 GGTGTAATTA
** *
83049113 ATCAAAAGTTATATCTTTTGGTTATTG
1 ATCAAAAGTTATATCACTTGATTATTG
* *
83049140 ATCAAGAGTTATATCACTTGATTTTTG
1 ATCAAAAGTTATATCACTTGATTATTG
83049167 A-CAAA
1 ATCAAA
83049172 GAATTATAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 3 0.12
27 23 0.88
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (27 bp):
ATCAAAAGTTATATCACTTGATTATTG
Found at i:83049217 original size:32 final size:32
Alignment explanation
Indices: 83049181--83049244 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
83049171 AGAATTATAA
*
83049181 TTATTCAAGCA-ATATTACTTGAATAGTTATGT
1 TTATTCAAG-AGATATTACTTGAATAATTATGT
* * *
83049213 TTATTTAAGAGGTATTAGTTGAATAATTATGT
1 TTATTCAAGAGATATTACTTGAATAATTATGT
83049245 CTCTCTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (32 bp):
TTATTCAAGAGATATTACTTGAATAATTATGT
Found at i:83054181 original size:27 final size:28
Alignment explanation
Indices: 83054151--83054291 Score: 154
Period size: 27 Copynumber: 5.2 Consensus size: 28
83054141 GTGACGAAGT
* * *
83054151 CACCAGATACAAATAT-TATGGTAGAGC
1 CACCAGATACAGATATATGTGGCAGAGC
*
83054178 CACCA-AAACAGATATATGTGGCAGAGC
1 CACCAGATACAGATATATGTGGCAGAGC
83054205 CACCAGAT-CAGATA-ATTGTGGC-GTAGC
1 CACCAGATACAGATATA-TGTGGCAG-AGC
83054232 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATATATGTGGCAGAGC
*
83054259 CACCAGAT-CAGATA-ATTGTGGCATAGC
1 CACCAGATACAGATATA-TGTGGCAGAGC
83054286 CACCAG
1 CACCAG
83054292 GACGCTTCCT
Statistics
Matches: 99, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
26 11 0.11
27 85 0.86
28 3 0.03
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (28 bp):
CACCAGATACAGATATATGTGGCAGAGC
Found at i:83054238 original size:81 final size:80
Alignment explanation
Indices: 83054133--83054291 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 80
83054123 GCGAGGCTGC
* *
83054133 CAGATATTGTGACGAAGTCACCAGATACAAATAT-TATGGTAGAGCCACCAAAACAGAT-ATATG
1 CAGATATTGTGACGAAGCCACCAGA-ACAAATATATATGGCAGAGCCACCAAAACAGATAAT-TG
83054196 TGGCAGAGCCACCAGAT
64 TGGCAGAGCCACCAGAT
* * * * * *
83054213 CAGATAATTGTGGCGTAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGT
1 CAGAT-ATTGTGACGAAGCCACCAGAACAAATATATATGGCAGAGCCACCAAAACAGATAATTGT
*
83054278 GGCATAGCCACCAG
65 GGCAGAGCCACCAG
83054292 GACGCTTCCT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
80 12 0.18
81 53 0.79
82 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (80 bp):
CAGATATTGTGACGAAGCCACCAGAACAAATATATATGGCAGAGCCACCAAAACAGATAATTGTG
GCAGAGCCACCAGAT
Found at i:83054291 original size:54 final size:54
Alignment explanation
Indices: 83054175--83054291 Score: 216
Period size: 54 Copynumber: 2.2 Consensus size: 54
83054165 ATTATGGTAG
* *
83054175 AGCCACCAAAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCGT
1 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
83054229 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
1 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
83054283 AGCCACCAG
1 AGCCACCAG
83054292 GACGCTTCCT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
Found at i:83054431 original size:26 final size:27
Alignment explanation
Indices: 83054395--83054470 Score: 91
Period size: 26 Copynumber: 2.8 Consensus size: 27
83054385 CAAAAGTAAC
* *
83054395 CCTAGGGGTATAATGGTAATTTTGC-A
1 CCTAGGGGTATAATAGTAATTTTCCAA
*
83054421 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAATAGTAATTTTCCA-A
* *
83054449 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
83054471 AGCTGCTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 22 0.52
28 20 0.48
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCCAA
Found at i:83055951 original size:26 final size:26
Alignment explanation
Indices: 83055915--83055965 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
83055905 AATTCCAATC
83055915 ATGGAACATTTACCTAACCCATTATT
1 ATGGAACATTTACCTAACCCATTATT
83055941 ATGGAACATTTACCTAACCCATTAT
1 ATGGAACATTTACCTAACCCATTAT
83055966 CAATTTGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATT
Found at i:83059296 original size:18 final size:18
Alignment explanation
Indices: 83059273--83059310 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
83059263 AATAAATATT
*
83059273 AACCCAAGTATCCAACCC
1 AACCCAAGTACCCAACCC
*
83059291 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
83059309 AA
1 AA
83059311 TCATAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.45, G:0.03, T:0.11
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:83059303 original size:13 final size:13
Alignment explanation
Indices: 83059287--83059311 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83059277 CAAGTATCCA
83059287 ACCCAACCCAATT
1 ACCCAACCCAATT
83059300 ACCCAACCCAAT
1 ACCCAACCCAAT
83059312 CATAAAAATT
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:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:83059349 original size:5 final size:6
Alignment explanation
Indices: 83059336--83059377 Score: 57
Period size: 6 Copynumber: 6.5 Consensus size: 6
83059326 ATAATTTAAT
83059336 AAATAA AAATAAA AATATAA AAATAA AAATAA AAATAGA AAA
1 AAATAA AAAT-AA AA-ATAA AAATAA AAATAA AAATA-A AAA
83059378 CATATAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.58
7 12 0.36
8 2 0.06
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:83059357 original size:14 final size:14
Alignment explanation
Indices: 83059338--83059384 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
83059328 AATTTAATAA
83059338 ATAAAAATAAAAAT
1 ATAAAAATAAAAAT
83059352 ATAAAAATAAAAAT
1 ATAAAAATAAAAAT
*
83059366 A-AAAATAGAAAACAT
1 ATAAAA-ATAAAA-AT
83059381 ATAA
1 ATAA
83059385 TTTTATACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 4 0.14
14 20 0.69
15 3 0.10
16 2 0.07
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (14 bp):
ATAAAAATAAAAAT
Found at i:83059361 original size:20 final size:20
Alignment explanation
Indices: 83059336--83059377 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
83059326 ATAATTTAAT
*
83059336 AAATAAAAATAAAAATATAA
1 AAATAAAAATAAAAATAGAA
83059356 AAATAAAAATAAAAATAGAA
1 AAATAAAAATAAAAATAGAA
83059376 AA
1 AA
83059378 CATATAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAAATAGAA
Found at i:83059419 original size:18 final size:17
Alignment explanation
Indices: 83059396--83059455 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
83059386 TTTATACAAA
83059396 TAATTTGGTTAATTCGG
1 TAATTTGGTTAATTCGG
*
83059413 CTAATTTGGGTAATTCAGG
1 -TAATTTGGTTAATTC-GG
* * *
83059432 TAACTCGATTAATTCGG
1 TAATTTGGTTAATTCGG
83059449 TTAATTT
1 -TAATTT
83059456 TATACTTATT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 29 0.88
19 2 0.06
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (17 bp):
TAATTTGGTTAATTCGG
Found at i:83061247 original size:116 final size:116
Alignment explanation
Indices: 83061083--83061314 Score: 446
Period size: 116 Copynumber: 2.0 Consensus size: 116
83061073 CTTATATCTT
83061083 CTATTTTTCTTTTTATATCTTTTATAAGTAGTAGGACGTATTGGTTTACATCCTAATTCCCATTC
1 CTATTTTTCTTTTTATATCTTTTATAAGTAGTAGGACGTATTGGTTTACATCCTAATTCCCATTC
83061148 ATTTTCTAAACTTTTTGTATAATGTTTAGTACTTAATTTATGCTTAACTTG
66 ATTTTCTAAACTTTTTGTATAATGTTTAGTACTTAATTTATGCTTAACTTG
83061199 CTATTTTTCTTTTTATATCTTTTATAAGTAGTAGGACGTATTGGTTTACATCCTAATTCCCATTC
1 CTATTTTTCTTTTTATATCTTTTATAAGTAGTAGGACGTATTGGTTTACATCCTAATTCCCATTC
* *
83061264 ATTTTCTAAATTTTTTTTATAATGTTTAGTACTTAATTTATGCTTAACTTG
66 ATTTTCTAAACTTTTTGTATAATGTTTAGTACTTAATTTATGCTTAACTTG
83061315 TTTAGAAGCT
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 114 1.00
ACGTcount: A:0.25, C:0.13, G:0.10, T:0.52
Consensus pattern (116 bp):
CTATTTTTCTTTTTATATCTTTTATAAGTAGTAGGACGTATTGGTTTACATCCTAATTCCCATTC
ATTTTCTAAACTTTTTGTATAATGTTTAGTACTTAATTTATGCTTAACTTG
Found at i:83066893 original size:42 final size:42
Alignment explanation
Indices: 83066835--83066920 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
83066825 AAATTGTCTT
83066835 TTTTTTTTTTGTATCCGCAACATCTTTAAATTCTTTGAAACC
1 TTTTTTTTTTGTATCCGCAACATCTTTAAATTCTTTGAAACC
83066877 TTTTTTTTTTGTATCCGCAACATCTTTAAATTCTTTGAAACC
1 TTTTTTTTTTGTATCCGCAACATCTTTAAATTCTTTGAAACC
83066919 TT
1 TT
83066921 GTTTGGAACA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.23, C:0.19, G:0.07, T:0.51
Consensus pattern (42 bp):
TTTTTTTTTTGTATCCGCAACATCTTTAAATTCTTTGAAACC
Found at i:83079996 original size:22 final size:23
Alignment explanation
Indices: 83079952--83079996 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
83079942 TCAGCTTGGA
**
83079952 TGCTGGTCTGCCTGTTGGTTTGC
1 TGCTGGTCTGCCTGTTGCATTGC
*
83079975 TGCTGGT-TTCCTGTTGCATTGC
1 TGCTGGTCTGCCTGTTGCATTGC
83079997 AGGCCAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.02, C:0.22, G:0.31, T:0.44
Consensus pattern (23 bp):
TGCTGGTCTGCCTGTTGCATTGC
Found at i:83081296 original size:4 final size:4
Alignment explanation
Indices: 83081287--83081317 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
83081277 TTTATATCCA
*
83081287 TATC TATC TATC TATC TATC TACC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TAT
83081318 ATATATATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (4 bp):
TATC
Found at i:83082779 original size:105 final size:103
Alignment explanation
Indices: 83082670--83082859 Score: 235
Period size: 103 Copynumber: 1.8 Consensus size: 103
83082660 TCCCTAATGA
* *
83082670 CAACTCTAGATGTGGCGGCACTGGTAATTTTTTTTTTTACTTTTTCAG-T-AT-CACTTCTTCAT
1 CAACTCTAGATGTGGCGGCACCGATAA--TTTTTTTTTACTTTTT-AGATAATAC-CTT-TTCAT
*
83082732 GTGGAGTCACCAAAAT-TAGTAAAAAGAAATTTTCATCCAGTAC
61 GTGGAGGCACCAAAATCT-GTAAAAAGAAATTTTCATCCAGTAC
* * * *
83082775 CAACTTTAGTTGTGGTGGCACCGATAATTTTTTTTTACTTTTTTGATAATACCTTTTCATGTGGA
1 CAACTCTAGATGTGGCGGCACCGATAATTTTTTTTTACTTTTTAGATAATACCTTTTCATGTGGA
83082840 GGCACCAAAATCTGTAAAAA
66 GGCACCAAAATCTGTAAAAA
83082860 AAAAAATCCC
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
102 1 0.01
103 44 0.59
104 6 0.08
105 23 0.31
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (103 bp):
CAACTCTAGATGTGGCGGCACCGATAATTTTTTTTTACTTTTTAGATAATACCTTTTCATGTGGA
GGCACCAAAATCTGTAAAAAGAAATTTTCATCCAGTAC
Found at i:83082949 original size:102 final size:100
Alignment explanation
Indices: 83082833--83083067 Score: 294
Period size: 101 Copynumber: 2.3 Consensus size: 100
83082823 ATACCTTTTC
* *
83082833 ATGTGGAGGCACCAAAATCTGTAAAAAAAAAAATCCCTAGTGCCAACTCCAAATGTGGTAGCACT
1 ATGTGGAGGCACCAAAATCTGTAAAAAAAAAAATCCCTAGTGCCAACTCCAAATGTGATAGCACC
** *
83082898 AGTACTTTTTTTTTGAATTATTCGATGCCGCCTCTAT
66 AGTA-AATTTTTTTGAATTATTCAATGCC-CCTCTAT
* * * *
83082935 ATGTGGAGGCACCAAAATCTAT-AAAAAAAAATTCTCTGGTGCCAACTCCAAATGTGATAGCACC
1 ATGTGGAGGCACCAAAATCTGTAAAAAAAAAAATCCCTAGTGCCAACTCCAAATGTGATAGCACC
* *
83082999 AGTAAATTTTTTTGAATTTTTCAATGCCCCTCTTT
66 AGTAAATTTTTTTGAATTATTCAATGCCCCTCTAT
* * *
83083034 ATTTAGAGACACCAAAA-CTTGTAAAAAACAAAAA
1 ATGTGGAGGCACCAAAATC-TGTAAAAAA-AAAAA
83083068 ATTTTTCTTG
Statistics
Matches: 114, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
98 1 0.01
99 22 0.19
100 25 0.22
101 45 0.39
102 21 0.18
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (100 bp):
ATGTGGAGGCACCAAAATCTGTAAAAAAAAAAATCCCTAGTGCCAACTCCAAATGTGATAGCACC
AGTAAATTTTTTTGAATTATTCAATGCCCCTCTAT
Found at i:83082980 original size:101 final size:99
Alignment explanation
Indices: 83082833--83083096 Score: 285
Period size: 101 Copynumber: 2.6 Consensus size: 99
83082823 ATACCTTTTC
* * * * *
83082833 ATGTGGAGGCACCAAAATCTGTAAAAAAAAAAATCCCTAGTGCCAACTCCAAATGTGGTAGCACT
1 ATGTGGAGGCACCAAAATCTAT-AAAAAAAAATTCTCTGGTGCCAACTCCAAATGTGGTAGCACC
** *
83082898 AGTACTTTTTTTTTGAATTATTCGATGCCGCCTCTAT
65 AGTA-AATTTTTTTGAATTATTCAATGCC-CCTCTAT
*
83082935 ATGTGGAGGCACCAAAATCTATAAAAAAAAATTCTCTGGTGCCAACTCCAAATGTGATAGCACCA
1 ATGTGGAGGCACCAAAATCTATAAAAAAAAATTCTCTGGTGCCAACTCCAAATGTGGTAGCACCA
* *
83083000 GTAAATTTTTTTGAATTTTTCAATGCCCCTCTTT
66 GTAAATTTTTTTGAATTATTCAATGCCCCTCTAT
* * * * * * *
83083034 ATTTAGAGACACCAAAACTTGTAAAAAACAAAAAATTTTTCTTGGTGTCAACTCCAAATGTGG
1 ATGTGGAGGCACCAAAA--TCT-ATAAA-AAAAAA-TTCTC-TGGTGCCAACTCCAAATGTGG
83083097 CGGCACCAAA
Statistics
Matches: 137, Mismatches: 19, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
99 20 0.15
100 20 0.15
101 43 0.31
102 25 0.18
103 6 0.04
104 4 0.03
105 19 0.14
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (99 bp):
ATGTGGAGGCACCAAAATCTATAAAAAAAAATTCTCTGGTGCCAACTCCAAATGTGGTAGCACCA
GTAAATTTTTTTGAATTATTCAATGCCCCTCTAT
Found at i:83083919 original size:16 final size:16
Alignment explanation
Indices: 83083898--83083928 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
83083888 TTCTTTCAAT
*
83083898 ATAATAACAATAAAAA
1 ATAATAAAAATAAAAA
83083914 ATAATAAAAATAAAA
1 ATAATAAAAATAAAA
83083929 CCTTCACCAA
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:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
ATAATAAAAATAAAAA
Found at i:83084158 original size:104 final size:98
Alignment explanation
Indices: 83083978--83084257 Score: 301
Period size: 99 Copynumber: 2.8 Consensus size: 98
83083968 AGTGATGCCA
* *
83083978 CCACATTTAGAGTTGACACCAGGAAAATTTTTTTTTACTA-ATTTTGGTGCCTCCACATGAAGAG
1 CCACATTTAGAGTTGGCACCAGG-GAATTTTTTTTTAC-AGATTTTGGTGCCTCCACATGAAGAG
* * *
83084042 GCGGCACCGAAAAATTTAAAAAAAAAATTACAGGTATCG
64 GCGACACCG-AAAA-GT--AAAAAAAATTACAGGTACCG
* * * *
83084081 TCACATTTGGAGTTGGCACCAGGGGAATTTTTTTTTTACAGATTTTGGTGCCTCTACATGATGAG
1 CCACATTTAGAGTTGGCACCA-GGGAA-TTTTTTTTTACAGATTTTGGTGCCTCCACATGAAGAG
* ** * ** *
83084146 GTGACATTGAAAAGTAGAAAAAATTATTGGTGCCG
64 GCGACACCGAAAAGTAAAAAAAATTACAGGTACCG
* *
83084181 CCACATCTAGAGTTGGCACCATGGGAATTTTTTTTTACTGATTTTGGTGCCTCCACATGAAGAGG
1 CCACATTTAGAGTTGGCACCA-GGGAATTTTTTTTTACAGATTTTGGTGCCTCCACATGAAGAGG
*
83084246 CAACACCGAAAA
65 CGACACCGAAAA
83084258 ATTTTTAAAA
Statistics
Matches: 147, Mismatches: 27, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
99 43 0.29
100 38 0.26
102 1 0.01
103 25 0.17
104 40 0.27
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (98 bp):
CCACATTTAGAGTTGGCACCAGGGAATTTTTTTTTACAGATTTTGGTGCCTCCACATGAAGAGGC
GACACCGAAAAGTAAAAAAAATTACAGGTACCG
Found at i:83084268 original size:100 final size:99
Alignment explanation
Indices: 83083973--83084273 Score: 318
Period size: 100 Copynumber: 3.0 Consensus size: 99
83083963 TAGCTAGTGA
* * * *
83083973 TGCCACCACATTTAGAGTTGACACCAGGAAAATTTTTTTTTACTAATTTTGGTGCCTCCACATGA
1 TGCCGCCACATTTAGAGTTGGCACCAGG-GAATTTTTTTTTACTGATTTTGGTGCCTCCACATGA
*
83084038 AGAGGCGGCACCGAAAAATTTAAAAAAAAAATTACAGG
65 AGAGGCGACACCGAAAAATTT---AAAAAAATTACAGG
** * * * *
83084076 TATCGTCACATTTGGAGTTGGCACCAGGGGAATTTTTTTTTTACAGATTTTGGTGCCTCTACATG
1 TGCCGCCACATTTAGAGTTGGCACCA-GGGAA-TTTTTTTTTACTGATTTTGGTGCCTCCACATG
* * ** * **
83084141 ATGAGGTGACATTG-AAAA-GTAGAAAAAATTATTGG
64 AAGAGGCGACACCGAAAAATTTA-AAAAAATTACAGG
*
83084176 TGCCGCCACATCTAGAGTTGGCACCATGGGAATTTTTTTTTACTGATTTTGGTGCCTCCACATGA
1 TGCCGCCACATTTAGAGTTGGCACCA-GGGAATTTTTTTTTACTGATTTTGGTGCCTCCACATGA
*
83084241 AGAGGCAACACCGAAAAATTTTTAAAAAAATTA
65 AGAGGCGACACCGAAAAA--TTTAAAAAAATTA
83084274 AAAAAATTAT
Statistics
Matches: 159, Mismatches: 32, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
99 40 0.25
100 41 0.26
102 10 0.06
103 28 0.18
104 40 0.25
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (99 bp):
TGCCGCCACATTTAGAGTTGGCACCAGGGAATTTTTTTTTACTGATTTTGGTGCCTCCACATGAA
GAGGCGACACCGAAAAATTTAAAAAAATTACAGG
Found at i:83084369 original size:111 final size:110
Alignment explanation
Indices: 83084163--83084367 Score: 286
Period size: 111 Copynumber: 1.9 Consensus size: 110
83084153 TGAAAAGTAG
* * *
83084163 AAAAAATTATTGGTGCCGCCACATCTAGAGTTGGCACCATGGGAATTTTTTTTTACTGATTTTGG
1 AAAAAATTATTAGTGCCGCCACATCTAGAGTTGGCACCAGGGGAATTTTTTTTTACTAATTTTGG
* *
83084228 TGCCTCCACATGAAGAGGCAACACCGAAAAATTTTTAAAAAAATTA
66 TGACTCCACATGAAGAGGC-ACACCAAAAAATTTTTAAAAAAATTA
* * * *
83084274 AAAAAATTATTAGTGTCGGCACATCTTGAGTTGGCACCAGGGGAATTTTTTTTTATTAATTTTGG
1 AAAAAATTATTAGTGCCGCCACATCTAGAGTTGGCACCAGGGGAATTTTTTTTTACTAATTTTGG
* * *
83084339 TTACTCTACGTGAAGAGGC-CACCAAAAAA
66 TGACTCCACATGAAGAGGCACACCAAAAAA
83084368 AAATTTACAC
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
109 9 0.11
111 73 0.89
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (110 bp):
AAAAAATTATTAGTGCCGCCACATCTAGAGTTGGCACCAGGGGAATTTTTTTTTACTAATTTTGG
TGACTCCACATGAAGAGGCACACCAAAAAATTTTTAAAAAAATTA
Found at i:83089664 original size:18 final size:18
Alignment explanation
Indices: 83089641--83089678 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
83089631 GAAAAGTGAT
83089641 AGTAAGTGCATTCCTTAG
1 AGTAAGTGCATTCCTTAG
83089659 AGTAAGTGCATTCCTTAG
1 AGTAAGTGCATTCCTTAG
83089677 AG
1 AG
83089679 AAATTTGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (18 bp):
AGTAAGTGCATTCCTTAG
Found at i:83099414 original size:44 final size:44
Alignment explanation
Indices: 83099312--83099425 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 44
83099302 TAGCAAATAT
* * * * *
83099312 TATCTCTCTGAAGTTACAGTAGAGCAGATTAAAGCTATAAATCT
1 TATCTCTCTGAAGTTGCAGTAGAGCAGAGTAAAGCCATAAACCC
83099356 TAT-TGCTCTGAAGTTGCAGTAGAGCAGAGTAAAGCCACT-AACCC
1 TATCT-CTCTGAAGTTGCAGTAGAGCAGAGTAAAGCCA-TAAACCC
* * *
83099400 TATCTCTCTAAAGTTGTAGTGGAGCA
1 TATCTCTCTGAAGTTGCAGTAGAGCA
83099426 AGTTGAAGAT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
43 1 0.02
44 56 0.95
45 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
TATCTCTCTGAAGTTGCAGTAGAGCAGAGTAAAGCCATAAACCC
Found at i:83099612 original size:44 final size:43
Alignment explanation
Indices: 83099541--83099697 Score: 152
Period size: 44 Copynumber: 3.6 Consensus size: 43
83099531 CATTATGGCG
* * *
83099541 AATCTTATCTCCCTGAAGTTACTGTGGAGTAGATTGAAGCCACA
1 AATCTTATCT-CCTAAAGTTGCAGTGGAGTAGATTGAAGCCACA
* * * * **
83099585 AACCTTATCTCACTAAAATTGCAGTGGAGCAGGTTGAAGTTACA
1 AATCTTATCTC-CTAAAGTTGCAGTGGAGTAGATTGAAGCCACA
* * * *
83099629 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCATA
1 AATCTTATCT-CCTAAAGTTGCAGTGGAGTAGATTGAAGCCACA
*
83099673 AATTTTATCTCCTTAAAGTTGCAGT
1 AATCTTATCTCC-TAAAGTTGCAGT
83099698 TGTAACACCC
Statistics
Matches: 88, Mismatches: 22, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
43 3 0.03
44 84 0.95
45 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (43 bp):
AATCTTATCTCCTAAAGTTGCAGTGGAGTAGATTGAAGCCACA
Found at i:83104775 original size:16 final size:15
Alignment explanation
Indices: 83104749--83104778 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
83104739 ACTAGATTGG
83104749 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
83104764 CAAAATGCCGAAAAG
1 CAAAA-GCCGAAAAG
83104779 ACGCCATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.23, G:0.20, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:83106860 original size:40 final size:40
Alignment explanation
Indices: 83106816--83106954 Score: 235
Period size: 40 Copynumber: 3.5 Consensus size: 40
83106806 CACTCGAATA
**
83106816 CCTTCGGGAAATAGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
*
83106856 CCTTCGGGACTTAGCCCGAAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
83106896 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
83106936 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
83106955 TTATCAATCC
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
39 1 0.01
40 93 0.99
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.20
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
Found at i:83114484 original size:40 final size:40
Alignment explanation
Indices: 83114440--83114538 Score: 164
Period size: 40 Copynumber: 2.5 Consensus size: 40
83114430 CACTCGAATA
**
83114440 CCTTCGGGAAATAGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
83114480 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
83114520 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
83114539 TTATCAATCC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
39 1 0.02
40 55 0.98
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.20
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
Found at i:83141507 original size:19 final size:19
Alignment explanation
Indices: 83141483--83141519 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
83141473 AAATTTAGTC
*
83141483 CTATATTTATTATATTATT
1 CTATATTAATTATATTATT
83141502 CTATATTAATTATATTAT
1 CTATATTAATTATATTAT
83141520 GGATTGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
CTATATTAATTATATTATT
Found at i:83143097 original size:14 final size:16
Alignment explanation
Indices: 83143078--83143110 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
83143068 CGATATTCTT
83143078 TTTGCATTT-AT-GCA
1 TTTGCATTTCATAGCA
83143092 TTTGCATTTCATAGCA
1 TTTGCATTTCATAGCA
83143108 TTT
1 TTT
83143111 CATCACATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 2 0.12
16 6 0.35
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.52
Consensus pattern (16 bp):
TTTGCATTTCATAGCA
Found at i:83144385 original size:24 final size:24
Alignment explanation
Indices: 83144340--83144385 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
83144330 CTTCAATTCG
* * *
83144340 AAAGTAGTCACGGTTAGTCAACCC
1 AAAGTAGCCACAGTTAGGCAACCC
*
83144364 AAAGTAGCCACAGTTGGGCAAC
1 AAAGTAGCCACAGTTAGGCAAC
83144386 AGGGCTCTCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (24 bp):
AAAGTAGCCACAGTTAGGCAACCC
Found at i:83151064 original size:118 final size:119
Alignment explanation
Indices: 83150845--83151202 Score: 592
Period size: 119 Copynumber: 3.0 Consensus size: 119
83150835 AATAGGCTGC
83150845 AATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
1 AATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
* *
83150910 TGTTTACAAGAAACAAATCGAGGACATAGAAAATTTGACTCTCAGATGTTCTCA
66 TGTTTACAAGAAACAAATCGAGGACATAGAAGATTTGACTCTCAAATGTTCTCA
* * * * *
83150964 ACTATAGCAGATCTACCTTTCAGATGTTTATACCGGAGGAGATCCAAGATGA-TTGGTATTCTTG
1 AATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
* *
83151028 TGTTTACAAGAAACAAATCAAGGACATAGCAGATTTGACTCTCAAATGTTCTCA
66 TGTTTACAAGAAACAAATCGAGGACATAGAAGATTTGACTCTCAAATGTTCTCA
*
83151082 AATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCTAAGATGATTTGGTATTCTTG
1 AATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
* * *
83151147 TGTTTACAAGGAACAAATCGAGGACATAGTAGATTGGACTCTCAAATGTTCTCA
66 TGTTTACAAGAAACAAATCGAGGACATAGAAGATTTGACTCTCAAATGTTCTCA
83151201 AA
1 AA
83151203 CAAACTCAAG
Statistics
Matches: 219, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
118 108 0.49
119 111 0.51
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (119 bp):
AATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
TGTTTACAAGAAACAAATCGAGGACATAGAAGATTTGACTCTCAAATGTTCTCA
Found at i:83151266 original size:83 final size:83
Alignment explanation
Indices: 83151127--83151415 Score: 413
Period size: 83 Copynumber: 3.5 Consensus size: 83
83151117 AAGCAGATCT
* * *
83151127 AAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGTAGATTGGACTCTCAA
1 AAGATGATTTGGCATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGATTGGACTCTCAA
83151192 ATGTTCTCAAACAAACTC
66 ATGTTCTCAAACAAACTC
* *
83151210 AAGATGATTTGGCATTCTTGTATTTACAAGAAACAAATCGAGGACATAGCAGATTGGACTCTCAG
1 AAGATGATTTGGCATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGATTGGACTCTCAA
* *
83151275 ATGTTCTCGAACGAACTC
66 ATGTTCTCAAACAAACTC
* *
83151293 AAGATGATTTGGCATTCTTATGTTTACAAGAAACAAATCGAGGACGTAGCAGATTTGG-CTCTCA
1 AAGATGATTTGGCATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGA-TTGGACTCTCA
*
83151357 AATGTTCTCAAACAGACT-
65 AATGTTCTCAAACAAACTC
* * * *
83151375 AAGATGGTTTGGCA-TCTTTGTGCTTACAAGGAGCAAATCGA
1 AAGATGATTTGGCATTC-TTGTGTTTACAAGAAACAAATCGA
83151416 AGACGAAGCT
Statistics
Matches: 185, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
81 2 0.01
82 33 0.18
83 146 0.79
84 4 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (83 bp):
AAGATGATTTGGCATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGATTGGACTCTCAA
ATGTTCTCAAACAAACTC
Found at i:83153091 original size:19 final size:19
Alignment explanation
Indices: 83153067--83153116 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
83153057 AAATTTAGTC
83153067 CTATATTTATTTTATTATT
1 CTATATTTATTTTATTATT
*
83153086 CTATATATATTTTATTATT
1 CTATATTTATTTTATTATT
*
83153105 -TGT-TTTATTTTA
1 CTATATTTATTTTA
83153117 ATTTTACTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 8 0.29
18 2 0.07
19 18 0.64
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (19 bp):
CTATATTTATTTTATTATT
Found at i:83153157 original size:15 final size:15
Alignment explanation
Indices: 83153133--83153166 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
83153123 CTTCCATAAA
83153133 ATTA-TTTTATAAGT
1 ATTATTTTTATAAGT
*
83153147 ATTATTTTTATATGT
1 ATTATTTTTATAAGT
83153162 ATTAT
1 ATTAT
83153167 AATTGTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
ATTATTTTTATAAGT
Found at i:83153218 original size:18 final size:18
Alignment explanation
Indices: 83153146--83153271 Score: 91
Period size: 18 Copynumber: 6.9 Consensus size: 18
83153136 ATTTTATAAG
*
83153146 TATTATTTTTATATGTAT
1 TATTATTTTTATATATAT
*
83153164 TATAATTGTTTAT-TATA-
1 TATTATT-TTTATATATAT
* * *
83153181 TATTAATTCTCTCATA-AT
1 TATTATTTTTAT-ATATAT
83153199 TATTATTTTTATATATAT
1 TATTATTTTTATATATAT
*
83153217 TATTATATTTTTACATATAT
1 TA-T-TATTTTTATATATAT
*
83153237 TATATATTTATT-TATACA-
1 TAT-TATTT-TTATATATAT
*
83153255 TATTATTTTTACATATA
1 TATTATTTTTATATATA
83153272 AATTTTCATT
Statistics
Matches: 85, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
16 5 0.06
17 18 0.21
18 27 0.32
19 17 0.20
20 18 0.21
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTATTTTTATATATAT
Found at i:83153221 original size:21 final size:21
Alignment explanation
Indices: 83153197--83153261 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
83153187 TTCTCTCATA
83153197 ATTATTATTTTTATATATATT
1 ATTATTATTTTTATATATATT
*
83153218 ATTA-TATTTTTACATATATT
1 ATTATTATTTTTATATATATT
* *
83153238 ATATATT-TATTTATACATATT
1 AT-TATTATTTTTATATATATT
83153259 ATT
1 ATT
83153262 TTTACATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
20 18 0.47
21 19 0.50
22 1 0.03
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTATTATTTTTATATATATT
Found at i:83153254 original size:23 final size:24
Alignment explanation
Indices: 83153208--83153257 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
83153198 TTATTATTTT
*
83153208 TATATATATTATTATATTTTTACA
1 TATATATATTATTATATTTATACA
83153232 TATAT-TATATATT-TATTTATACA
1 TATATATAT-TATTATATTTATACA
83153255 TAT
1 TAT
83153258 TATTTTTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATATATTATTATATTTATACA
Found at i:83153635 original size:7 final size:7
Alignment explanation
Indices: 83153623--83153648 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
83153613 ATATTCTTGT
83153623 TATTATA
1 TATTATA
83153630 TATTATA
1 TATTATA
83153637 TATTATA
1 TATTATA
83153644 TATTA
1 TATTA
83153649 AATACTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTATA
Found at i:83155088 original size:50 final size:50
Alignment explanation
Indices: 83154916--83155099 Score: 222
Period size: 50 Copynumber: 3.8 Consensus size: 50
83154906 TAGGGTATAA
83154916 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-C-ATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAATCAAG
* * *
83154965 T--TGATGTCATGTCCCAGACATGGTCTTACACT-GACTATCGA-AATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTC-ACAATCAAG
* *
83155013 -GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-CG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA-ATCAAG
*
83155062 TGCCGATGCCATGCCCCAGACATGGTCTTACACTAGCT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
83155100 TACAATAACC
Statistics
Matches: 115, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
46 3 0.03
47 31 0.27
48 7 0.06
49 35 0.30
50 39 0.34
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (50 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATCAAG
Found at i:83158072 original size:92 final size:93
Alignment explanation
Indices: 83157961--83158131 Score: 274
Period size: 92 Copynumber: 1.8 Consensus size: 93
83157951 GCCCATAAGT
*
83157961 GAACTCGGACTCAACTCAACGAGCTCGGGC-GTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACAGTTC-CATCCATAAGTGAACTCGGACTCAACTCA
83158025 ACGAGCT-GGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
83158053 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACAGTTCCATCCATAAGTGAACTCGGACTCAACTCAA
* *
83158118 TGAGTTCGGATGCC
66 CGAGCTCGGATGCC
83158132 CAAACATCCT
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
92 62 0.86
93 10 0.14
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACAGTTCCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:83158127 original size:46 final size:46
Alignment explanation
Indices: 83157953--83158127 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
83157943 TGTAACCCGC
*
83157953 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACAGTTC-CAT
*
83157999 CCATAAGTGAACTCGGACTCAACTCAACGAGCT-GGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-AGTTCCAT
* * *
83158048 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTCCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACAGTTCCAT
* *
83158091 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
83158128 TGCCCAAACA
Statistics
Matches: 110, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
45 2 0.02
46 85 0.77
47 3 0.03
48 1 0.01
49 5 0.05
50 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACAGTTCCAT
Found at i:83158146 original size:46 final size:46
Alignment explanation
Indices: 83157958--83158146 Score: 133
Period size: 46 Copynumber: 4.1 Consensus size: 46
83157948 CCCGCCCATA
* ** *
83157958 AGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAT-ACATCC-T
* *
83158003 AAGTGAACTCGGACTCAACTCAACGAGCT-GGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* ** * *
83158052 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTTCCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
* *
83158096 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
83158142 AGTGA
1 AGTGA
83158147 CATGTCACTT
Statistics
Matches: 113, Mismatches: 17, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
44 8 0.07
45 2 0.02
46 84 0.74
47 7 0.06
48 1 0.01
49 9 0.08
50 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:83163847 original size:50 final size:47
Alignment explanation
Indices: 83163776--83163995 Score: 179
Period size: 46 Copynumber: 4.7 Consensus size: 47
83163766 AGACCAACGC
* * *
83163776 CATGTCCCAGAAATGGCCTTACACTAGCTCTCACATATCCGTA-CCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCT-TCACATCT-CGTAGCCGATG
* *
83163825 CCATGTCCCAGGCATTGTCTTACACT-G--ACACATCTCGTAGCCGATG
1 -CATGTCCCAGACA-TGTCTTACACTAGCTTCACATCTCGTAGCCGATG
* *
83163871 CATGTCCTAGACATGTCTTACACTGGCTT-ACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCACATCTCGTA-GCCGATG
* * * * *
83163917 CATGTCCCAGACATGTCTTACACTAGC-ACTCGTCTC-AATCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCACATCTCGTAGCCGATG
**
83163962 CCATGTCTTAGACATGGTCTTACACTAGC-TCACA
1 -CATGTCCCAGACAT-GTCTTACACTAGCTTCACA
83163996 ATAACCTATG
Statistics
Matches: 141, Mismatches: 19, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
44 11 0.08
45 23 0.16
46 70 0.50
47 15 0.11
49 1 0.01
50 20 0.14
51 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCACATCTCGTAGCCGATG
Found at i:83163974 original size:92 final size:93
Alignment explanation
Indices: 83163819--83163987 Score: 229
Period size: 92 Copynumber: 1.8 Consensus size: 93
83163809 CATATCCGTA
* *
83163819 CCGATGCCATGTCCCAGGCATTGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCTAGACA
1 CCGATGCCATGTCCCAGACATTGTCTTACACTGACACATCTCGAAGCCGATGCATGTCCTAGACA
83163884 T-GTCTTACACTGGCTTACATCTCGAGG
66 TGGTCTTACACTGGCTTACATCTCGAGG
* * * *
83163911 CCGATG-CATGTCCCAGACA-TGTCTTACACTAGCACTCGTCTC-AATCCGATGCCATGTCTTAG
1 CCGATGCCATGTCCCAGACATTGTCTTACACT-G-ACACATCTCGAAGCCGATG-CATGTCCTAG
83163973 ACATGGTCTTACACT
63 ACATGGTCTTACACT
83163988 AGCTCACAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
90 11 0.16
91 20 0.30
92 26 0.39
93 10 0.15
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (93 bp):
CCGATGCCATGTCCCAGACATTGTCTTACACTGACACATCTCGAAGCCGATGCATGTCCTAGACA
TGGTCTTACACTGGCTTACATCTCGAGG
Found at i:83166173 original size:26 final size:26
Alignment explanation
Indices: 83166137--83166190 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
83166127 GACTTATTAG
83166137 ATTGTTTACCAAAGAAAATTACAAAT
1 ATTGTTTACCAAAGAAAATTACAAAT
83166163 ATTGTTTACCAAAGAAAATTACAAAT
1 ATTGTTTACCAAAGAAAATTACAAAT
83166189 AT
1 AT
83166191 GCATAAACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.31
Consensus pattern (26 bp):
ATTGTTTACCAAAGAAAATTACAAAT
Found at i:83166379 original size:21 final size:20
Alignment explanation
Indices: 83166353--83166396 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
83166343 ATTTAATAAT
83166353 TTAATT-TTTATAATATTATTA
1 TTAATTATTTA-AATA-TATTA
83166374 TTAATTAATTTAAATATATTA
1 TTAATT-ATTTAAATATATTA
83166395 TT
1 TT
83166397 TCAATTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 13 0.62
22 4 0.19
23 4 0.19
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAATTATTTAAATATATTA
Found at i:83167996 original size:17 final size:17
Alignment explanation
Indices: 83167974--83168014 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
83167964 AAAAGATTAA
*
83167974 CATACCTGTGCCAGACT
1 CATACCCGTGCCAGACT
**
83167991 CATACCCGTGCTGGACT
1 CATACCCGTGCCAGACT
83168008 CATACCC
1 CATACCC
83168015 ATATCTTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.22, C:0.39, G:0.17, T:0.22
Consensus pattern (17 bp):
CATACCCGTGCCAGACT
Found at i:83179514 original size:13 final size:15
Alignment explanation
Indices: 83179478--83179513 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
83179468 AAATTGAAAT
*
83179478 AAAAAGTGA-GATTG
1 AAAAAGAGACGATTG
83179492 AAAAAGAGACGATTG
1 AAAAAGAGACGATTG
83179507 AAAAAGA
1 AAAAAGA
83179514 CAAGAGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.58, C:0.03, G:0.25, T:0.14
Consensus pattern (15 bp):
AAAAAGAGACGATTG
Found at i:83180582 original size:22 final size:20
Alignment explanation
Indices: 83180537--83180582 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
83180527 TCCAAATTAG
*
83180537 CTAGTTGTTATTTAAGTTGT
1 CTAGTTGTTATTTAAATTGT
*
83180557 CTAGTTGTTGTTTTAAATATGT
1 CTAGTTGTT-ATTTAAAT-TGT
83180579 CTAG
1 CTAG
83180583 ATGAATATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 6 0.27
22 7 0.32
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.52
Consensus pattern (20 bp):
CTAGTTGTTATTTAAATTGT
Found at i:83184157 original size:15 final size:15
Alignment explanation
Indices: 83184137--83184184 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
83184127 TCAAAGATGG
83184137 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
83184152 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
83184166 GTTTATGGATATAAA
1 GTTTATGGATATGAA
83184181 GTTT
1 GTTT
83184185 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:83184171 original size:14 final size:14
Alignment explanation
Indices: 83184131--83184174 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
83184121 AAGGATTCAA
83184131 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
83184145 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
83184160 AGATGGGTTTATGG
1 AGATGGGTTTATGG
83184174 A
1 A
83184175 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:83184200 original size:29 final size:29
Alignment explanation
Indices: 83184131--83184190 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
83184121 AAGGATTCAA
*
83184131 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
83184160 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
83184189 AG
1 AG
83184191 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:83187117 original size:23 final size:22
Alignment explanation
Indices: 83187066--83187117 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
83187056 CCTCGTCTTT
*
83187066 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
83187088 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
83187111 TTCTTTT
1 TTCTTTT
83187118 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:83190697 original size:14 final size:14
Alignment explanation
Indices: 83190655--83190699 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
83190645 TTAAAGAAGC
83190655 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
83190669 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
83190682 AACTCATTTAATTA
1 AACTCATTAAATTA
83190696 AACT
1 AACT
83190700 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:83193203 original size:18 final size:18
Alignment explanation
Indices: 83193176--83193225 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
83193166 CAAACTCTTT
83193176 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
83193194 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
83193212 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
83193226 TTTTTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:83194551 original size:15 final size:15
Alignment explanation
Indices: 83194531--83194578 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
83194521 TCAAAGATGG
83194531 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
83194546 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
83194560 GTTTATGGATATAAA
1 GTTTATGGATATGAA
83194575 GTTT
1 GTTT
83194579 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:83194565 original size:14 final size:14
Alignment explanation
Indices: 83194525--83194568 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
83194515 AAGGATTCAA
83194525 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
83194539 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
83194554 AGATGGGTTTATGG
1 AGATGGGTTTATGG
83194568 A
1 A
83194569 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:83194594 original size:29 final size:29
Alignment explanation
Indices: 83194525--83194584 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
83194515 AAGGATTCAA
*
83194525 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
83194554 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
83194583 AG
1 AG
83194585 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:83195602 original size:14 final size:14
Alignment explanation
Indices: 83195560--83195604 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
83195550 TTAAAGAAGC
83195560 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
83195574 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
83195587 AACTCATTTAATTA
1 AACTCATTAAATTA
83195601 AACT
1 AACT
83195605 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:83200916 original size:30 final size:30
Alignment explanation
Indices: 83200831--83200927 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
83200821 TAAACTAAAA
* *
83200831 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
83200861 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
83200891 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
83200920 ATGAGCTA
1 -TGAGCTA
83200928 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:83201155 original size:20 final size:19
Alignment explanation
Indices: 83201110--83201155 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
83201100 TAGGCTCGGA
* *
83201110 TTAGCTCGTTTGAGCTTAT
1 TTAGCTCGCTTGAGCTAAT
83201129 TTCAGCTCGCTTGAGCTCAAT
1 TT-AGCTCGCTTGAGCT-AAT
83201150 TTAGCT
1 TTAGCT
83201156 ACTTTTTAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 17 0.74
21 4 0.17
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (19 bp):
TTAGCTCGCTTGAGCTAAT
Found at i:83208953 original size:27 final size:27
Alignment explanation
Indices: 83208922--83208973 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
83208912 ACAAGTGAGG
83208922 AAAAAGAAAAAGAGAATGAAAAAGAGC
1 AAAAAGAAAAAGAGAATGAAAAAGAGC
* ** *
83208949 AAAAAGAGATTGAGAGTGAAAAAGA
1 AAAAAGAAAAAGAGAATGAAAAAGA
83208974 AATTGAAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.65, C:0.02, G:0.25, T:0.08
Consensus pattern (27 bp):
AAAAAGAAAAAGAGAATGAAAAAGAGC
Found at i:83214880 original size:27 final size:27
Alignment explanation
Indices: 83214825--83215029 Score: 288
Period size: 27 Copynumber: 7.6 Consensus size: 27
83214815 TTAGTTTACC
* * *
83214825 AAATTACC-AAATA-CCCTCGATTAGAA
1 AAATTACCAAAATACCCCTAG-TTTGTA
*
83214851 AAATTACCAAAATACCCCTTGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
83214878 AAATTACCAAAATACCCCTAGTTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTA
*
83214905 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
83214932 AAATTACCAAAATACCCCTAGTTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTA
83214959 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
83214986 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTA
**
83215013 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
83215030 TCGACCTGTA
Statistics
Matches: 163, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
26 8 0.05
27 150 0.92
28 5 0.03
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:83215082 original size:27 final size:27
Alignment explanation
Indices: 83214825--83215138 Score: 255
Period size: 27 Copynumber: 11.7 Consensus size: 27
83214815 TTAGTTTACC
* *
83214825 AAATTACC-AAATACCCTCGATTAGAA
1 AAATTACCAAAATACCCTCGATTTGTA
*
83214851 AAATTACCAAAATACCCCTTG-TTTGTA
1 AAATTACCAAAATA-CCCTCGATTTGTA
* *
83214878 AAATTACCAAAATACCC-CTAGTTTGTG
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
83214905 AAATTACCAAAATACCCT-TAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
83214932 AAATTACCAAAATACCC-CTAGTTTGTG
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
83214959 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
83214986 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** **
83215013 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
83215040 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
83215067 AAATTACCAAAGTACCCTCAATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *** **
83215094 GAATTAACATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
83215121 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
83215139 TGTAGGGTAG
Statistics
Matches: 242, Mismatches: 38, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
26 11 0.05
27 224 0.93
28 7 0.03
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:83215152 original size:27 final size:27
Alignment explanation
Indices: 83215122--83215175 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
83215112 CGATTTACAA
*
83215122 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
83215149 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
83215176 GACTACCGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:83215969 original size:27 final size:26
Alignment explanation
Indices: 83215931--83215988 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
83215921 ATATATATGC
*
83215931 ATCTGTTCTGGTGGCCTAGCCACAAT
1 ATCTGTTCTGGTGACCTAGCCACAAT
* * *
83215957 ATCTGTATCTGGTGACTTCGTCACAAT
1 ATCTGT-TCTGGTGACCTAGCCACAAT
83215984 ATCTG
1 ATCTG
83215989 GCAGCCTCGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (26 bp):
ATCTGTTCTGGTGACCTAGCCACAAT
Found at i:83219413 original size:21 final size:21
Alignment explanation
Indices: 83219389--83219432 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
83219379 AGTGTAAACA
* *
83219389 GGGCACGTATGTGCATTTTAG
1 GGGCACATATGTGCAATTTAG
*
83219410 GGGCATATATGTGCAATTTAG
1 GGGCACATATGTGCAATTTAG
83219431 GG
1 GG
83219433 TTACCACAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.11, G:0.34, T:0.32
Consensus pattern (21 bp):
GGGCACATATGTGCAATTTAG
Found at i:83219514 original size:41 final size:41
Alignment explanation
Indices: 83219408--83219590 Score: 187
Period size: 41 Copynumber: 4.5 Consensus size: 41
83219398 TGTGCATTTT
** * *
83219408 AGGGGCATATATGTGCAATTTAGGGTTACC-ACAGTACAAAC
1 AGGGGCACGTATGTGCAATTCAGGGGTACCGA-AGTACAAAC
* * * *
83219449 A-GGGCATGTGTGT-AAAATCTAGGGGTACCGAAGTACAAAC
1 AGGGGCACGTATGTGCAATTC-AGGGGTACCGAAGTACAAAC
*
83219489 AGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTACAAAC
1 AGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAAC
* * * *
83219530 AGGGGCAC--ATGTACAATTTAGGGGTATCGAAATACAAAC
1 AGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAAC
*
83219569 AGGGGCACGTATGTGTAATTCA
1 AGGGGCACGTATGTGCAATTCA
83219591 AGGAATAATT
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 37 0.32
40 28 0.24
41 48 0.41
42 4 0.03
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (41 bp):
AGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAAC
Found at i:83219534 original size:20 final size:19
Alignment explanation
Indices: 83219469--83219573 Score: 68
Period size: 20 Copynumber: 5.3 Consensus size: 19
83219459 TGTAAAATCT
83219469 AGGGGTACCGAAGTACAAAC
1 AGGGGTA-CGAAGTACAAAC
* * * *
83219489 AGGGGCACGTATGTGCAATTC
1 AGGGGTACG-AAGTACAA-AC
83219510 AGGGGTACTGAAGTACAAAC
1 AGGGGTAC-GAAGTACAAAC
* * **
83219530 AGGGGCAC-ATGTACAATTT
1 AGGGGTACGAAGTACAA-AC
*
83219549 AGGGGTATCGAAATACAAAC
1 AGGGGTA-CGAAGTACAAAC
83219569 AGGGG
1 AGGGG
83219574 CACGTATGTG
Statistics
Matches: 62, Mismatches: 17, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
18 7 0.11
19 8 0.13
20 26 0.42
21 20 0.32
22 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.17
Consensus pattern (19 bp):
AGGGGTACGAAGTACAAAC
Found at i:83222892 original size:27 final size:27
Alignment explanation
Indices: 83222861--83222940 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 27
83222851 GAATACTTTA
* *
83222861 GTTTACCAAATTACCAAAATACCCTTG
1 GTTTACAAAATTACCAAAATACCCCTG
*
83222888 GTTTATAAAATTACCAAAATACCCCTG
1 GTTTACAAAATTACCAAAATACCCCTG
** * *
83222915 GTTTGTAGAATTACTAAAATACCCCT
1 GTTTACAAAATTACCAAAATACCCCT
83222941 ATAAGGTAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.31
Consensus pattern (27 bp):
GTTTACAAAATTACCAAAATACCCCTG
Found at i:83223055 original size:27 final size:27
Alignment explanation
Indices: 83222919--83223064 Score: 166
Period size: 27 Copynumber: 5.4 Consensus size: 27
83222909 CCCCTGGTTT
** * * *
83222919 GTAGAATTACTAAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCTTGTAGG
83222946 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * *
83222973 GTAGAAATATCGAAATACCCTTATAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * *
83223000 GTAGAAATACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
83223027 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
83223054 GTAAAATTACC
1 GTAGAATTACC
83223065 ATTTTGCCCC
Statistics
Matches: 101, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:83224025 original size:6 final size:6
Alignment explanation
Indices: 83223986--83224128 Score: 105
Period size: 6 Copynumber: 23.3 Consensus size: 6
83223976 TTGCATTGAC
* * * *
83223986 ATTCTG ATTTTG ATTATG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
83224035 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTA ATTCTG ATTCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
83224084 -TCACTTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
83224129 AATGTTTCTT
Statistics
Matches: 107, Mismatches: 19, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
5 5 0.05
6 91 0.85
7 8 0.07
8 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:83224064 original size:31 final size:31
Alignment explanation
Indices: 83223986--83224064 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
83223976 TTGCATTGAC
* * * *
83223986 ATTCTGATTTTGATTATGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
* *
83224017 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
83224048 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
83224065 AATTCTGATT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:83224119 original size:49 final size:49
Alignment explanation
Indices: 83224014--83224128 Score: 160
Period size: 49 Copynumber: 2.3 Consensus size: 49
83224004 TTACCTGATA
* *
83224014 CTGATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTCATT
* * *
83224063 CTAATTCTGATTCTGATTCTGTCACTTGATTCTGATTCTGATTCTCATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTCATT
*
83224112 TTGATTCT-AGTTCTGAT
1 CTGATTCTGA-TTCTGAT
83224129 AATGTTTCTT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 1 0.02
49 57 0.98
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (49 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTCATT
Found at i:83225087 original size:19 final size:19
Alignment explanation
Indices: 83225063--83225099 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
83225053 AATTATATGT
*
83225063 TGAATTAATTTTATCCTAC
1 TGAATTAAATTTATCCTAC
*
83225082 TGAATTAAATTTGTCCTA
1 TGAATTAAATTTATCCTA
83225100 GCTGCCAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.46
Consensus pattern (19 bp):
TGAATTAAATTTATCCTAC
Found at i:83228799 original size:12 final size:12
Alignment explanation
Indices: 83228782--83228807 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
83228772 AGTTTGGCAT
83228782 GGCCTAGCACAC
1 GGCCTAGCACAC
83228794 GGCCTAGCACAC
1 GGCCTAGCACAC
83228806 GG
1 GG
83228808 ATGTGTGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:83258995 original size:17 final size:19
Alignment explanation
Indices: 83258953--83258996 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
83258943 ATGAAATTTT
*
83258953 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
83258972 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
83258990 AA-TATTA
1 AATTATTA
83258997 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:83263232 original size:24 final size:24
Alignment explanation
Indices: 83263186--83263285 Score: 85
Period size: 24 Copynumber: 4.1 Consensus size: 24
83263176 AAGCTCCTTC
* *
83263186 TGAGCTGATGAACAGTAAGCTCTAT
1 TGAGCTGA-GAATAGTAAGCTCTAA
* *
83263211 TGAGTTG-GAAATAGTAAACTCTAA
1 TGAGCTGAG-AATAGTAAGCTCTAA
*
83263235 TGAGCTGAGAATAGTAAGCTCTTA
1 TGAGCTGAGAATAGTAAGCTCTAA
* * * * *
83263259 TGAGATAAGAACAATAAGCTCTTA
1 TGAGCTGAGAATAGTAAGCTCTAA
83263283 TGA
1 TGA
83263286 ATTGATATAT
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
23 1 0.02
24 54 0.87
25 7 0.11
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (24 bp):
TGAGCTGAGAATAGTAAGCTCTAA
Found at i:83272392 original size:28 final size:28
Alignment explanation
Indices: 83272341--83272407 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
83272331 GTAAGTCCGT
*
83272341 ACACTTAGTGCTTAATAATCAAACTCGC
1 ACACTTAGTGCTTAACAATCAAACTCGC
* *
83272369 ACACTTAGTGC-TATACAATTAAACTTGC
1 ACACTTAGTGCTTA-ACAATCAAACTCGC
83272397 ACACTTAGTGC
1 ACACTTAGTGC
83272408 CAATCTCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
27 2 0.06
28 33 0.94
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (28 bp):
ACACTTAGTGCTTAACAATCAAACTCGC
Found at i:83280274 original size:28 final size:28
Alignment explanation
Indices: 83280234--83280303 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
83280224 ATAGTAAGTC
83280234 CGCACACTTAGTGCT-TAACAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
83280262 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
83280290 CGCACACTTAGTGC
1 CGCACACTTAGTGC
83280304 CAATCTCATT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:83289730 original size:93 final size:93
Alignment explanation
Indices: 83289617--83289788 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
83289607 CGCCCATAAG
* *
83289617 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
83289682 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
83289710 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
83289775 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
83289789 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:83289785 original size:46 final size:46
Alignment explanation
Indices: 83289610--83289785 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
83289600 TGTAACCCGC
* * *
83289610 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
83289656 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
83289706 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
83289749 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
83289786 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:83291181 original size:107 final size:107
Alignment explanation
Indices: 83290995--83291208 Score: 419
Period size: 107 Copynumber: 2.0 Consensus size: 107
83290985 CCTCAAAATA
*
83290995 ATTATAAAATAATTATTTCTATCTTGGATTTATGGTCACGAAACCACTATTCCGATTAGGCCCTA
1 ATTATAAAATAATTATTTCTATCTCGGATTTATGGTCACGAAACCACTATTCCGATTAGGCCCTA
83291060 ATTCGGGATATTACAACTCTCCCCCCTTTAAGGATTTTCGTC
66 ATTCGGGATATTACAACTCTCCCCCCTTTAAGGATTTTCGTC
83291102 ATTATAAAATAATTATTTCTATCTCGGATTTATGGTCACGAAACCACTATTCCGATTAGGCCCTA
1 ATTATAAAATAATTATTTCTATCTCGGATTTATGGTCACGAAACCACTATTCCGATTAGGCCCTA
83291167 ATTCGGGATATTACAACTCTCCCCCCTTTAAGGATTTTCGTC
66 ATTCGGGATATTACAACTCTCCCCCCTTTAAGGATTTTCGTC
83291209 CTCGAAAATC
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 106 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (107 bp):
ATTATAAAATAATTATTTCTATCTCGGATTTATGGTCACGAAACCACTATTCCGATTAGGCCCTA
ATTCGGGATATTACAACTCTCCCCCCTTTAAGGATTTTCGTC
Found at i:83294289 original size:49 final size:47
Alignment explanation
Indices: 83294209--83294471 Score: 411
Period size: 47 Copynumber: 5.6 Consensus size: 47
83294199 TATTTGAATA
83294209 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
83294256 AATGTGAAAGTGTATATATATTTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
83294305 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
83294352 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGAT-
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
83294398 AATGTGAAAGTATATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
83294445 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
83294472 TCCCGAAGGG
Statistics
Matches: 201, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
46 41 0.20
47 114 0.57
49 46 0.23
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:83294320 original size:96 final size:95
Alignment explanation
Indices: 83294209--83294471 Score: 408
Period size: 93 Copynumber: 2.8 Consensus size: 95
83294199 TATTTGAATA
83294209 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
83294274 TATTTGATAAGGCCTAATGGCCGATGTGAT
66 TATGTGATAAGGCCTAATGGCCAATGTGAT
83294304 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
1 -AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
83294367 ATATGTGATAAGGCCTAATGGCCAATGTGAT
65 ATATGTGATAAGGCCTAATGGCCAATGTGAT
* * * * * * *
83294398 AATGTGAAAGTATATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
83294462 -ATGTGATAAG
66 TATGTGATAAG
83294472 TCCCGAAGGG
Statistics
Matches: 156, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
93 62 0.40
94 33 0.21
95 2 0.01
96 59 0.38
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (95 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCAATGTGAT
Found at i:83296166 original size:40 final size:40
Alignment explanation
Indices: 83295883--83296154 Score: 436
Period size: 40 Copynumber: 6.8 Consensus size: 40
83295873 GAGAATTGAG
83295883 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
83295923 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
83295963 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
83296003 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
83296043 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
83296083 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
83296123 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
83296155 ATCATGCTGG
Statistics
Matches: 216, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 216 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:83300227 original size:47 final size:47
Alignment explanation
Indices: 83300173--83300436 Score: 429
Period size: 47 Copynumber: 5.6 Consensus size: 47
83300163 TATTTGAATA
*
83300173 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
83300220 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
83300267 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
83300316 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * *
83300363 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
83300410 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
83300437 TCCCGAAGGG
Statistics
Matches: 203, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 158 0.78
49 45 0.22
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:83300299 original size:96 final size:94
Alignment explanation
Indices: 83300173--83300436 Score: 438
Period size: 96 Copynumber: 2.8 Consensus size: 94
83300163 TATTTGAATA
83300173 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
83300238 TGTGATAAGGCCGAATGGCCAATGTGATG
66 TGTGATAAGGCCGAATGGCCAATGTGATG
83300267 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
83300332 TATGTGATAAGGCCTAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * * * * * *
83300363 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
83300428 TGTGATAAG
66 TGTGATAAG
83300437 TCCCGAAGGG
Statistics
Matches: 160, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
94 67 0.42
96 93 0.58
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:83300332 original size:143 final size:141
Alignment explanation
Indices: 83300173--83300436 Score: 465
Period size: 143 Copynumber: 1.9 Consensus size: 141
83300163 TATTTGAATA
*
83300173 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
*
83300238 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA-A-ATGTGATAAGGCCTAAT
83300303 GGCCGATGTGATG
129 GGCCGATGTGATG
83300316 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* * *
83300381 TGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
83300437 TCCCGAAGGG
Statistics
Matches: 116, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
141 10 0.09
142 1 0.01
143 105 0.91
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCTAATGG
CCGATGTGATG
Found at i:83303485 original size:38 final size:38
Alignment explanation
Indices: 83303442--83303517 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
83303432 TTCATCCTTT
83303442 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
83303480 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
83303518 GGAGTTCTTG
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:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:83304797 original size:40 final size:40
Alignment explanation
Indices: 83304703--83304847 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
83304693 TACTCGAATG
* *
83304703 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
83304744 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
83304784 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
83304824 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
83304848 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:83311539 original size:38 final size:38
Alignment explanation
Indices: 83311496--83311571 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
83311486 TTCATCCTTT
83311496 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
83311534 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
83311572 GGAGTTCTTG
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:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:83312852 original size:40 final size:40
Alignment explanation
Indices: 83312758--83312902 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
83312748 TACTCGAATG
*
83312758 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
83312799 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
83312839 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
83312879 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
83312903 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:83318475 original size:93 final size:93
Alignment explanation
Indices: 83318362--83318532 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
83318352 GCCCATAAGT
* *
83318362 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
83318427 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
83318455 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
83318520 CGAGTTCGGATGC
66 CGAGTTCGGATGC
83318533 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:83318529 original size:46 final size:46
Alignment explanation
Indices: 83318354--83318529 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
83318344 TATAACCCGC
* * *
83318354 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
83318400 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
83318450 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
83318493 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
83318530 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:83324511 original size:20 final size:20
Alignment explanation
Indices: 83324488--83324528 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
83324478 TGTGAATTGT
*
83324488 TGCTAAACCATTTCACTGCA
1 TGCTAAACCATCTCACTGCA
*
83324508 TGCTAAACCATCTCATTGCA
1 TGCTAAACCATCTCACTGCA
83324528 T
1 T
83324529 TTTTCATTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (20 bp):
TGCTAAACCATCTCACTGCA
Found at i:83327652 original size:37 final size:37
Alignment explanation
Indices: 83327596--83327666 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
83327586 TCAAAGAAGG
83327596 GCGAAAGAGCTAGAATTGATGGGCAAATGAGACTCAA
1 GCGAAAGAGCTAGAATTGATGGGCAAATGAGACTCAA
83327633 GCGAAAGAGCTA-AAGTTGATGGGCAAATGAGACT
1 GCGAAAGAGCTAGAA-TTGATGGGCAAATGAGACT
83327667 TAATCCTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
36 2 0.06
37 31 0.94
ACGTcount: A:0.39, C:0.13, G:0.31, T:0.17
Consensus pattern (37 bp):
GCGAAAGAGCTAGAATTGATGGGCAAATGAGACTCAA
Found at i:83335901 original size:49 final size:48
Alignment explanation
Indices: 83335828--83336071 Score: 274
Period size: 49 Copynumber: 4.9 Consensus size: 48
83335818 AGCCGAAGCT
* * *
83335828 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAC
*
83335876 AGTCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTCACC
1 A-TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAAC
** * *
83335927 ATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-AC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAC
* * * * *
83335974 AGTTTTCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGTGACCAATT
1 A----TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAA-C
* *
83336027 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC
83336072 TCACAATAGT
Statistics
Matches: 164, Mismatches: 23, Indels: 17
0.80 0.11 0.08
Matches are distributed among these distances:
47 2 0.01
48 2 0.01
49 78 0.48
50 40 0.24
51 40 0.24
52 1 0.01
53 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (48 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAC
Found at i:83336013 original size:101 final size:98
Alignment explanation
Indices: 83335840--83336071 Score: 304
Period size: 100 Copynumber: 2.3 Consensus size: 98
83335830 CTGGTACGCA
* * * * *
83335840 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCGGGTACACATAGTAGCCTACACTTA
* *
83335905 GTACTACACATGTGACCTCACCATCTAATACACG
66 GTACTACACATGTGACC-AACCATCCAATACACG
* *
83335939 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTACAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCGGGTACACATAGTAGCCTACAC
** **
83336003 TTAGTACTACACATGTGACCAATTATCCGGTACACG
63 TTAGTACTACACATGTGACCAACCATCCAATACACG
83336039 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
83336072 TCACAATAGT
Statistics
Matches: 116, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
98 4 0.03
99 30 0.26
100 42 0.36
101 40 0.34
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCGGGTACACATAGTAGCCTACACTTA
GTACTACACATGTGACCAACCATCCAATACACG
Found at i:83338369 original size:24 final size:24
Alignment explanation
Indices: 83338333--83338378 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
83338323 AGTAATTTTG
83338333 ATTATCAAATTAT-TTTCTTTAGT
1 ATTATCAAATTATGTTTCTTTAGT
* *
83338356 ATTATTCAATTTATGTTTTTTTA
1 ATTA-TCAAATTATGTTTCTTTA
83338379 TTAATTGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 8 0.42
25 7 0.37
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (24 bp):
ATTATCAAATTATGTTTCTTTAGT
Found at i:83343068 original size:35 final size:35
Alignment explanation
Indices: 83343011--83343090 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
83343001 ACCCTTTCGA
* * *
83343011 GGTGTCGCCCAGTAGGACCTATATAACATTTACAT
1 GGTGTCGCCCTGAAGGACCTATATAACATTTACAC
* * *
83343046 GGTGTTGCCCTGAAGGATCTATATACCATTTACAC
1 GGTGTCGCCCTGAAGGACCTATATAACATTTACAC
83343081 GGTGTCGCCC
1 GGTGTCGCCC
83343091 CAAATGACCA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.29
Consensus pattern (35 bp):
GGTGTCGCCCTGAAGGACCTATATAACATTTACAC
Done.