Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008912.1 Hibiscus syriacus cultivar Beakdansim tig00112215_pilon, whole genome shotgun sequence
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: 3753803
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 18
Found at i:3316744 original size:109 final size:109
Alignment explanation
Indices: 3316553--3316999 Score: 770
Period size: 109 Copynumber: 4.1 Consensus size: 109
3316543 GGGCCATACG
* *
3316553 CGATTTCAAC-CTCACGACGGAGGATATCGTGCTACCCGAGATAACACAAGTTCAACTTCACAAT
1 CGATTTCAACTC-CACGACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCACAAC
*
3316617 GAAGGGACGGCTGGTTGTCGACAAACAACTTCCCAATTTCAGAGC
65 GAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
*
3316662 CGATTTTAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCACAACG
1 CGATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCACAACG
* *
3316727 AAGGGATGGATGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
66 AAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
* *
3316771 TGATTTCAACTCCACGACGGAGGATATCGTGCTACCCAAGACAACACAAGTTCAACTTCACAACG
1 CGATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCACAACG
*
3316836 AAGGGTCGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
66 AAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
*
3316880 CGATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGATAACACAAGTTCAACTTCACAACG
1 CGATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCACAACG
* *
3316945 AAGGGACGGTTGGTTGTCAACAAACAACTTCCCAATTTCAGAGT
66 AAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
3316989 CGATTTCAACT
1 CGATTTCAACT
3317000 TGTATTGGAT
Statistics
Matches: 319, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
109 318 1.00
110 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (109 bp):
CGATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCACAACG
AAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
Found at i:3317544 original size:35 final size:35
Alignment explanation
Indices: 3317452--3317523 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
3317442 CCAACAAAGA
* *
3317452 AGAGTTGAATTAGGACTCAAATACTAGTCTAGAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
3317487 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
3317522 AG
1 AG
3317524 GGTTTTTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (35 bp):
AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
Found at i:3318043 original size:2 final size:2
Alignment explanation
Indices: 3318038--3318071 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3318028 CTTTTTTATT
3318038 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3318072 CTTTGATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3318045 original size:18 final size:19
Alignment explanation
Indices: 3318010--3318045 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3318000 ATTATTATTA
*
3318010 TTTTTTATTTCATTTATAC
1 TTTTTTATTTCATATATAC
3318029 TTTTTTATTT-ATATATA
1 TTTTTTATTTCATATATA
3318046 TATATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTATTTCATATATAC
Found at i:3318139 original size:19 final size:18
Alignment explanation
Indices: 3318109--3318144 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3318099 CTTTTATTTC
*
3318109 TTTTTTTATTTATTACTA
1 TTTTTTTATTTAATACTA
3318127 TTTTTTTATTTTAATACT
1 TTTTTTTA-TTTAATACT
3318145 TATTATTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTTTATTTAATACTA
Found at i:3318469 original size:24 final size:25
Alignment explanation
Indices: 3318410--3318469 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 25
3318400 ATTAGATTCG
3318410 TTACGTCATTTTTTTCTCATTTATTT
1 TTAC-TCATTTTTTTCTCATTTATTT
* *
3318436 TTACT-TTTTTTTTCTTA-TT-TTT
1 TTACTCATTTTTTTCTCATTTATTT
3318458 TTATCTCATTTT
1 TTA-CTCATTTT
3318470 GTTTATTCGT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 6 0.21
23 4 0.14
24 14 0.48
25 1 0.03
26 4 0.14
ACGTcount: A:0.13, C:0.13, G:0.02, T:0.72
Consensus pattern (25 bp):
TTACTCATTTTTTTCTCATTTATTT
Found at i:3322784 original size:18 final size:19
Alignment explanation
Indices: 3322749--3322785 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
3322739 CACGGAATGT
3322749 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
3322769 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
3322786 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:3325056 original size:60 final size:60
Alignment explanation
Indices: 3324957--3325107 Score: 189
Period size: 60 Copynumber: 2.5 Consensus size: 60
3324947 CTAACTTTAT
* * ** *
3324957 ATTTGGGGATGAAATTAGAATATTCAAAAGTTTGGGGATTAGTTTAGAAAG-GATGTCATA
1 ATTTAGGGATGAAATTAGAATATTCAAAAGTATAAGGATTAATTTAGAAAGAGA-GTCATA
* *
3325017 ATTTAGGGAT-AAATTTAGAATGTTCAAAAGTATAAGGATTAATTTAGAATGAGAGTCATA
1 ATTTAGGGATGAAA-TTAGAATATTCAAAAGTATAAGGATTAATTTAGAAAGAGAGTCATA
* *
3325077 ATTTAAGGATGAAATTGGAATATTCAAAAGT
1 ATTTAGGGATGAAATTAGAATATTCAAAAGT
3325108 TGAAGTACTA
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
59 3 0.04
60 70 0.90
61 5 0.06
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (60 bp):
ATTTAGGGATGAAATTAGAATATTCAAAAGTATAAGGATTAATTTAGAAAGAGAGTCATA
Found at i:3329929 original size:11 final size:11
Alignment explanation
Indices: 3329895--3329923 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
3329885 CTCTAGTATC
3329895 ATTTTAATATA
1 ATTTTAATATA
3329906 ATTTTAATATA
1 ATTTTAATATA
3329917 ATTTTAA
1 ATTTTAA
3329924 ATTAATGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATTTTAATATA
Found at i:3331877 original size:2 final size:2
Alignment explanation
Indices: 3331870--3331906 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3331860 AAAAGAATGA
3331870 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3331907 CCATTAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3335582 original size:8 final size:8
Alignment explanation
Indices: 3335569--3335593 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
3335559 GAGTAACTCG
3335569 AAATTTCA
1 AAATTTCA
3335577 AAATTTCA
1 AAATTTCA
3335585 AAATTTCA
1 AAATTTCA
3335593 A
1 A
3335594 CTCGACTCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (8 bp):
AAATTTCA
Found at i:3335746 original size:12 final size:11
Alignment explanation
Indices: 3335718--3335753 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
3335708 CAAATCTCTC
3335718 TTTTCCTTT-T
1 TTTTCCTTTCT
3335728 TTTTCCTTTCT
1 TTTTCCTTTCT
3335739 TTTCTCCTTTCT
1 TTT-TCCTTTCT
3335751 TTT
1 TTT
3335754 ATCCAAACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.38
11 4 0.17
12 11 0.46
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTCCTTTCT
Found at i:3337828 original size:25 final size:24
Alignment explanation
Indices: 3337800--3337846 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
3337790 TAATAAAAAT
3337800 TATATTTCTAATGACAAATATTTAA
1 TATATTTCTAATGA-AAATATTTAA
*
3337825 TATATTTCTAATGATAATATTT
1 TATATTTCTAATGAAAATATTT
3337847 GTAATAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.49
Consensus pattern (24 bp):
TATATTTCTAATGAAAATATTTAA
Found at i:3338151 original size:7 final size:7
Alignment explanation
Indices: 3338141--3338165 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3338131 GTGATATGGT
3338141 TTTAGGG
1 TTTAGGG
3338148 TTTAGGG
1 TTTAGGG
3338155 TTTAGGG
1 TTTAGGG
3338162 TTTA
1 TTTA
3338166 AATTATGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:3339999 original size:35 final size:35
Alignment explanation
Indices: 3339948--3340031 Score: 132
Period size: 35 Copynumber: 2.4 Consensus size: 35
3339938 TTTTGTAGGT
* * *
3339948 TCAAATTCGAGTTTGAGTTTGAGCTTGAATCGAGC
1 TCAAATTCGAGCTTGAGTTCGAGCTTGAATCAAGC
3339983 TCAAATTCGAGCTTGAGTTCGAGCTTGAATCAAGC
1 TCAAATTCGAGCTTGAGTTCGAGCTTGAATCAAGC
*
3340018 TCAAAATCGAGCTT
1 TCAAATTCGAGCTT
3340032 CAATCGAGCT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (35 bp):
TCAAATTCGAGCTTGAGTTCGAGCTTGAATCAAGC
Found at i:3340018 original size:23 final size:23
Alignment explanation
Indices: 3339992--3340060 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
3339982 CTCAAATTCG
* *
3339992 AGCTTGAGTTCGAGCTTGAATCA
1 AGCTCGAGTTCGAGCTTCAATCA
* ** *
3340015 AGCTCAAAATCGAGCTTCAATCG
1 AGCTCGAGTTCGAGCTTCAATCA
3340038 AGCTCGAGTCTCGAGCTTCAATC
1 AGCTCGAGT-TCGAGCTTCAATC
3340061 GAGTTCTTGA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 23 0.64
24 13 0.36
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (23 bp):
AGCTCGAGTTCGAGCTTCAATCA
Found at i:3345541 original size:40 final size:40
Alignment explanation
Indices: 3345497--3345577 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
3345487 CAACTTAGGG
3345497 CCTATCTTAGGTAACTTCTAAACTAAGTAATAAACTACTT
1 CCTATCTTAGGTAACTTCTAAACTAAGTAATAAACTACTT
*
3345537 CCTATCTTAGGTAACTTCTAAACTATGTAATAAACTACTT
1 CCTATCTTAGGTAACTTCTAAACTAAGTAATAAACTACTT
3345577 C
1 C
3345578 TAGTAATAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (40 bp):
CCTATCTTAGGTAACTTCTAAACTAAGTAATAAACTACTT
Found at i:3349572 original size:16 final size:16
Alignment explanation
Indices: 3349538--3349585 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 16
3349528 ATTGACATAA
3349538 TTATATAATTA-AT-TT
1 TTAT-TAATTATATATT
3349553 TTATTAATTATATATT
1 TTATTAATTATATATT
3349569 TTATTAATT-TA-ATT
1 TTATTAATTATATATT
3349583 TTA
1 TTA
3349586 ATTCAATGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 12 0.39
15 8 0.26
16 11 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATTAATTATATATT
Found at i:3349581 original size:31 final size:33
Alignment explanation
Indices: 3349538--3349603 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 33
3349528 ATTGACATAA
* *
3349538 TTATATAATTAATTTTTATT-AAT-TATATATT
1 TTATATAATTAATTTTAATTCAATGAATATATT
3349569 TTAT-TAATTTAATTTTAATTCAATGAATATATT
1 TTATATAA-TTAATTTTAATTCAATGAATATATT
3349602 TT
1 TT
3349604 CTCTGATCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 3 0.10
31 15 0.50
32 3 0.10
33 9 0.30
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (33 bp):
TTATATAATTAATTTTAATTCAATGAATATATT
Found at i:3349722 original size:2 final size:2
Alignment explanation
Indices: 3349715--3349776 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
3349705 ATCGGATCGA
3349715 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3349757 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
3349777 TAAACTTTAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3355156 original size:25 final size:24
Alignment explanation
Indices: 3355102--3355156 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
3355092 GACATAGGTT
3355102 AATTTTTAGAAAGAGTGATGTAAG
1 AATTTTTAGAAAGAGTGATGTAAG
3355126 AATTTTTAGAAAGAGTGATGTAAG
1 AATTTTTAGAAAGAGTGATGTAAG
3355150 AATTTTT
1 AATTTTT
3355157 TCGGATTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.40, C:0.00, G:0.22, T:0.38
Consensus pattern (24 bp):
AATTTTTAGAAAGAGTGATGTAAG
Found at i:3369258 original size:14 final size:14
Alignment explanation
Indices: 3369239--3369270 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3369229 AGCTATAGTA
3369239 TATTATCATAAATT
1 TATTATCATAAATT
*
3369253 TATTATCATAACTT
1 TATTATCATAAATT
3369267 TATT
1 TATT
3369271 TCAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTATCATAAATT
Found at i:3369419 original size:28 final size:28
Alignment explanation
Indices: 3369388--3369445 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
3369378 CACATTTATC
* * *
3369388 TTTTAAATTTTATAAAAAATTTTATAAA
1 TTTTAAATTTAATAAAAAAATATATAAA
*
3369416 TTTTATATTTAATAAAAAAATATATAAA
1 TTTTAAATTTAATAAAAAAATATATAAA
3369444 TT
1 TT
3369446 AAAAGTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
TTTTAAATTTAATAAAAAAATATATAAA
Found at i:3370712 original size:3 final size:3
Alignment explanation
Indices: 3370704--3370739 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
3370694 ATATTATAAA
3370704 TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA
3370740 ATTAATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:3370728 original size:19 final size:19
Alignment explanation
Indices: 3370695--3370743 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
3370685 GGCTTAAAAA
*
3370695 TATTA-TAAATATTATTAT
1 TATTATTAATTATTATTAT
*
3370713 TATTATTTATTATTATTAT
1 TATTATTAATTATTATTAT
3370732 TATTATTAATTA
1 TATTATTAATTA
3370744 ATTAATTAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTATTAATTATTATTAT
Found at i:3371892 original size:16 final size:16
Alignment explanation
Indices: 3371871--3371901 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3371861 GATTATGGCT
*
3371871 ATTTTGATCTTTGTTC
1 ATTTTGATCATTGTTC
3371887 ATTTTGATCATTGTT
1 ATTTTGATCATTGTT
3371902 TGAGTATCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.13, T:0.61
Consensus pattern (16 bp):
ATTTTGATCATTGTTC
Found at i:3376151 original size:21 final size:21
Alignment explanation
Indices: 3376096--3376159 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
3376086 GATTCCCCTG
3376096 TGGGGGGAATCGGTTCCTCTTCAA
1 TGGGGGG-ATCGGTTCC-C-TCAA
* * *
3376120 AGGGGGAATCGGTTCCCTCAT
1 TGGGGGGATCGGTTCCCTCAA
*
3376141 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
3376160 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.56
22 1 0.03
23 9 0.26
24 5 0.15
ACGTcount: A:0.16, C:0.23, G:0.34, T:0.27
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:3382640 original size:3 final size:3
Alignment explanation
Indices: 3382627--3382706 Score: 142
Period size: 3 Copynumber: 26.3 Consensus size: 3
3382617 TATATTTGAC
*
3382627 AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3382675 AAT AAT AAT AAT AAT AAT AAT AAT AAT GAAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT A
3382707 TGTACTTTAG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
3 71 0.96
4 3 0.04
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:3385576 original size:24 final size:25
Alignment explanation
Indices: 3385523--3385574 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
3385513 ATTGTAAATT
*
3385523 TAAAATAT-AAAAATATTCAAATAA
1 TAAAATATAAAAAATACTCAAATAA
*
3385547 TGAAATATAAAAAATACT-AAA-AA
1 TAAAATATAAAAAATACTCAAATAA
3385570 TAAAA
1 TAAAA
3385575 ATTAAATAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 6 0.25
24 10 0.42
25 8 0.33
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (25 bp):
TAAAATATAAAAAATACTCAAATAA
Found at i:3385608 original size:29 final size:28
Alignment explanation
Indices: 3385576--3385632 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
3385566 AAAATAAAAA
3385576 TTAAATAACTAAAA-AATTAAATATATATT
1 TTAAA-AA-TAAAATAATTAAATATATATT
*
3385605 TTAAAAATAAAATTAATTATATATATAT
1 TTAAAAATAAAA-TAATTAAATATATAT
3385633 ATATATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 5 0.20
28 2 0.08
29 18 0.72
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (28 bp):
TTAAAAATAAAATAATTAAATATATATT
Found at i:3385629 original size:2 final size:2
Alignment explanation
Indices: 3385622--3385652 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3385612 TAAAATTAAT
3385622 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3385653 TAGAAGCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3387771 original size:14 final size:14
Alignment explanation
Indices: 3387752--3387785 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
3387742 GCCTAGTAAC
3387752 GCCTTCATTTTAAT
1 GCCTTCATTTTAAT
3387766 GCCTTCATTTTAAT
1 GCCTTCATTTTAAT
3387780 G-CTTCA
1 GCCTTCA
3387786 AGTGCCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.21, C:0.24, G:0.09, T:0.47
Consensus pattern (14 bp):
GCCTTCATTTTAAT
Found at i:3389047 original size:15 final size:14
Alignment explanation
Indices: 3389022--3389053 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
3389012 AAAATATATA
3389022 TATTTACTTTTATT
1 TATTTACTTTTATT
3389036 TATTTAACTTTTATT
1 TATTT-ACTTTTATT
3389051 TAT
1 TAT
3389054 GGTATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (14 bp):
TATTTACTTTTATT
Found at i:3392953 original size:23 final size:24
Alignment explanation
Indices: 3392902--3392959 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
3392892 TATCTTGCTG
*
3392902 GTCATCATGAACATCACCATGTAC
1 GTCATCATGAACATCACCATGCAC
* *
3392926 ATCATCATGAA-ATCACCATGCGC
1 GTCATCATGAACATCACCATGCAC
*
3392949 GTCATCCTGAA
1 GTCATCATGAA
3392960 TAGGATCTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (24 bp):
GTCATCATGAACATCACCATGCAC
Found at i:3395384 original size:24 final size:24
Alignment explanation
Indices: 3395354--3395419 Score: 123
Period size: 24 Copynumber: 2.8 Consensus size: 24
3395344 CAATGTAACC
3395354 ACAATAGAACAAATTATGGGAATA
1 ACAATAGAACAAATTATGGGAATA
3395378 ACAATAGAACAAATTATGGGAATA
1 ACAATAGAACAAATTATGGGAATA
*
3395402 ACAATAGAACAAAATATG
1 ACAATAGAACAAATTATG
3395420 TTCTCTAGAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.56, C:0.09, G:0.15, T:0.20
Consensus pattern (24 bp):
ACAATAGAACAAATTATGGGAATA
Found at i:3399373 original size:21 final size:21
Alignment explanation
Indices: 3399329--3399373 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3399319 GATTTCTGGG
* * *
3399329 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
3399350 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
3399371 CAA
1 CAA
3399374 ACGAACATGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:3400659 original size:31 final size:31
Alignment explanation
Indices: 3400567--3400694 Score: 143
Period size: 31 Copynumber: 4.1 Consensus size: 31
3400557 AGAGTCGAGG
3400567 GTTTACCTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* *
3400598 GTTTTACCTATG-TCTTTC-GAGACATGTGGACA
1 G-TTTACCTATGTTC-TACGGA-ACATATGGACA
* *
3400630 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* * * *
3400661 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
3400692 GTT
1 GTT
3400695 ACCGAGGATC
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
31 53 0.66
32 27 0.34
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGGAACATATGGACA
Found at i:3400714 original size:30 final size:30
Alignment explanation
Indices: 3400680--3401018 Score: 626
Period size: 30 Copynumber: 11.3 Consensus size: 30
3400670 GGTTCTTCGG
*
3400680 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
*
3400710 GACCTCTGGACAGTTATCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
3400740 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
3400770 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
3400800 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
3400830 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
3400860 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
3400890 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
3400920 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
3400950 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* * *
3400980 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
3401009 GACCTCTGGA
1 GACCTCTGGA
3401019 TAGGTCCTTC
Statistics
Matches: 303, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
29 18 0.06
30 285 0.94
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:3401301 original size:2 final size:2
Alignment explanation
Indices: 3401291--3401322 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
3401281 GTATGTGTGG
*
3401291 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3401323 GAAAGGTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3409735 original size:7 final size:7
Alignment explanation
Indices: 3409723--3409756 Score: 50
Period size: 8 Copynumber: 4.6 Consensus size: 7
3409713 GGTTTTAATC
3409723 TAATTTT
1 TAATTTT
3409730 TAATTTTT
1 TAA-TTTT
3409738 TAATTTTT
1 TAA-TTTT
3409746 TAATTTT
1 TAATTTT
3409753 TAAT
1 TAAT
3409757 GATTAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TAATTTT
Found at i:3409739 original size:8 final size:8
Alignment explanation
Indices: 3409726--3409753 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
3409716 TTTAATCTAA
3409726 TTTTTAAT
1 TTTTTAAT
3409734 TTTTTAAT
1 TTTTTAAT
3409742 TTTTTAAT
1 TTTTTAAT
3409750 TTTT
1 TTTT
3409754 AATGATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTAAT
Found at i:3410452 original size:38 final size:39
Alignment explanation
Indices: 3410387--3410464 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 39
3410377 TGTTTTTATT
* * *
3410387 TTTTTCTATATTCTTTTATTTCTAATAATTTTATTTTTA
1 TTTTTCTATATTCTTCTATTTCAAATAATTTTACTTTTA
* *
3410426 TTTTT-TATGTTCTTCTGTTTCAAATAATTTTACTTTTA
1 TTTTTCTATATTCTTCTATTTCAAATAATTTTACTTTTA
3410464 T
1 T
3410465 CTTTATAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
38 29 0.85
39 5 0.15
ACGTcount: A:0.22, C:0.09, G:0.03, T:0.67
Consensus pattern (39 bp):
TTTTTCTATATTCTTCTATTTCAAATAATTTTACTTTTA
Found at i:3410836 original size:17 final size:16
Alignment explanation
Indices: 3410815--3410862 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
3410805 TTATATATAT
*
3410815 AATCTTTGGATGATTTC
1 AATCTTT-GAAGATTTC
*
3410832 GATCTTTGAAGATTTC
1 AATCTTTGAAGATTTC
3410848 AATCTTT-AA-ATTTC
1 AATCTTTGAAGATTTC
3410862 A
1 A
3410863 GATGATTTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 6 0.21
15 2 0.07
16 14 0.50
17 6 0.21
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (16 bp):
AATCTTTGAAGATTTC
Found at i:3410915 original size:39 final size:39
Alignment explanation
Indices: 3410856--3410971 Score: 187
Period size: 39 Copynumber: 3.0 Consensus size: 39
3410846 TCAATCTTTA
* *
3410856 AATTTCAGATGATTTCGATCTTAAAGTGACTAGTTTATG
1 AATTTTAGATGATTTCGATCTTCAAGTGACTAGTTTATG
*
3410895 AATTTTAGATGATTTTGATCTTCAAGTGACTAGTTTATG
1 AATTTTAGATGATTTCGATCTTCAAGTGACTAGTTTATG
* *
3410934 AATTTTAGATGATTTCAATCTTCAGGTGACTAGTTTAT
1 AATTTTAGATGATTTCGATCTTCAAGTGACTAGTTTAT
3410972 TGTATCGACG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.44
Consensus pattern (39 bp):
AATTTTAGATGATTTCGATCTTCAAGTGACTAGTTTATG
Found at i:3412646 original size:3 final size:3
Alignment explanation
Indices: 3412638--3412663 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3412628 AAGATAAGGT
3412638 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
3412664 GTGATAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:3412966 original size:28 final size:28
Alignment explanation
Indices: 3412919--3412974 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
3412909 GCTTAGGAGG
*** *
3412919 CACAATGCAATCAGTGCTTGTAAAAACA
1 CACAATGCAATCAACACTTGCAAAAACA
3412947 CACAATGCAATCAACACTTGCAAAAACA
1 CACAATGCAATCAACACTTGCAAAAACA
3412975 AACTCTCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.46, C:0.25, G:0.11, T:0.18
Consensus pattern (28 bp):
CACAATGCAATCAACACTTGCAAAAACA
Found at i:3417540 original size:20 final size:20
Alignment explanation
Indices: 3417451--3417522 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
3417441 AAAAGTTTTT
**
3417451 TATGAATAGTAT-TGTAATG
1 TATGAATAGTATCAATAATG
* *
3417470 TATGAATAGCAACAATAATG
1 TATGAATAGTATCAATAATG
3417490 TATGAATAGTATCAATAATG
1 TATGAATAGTATCAATAATG
3417510 TATGAATAGTATC
1 TATGAATAGTATC
3417523 GATATTGTGT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
19 10 0.22
20 36 0.78
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.35
Consensus pattern (20 bp):
TATGAATAGTATCAATAATG
Found at i:3420681 original size:20 final size:21
Alignment explanation
Indices: 3420656--3420696 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3420646 TTAATATATT
3420656 AAATATAATC-TAAAATTATA
1 AAATATAATCATAAAATTATA
*
3420676 AAATATATTCATAAAATTATA
1 AAATATAATCATAAAATTATA
3420697 TTTTAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATATAATCATAAAATTATA
Found at i:3426989 original size:8 final size:8
Alignment explanation
Indices: 3426969--3427041 Score: 74
Period size: 8 Copynumber: 9.1 Consensus size: 8
3426959 TAATTCCCCG
3426969 ACTCTCAA
1 ACTCTCAA
* *
3426977 TCTCTTAA
1 ACTCTCAA
*
3426985 ACTCTTAA
1 ACTCTCAA
*
3426993 ATTCTCAA
1 ACTCTCAA
*
3427001 ACTCTAAA
1 ACTCTCAA
*
3427009 ACTATCAA
1 ACTCTCAA
3427017 ACTCTCAA
1 ACTCTCAA
* *
3427025 ACTTTTAA
1 ACTCTCAA
3427033 ACTCTCAA
1 ACTCTCAA
3427041 A
1 A
3427042 TTTTCAAAAT
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
8 51 1.00
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (8 bp):
ACTCTCAA
Found at i:3427002 original size:16 final size:15
Alignment explanation
Indices: 3426983--3427049 Score: 62
Period size: 16 Copynumber: 4.2 Consensus size: 15
3426973 TCAATCTCTT
*
3426983 AAACTCTTAAATTCTC
1 AAACTCTCAAATT-TC
* *
3426999 AAACTCTAAAACTATC
1 AAACTCTCAAA-TTTC
*
3427015 AAACTCTCAAACTTTT
1 AAACTCTCAAA-TTTC
3427031 AAACTCTCAAATTTTC
1 AAACTCTCAAA-TTTC
3427047 AAA
1 AAA
3427050 ATGGCTCTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
16 42 0.98
17 1 0.02
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (15 bp):
AAACTCTCAAATTTC
Found at i:3427005 original size:24 final size:24
Alignment explanation
Indices: 3426971--3427049 Score: 95
Period size: 24 Copynumber: 3.3 Consensus size: 24
3426961 ATTCCCCGAC
* *
3426971 TCTCAATCTCTTAAACTCTTAAAT
1 TCTCAAACTCTTAAACTCTCAAAT
* * *
3426995 TCTCAAACTCTAAAACTATCAAAC
1 TCTCAAACTCTTAAACTCTCAAAT
*
3427019 TCTCAAACTTTTAAACTCTCAAAT
1 TCTCAAACTCTTAAACTCTCAAAT
*
3427043 TTTCAAA
1 TCTCAAA
3427050 ATGGCTCTTA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.35
Consensus pattern (24 bp):
TCTCAAACTCTTAAACTCTCAAAT
Found at i:3443312 original size:19 final size:19
Alignment explanation
Indices: 3443285--3443324 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
3443275 AAATGAATAG
*
3443285 AATGTAATGC-GAAAGGTAA
1 AATGCAATGCGGAAA-GTAA
3443304 AATGCAATGCGGAAAGTAA
1 AATGCAATGCGGAAAGTAA
3443323 AA
1 AA
3443325 CATATATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.50, C:0.07, G:0.25, T:0.17
Consensus pattern (19 bp):
AATGCAATGCGGAAAGTAA
Found at i:3447010 original size:20 final size:17
Alignment explanation
Indices: 3446956--3447001 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
3446946 ATGTCGAAAT
*
3446956 GGTATCGGTACCGAAGG
1 GGTATCGATACCGAAGG
*
3446973 GGTATCGTTACCGAAGG
1 GGTATCGATACCGAAGG
3446990 GGTATCGATACC
1 GGTATCGATACC
3447002 ATAGAAGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.24, C:0.20, G:0.35, T:0.22
Consensus pattern (17 bp):
GGTATCGATACCGAAGG
Found at i:3447018 original size:22 final size:21
Alignment explanation
Indices: 3446991--3447042 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
3446981 TACCGAAGGG
3446991 GTATCGATACCATAGAAG-GGAA
1 GTATCGATACC-T-GAAGTGGAA
* *
3447013 GTATCGGTA-CTGAAGTGGGA
1 GTATCGATACCTGAAGTGGAA
3447033 GTATCGATAC
1 GTATCGATAC
3447043 TATTAAGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 1 0.04
22 8 0.32
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (21 bp):
GTATCGATACCTGAAGTGGAA
Found at i:3447648 original size:21 final size:22
Alignment explanation
Indices: 3447569--3447642 Score: 96
Period size: 22 Copynumber: 3.3 Consensus size: 22
3447559 TGGAGGGTTC
* *
3447569 TATGTGGTCCTCCGGGACAAAACC
1 TATGTGGTCCTTCGGGAC-AAA-T
*
3447593 TATGTGGTCCTTCTGGACAAAT
1 TATGTGGTCCTTCGGGACAAAT
3447615 TATGTGGTCCTTCGGGAC-AAT
1 TATGTGGTCCTTCGGGACAAAT
3447636 TATGTGG
1 TATGTGG
3447643 AACTTCAGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
21 10 0.22
22 17 0.37
23 3 0.07
24 16 0.35
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (22 bp):
TATGTGGTCCTTCGGGACAAAT
Found at i:3448718 original size:20 final size:21
Alignment explanation
Indices: 3448681--3448720 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
3448671 CAAGCTGTCG
* *
3448681 AAACAAAATTTGATTTTTAAA
1 AAACAAAATTTAACTTTTAAA
3448702 AAAC-AAATTTAACTTTTAA
1 AAACAAAATTTAACTTTTAA
3448721 TTTTTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (21 bp):
AAACAAAATTTAACTTTTAAA
Found at i:3450294 original size:15 final size:15
Alignment explanation
Indices: 3450263--3450293 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
3450253 TGTTTGTATA
3450263 TATTTTACTATTTTT
1 TATTTTACTATTTTT
3450278 TATTATTACTATTTTT
1 TATT-TTACTATTTTT
3450294 AAAATTTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTTACTATTTTT
Found at i:3451977 original size:19 final size:19
Alignment explanation
Indices: 3451934--3451978 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
3451924 ACAGTATTCG
*
3451934 AAATCCCAAATTTGAAACTC
1 AAAT-CCAAATTTGAAAATC
3451954 AAATCCAAATTTGAAAATC
1 AAATCCAAATTTGAAAATC
*
3451973 GAATCC
1 AAATCC
3451979 GTGGTTTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.47, C:0.22, G:0.07, T:0.24
Consensus pattern (19 bp):
AAATCCAAATTTGAAAATC
Found at i:3458765 original size:22 final size:22
Alignment explanation
Indices: 3458737--3458804 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
3458727 AATATGTTCC
3458737 TATCAGTTTCGAGGCACTTTAG
1 TATCAGTTTCGAGGCACTTTAG
** * *
3458759 TATCAGTGCCAATGCACTTCT-G
1 TATCAGTTTCGAGGCACTT-TAG
3458781 TATCAG-TTCTGAGGCACTTTAG
1 TATCAGTTTC-GAGGCACTTTAG
3458803 TA
1 TA
3458805 CCCGTGCTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
21 2 0.06
22 32 0.91
23 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (22 bp):
TATCAGTTTCGAGGCACTTTAG
Found at i:3458817 original size:22 final size:22
Alignment explanation
Indices: 3458748--3458825 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
3458738 ATCAGTTTCG
*
3458748 AGGCACTTTAGTATCAGTGCCA
1 AGGCACTTTAGTATCAGTGCTA
* * *
3458770 ATGCACTTCT-GTATCAGTTCTG
1 AGGCACTT-TAGTATCAGTGCTA
* *
3458792 AGGCACTTTAGTACCCGTGCTA
1 AGGCACTTTAGTATCAGTGCTA
3458814 AGGCACTTTAGT
1 AGGCACTTTAGT
3458826 TATAAGACTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
21 1 0.02
22 43 0.96
23 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (22 bp):
AGGCACTTTAGTATCAGTGCTA
Found at i:3458820 original size:44 final size:44
Alignment explanation
Indices: 3458737--3458821 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
3458727 AATATGTTCC
* *
3458737 TATCAGTTTCGAGGCACTTTAGTATCAGTGCCAATGCACTTCTG
1 TATCAGTTTCGAGGCACTTTAGTACCAGTGCCAAGGCACTTCTG
* *
3458781 TATCAG-TTCTGAGGCACTTTAGTACCCGTGCTAAGGCACTT
1 TATCAGTTTC-GAGGCACTTTAGTACCAGTGCCAAGGCACTT
3458822 TAGTTATAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 3 0.08
44 33 0.92
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (44 bp):
TATCAGTTTCGAGGCACTTTAGTACCAGTGCCAAGGCACTTCTG
Found at i:3462637 original size:20 final size:20
Alignment explanation
Indices: 3462585--3462639 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
3462575 TAATATTCTT
*
3462585 ACAATATTGATACTACATGA
1 ACAATATTGATATTACATGA
3462605 ACAATATTGATATTACATGA
1 ACAATATTGATATTACATGA
3462625 ACAATATTGATATTA
1 ACAATATTGATATTA
3462640 TTCTTGTAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (20 bp):
ACAATATTGATATTACATGA
Found at i:3465751 original size:2 final size:2
Alignment explanation
Indices: 3465744--3465820 Score: 147
Period size: 2 Copynumber: 39.0 Consensus size: 2
3465734 ACGATATAAG
3465744 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3465786 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3465821 TATTCTTTTC
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 73 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3466908 original size:21 final size:20
Alignment explanation
Indices: 3466884--3466947 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
3466874 AACTTTGAAA
3466884 AAATGATTTTCAAAGTTTGGT
1 AAATG-TTTTCAAAGTTTGGT
*
3466905 AAATG-TTTC----TTT-GA
1 AAATGTTTTCAAAGTTTGGT
3466919 AAATGGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
3466940 AAATGTTT
1 AAATGTTT
3466948 CTTTGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 4 0.12
16 4 0.12
19 4 0.12
20 7 0.21
21 10 0.29
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (20 bp):
AAATGTTTTCAAAGTTTGGT
Found at i:3466995 original size:36 final size:36
Alignment explanation
Indices: 3466876--3466994 Score: 170
Period size: 35 Copynumber: 3.3 Consensus size: 36
3466866 TGGTAACCAA
3466876 CTTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGATTTTCAAAGTTTGGTAAATGTTT
*
3466913 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
* *
3466948 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GATTTTCAAAGTTTGGTAAATGTTT
*
3466985 -GTTGAAAAAT
1 CTTTGAAAAAT
3466995 AATAATGGGA
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
35 34 0.45
36 14 0.18
37 28 0.37
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
Found at i:3467437 original size:16 final size:16
Alignment explanation
Indices: 3467404--3467437 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3467394 TTACTATTCA
*
3467404 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
*
3467420 CGTGAATAGTTAAATT
1 CGTGAATAGTGAAATT
3467436 CG
1 CG
3467438 GTCGGCGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:3471370 original size:27 final size:27
Alignment explanation
Indices: 3471340--3471396 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
3471330 AAAGACGGTG
3471340 ACTACAGACAAACTGAAGTTGTGTTCA
1 ACTACAGACAAACTGAAGTTGTGTTCA
3471367 ACTACAGACAAACTGAAGTTGTGTTCA
1 ACTACAGACAAACTGAAGTTGTGTTCA
3471394 ACT
1 ACT
3471397 TCAGTTGGCA
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:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
ACTACAGACAAACTGAAGTTGTGTTCA
Found at i:3471560 original size:21 final size:20
Alignment explanation
Indices: 3471536--3471634 Score: 69
Period size: 21 Copynumber: 5.4 Consensus size: 20
3471526 AGCTTTGAAA
3471536 AAATGATTTTCAAAGTTTGGT
1 AAATG-TTTTCAAAGTTTGGT
*
3471557 AAATG-TTTC----TTT-GA
1 AAATGTTTTCAAAGTTTGGT
3471571 AAATGGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
*
3471592 AAATG-TTTC----TTT-GA
1 AAATGTTTTCAAAGTTTGGT
3471606 AAATGGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
3471627 AAATGTTT
1 AAATGTTT
3471635 CTTTGAAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 29
0.65 0.04 0.31
Matches are distributed among these distances:
14 10 0.17
15 8 0.13
16 8 0.13
19 8 0.13
20 11 0.18
21 15 0.25
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.45
Consensus pattern (20 bp):
AAATGTTTTCAAAGTTTGGT
Found at i:3471677 original size:36 final size:36
Alignment explanation
Indices: 3471501--3471682 Score: 236
Period size: 35 Copynumber: 5.2 Consensus size: 36
3471491 TGAAAGTATT
3471501 AAAATGGTTTTC-AAGTTTGGTAACCA-G---CTTTGAA
1 AAAATGGTTTTCAAAGTTTGGTAA--ATGTTTCTTTG-A
*
3471535 AAAATGATTTTCAAAGTTTGGTAAATGTTTCTTTG-
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTGA
3471570 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG-
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTGA
3471605 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTGA
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTGA
* * *
3471641 AAAATAGTTTTTCAAAGTTTGGTAGATGTTT-GTTGA
1 AAAAT-GGTTTTCAAAGTTTGGTAAATGTTTCTTTGA
3471677 AAAATG
1 AAAATG
3471683 ATAATGGGAT
Statistics
Matches: 136, Mismatches: 5, Indels: 13
0.88 0.03 0.08
Matches are distributed among these distances:
33 1 0.01
34 12 0.09
35 81 0.60
36 14 0.10
37 28 0.21
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (36 bp):
AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTGA
Found at i:3472932 original size:20 final size:21
Alignment explanation
Indices: 3472894--3472934 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3472884 CACATTATAT
*
3472894 ATTTATTTTTATTATAAAAAC
1 ATTTATTTTTAGTATAAAAAC
*
3472915 ATTTATTTTTAGTAAAAAAA
1 ATTTATTTTTAGTATAAAAA
3472935 TACTTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTTATTTTTAGTATAAAAAC
Found at i:3475696 original size:54 final size:55
Alignment explanation
Indices: 3475587--3475697 Score: 170
Period size: 54 Copynumber: 2.0 Consensus size: 55
3475577 ATATTAGTGG
* * * *
3475587 CGAGAAACTATTGAAATGTCTATAAATAAATAACTATATACTTACTGAGATCAGA
1 CGAGAAACTATTAAAATGTCTATAAATAAATAACCATATACTTAATAAGATCAGA
*
3475642 CGAGAAACTATTAAAATGTCTATAAA-AAATAACCCTATACTTAATAAGATCAGA
1 CGAGAAACTATTAAAATGTCTATAAATAAATAACCATATACTTAATAAGATCAGA
3475696 CG
1 CG
3475698 TTAATACTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
54 26 0.51
55 25 0.49
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (55 bp):
CGAGAAACTATTAAAATGTCTATAAATAAATAACCATATACTTAATAAGATCAGA
Found at i:3479990 original size:28 final size:30
Alignment explanation
Indices: 3479945--3480002 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
3479935 CATATTAACA
*
3479945 AAAAAATATGTTCAATT-AATCGAACCAAT
1 AAAAAATATGTTCAATTAAATCAAACCAAT
*
3479974 AAAAAATATGTT-GATTAAATCAAACCAAT
1 AAAAAATATGTTCAATTAAATCAAACCAAT
3480003 GAAATACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 23 0.88
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (30 bp):
AAAAAATATGTTCAATTAAATCAAACCAAT
Found at i:3489212 original size:32 final size:32
Alignment explanation
Indices: 3489171--3489337 Score: 253
Period size: 32 Copynumber: 5.2 Consensus size: 32
3489161 AAGCAATAGA
*
3489171 GGGCATCTTTGAAGATTCAACATCAAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAATGTTG
3489203 GGGCATCTTTGGAGATTCAACATCAAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAATGTTG
* *
3489235 AGGCATCTTTGGAGATTCAACATTAAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAATGTTG
*
3489267 GGGCATCTTTGGAGATTCAACATCAAAATGTTA
1 GGGCATCTTTGGAGATTCAACATC-AAATGTTG
* * *
3489300 GGGCATCTTTGGAGATTCAATATCGAATATTG
1 GGGCATCTTTGGAGATTCAACATCAAATGTTG
*
3489332 TGGCAT
1 GGGCAT
3489338 TCAATATCCT
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
32 93 0.76
33 30 0.24
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (32 bp):
GGGCATCTTTGGAGATTCAACATCAAATGTTG
Found at i:3489492 original size:34 final size:34
Alignment explanation
Indices: 3489445--3489735 Score: 415
Period size: 34 Copynumber: 8.6 Consensus size: 34
3489435 ATTTTTTTGT
* * * *
3489445 GTCTCACTCGAGACAATTTCTCAAAATAAATTTT
1 GTCTCGCTTGAGACAATTTCTCAAAACAAATTTC
* *
3489479 GTCTTAG-TTGAGACAATTTCTCAAAACAAATTTG
1 GTC-TCGCTTGAGACAATTTCTCAAAACAAATTTC
*
3489513 GTCTCGCTTGAGACCATTTCTCAAAACAAATTTC
1 GTCTCGCTTGAGACAATTTCTCAAAACAAATTTC
* * *
3489547 GTCTCGCTTGAGACCATTTCTCAAAATAAATTTT
1 GTCTCGCTTGAGACAATTTCTCAAAACAAATTTC
* *
3489581 GTCTTAG-TTGAGACAATTTCTCAAAACAAATTTG
1 GTC-TCGCTTGAGACAATTTCTCAAAACAAATTTC
*
3489615 GTCTCGCTTGAGACTATTTCTCAAAACAAATTTC
1 GTCTCGCTTGAGACAATTTCTCAAAACAAATTTC
*
3489649 GTCTCGCTTGAGACCATTTCTCAAAACAAATTTC
1 GTCTCGCTTGAGACAATTTCTCAAAACAAATTTC
*
3489683 GTCTCGTTTGAGACAATTTCTCAAAACAAATTTC
1 GTCTCGCTTGAGACAATTTCTCAAAACAAATTTC
3489717 GTCTCGCTTGAGACAATTT
1 GTCTCGCTTGAGACAATTT
3489736 TTCTCTGAGA
Statistics
Matches: 232, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
33 4 0.02
34 225 0.97
35 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (34 bp):
GTCTCGCTTGAGACAATTTCTCAAAACAAATTTC
Found at i:3489621 original size:102 final size:102
Alignment explanation
Indices: 3489445--3489735 Score: 485
Period size: 102 Copynumber: 2.9 Consensus size: 102
3489435 ATTTTTTTGT
* * *
3489445 GTCTCACTCGAGACAATTTCTCAAAATAAATTTTGTCTTAGTTGAGACAATTTCTCAAAACAAAT
1 GTCTCGCTTGAGACCATTTCTCAAAATAAATTTTGTCTTAGTTGAGACAATTTCTCAAAACAAAT
*
3489510 TTGGTCTCGCTTGAGACCATTTCTCAAAACAAATTTC
66 TTGGTCTCGCTTGAGACAATTTCTCAAAACAAATTTC
3489547 GTCTCGCTTGAGACCATTTCTCAAAATAAATTTTGTCTTAGTTGAGACAATTTCTCAAAACAAAT
1 GTCTCGCTTGAGACCATTTCTCAAAATAAATTTTGTCTTAGTTGAGACAATTTCTCAAAACAAAT
*
3489612 TTGGTCTCGCTTGAGACTATTTCTCAAAACAAATTTC
66 TTGGTCTCGCTTGAGACAATTTCTCAAAACAAATTTC
* * *
3489649 GTCTCGCTTGAGACCATTTCTCAAAACAAATTTCGTC-TCGTTTGAGACAATTTCTCAAAACAAA
1 GTCTCGCTTGAGACCATTTCTCAAAATAAATTTTGTCTTAG-TTGAGACAATTTCTCAAAACAAA
*
3489713 TTTCGTCTCGCTTGAGACAATTT
65 TTTGGTCTCGCTTGAGACAATTT
3489736 TTCTCTGAGA
Statistics
Matches: 179, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
101 2 0.01
102 177 0.99
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (102 bp):
GTCTCGCTTGAGACCATTTCTCAAAATAAATTTTGTCTTAGTTGAGACAATTTCTCAAAACAAAT
TTGGTCTCGCTTGAGACAATTTCTCAAAACAAATTTC
Found at i:3490072 original size:76 final size:75
Alignment explanation
Indices: 3489895--3490077 Score: 172
Period size: 76 Copynumber: 2.4 Consensus size: 75
3489885 TATGTTTCAT
* * * * *
3489895 TTGAAACAAAGTCGTCTCACTTGAGAC-TGTTTTACTTGAAAGAAGACATTTCATTTGACACAAG
1 TTGAAACAAATTTGTCTCACTTGAGACATGTTTTACTTAAAACAAGACATTTCATTTCACACAAG
* **
3489959 ATTGTTTTTC
66 ATAGTTTCCC
** ** * * * * *
3489969 TCAAAACAAGATTTGTCTTGCTGGAGACATGTTTTATTTAAAACAATACATTTTATTTCACTCAA
1 TTGAAACAA-ATTTGTCTCACTTGAGACATGTTTTACTTAAAACAAGACATTTCATTTCACACAA
3490034 GATAGTTTCCC
65 GATAGTTTCCC
*
3490045 TTGAAACAAATTTTGTCTCCCTTGAGACA-GTTT
1 TTGAAACAAA-TTTGTCTCACTTGAGACATGTTT
3490078 CTCTCGAAAC
Statistics
Matches: 84, Mismatches: 22, Indels: 5
0.76 0.20 0.05
Matches are distributed among these distances:
74 7 0.08
75 18 0.21
76 59 0.70
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (75 bp):
TTGAAACAAATTTGTCTCACTTGAGACATGTTTTACTTAAAACAAGACATTTCATTTCACACAAG
ATAGTTTCCC
Found at i:3490077 original size:36 final size:36
Alignment explanation
Indices: 3490037--3490156 Score: 168
Period size: 36 Copynumber: 3.3 Consensus size: 36
3490027 CACTCAAGAT
3490037 AGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAC
1 AGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAC
* * *
3490073 AGTTTCTCTCGAAACAAATTTTGTCTCTCTTGAGAC
1 AGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAC
* * *
3490109 GGTTTCCCTTGAAACAAATTTTATCTCCCTTTAGAC
1 AGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAC
* *
3490145 AGTCTCGCTTGA
1 AGTTTCCCTTGA
3490157 GATAGTCTTG
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 72 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (36 bp):
AGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAC
Found at i:3490254 original size:43 final size:43
Alignment explanation
Indices: 3490206--3490377 Score: 272
Period size: 43 Copynumber: 4.0 Consensus size: 43
3490196 CCTGATTTTC
*
3490206 AGGGGTTTCTTGAAGAAAAGCTTGAGAAACCATCGTGATATGT
1 AGGGGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATGT
* **
3490249 AGGGGTTTCTTGATGAAAAGCTTCAGGGACCATCGTGATATGT
1 AGGGGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATGT
* *
3490292 AGGGGTTCCTTGATGACAAGCTTGAGAAACCATCGTGATATGT
1 AGGGGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATGT
**
3490335 AGGGGTTTCTTGATGAAAAGCTTGAGGGACCATCGTGATATGT
1 AGGGGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATGT
3490378 TTGAAGACAA
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 116 1.00
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (43 bp):
AGGGGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATGT
Found at i:3490351 original size:86 final size:86
Alignment explanation
Indices: 3490206--3490377 Score: 308
Period size: 86 Copynumber: 2.0 Consensus size: 86
3490196 CCTGATTTTC
*
3490206 AGGGGTTTCTTGAAGAAAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAGCT
1 AGGGGTTCCTTGAAGAAAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAGCT
3490271 TCAGGGACCATCGTGATATGT
66 TCAGGGACCATCGTGATATGT
* *
3490292 AGGGGTTCCTTGATGACAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAGCT
1 AGGGGTTCCTTGAAGAAAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAGCT
*
3490357 TGAGGGACCATCGTGATATGT
66 TCAGGGACCATCGTGATATGT
3490378 TTGAAGACAA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (86 bp):
AGGGGTTCCTTGAAGAAAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAGCT
TCAGGGACCATCGTGATATGT
Found at i:3490603 original size:90 final size:90
Alignment explanation
Indices: 3490469--3490960 Score: 747
Period size: 90 Copynumber: 5.5 Consensus size: 90
3490459 ATTTTCAAGA
3490469 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
3490534 GATCTAAGAAACTGAGCCTTCGGGG
66 GATCTAAGAAACTGAGCCTTCGGGG
*
3490559 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
*
3490624 GATCTAAGAAACTGAACCTTCGGGG
66 GATCTAAGAAACTGAGCCTTCGGGG
* **
3490649 GTTTCTTGATTTTTAAGTTCTTCGGGCCATCTGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
* *
3490714 GATTTAAGAAATTGAGCCTTC-GGG
66 GATCTAAGAAACTGAGCCTTCGGGG
** *
3490738 GTTTCTTGATTTTTTAAGTCCTTCGACCCATCCATAAGACCTTCAGTACAGGATGTTTTCAAATG
1 GTTTCTTGA-TTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATG
* * *
3490803 AGATCTAAGAAATTGAACCTTCAGGG
65 AGATCTAAGAAACTGAGCCTTCGGGG
* ** *
3490829 ATTTCTTGATTTTTAAGTCCTTCGGGCCATCTGTAAGACCTTCAGTGCAGAATGTTTTCAAATGA
1 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
* *
3490894 GATTTAAGAAACTAAGCCTTCGGGG
66 GATCTAAGAAACTGAGCCTTCGGGG
* * *
3490919 GTTTCTT-ATTTTATAAGTCTTTCAGG-CAACCATAAGACCTTC
1 GTTTCTTGATTTT-TAAGTCCTTCGGGCCATCCATAAGACCTTC
3490961 GGGCAAAATG
Statistics
Matches: 366, Mismatches: 33, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
89 30 0.08
90 325 0.89
91 11 0.03
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (90 bp):
GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
GATCTAAGAAACTGAGCCTTCGGGG
Found at i:3493784 original size:6 final size:6
Alignment explanation
Indices: 3493773--3493805 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
3493763 AGAGATCCTT
3493773 ATGTCA ATGTCA ATGTCA ATGTCA ATGTCA ATG
1 ATGTCA ATGTCA ATGTCA ATGTCA ATGTCA ATG
3493806 GTAGAAGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (6 bp):
ATGTCA
Found at i:3495481 original size:17 final size:17
Alignment explanation
Indices: 3495443--3495484 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
3495433 AAAATAAATG
3495443 AAAAATATAATTATAATA
1 AAAAATATAA-TATAATA
3495461 AAAAATATAA-ATGAATTA
1 AAAAATATAATAT-AA-TA
3495479 AAAAAT
1 AAAAAT
3495485 TATTATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 2 0.09
17 2 0.09
18 18 0.82
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAAATATAATATAATA
Found at i:3496112 original size:20 final size:18
Alignment explanation
Indices: 3496083--3496126 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
3496073 ATTTGAATAA
*
3496083 TATATTTTTAAAAAATATTT
1 TATATATTT-AAAAA-ATTT
*
3496103 TATATATTTAAATAATTT
1 TATATATTTAAAAAATTT
3496121 TATATA
1 TATATA
3496127 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 4 0.18
20 8 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATATTTAAAAAATTT
Found at i:3501357 original size:54 final size:55
Alignment explanation
Indices: 3501293--3501397 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 55
3501283 GATGCATGAA
* *
3501293 ACTCGCACAATCTTCAACAAACGTCTCTGCTCTCTA-TGCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAAACGTCTCTGCTCCCTATTGCTTCAGAGAGTATAAG
* * * *
3501347 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGGGAGTA
1 ACTCGAACAATCTTCAACAAACGTCTCTGCTCCCTATTGCTTCAGAGAGTA
3501398 GAACTGAAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
54 32 0.73
55 12 0.27
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (55 bp):
ACTCGAACAATCTTCAACAAACGTCTCTGCTCCCTATTGCTTCAGAGAGTATAAG
Found at i:3501432 original size:107 final size:104
Alignment explanation
Indices: 3501321--3501836 Score: 666
Period size: 107 Copynumber: 4.8 Consensus size: 104
3501311 AAACGTCTCT
* * * * * *
3501321 GCTCTCTATGCTTCAGAGAGTATA-AGACTCGAAC-AATCTTCAACAATCGTGTCTGCTCCCTAT
1 GCTCTCTATTCTTCAGGGAGTA-AGA-ACTCGAACAAATCTTC--CTA-CGGGTCCGCTCTCTAT
3501384 TTCTTCAGGGAGTAGAACT-GAAACAATAATCTTCCTACGGGTCC
61 TTCTTCAGGGAGTAGAACTCG-AACAATAATCTTCCTACGGGTCC
*
3501428 GCTCTCTTTTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTT
1 GCTCTC-TATTCTTCAGGGAGTAAGAACTCGAAC-A-AATCTTCCTACGGGTCCGCTCTCTATTT
*
3501493 CTTCAGGGAGTAGAACTCGAAGAATAATCTTCCTACGGGTCC
63 CTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCC
*
3501535 GCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGAGTCCGCTCTCTATTT
1 GCTCTCTA-TTCTTCAGGGAGTAAGAACTCGAAC-A-AATCTTCCTACGGGTCCGCTCTCTATTT
*
3501600 CTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGACC
63 CTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCC
* *
3501642 GCTCTCTTTTTCTTCAGGGACTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTT
1 GCTCTC-TATTCTTCAGGGAGTAAGAACTCGAAC-A-AATCTTCCTACGGGTCCGCTCTCTATTT
* *
3501707 CTTCAGGGAGTAGAACTCAAACAATATTCTTCCTACGGG-CTC
63 CTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTC-C
* * *
3501749 TCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCAC-C-ATATTT
1 GCTCTCTA-TTCTTCAGGGAGTAAGAACTCGAAC-A-AATCTTCCTACGGGTCCGCTCTCTATTT
3501812 CTTCAGGGAGTAGAACTCGAACAAT
63 CTTCAGGGAGTAGAACTCGAACAAT
3501837 CTTCTGTTGC
Statistics
Matches: 376, Mismatches: 23, Indels: 22
0.89 0.05 0.05
Matches are distributed among these distances:
105 29 0.08
106 4 0.01
107 318 0.85
108 18 0.05
110 7 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (104 bp):
GCTCTCTATTCTTCAGGGAGTAAGAACTCGAACAAATCTTCCTACGGGTCCGCTCTCTATTTCTT
CAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCC
Found at i:3501467 original size:54 final size:53
Alignment explanation
Indices: 3501375--3501836 Score: 734
Period size: 54 Copynumber: 8.7 Consensus size: 53
3501365 AATCGTGTCT
*
3501375 GCTCCCTATTTCTTCAGGGAGTAGAACT-GAAACAATAATCTTCCTACGGGTCC
1 GCTCTCTATTTCTTCAGGGAGTAGAACTCG-AACAATAATCTTCCTACGGGTCC
*
3501428 GCTCTCTTTTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCC
1 GCTCTCTATTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCC
*
3501482 GCTCTCTATTTCTTCAGGGAGTAGAACTCGAAGAATAATCTTCCTACGGGTCC
1 GCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCC
*
3501535 GCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGAGTCC
1 GCTCTCTATTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCC
*
3501589 GCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGACC
1 GCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCC
* *
3501642 GCTCTCTTTTTCTTCAGGGACTAAGAACTCGAACAATAATCTTCCTACGGGTCC
1 GCTCTCTATTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCC
* *
3501696 GCTCTCTATTTCTTCAGGGAGTAGAACTCAAACAATATTCTTCCTACGGG-CTC
1 GCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTC-C
*
3501749 TCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCC
1 GCTCTCTATTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCC
* *
3501803 AC-C-ATATTTCTTCAGGGAGTAGAACTCGAACAAT
1 GCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAAT
3501837 CTTCTGTTGC
Statistics
Matches: 382, Mismatches: 20, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
51 14 0.04
52 17 0.04
53 170 0.45
54 179 0.47
55 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (53 bp):
GCTCTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCC
Found at i:3501690 original size:214 final size:213
Alignment explanation
Indices: 3501379--3501836 Score: 787
Period size: 214 Copynumber: 2.2 Consensus size: 213
3501369 GTGTCTGCTC
*
3501379 CCTATTTCTTCAGGGAGTAGAACT-GAAACAATAATCTTCCTACGGGTCCGCTCTCTTTTTCTTC
1 CCTATTTCTTCAGGGAGTAGAACTCG-AACAATAATCTTCCTACGGGACCGCTCTCTTTTTCTTC
*
3501443 AGGGAGTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAA
65 AGGGACTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAA
* *
3501508 CTCGAAGAATAATCTTCCTACGGG-TCCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAAT
130 CTCAAACAATAATCTTCCTACGGGCT-CGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAAT
3501572 AATCTTCCTACGAGTCCGCT
194 AATCTTCCTACGAGTCCGCT
3501592 CTCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGACCGCTCTCTTTTTCTTC
1 C-CTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGACCGCTCTCTTTTTCTTC
3501657 AGGGACTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAA
65 AGGGACTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAA
* *
3501722 CTCAAACAATATTCTTCCTACGGGCTCTCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATA
130 CTCAAACAATAATCTTCCTACGGGCTCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATA
* *
3501787 ATCTTCCTACGGGTCCAC-
195 ATCTTCCTACGAGTCCGCT
*
3501805 CATATTTCTTCAGGGAGTAGAACTCGAACAAT
1 CCTATTTCTTCAGGGAGTAGAACTCGAACAAT
3501837 CTTCTGTTGC
Statistics
Matches: 233, Mismatches: 9, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
212 30 0.13
213 2 0.01
214 199 0.85
215 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (213 bp):
CCTATTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGACCGCTCTCTTTTTCTTCA
GGGACTAAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTATTTCTTCAGGGAGTAGAAC
TCAAACAATAATCTTCCTACGGGCTCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATAA
TCTTCCTACGAGTCCGCT
Found at i:3503197 original size:9 final size:9
Alignment explanation
Indices: 3503185--3503288 Score: 130
Period size: 8 Copynumber: 11.8 Consensus size: 9
3503175 TTGTTTTGTT
3503185 TTTTTTTCA
1 TTTTTTTCA
3503194 TTTTTTTTCA
1 -TTTTTTTCA
3503204 TTTTTTTCA
1 TTTTTTTCA
3503213 -TTTTTTCA
1 TTTTTTTCA
3503221 TTTTTTTTTTCA
1 ---TTTTTTTCA
3503233 TTTTTTTCA
1 TTTTTTTCA
3503242 -TTTTTTCA
1 TTTTTTTCA
3503250 -TTTTTTCA
1 TTTTTTTCA
3503258 -TTTTTTCA
1 TTTTTTTCA
3503266 TTTTTTTCA
1 TTTTTTTCA
3503275 --TTTTTCA
1 TTTTTTTCA
3503282 TTTTTTT
1 TTTTTTT
3503289 TTCTTTTTTC
Statistics
Matches: 87, Mismatches: 0, Indels: 15
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.08
8 32 0.37
9 31 0.36
10 9 0.10
12 8 0.09
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:3503207 original size:17 final size:18
Alignment explanation
Indices: 3503186--3503300 Score: 134
Period size: 16 Copynumber: 6.5 Consensus size: 18
3503176 TGTTTTGTTT
3503186 TTTTTTCATTTTTTTTCA
1 TTTTTTCATTTTTTTTCA
**
3503204 TTTTTTTCATTTTTTCATTTT
1 -TTTTTTCATTTTTT--TTCA
3503225 TTTTTTCA-TTTTTTTCA
1 TTTTTTCATTTTTTTTCA
3503242 TTTTTTCA--TTTTTTCA
1 TTTTTTCATTTTTTTTCA
3503258 TTTTTTCA-TTTTTTTCA
1 TTTTTTCATTTTTTTTCA
3503275 -TTTTTCATTTTTTTTTC-
1 TTTTTTCA-TTTTTTTTCA
3503292 TTTTTTCAT
1 TTTTTTCAT
3503301 CTTCAAGCAA
Statistics
Matches: 86, Mismatches: 4, Indels: 14
0.83 0.04 0.13
Matches are distributed among these distances:
16 23 0.27
17 19 0.22
18 15 0.17
19 19 0.22
20 8 0.09
21 2 0.02
ACGTcount: A:0.10, C:0.11, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTCATTTTTTTTCA
Found at i:3503305 original size:24 final size:25
Alignment explanation
Indices: 3503187--3503300 Score: 76
Period size: 29 Copynumber: 4.3 Consensus size: 25
3503177 GTTTTGTTTT
3503187 TTTTTCA-TTTTTTTTCATTTTTTTCA
1 TTTTTCATTTTTTTTTC--TTTTTTCA
3503213 TTTTTTCATTTTTTTTTTCATTTTTTTCA
1 -TTTTTCA-TTTTTTTTTC--TTTTTTCA
3503242 TTTTTTCA---TTTTTTCATTTTTTCA
1 -TTTTTCATTTTTTTTTC-TTTTTTCA
* *
3503266 TTTTTTTCATTTTTCATTT-TTTTTTCT
1 --TTTTTCATTTTT-TTTTCTTTTTTCA
3503293 TTTTTCAT
1 TTTTTCAT
3503301 CTTCAAGCAA
Statistics
Matches: 77, Mismatches: 3, Indels: 16
0.80 0.03 0.17
Matches are distributed among these distances:
24 8 0.10
25 23 0.30
27 14 0.18
28 2 0.03
29 30 0.39
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTTCATTTTTTTTTCTTTTTTCA
Found at i:3520694 original size:23 final size:23
Alignment explanation
Indices: 3520651--3520694 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
3520641 ATATAATTTA
*
3520651 AATAATTTTTTTATATTTTTATT
1 AATAATTTTTTTATACTTTTATT
3520674 AATAATTTATTTTAT-CTTTTA
1 AATAATTT-TTTTATACTTTTA
3520695 AATGTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
AATAATTTTTTTATACTTTTATT
Found at i:3521599 original size:26 final size:28
Alignment explanation
Indices: 3521553--3521657 Score: 92
Period size: 31 Copynumber: 3.6 Consensus size: 28
3521543 TTTACTTATT
3521553 AAATATTTTTATTATTAATTT-AATTTAA
1 AAATA-TTTTATTATTAATTTAAATTTAA
*
3521581 AAATATTTTATT-TTTATTTAAATTTAGAA
1 AAATATTTTATTATTAATTTAAATTT--AA
*
3521610 ATATATATTTTATTATT-ATCTAAATTTTCAA
1 A-A-ATATTTTATTATTAATTTAAA-TTT-AA
*
3521641 AAATATATT-TTATTAAT
1 AAATATTTTATTATTAAT
3521658 ATTTCAACTT
Statistics
Matches: 65, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
26 6 0.09
27 12 0.18
28 10 0.15
29 11 0.17
30 2 0.03
31 19 0.29
32 5 0.08
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (28 bp):
AAATATTTTATTATTAATTTAAATTTAA
Found at i:3521680 original size:33 final size:31
Alignment explanation
Indices: 3521583--3521685 Score: 107
Period size: 31 Copynumber: 3.3 Consensus size: 31
3521573 TAATTTAAAA
** * **
3521583 ATATTTTATTTTTATTTAAATTTAGAAATAT
1 ATATTTTATTAATATCTAAATTTTCAAATAT
* *
3521614 ATATTTTATTATTATCTAAATTTTCAAAAAT
1 ATATTTTATTAATATCTAAATTTTCAAATAT
* *
3521645 ATATTTTATTAATATTTCAACTTTTCAAAGTAT
1 ATATTTTATTAATATCT-AAATTTTCAAA-TAT
3521678 ATATTTTA
1 ATATTTTA
3521686 ATTTACTAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
31 41 0.67
32 10 0.16
33 10 0.16
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (31 bp):
ATATTTTATTAATATCTAAATTTTCAAATAT
Found at i:3521846 original size:16 final size:16
Alignment explanation
Indices: 3521825--3521869 Score: 90
Period size: 16 Copynumber: 2.8 Consensus size: 16
3521815 ACGTGACACA
3521825 ACACGTAGTATCAATG
1 ACACGTAGTATCAATG
3521841 ACACGTAGTATCAATG
1 ACACGTAGTATCAATG
3521857 ACACGTAGTATCA
1 ACACGTAGTATCA
3521870 TTCGATTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (16 bp):
ACACGTAGTATCAATG
Found at i:3526115 original size:19 final size:20
Alignment explanation
Indices: 3526093--3526131 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3526083 TTTGGGAAAA
*
3526093 ATCGG-TTTTTTTTAACCGG
1 ATCGGATTTTTTTAAACCGG
3526112 ATCGGATTTTTTTAAACCGG
1 ATCGGATTTTTTTAAACCGG
3526132 TTATTTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (20 bp):
ATCGGATTTTTTTAAACCGG
Found at i:3526215 original size:15 final size:15
Alignment explanation
Indices: 3526183--3526215 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3526173 TTTACCGGAT
*
3526183 AAAAAATCGGTCTGA
1 AAAAAATCGGTCTAA
3526198 AAAAAATCGGT-TAA
1 AAAAAATCGGTCTAA
3526212 AAAA
1 AAAA
3526216 CCGGTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.58, C:0.09, G:0.15, T:0.18
Consensus pattern (15 bp):
AAAAAATCGGTCTAA
Found at i:3528536 original size:21 final size:21
Alignment explanation
Indices: 3528512--3528551 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3528502 TTTATTTTAT
3528512 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
3528533 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
3528552 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:3528599 original size:33 final size:33
Alignment explanation
Indices: 3528546--3528644 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
3528536 TTTGTTTCAA
3528546 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
3528578 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
3528611 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
3528644 T
1 T
3528645 ATGTGAGTTA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:3528670 original size:13 final size:13
Alignment explanation
Indices: 3528630--3528683 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
3528620 TTGGAAGTAT
3528630 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
3528643 TTATGTGAGTT-AA
1 TTAAGT-ATTTCAA
3528656 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
3528669 TTAAGTATTTAAA
1 TTAAGTATTTCAA
3528682 TT
1 TT
3528684 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
12 3 0.09
13 28 0.82
14 3 0.09
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:3529105 original size:14 final size:14
Alignment explanation
Indices: 3529079--3529132 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
3529069 ATTTGGAATA
*
3529079 TTAAAATCGGTTTT
1 TTAAAACCGGTTTT
*
3529093 TTATAACCGGTTTT
1 TTAAAACCGGTTTT
3529107 TTAAAAAAACCGGTTTT
1 TT---AAAACCGGTTTT
3529124 TTAAAACCG
1 TTAAAACCG
3529133 AAACCGGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 21 0.62
17 13 0.38
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (14 bp):
TTAAAACCGGTTTT
Found at i:3529141 original size:20 final size:17
Alignment explanation
Indices: 3529097--3529129 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
3529087 GGTTTTTTAT
3529097 AACCGGTTTTTTAAAAA
1 AACCGGTTTTTTAAAAA
3529114 AACCGGTTTTTTAAAA
1 AACCGGTTTTTTAAAA
3529130 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
AACCGGTTTTTTAAAAA
Found at i:3529248 original size:15 final size:17
Alignment explanation
Indices: 3529222--3529253 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3529212 TTCTATGAGA
3529222 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
3529238 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
3529254 CGGTTTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:3533760 original size:21 final size:21
Alignment explanation
Indices: 3533733--3533791 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 21
3533723 TTAAACATTT
3533733 TATATAAATTAATTAAAT-A-
1 TATATAAATTAATTAAATCAC
3533752 TAAATATAAATTAATTAAATCAC
1 T--ATATAAATTAATTAAATCAC
3533775 TATATAAATTAATTAAA
1 TATATAAATTAATTAAA
3533792 AATTAATTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.03
21 33 0.92
22 1 0.03
23 1 0.03
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (21 bp):
TATATAAATTAATTAAATCAC
Found at i:3533993 original size:15 final size:15
Alignment explanation
Indices: 3533959--3534000 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
3533949 TTCCGATCTG
* *
3533959 ATTTAATTTAAGATG
1 ATTTAATTTAAAATA
3533974 A-TTAATTTAAAATA
1 ATTTAATTTAAAATA
*
3533988 ATTTAATCTAAAA
1 ATTTAATTTAAAA
3534001 GATTTAGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (15 bp):
ATTTAATTTAAAATA
Found at i:3543703 original size:33 final size:34
Alignment explanation
Indices: 3543660--3543737 Score: 124
Period size: 33 Copynumber: 2.3 Consensus size: 34
3543650 TTTTGGGTGT
3543660 GCAG-AATTATAATTGCATGCACGTGA-TTTTGG
1 GCAGCAATTATAATTGCATGCACGTGATTTTTGG
3543692 GCAGCAATTATAATTGCATGCACGTGATTTTTTGG
1 GCAGCAATTATAATTGCATGCACGTGA-TTTTTGG
*
3543727 GCAACAATTAT
1 GCAGCAATTAT
3543738 TTGGGTAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
32 4 0.10
33 22 0.52
35 16 0.38
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (34 bp):
GCAGCAATTATAATTGCATGCACGTGATTTTTGG
Found at i:3543862 original size:4 final size:4
Alignment explanation
Indices: 3543853--3543972 Score: 128
Period size: 4 Copynumber: 31.8 Consensus size: 4
3543843 ATAAGAGAAT
* * * *
3543853 GAAG GAAG GAAG G-AG GAGG GAAG G-AG GGAG GAGG GAAG G-AG GGAG
1 GAAG GAAG GAAG GAAG GAAG GAAG GAAG GAAG GAAG GAAG GAAG GAAG
* * *
3543898 GAGG GAAG GGAG GAAG GAAG GGAG GAAG GAAG G-AG GAAG G-AG GAAG
1 GAAG GAAG GAAG GAAG GAAG GAAG GAAG GAAG GAAG GAAG GAAG GAAG
3543944 G-AG GAAG G-AG GAAG GAAG GAAG GAAG GAA
1 GAAG GAAG GAAG GAAG GAAG GAAG GAAG GAA
3543973 AAAAAATCAT
Statistics
Matches: 97, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
3 21 0.22
4 76 0.78
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (4 bp):
GAAG
Found at i:3543874 original size:11 final size:11
Alignment explanation
Indices: 3543855--3543972 Score: 129
Period size: 11 Copynumber: 10.8 Consensus size: 11
3543845 AAGAGAATGA
3543855 AGGAAGGAAGG
1 AGGAAGGAAGG
*
3543866 AGGAGGGAAGG
1 AGGAAGGAAGG
*
3543877 AGGGAGG-A-G
1 AGGAAGGAAGG
*
3543886 -GGAAGGAGGG
1 AGGAAGGAAGG
*
3543896 AGGAGGGAAGGG
1 AGGAAGGAA-GG
3543908 AGGAAGGAAGGG
1 AGGAAGGAA-GG
3543920 AGGAAGGAAGG
1 AGGAAGGAAGG
3543931 AGGAAGG-AGG
1 AGGAAGGAAGG
3543941 AAGG-AGGAAGG
1 -AGGAAGGAAGG
3543952 AGGAAGGAAGG
1 AGGAAGGAAGG
3543963 AAGGAAGGAA
1 -AGGAAGGAA
3543973 AAAAAATCAT
Statistics
Matches: 91, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
8 5 0.05
9 1 0.01
10 11 0.12
11 43 0.47
12 31 0.34
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (11 bp):
AGGAAGGAAGG
Found at i:3543874 original size:15 final size:15
Alignment explanation
Indices: 3543856--3543967 Score: 119
Period size: 15 Copynumber: 7.7 Consensus size: 15
3543846 AGAGAATGAA
3543856 GGAAGGAAGGAGGAG
1 GGAAGGAAGGAGGAG
*
3543871 GGAAGGAGGGAGGAG
1 GGAAGGAAGGAGGAG
*
3543886 GGAAGGAGGGAGGAG
1 GGAAGGAAGGAGGAG
*
3543901 GGAAGGGAGGAAGGAAG
1 GGAAGGAAGG-AGG-AG
3543918 GG-AGGAAGGA--A-
1 GGAAGGAAGGAGGAG
*
3543929 GG-AGGAAGGAGGAA
1 GGAAGGAAGGAGGAG
*
3543943 GG-AGGAAGGAGGAA
1 GGAAGGAAGGAGGAG
3543957 GGAAGGAAGGA
1 GGAAGGAAGGA
3543968 AGGAAAAAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
11 10 0.11
12 1 0.01
13 1 0.01
14 16 0.18
15 46 0.53
16 9 0.10
17 4 0.05
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (15 bp):
GGAAGGAAGGAGGAG
Found at i:3543884 original size:7 final size:7
Alignment explanation
Indices: 3543859--3543959 Score: 85
Period size: 7 Copynumber: 13.6 Consensus size: 7
3543849 GAATGAAGGA
*
3543859 AGGAAGG
1 AGGAGGG
3543866 AGGAGGG
1 AGGAGGG
3543873 AAGGAGGG
1 -AGGAGGG
3543881 AGGAGGG
1 AGGAGGG
3543888 AAGGAGGG
1 -AGGAGGG
3543896 AGGAGGG
1 AGGAGGG
*
3543903 AAGGGAGGA
1 -A-GGAGGG
3543912 AGGAAGGG
1 AGG-AGGG
*
3543920 AGGAAGGA
1 AGG-AGGG
*
3543928 AGGAGGA
1 AGGAGGG
*
3543935 AGGAGGA
1 AGGAGGG
*
3543942 AGGAGGA
1 AGGAGGG
*
3543949 AGGAGGA
1 AGGAGGG
3543956 AGGA
1 AGGA
3543960 AGGAAGGAAG
Statistics
Matches: 85, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
7 51 0.60
8 29 0.34
9 5 0.06
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (7 bp):
AGGAGGG
Found at i:3545170 original size:37 final size:37
Alignment explanation
Indices: 3545129--3545207 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
3545119 ATTAAAATAA
* * ** *
3545129 AAATAGACATATATAAGTGTTCAAGTACAAATAGTTC
1 AAATAGACAGATACAAACGTTCAAGTACAAATAATTC
3545166 AAATAGACAGATACAAACGTTCAAGTACAAATAATTC
1 AAATAGACAGATACAAACGTTCAAGTACAAATAATTC
3545203 AAATA
1 AAATA
3545208 TCAAAATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.51, C:0.13, G:0.11, T:0.25
Consensus pattern (37 bp):
AAATAGACAGATACAAACGTTCAAGTACAAATAATTC
Found at i:3546943 original size:13 final size:14
Alignment explanation
Indices: 3546925--3546955 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
3546915 GGTCAAAGGA
3546925 GGTCAACGGTC-AC
1 GGTCAACGGTCAAC
3546938 GGTCAACGGTCAAC
1 GGTCAACGGTCAAC
3546952 GGTC
1 GGTC
3546956 GGGTTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.23, C:0.29, G:0.32, T:0.16
Consensus pattern (14 bp):
GGTCAACGGTCAAC
Found at i:3546946 original size:7 final size:7
Alignment explanation
Indices: 3546925--3546955 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
3546915 GGTCAAAGGA
3546925 GGTCAAC
1 GGTCAAC
3546932 GGTC-AC
1 GGTCAAC
3546938 GGTCAAC
1 GGTCAAC
3546945 GGTCAAC
1 GGTCAAC
3546952 GGTC
1 GGTC
3546956 GGGTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.23, C:0.29, G:0.32, T:0.16
Consensus pattern (7 bp):
GGTCAAC
Found at i:3560337 original size:21 final size:22
Alignment explanation
Indices: 3560311--3560351 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3560301 ACACAAGGGA
*
3560311 TATCGGTACCTTTG-ACATAGG
1 TATCGGTACCTCTGTACATAGG
3560332 TATCGGTACCTCTGTACATA
1 TATCGGTACCTCTGTACATA
3560352 AGGGTATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (22 bp):
TATCGGTACCTCTGTACATAGG
Found at i:3560607 original size:15 final size:16
Alignment explanation
Indices: 3560587--3560622 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
3560577 TCATATTTGA
3560587 ATAA-TTGAATCGAAT
1 ATAATTTGAATCGAAT
3560602 ATAATTTTGAATCGAAT
1 ATAA-TTTGAATCGAAT
3560619 ATAA
1 ATAA
3560623 AATCTTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
17 15 0.79
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (16 bp):
ATAATTTGAATCGAAT
Found at i:3563631 original size:31 final size:31
Alignment explanation
Indices: 3563595--3563735 Score: 255
Period size: 31 Copynumber: 4.5 Consensus size: 31
3563585 ATTCAACATC
*
3563595 CAAGTGACCAAAATTTAATAAAACAATAATG
1 CAAGTGACCAAAACTTAATAAAACAATAATG
*
3563626 TAAGTGACCAAAACTTAATAAAACAATAATG
1 CAAGTGACCAAAACTTAATAAAACAATAATG
3563657 CAAGTGACCAAAACTTAATAAAACAATAATG
1 CAAGTGACCAAAACTTAATAAAACAATAATG
*
3563688 TAAGTGACCAAAACTTAATAAAACAATAATG
1 CAAGTGACCAAAACTTAATAAAACAATAATG
3563719 CAAGTGACCAAAACTTA
1 CAAGTGACCAAAACTTA
3563736 TGTTTTATGA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 105 1.00
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (31 bp):
CAAGTGACCAAAACTTAATAAAACAATAATG
Found at i:3564808 original size:23 final size:24
Alignment explanation
Indices: 3564758--3564811 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
3564748 ATTTAAATCT
* * *
3564758 TAAAATATTAATTGAGTTCTATTA
1 TAAAATATTAATTAAATTCTACTA
3564782 -AAAATATTAATTAAATT-TACTA
1 TAAAATATTAATTAAATTCTACTA
3564804 TAAAATAT
1 TAAAATAT
3564812 CTATATTAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (24 bp):
TAAAATATTAATTAAATTCTACTA
Found at i:3565051 original size:2 final size:2
Alignment explanation
Indices: 3565044--3565078 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3565034 ATTTAATTCT
3565044 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3565079 GTGTATGTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3566445 original size:38 final size:37
Alignment explanation
Indices: 3566400--3566484 Score: 109
Period size: 38 Copynumber: 2.3 Consensus size: 37
3566390 AATCACTCAA
3566400 CTCTGTTTCACAATATTAAAAAAA-AATTCTCACTTCTT
1 CTCTGTTTCACAATATTAAAAAAAGAA--CTCACTTCTT
* * *
3566438 CTCTGTTTCATAGTATTAAAAAAAGCACTCACTTCTT
1 CTCTGTTTCACAATATTAAAAAAAGAACTCACTTCTT
*
3566475 CTCTATTTCA
1 CTCTGTTTCA
3566485 TAGTAGCACT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
37 19 0.45
38 22 0.52
39 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (37 bp):
CTCTGTTTCACAATATTAAAAAAAGAACTCACTTCTT
Found at i:3566459 original size:37 final size:38
Alignment explanation
Indices: 3566400--3566489 Score: 119
Period size: 37 Copynumber: 2.4 Consensus size: 38
3566390 AATCACTCAA
* * **
3566400 CTCTGTTTCACAATATTAAAAAAAAATTCTCACTTCTT
1 CTCTGTTTCATAGTATTAAAAAAAAACACTCACTTCTT
*
3566438 CTCTGTTTCATAGTATT-AAAAAAAGCACTCACTTCTT
1 CTCTGTTTCATAGTATTAAAAAAAAACACTCACTTCTT
*
3566475 CTCTATTTCATAGTA
1 CTCTGTTTCATAGTA
3566490 GCACTACAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
37 31 0.67
38 15 0.33
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (38 bp):
CTCTGTTTCATAGTATTAAAAAAAAACACTCACTTCTT
Found at i:3568079 original size:14 final size:15
Alignment explanation
Indices: 3568060--3568088 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3568050 GACAGTTGGC
3568060 CTGTTTCCCA-TCTT
1 CTGTTTCCCACTCTT
3568074 CTGTTTCCCACTCTT
1 CTGTTTCCCACTCTT
3568089 TTGAAGGCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.07, C:0.38, G:0.07, T:0.48
Consensus pattern (15 bp):
CTGTTTCCCACTCTT
Done.