Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008010.1 Hibiscus syriacus cultivar Beakdansim tig00110472_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: 3152856
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 14
Found at i:2631421 original size:18 final size:18
Alignment explanation
Indices: 2631398--2631462 Score: 85
Period size: 20 Copynumber: 3.4 Consensus size: 18
2631388 GAAACTTAAA
*
2631398 ATCGCAACACGAATGACT
1 ATCGCAACGCGAATGACT
2631416 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG--AATGACT
2631436 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAA--TGACT
2631456 ATCGCAA
1 ATCGCAA
2631463 TGAGAGAATC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
18 12 0.29
20 30 0.71
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.18
Consensus pattern (18 bp):
ATCGCAACGCGAATGACT
Found at i:2631434 original size:20 final size:20
Alignment explanation
Indices: 2631409--2631462 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
2631399 TCGCAACACG
2631409 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
2631429 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
**
2631449 TTTGACTATCGCAA
1 AATGACTATCGCAA
2631463 TGAGAGAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (20 bp):
AATGACTATCGCAACGCGAA
Found at i:2631561 original size:20 final size:20
Alignment explanation
Indices: 2631507--2631578 Score: 108
Period size: 20 Copynumber: 3.6 Consensus size: 20
2631497 GCGATTCTTT
**
2631507 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
2631527 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
2631547 CGTTGCGATAGTCATTTTTG
1 CGTTGCGATAGTCATTTTCG
*
2631567 CATTGCGATAGT
1 CGTTGCGATAGT
2631579 AAACTATTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:2631746 original size:18 final size:18
Alignment explanation
Indices: 2631722--2631771 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
2631712 TTTACTAAGC
2631722 AATCTAAGTGAAATGG-T
1 AATCTAAGTGAAATGGTT
2631739 ACATCTAAGTGAAATGGTT
1 A-ATCTAAGTGAAATGGTT
2631758 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
2631772 TACGAGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 1 0.03
18 28 0.90
19 2 0.06
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:2633511 original size:20 final size:20
Alignment explanation
Indices: 2633488--2633594 Score: 119
Period size: 20 Copynumber: 5.5 Consensus size: 20
2633478 TCTGAAACTT
*
2633488 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
*
2633508 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
** **
2633528 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACGCGAAAATG
**
2633548 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACGCGAAAATG
*
2633567 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAAATG
2633586 AAAATCGCA
1 AAAATCGCA
2633595 TTGCGATTCT
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
19 24 0.32
20 52 0.68
ACGTcount: A:0.46, C:0.23, G:0.17, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:2634007 original size:22 final size:22
Alignment explanation
Indices: 2633980--2634022 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2633970 GAGATAGACG
2633980 GATTTCGTCGGAGATGGGGACT
1 GATTTCGTCGGAGATGGGGACT
2634002 GATTTCGTCGGAGATGGGGAC
1 GATTTCGTCGGAGATGGGGAC
2634023 GGATGTCGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.14, G:0.42, T:0.26
Consensus pattern (22 bp):
GATTTCGTCGGAGATGGGGACT
Found at i:2634227 original size:20 final size:20
Alignment explanation
Indices: 2634197--2634310 Score: 138
Period size: 20 Copynumber: 5.7 Consensus size: 20
2634187 GCACTTTGAA
*
2634197 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* * *
2634217 TATCGCGTTGCGACAGTCAA
1 AATCGCGTTGCGATAGTCAG
*
2634237 AATCGCGTTGCGATAGTTAG
1 AATCGCGTTGCGATAGTCAG
*
2634257 AATCTCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* *
2634277 AATCGCGTTGTGATAGTCAT
1 AATCGCGTTGCGATAGTCAG
* *
2634297 ACTCGCATTGCGAT
1 AATCGCGTTGCGAT
2634311 TTACATATTC
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 78 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:2634328 original size:60 final size:61
Alignment explanation
Indices: 2634199--2634334 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 61
2634189 ACTTTGAAAA
* * *
2634199 TCGCATTGCGATAGTCAGTATCGCGTTGCGACAGTCAAAATCGCGTTGCGATAGTTAGAATC
1 TCGCATTGCGATAGTCAGAATCGCGTTGCGACAGTCAAAATCGCATTGCGATA-TTACAATC
* * * *
2634261 TCG--TTGCGATAGTCAGAATCGCGTTGTGATAGTCATACTCGCATTGCGAT-TTACATAT-
1 TCGCATTGCGATAGTCAGAATCGCGTTGCGACAGTCAAAATCGCATTGCGATATTACA-ATC
2634319 TCGCATTGCGATAGTC
1 TCGCATTGCGATAGTC
2634335 GGAAAATCGC
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
58 7 0.11
59 2 0.03
60 52 0.81
62 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (61 bp):
TCGCATTGCGATAGTCAGAATCGCGTTGCGACAGTCAAAATCGCATTGCGATATTACAATC
Found at i:2634928 original size:35 final size:35
Alignment explanation
Indices: 2634882--2634993 Score: 161
Period size: 35 Copynumber: 3.2 Consensus size: 35
2634872 AAAACATTCC
* *
2634882 TCAATTTCATTCTAAACCCCAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAAACCCAAATTCCAAAATAAT
* *
2634917 TCAATTTCATTCTAAATCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAAACCCAAATTCCAAAATAAT
* * *
2634952 TCAATTACATTCTAAAACCCAAATTCTAAAATATT
1 TCAATTTCATTCTAAAACCCAAATTCCAAAATAAT
2634987 TCAATTT
1 TCAATTT
2634994 AAGGAGGAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAAACCCAAATTCCAAAATAAT
Found at i:2638088 original size:35 final size:35
Alignment explanation
Indices: 2638039--2638116 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 35
2638029 AAAAAAGACA
*
2638039 GAAATTGAAGTATTTTATAATTT-GGGTTTTAGAAT
1 GAAATTGAAGTATTTTAGAATTTAGGG-TTTAGAAT
* * *
2638074 GTAATTGAATTATTTTGGAATTTAGGGTTTAGAAT
1 GAAATTGAAGTATTTTAGAATTTAGGGTTTAGAAT
2638109 GAAATTGA
1 GAAATTGA
2638117 GGAATGTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 34 0.92
36 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.44
Consensus pattern (35 bp):
GAAATTGAAGTATTTTAGAATTTAGGGTTTAGAAT
Found at i:2645072 original size:10 final size:9
Alignment explanation
Indices: 2645042--2645079 Score: 53
Period size: 8 Copynumber: 4.3 Consensus size: 9
2645032 AAATAAAAAG
2645042 ATAATATTT
1 ATAATATTT
2645051 AT-ATATTT
1 ATAATATTT
2645059 -TAATATTT
1 ATAATATTT
2645067 AATAATATTT
1 -ATAATATTT
2645077 ATA
1 ATA
2645080 CACGTATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
7 1 0.04
8 12 0.46
9 5 0.19
10 8 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
ATAATATTT
Found at i:2647956 original size:41 final size:41
Alignment explanation
Indices: 2647809--2648112 Score: 139
Period size: 41 Copynumber: 7.4 Consensus size: 41
2647799 CAGTTTCCAG
* *
2647809 ATTCGCAACGCGATTATGAC-T-ATCGCAATGCGATTTT-CCA
1 ATTCGCAATGCGATT-T-ACGTAATCGCAATGCGATTTTACTA
** * ** * * *
2647849 ATTTCGCGTTGCGATTTTCCCAATTCGCAATGCGA-ATAAGTA
1 A-TTCGCAATGCGATTTACGTAA-TCGCAATGCGATTTTACTA
* * * *
2647891 AATCGCAATGCGATACTGAC-TATTCGCAATGCGATTTTCCTA
1 ATTCGCAATGCGAT--TTACGTAATCGCAATGCGATTTTACTA
* * **
2647933 ATTCGCAATGCGATTTACGTATTCACGTTGCGATTTT-CATA
1 ATTCGCAATGCGATTTACGTAATCGCAATGCGATTTTAC-TA
* * *
2647974 ATTCGCAATGCGA-ATACGTAAATCGCAACGCGA-TTTAGTA
1 ATTCGCAATGCGATTTACGT-AATCGCAATGCGATTTTACTA
* * * * **
2648014 AATCGCAACGCGATTTA-GTAAATCGCAACGCGA-ATTAGGAA
1 ATTCGCAATGCGATTTACGT-AATCGCAATGCGATTTTA-CTA
* * *
2648055 AATCGCAATGCGA-ATACGTAAATCGCAATGCGAATCTTACT-
1 ATTCGCAATGCGATTTACGT-AATCGCAATGCG-ATTTTACTA
2648096 A-TCGCAATGCGATTTAC
1 ATTCGCAATGCGATTTAC
2648113 ATAGCGCCAT
Statistics
Matches: 202, Mismatches: 44, Indels: 35
0.72 0.16 0.12
Matches are distributed among these distances:
39 1 0.00
40 59 0.29
41 106 0.52
42 31 0.15
43 5 0.02
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (41 bp):
ATTCGCAATGCGATTTACGTAATCGCAATGCGATTTTACTA
Found at i:2647985 original size:21 final size:21
Alignment explanation
Indices: 2647831--2647986 Score: 97
Period size: 21 Copynumber: 7.5 Consensus size: 21
2647821 ATTATGACTA
*
2647831 TCGCAATGCGATTTTCCA-ATT
1 TCGCAATGCGATTTT-CATAAT
** **
2647852 TCGCGTTGCGATTTTCCCAAT
1 TCGCAATGCGATTTTCATAAT
* * *
2647873 TCGCAATGCGA--ATAAGTAAA
1 TCGCAATGCGATTTTCA-TAAT
** *
2647893 TCGCAATGCGATACTGACT-AT
1 TCGCAATGCGATTTTCA-TAAT
*
2647914 TCGCAATGCGATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* *
2647935 TCGCAATGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
* **
2647955 TCACGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
2647976 TCGCAATGCGA
1 TCGCAATGCGA
2647987 ATACGTAAAT
Statistics
Matches: 100, Mismatches: 29, Indels: 12
0.71 0.21 0.09
Matches are distributed among these distances:
19 1 0.01
20 30 0.30
21 66 0.66
22 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:2648001 original size:20 final size:20
Alignment explanation
Indices: 2647976--2648107 Score: 126
Period size: 20 Copynumber: 6.5 Consensus size: 20
2647966 TTTTCATAAT
2647976 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
2647996 TCGCAACGCGATTTA-GTAAA
1 TCGCAATGCGA-ATACGTAAA
* *
2648016 TCGCAACGCGATTTA-GTAAA
1 TCGCAATGCGA-ATACGTAAA
* * *
2648036 TCGCAACGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
2648057 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
2648077 TCGCAATGCGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
2648097 TCGCAATGCGA
1 TCGCAATGCGA
2648108 TTTACATAGC
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
19 3 0.03
20 79 0.80
21 17 0.17
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:2648020 original size:40 final size:41
Alignment explanation
Indices: 2647976--2648089 Score: 160
Period size: 41 Copynumber: 2.8 Consensus size: 41
2647966 TTTTCATAAT
* *
2647976 TCGCAATGCGAATACGTAAATCGCAACGCGATTTA-GTAAA
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATTAGGAAAA
* *
2648016 TCGCAACGCGATTTA-GTAAATCGCAACGCGAATTAGGAAAA
1 TCGCAATGCGA-ATACGTAAATCGCAACGCGAATTAGGAAAA
*
2648057 TCGCAATGCGAATACGTAAATCGCAATGCGAAT
1 TCGCAATGCGAATACGTAAATCGCAACGCGAAT
2648090 CTTACTATCG
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
40 31 0.48
41 33 0.52
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (41 bp):
TCGCAATGCGAATACGTAAATCGCAACGCGAATTAGGAAAA
Found at i:2648665 original size:19 final size:19
Alignment explanation
Indices: 2648623--2648693 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
2648613 TAGTTTCGAG
2648623 AATAAAAATCGCAACGCGGA
1 AATAAAAATCGCAACGC-GA
**
2648643 AATAACTATCGCAACGCGA
1 AATAAAAATCGCAACGCGA
2648662 AATAAAAATCGCAACGCGA
1 AATAAAAATCGCAACGCGA
**
2648681 AACCAAAATCGCA
1 AATAAAAATCGCA
2648694 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
19 30 0.67
20 15 0.33
ACGTcount: A:0.49, C:0.24, G:0.15, T:0.11
Consensus pattern (19 bp):
AATAAAAATCGCAACGCGA
Found at i:2648731 original size:14 final size:14
Alignment explanation
Indices: 2648712--2648766 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2648702 TTCATTTCGT
2648712 GTTGCGATTCTCTC
1 GTTGCGATTCTCTC
*
2648726 GTTGCGATAGTCATTTCGC
1 GTTGCGAT--TC---TCTC
2648745 GTTGCGATTCTCTC
1 GTTGCGATTCTCTC
2648759 GTTGCGAT
1 GTTGCGAT
2648767 AGTCATTTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 19 0.56
16 2 0.06
17 2 0.06
19 11 0.32
ACGTcount: A:0.11, C:0.24, G:0.25, T:0.40
Consensus pattern (14 bp):
GTTGCGATTCTCTC
Found at i:2648740 original size:33 final size:33
Alignment explanation
Indices: 2648694--2648790 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 33
2648684 CAAAATCGCA
** *
2648694 TTGCGATTTTCATTTCGTGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
2648727 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
2648760 TTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 TTGCGATAGTCATTT-CGCGTTGCGATTCTC
2648791 ATTATCTCGT
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
33 45 0.75
34 15 0.25
ACGTcount: A:0.11, C:0.24, G:0.23, T:0.42
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
Found at i:2648792 original size:20 final size:20
Alignment explanation
Indices: 2648758--2648815 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
2648748 GCGATTCTCT
**
2648758 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
2648778 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
2648798 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
2648816 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:2650981 original size:21 final size:21
Alignment explanation
Indices: 2650957--2651023 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2650947 TCATTCCTCG
2650957 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
2650978 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
2650999 AGATGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
2651020 AGAG
1 AGAG
2651024 CCCGATTCGC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.19, T:0.21
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:2650981 original size:42 final size:42
Alignment explanation
Indices: 2650905--2651023 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
2650895 GACTCACCTG
* * * * * * *
2650905 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
2650947 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
2650989 TCA-TCGTTGAAGATGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
2651024 CCCGATTCGC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.24
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:2651850 original size:12 final size:12
Alignment explanation
Indices: 2651833--2651857 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2651823 TCTTCGGGGA
2651833 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2651845 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2651857 C
1 C
2651858 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2652071 original size:24 final size:24
Alignment explanation
Indices: 2652044--2652090 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
2652034 CAAAATCCGA
*
2652044 GTATTGACCAATATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
2652068 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
2652091 AATACTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:2652099 original size:24 final size:24
Alignment explanation
Indices: 2652048--2652099 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
2652038 ATCCGAGTAT
* ** *
2652048 TGACCAATATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
2652072 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
2652096 TGAC
1 TGAC
2652100 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:2652997 original size:20 final size:20
Alignment explanation
Indices: 2652950--2653000 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
2652940 GAGATAATAC
*
2652950 AAAATCGCAACGAGATTCTG
1 AAAATCGCAATGAGATTCTG
*** *
2652970 ACTTTCGCAATTAGATTCTG
1 AAAATCGCAATGAGATTCTG
2652990 AAAATCGCAAT
1 AAAATCGCAAT
2653001 CATCTTCAAA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (20 bp):
AAAATCGCAATGAGATTCTG
Found at i:2653308 original size:20 final size:20
Alignment explanation
Indices: 2653213--2653300 Score: 97
Period size: 20 Copynumber: 4.4 Consensus size: 20
2653203 CAACGGGGAA
*
2653213 ATCGCAACACGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
2653233 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
2653253 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
*
2653273 ATCACAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
2653293 ATCGCAAC
1 ATCGCAAC
2653301 TAGAAAATCG
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
19 5 0.09
20 43 0.81
21 5 0.09
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:2653351 original size:14 final size:14
Alignment explanation
Indices: 2653332--2653385 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
2653322 GAAAATCGCA
2653332 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
2653346 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
2653363 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
2653379 TTGCGAT
1 TTGCGAT
2653386 AGTCAGTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:2653351 original size:33 final size:33
Alignment explanation
Indices: 2653314--2653384 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
2653304 AAAATCGCAA
2653314 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
2653347 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
2653380 TGCGA
1 TGCGA
2653385 TAGTCAGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:2653531 original size:14 final size:14
Alignment explanation
Indices: 2653512--2653549 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
2653502 CACCAATTAA
2653512 ACAAATCAATATTT
1 ACAAATCAATATTT
* *
2653526 ACAAATCATTTTTT
1 ACAAATCAATATTT
2653540 ACAAATCAAT
1 ACAAATCAAT
2653550 TAAACAATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (14 bp):
ACAAATCAATATTT
Found at i:2654139 original size:13 final size:13
Alignment explanation
Indices: 2654121--2654146 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2654111 TGAGAGCTCC
2654121 ATCCCTTGATAAT
1 ATCCCTTGATAAT
2654134 ATCCCTTGATAAT
1 ATCCCTTGATAAT
2654147 TTATCATGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
ATCCCTTGATAAT
Found at i:2655413 original size:20 final size:19
Alignment explanation
Indices: 2655390--2655457 Score: 73
Period size: 20 Copynumber: 3.5 Consensus size: 19
2655380 GAAACTTAAA
2655390 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
* *
2655410 ATCGCAACGTGGAAATGGCT
1 ATCGCAACG-CGAAATGACT
* **
2655430 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
2655449 ATCGCAACG
1 ATCGCAACG
2655458 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
19 14 0.36
20 24 0.62
21 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:2655465 original size:14 final size:14
Alignment explanation
Indices: 2655446--2655536 Score: 83
Period size: 14 Copynumber: 5.9 Consensus size: 14
2655436 ATGCGAAATG
2655446 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2655460 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
2655479 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2655493 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
2655509 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
2655525 AAAATCGCAACG
1 AAAATCGCAACG
2655537 CGAAATACAA
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 31 0.48
15 1 0.02
16 10 0.16
17 2 0.03
18 10 0.16
19 10 0.16
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2655472 original size:33 final size:33
Alignment explanation
Indices: 2655430--2655552 Score: 214
Period size: 33 Copynumber: 3.8 Consensus size: 33
2655420 GGAAATGGCT
2655430 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
2655463 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
2655496 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
2655528 ATCGCAACGCGAAAT-ACAAATCGCA
1 ATCGCAATGCGAAATGA-AAATCGCA
2655553 TTGCGATTTT
Statistics
Matches: 87, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
32 30 0.34
33 57 0.66
ACGTcount: A:0.47, C:0.23, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:2655540 original size:65 final size:66
Alignment explanation
Indices: 2655430--2655552 Score: 214
Period size: 65 Copynumber: 1.9 Consensus size: 66
2655420 GGAAATGGCT
*
2655430 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAATGCGAAATGA-AAATCGCAACGACA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAAT-ACAAATCGCAACGACA
2655494 AA
65 AA
2655496 ATCGCAATGCGAAATG-AAATCGCAACGACAAAATCGCAACGCGAAATACAAATCGCA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATACAAATCGCA
2655553 TTGCGATTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
64 1 0.02
65 38 0.69
66 16 0.29
ACGTcount: A:0.47, C:0.23, G:0.18, T:0.12
Consensus pattern (66 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATACAAATCGCAACGACAA
A
Found at i:2655570 original size:19 final size:19
Alignment explanation
Indices: 2655548--2655643 Score: 79
Period size: 19 Copynumber: 5.6 Consensus size: 19
2655538 GAAATACAAA
2655548 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
2655567 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
2655583 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2655600 TCGAATTGCGA--TT--TT
1 TCGCATTGCGATTTTCATT
*
2655615 TCG--TTACGATTTTCATT
1 TCGCATTGCGATTTTCATT
2655632 TCGCATTGCGAT
1 TCGCATTGCGAT
2655644 AGACATTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
13 5 0.08
14 6 0.10
15 10 0.16
16 4 0.07
17 11 0.18
18 3 0.05
19 22 0.36
ACGTcount: A:0.15, C:0.19, G:0.20, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2655595 original size:33 final size:32
Alignment explanation
Indices: 2655553--2655643 Score: 146
Period size: 32 Copynumber: 2.8 Consensus size: 32
2655543 ACAAATCGCA
*
2655553 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTT-TCG
*
2655586 TTGCGATTTTCATTTCGAATTGCGATTTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTTCG
*
2655618 TTACGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
2655644 AGACATTTCC
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
32 27 0.50
33 27 0.50
ACGTcount: A:0.14, C:0.18, G:0.20, T:0.48
Consensus pattern (32 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTTCG
Found at i:2655662 original size:20 final size:19
Alignment explanation
Indices: 2655628--2655682 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
2655618 TTACGATTTT
*
2655628 CATTTCGCATTGCGATAGA
1 CATTTCGCGTTGCGATAGA
*
2655647 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGA
*
2655667 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
2655683 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGA
Found at i:2657544 original size:20 final size:20
Alignment explanation
Indices: 2657507--2657570 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
2657497 AATAGTTTCT
** * *
2657507 GAAAATGAAAATCACAACAC
1 GAAAATGACTATCGCAACGC
2657527 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
2657547 GAATTTGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
2657567 GAAA
1 GAAA
2657571 CTAAAATCGT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.45, C:0.22, G:0.17, T:0.16
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:2657840 original size:22 final size:22
Alignment explanation
Indices: 2657813--2657856 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2657803 GATGGAGATA
2657813 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
2657835 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
2657857 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:2658054 original size:21 final size:22
Alignment explanation
Indices: 2658024--2658119 Score: 78
Period size: 20 Copynumber: 4.6 Consensus size: 22
2658014 CGCTTTGAAA
*
2658024 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGATTATGTAAGT
* * *
2658045 ATCGCGTTGCGA--AAGTCAGT
1 ATCGCATTGCGATTATGTAAGT
* * * *
2658065 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGATTATGTAAGT
2658086 ATCGCATTGCGA-TA-GTAAGT
1 ATCGCATTGCGATTATGTAAGT
2658106 ATCGCATTGCGATT
1 ATCGCATTGCGATT
2658120 TTCCCAATTC
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
19 5 0.08
20 28 0.47
21 24 0.41
22 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (22 bp):
ATCGCATTGCGATTATGTAAGT
Found at i:2658087 original size:41 final size:41
Alignment explanation
Indices: 2658024--2658121 Score: 142
Period size: 41 Copynumber: 2.4 Consensus size: 41
2658014 CGCTTTGAAA
* * *
2658024 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
* * *
2658065 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
2658106 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
2658122 CCCAATTCGC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.39
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
Found at i:2658977 original size:14 final size:14
Alignment explanation
Indices: 2658958--2658988 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2658948 TCAGTAATAT
*
2658958 GTTCATTTATGTTC
1 GTTCATTTATATTC
2658972 GTTCATTTATATTC
1 GTTCATTTATATTC
2658986 GTT
1 GTT
2658989 TATGTGCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.13, G:0.13, T:0.58
Consensus pattern (14 bp):
GTTCATTTATATTC
Found at i:2658998 original size:24 final size:24
Alignment explanation
Indices: 2658963--2659008 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
2658953 AATATGTTCA
*
2658963 TTTATGTTCGTTCATTTATATTCG
1 TTTATGTGCGTTCATTTATATTCG
2658987 TTTATGTGCGTTCATTTATATT
1 TTTATGTGCGTTCATTTATATT
2659009 TAGCCCAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.11, G:0.13, T:0.59
Consensus pattern (24 bp):
TTTATGTGCGTTCATTTATATTCG
Found at i:2659208 original size:20 final size:20
Alignment explanation
Indices: 2659171--2659208 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2659161 AAAAAATATT
*
2659171 TTCATTTATGTTCGTTTACA
1 TTCATTTATGTTAGTTTACA
*
2659191 TTCATTTATGTTATTTTA
1 TTCATTTATGTTAGTTTA
2659209 TTGTGTTCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.11, G:0.08, T:0.61
Consensus pattern (20 bp):
TTCATTTATGTTAGTTTACA
Found at i:2659236 original size:24 final size:23
Alignment explanation
Indices: 2659208--2659276 Score: 93
Period size: 24 Copynumber: 3.0 Consensus size: 23
2659198 ATGTTATTTT
*
2659208 ATTGTGTTCGTTTACGTTCGTTC
1 ATTGTGTTCATTTACGTTCGTTC
* *
2659231 ATTTGTGTTCTTTTACGTTCGTTT
1 A-TTGTGTTCATTTACGTTCGTTC
*
2659255 ATTGTGTTCATTTATGTTCGTT
1 ATTGTGTTCATTTACGTTCGTT
2659277 TACATCCGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 20 0.49
24 21 0.51
ACGTcount: A:0.10, C:0.13, G:0.19, T:0.58
Consensus pattern (23 bp):
ATTGTGTTCATTTACGTTCGTTC
Found at i:2659298 original size:47 final size:45
Alignment explanation
Indices: 2659171--2659303 Score: 126
Period size: 47 Copynumber: 2.9 Consensus size: 45
2659161 AAAAAATATT
**
2659171 TTCATTTATGTTCGTTTACA--TTCATTTATGTTATTTTATTGTG
1 TTCATTTATGTTCGTTTACATGTTCATTTATGTTCGTTTATTGTG
* * *** * *
2659214 TTCGTTTACGTTCGTTCATTTGTGTTCTTTTACGTTCGTTTATTGTG
1 TTCATTTATGTTCGTT--TACATGTTCATTTATGTTCGTTTATTGTG
*
2659261 TTCATTTATGTTCGTTTACATCCGTTCGTTTATGTTCGTTTAT
1 TTCATTTATGTTCGTTTACAT--GTTCATTTATGTTCGTTTAT
2659304 CATTTAAATG
Statistics
Matches: 68, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
43 14 0.21
45 3 0.04
47 51 0.75
ACGTcount: A:0.14, C:0.14, G:0.15, T:0.58
Consensus pattern (45 bp):
TTCATTTATGTTCGTTTACATGTTCATTTATGTTCGTTTATTGTG
Found at i:2669737 original size:2 final size:2
Alignment explanation
Indices: 2669732--2669756 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2669722 AATCTCTCCA
2669732 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
2669757 GCATATGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2679639 original size:36 final size:37
Alignment explanation
Indices: 2679598--2679832 Score: 218
Period size: 36 Copynumber: 6.5 Consensus size: 37
2679588 AAGTCAATCT
2679598 TAAGCCTTCACCGAAGAGA-AGTGAAGCAAACCATCC
1 TAAGCCTTCACCGAAGAGATAGTGAAGCAAACCATCC
*
2679634 TAAGCCTTCACCGGAGA-ATAGTGAAGCAAACCAT-C
1 TAAGCCTTCACCGAAGAGATAGTGAAGCAAACCATCC
* * *
2679669 TGAAGCCTTCACCGGAGA-ATAGTGAAGCAATCAAT-C
1 T-AAGCCTTCACCGAAGAGATAGTGAAGCAAACCATCC
* *
2679705 TGAAGCCTTCACCGGAGA-ATAGTGAAGCAAACCATCA
1 T-AAGCCTTCACCGAAGAGATAGTGAAGCAAACCATCC
* * *
2679742 TAAGTCTTCACC--AGAGAGTAGCGAAGCAAACCATCT
1 TAAGCCTTCACCGAAGAGA-TAGTGAAGCAAACCATCC
* * * * **
2679778 TAAGTCTTCACCAAAAAG-TAGTGAAGCAGATCCATTT
1 TAAGCCTTCACCGAAGAGATAGTGAAGCA-AACCATCC
* *
2679815 TAAGCCTTCTCAGAAGAG
1 TAAGCCTTCACCGAAGAG
2679833 TGTTGGAACA
Statistics
Matches: 173, Mismatches: 18, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
34 3 0.02
35 4 0.02
36 143 0.83
37 20 0.12
38 3 0.02
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (37 bp):
TAAGCCTTCACCGAAGAGATAGTGAAGCAAACCATCC
Found at i:2679800 original size:108 final size:109
Alignment explanation
Indices: 2679591--2679832 Score: 310
Period size: 108 Copynumber: 2.2 Consensus size: 109
2679581 TGGAGCAAAG
* * *
2679591 TCAATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACCATCCTAAGCCTTCACCGGAGAATAGT
1 TCAATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACCATCATAAGCCTTCACCAGAGAATAGC
* *
2679656 GAAGCAAACCATCTGAAGCCTTCACCGGAGAATAGTGAAGCA-A
66 GAAGCAAACCATCTGAAGCCTTCACCGAAAAATAGTGAAGCAGA
* * * *
2679699 TCAATCTGAAGCCTTCACCGGAGA-ATAGTGAAGCAAACCATCATAAGTCTTCACCAGAGAGTAG
1 TCAATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACCATCATAAGCCTTCACCAGAGAATAG
* *
2679763 CGAAGCAAACCATCTTAAGTCTTCACC-AAAAAGTAGTGAAGCAGA
65 CGAAGCAAACCATCTGAAGCCTTCACCGAAAAA-TAGTGAAGCAGA
* * * *
2679808 TCCATTTTAAGCCTTCTCAGAAGAG
1 TCAATCTTAAGCCTTCACCGAAGAG
2679833 TGTTGGAACA
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
107 4 0.04
108 90 0.80
109 19 0.17
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (109 bp):
TCAATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACCATCATAAGCCTTCACCAGAGAATAGC
GAAGCAAACCATCTGAAGCCTTCACCGAAAAATAGTGAAGCAGA
Found at i:2679805 original size:72 final size:70
Alignment explanation
Indices: 2679598--2679789 Score: 258
Period size: 72 Copynumber: 2.7 Consensus size: 70
2679588 AAGTCAATCT
* *
2679598 TAAGCCTTCACCGAAGAGAAGTGAAGCAAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAA
1 TAAGCCTTCACCG-AGAGTAGTGAAGCAAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGCAA
2679663 ACCATC
65 ACCATC
* * * *
2679669 TGAAGCCTTCACCGGAGAATAGTGAAGCAATCAATCTGAAGCCTTCACCGGAGAATAGTGAAGCA
1 T-AAGCCTTCACC-GAGAGTAGTGAAGCAAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGCA
2679734 AACCATC
64 AACCATC
* * *
2679741 ATAAGTCTTCACCAGAGAGTAGCGAAGCAAACCATCTTAAGTCTTCACC
1 -TAAGCCTTCACC-GAGAGTAGTGAAGCAAACCATCTTAAGCCTTCACC
2679790 AAAAAGTAGT
Statistics
Matches: 104, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
71 1 0.01
72 101 0.97
73 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (70 bp):
TAAGCCTTCACCGAGAGTAGTGAAGCAAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGCAAA
CCATC
Found at i:2680410 original size:104 final size:104
Alignment explanation
Indices: 2680194--2681380 Score: 1288
Period size: 104 Copynumber: 11.4 Consensus size: 104
2680184 TGAAGCAGAA
* * * * *
2680194 GAAGA-TGTCCGAGTTCCATACTCCCTAA-ATAGAGGGAGCGAACCCG-TT--AGAAGATGTCCG
1 GAAGATTGTTCGAGTTCTATACTTCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCG
* *
2680254 AGTTCTATACTCCCTAGAGAAAGAGGGAGCAAACCCGTTC
66 AGTTCTATACTCCCTA-AGAAAGAGGGAGCGAACCCGTTT
* * *
2680294 GAAGATTATTCGAGTTCTATACTTCTTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCC
1 GAAGATTGTTCGAGTTCTATACTTCCT-AAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
2680359 GAGTTCCATACTCCCTAA-AGAGAGGGAACGAACCCGTTT
65 GAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTTT
** *
2680398 GAAGATTGTTCGAGTTCTATACTTCCTAGAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTTT
1 GAAGATTGTTCGAGTTCTATACTTCCTA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * *
2680463 GAATTCCATACTCCCTAA-AGAGAGGGAGTGAACCCGTTT
65 GAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTTT
* *
2680502 GAAGATTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATG-TC
1 GAAGATTGTTCGAGTTCTATACTTCCT-AAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* *
2680566 TGAGTTCCATACTCCCTAA-AGAGAGGGAGCGAACCCGTTT
65 -GAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTTT
* * *
2680606 GAAGATTATTCGAGTTCTATAATTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCC
1 GAAGATTGTTCGAGTTCTATACTTCCT-AAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * **
2680671 AAGTTCTATACTCCCTAGAGAAAGAGGGAGCAAACCCGTAA
65 GAGTTCTATACTCCCTA-AGAAAGAGGGAGCGAACCCGTTT
* * * * * *
2680712 GAAGAAGATGTTCGAGTTCCATACTCCCTAA-AGAGAGGGAACGAACCCGTTT---GAAGATTTT
1 GAAG-A-TTGTTCGAGTTCTATACTTCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTT
* * **
2680773 CGAGTTGTATACTCCCTAATAAAGAGGGAGCGAACCCGTAA
64 CGAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTTT
* * * * *
2680814 GAAGAAGATGTTCGAGTTCCATACTCCCTAA-AGAGAGGGAGCGAACCCGTTTGAAG-A-TTGTT
1 GAAG-A-TTGTTCGAGTTCTATACTTCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTT
* **
2680876 CGAGTTCTATACTTCCTAGAGAAAGAGGGAGCGAACCCGTAA
64 CGAGTTCTATACTCCCTA-AGAAAGAGGGAGCGAACCCGTTT
* * * *
2680918 GAAGAAGATGTTCGAGTTCCATACTCCCTAA-AGAGAGGGAGCGAACCCGTTT--A-AAGATTGT
1 GAAG-A-TTGTTCGAGTTCTATACTTCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TGT
*
2680979 TCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTT
63 TCGAGTTCTATACTCCCT-AAGAAAGAGGGAGCGAACCCGTTT
* * * * * ** *
2681022 GAAGAAGATGTCCAAGTTCTATACTCCCTAGAGAAAGAGGGAGTGAACCCGTAAGAAGATGATGT
1 GAAG-A-TTGTTCGAGTTCTATACTTCCTA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT
* *
2681087 TCGAGTTCCATACTCCCTAA-AGAGAGGGAGCGAACCCGTTT
63 TCGAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTTT
*
2681128 GAAGATTGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCC
1 GAAGATTGTTCGAGTTCTATACTTCCT-AAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
*
2681193 GAGTTCTATACTCCCTAGAGAAAGAGGGAACGAACCCGTTT
65 GAGTTCTATACTCCCTA-AGAAAGAGGGAGCGAACCCGTTT
* * * * *
2681234 GAAGATT-TTCGAGTTGTATACTCCCTAATAAAGAGGGAGCGAACCCGTTTGCAGAAGAAGTTCG
1 GAAGATTGTTCGAGTTCTATACTTCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCG
* * *
2681298 AGTTCTATACTCCCTAAAAAAGAGGAAGCGAACTCGATGGTT
66 AGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCG-T--TT
*
2681340 GAAGATTGTTCGAG-TCTCATAC-TCTCTGAAGAAATAGGGAG
1 GAAGATTGTTCGAGTTCT-ATACTTC-CT-AAGAAAGAGGGAG
2681381 TAGATACGTT
Statistics
Matches: 955, Mismatches: 95, Indels: 66
0.86 0.09 0.06
Matches are distributed among these distances:
100 5 0.01
101 16 0.02
102 76 0.08
103 77 0.08
104 540 0.57
105 27 0.03
106 146 0.15
107 17 0.02
108 48 0.05
109 3 0.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (104 bp):
GAAGATTGTTCGAGTTCTATACTTCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCG
AGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTTT
Found at i:2680716 original size:158 final size:157
Alignment explanation
Indices: 2680191--2681330 Score: 1297
Period size: 158 Copynumber: 7.3 Consensus size: 157
2680181 TAGTGAAGCA
* * *
2680191 GAAGAAGATGTCCGAGTTCCATACTCCCTAA-ATAGAGGGAGCGAACCCG-TT--AGAAGATGTC
1 GAAGAAGATGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTC
* * * *
2680252 CGAGTTCTATACTCCCTAGAGAAAGAGGGAGCAAACCCGTTCGAAGATTATTCGAGTTCTATACT
66 TGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTAGAAGATTGTTCGAGTTCTATACT
* *
2680317 TCTTGAAGAAAGAGGGAGCGAACCCGTTT
131 CCCT-AA-AAAGAGGGAGCGAACCCGTTT
* * * * *
2680346 GAAGAAGATGTCCGAGTTCCATACTCCCTAA-AGAGAGGGAACGAACCCGTTTGAAG-A-TTGT-
1 GAAGAAGATGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTC
* * * * * *
2680407 TCGAGTTCTATACTTCCTAGAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTTTGAATTCCAT
66 T-GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTAGAAG-A-TTGTTCGAGTTCTAT
* *
2680472 ACTCCCTAAAGAGAGGGAGTGAACCCGTTT
128 ACTCCCTAAAAAGAGGGAGCGAACCCGTTT
* * * *
2680502 GAAG-A-TTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGT
1 GAAGAAGATGTTCGAGTTCTATACTCCCT-AAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT
* * * * *
2680565 CTGAGTTCCATACTCCCTA-A-AGAGAGGGAGCGAACCCGTTTGAAGATTATTCGAGTTCTATAA
65 CTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTAGAAGATTGTTCGAGTTCTATAC
*
2680628 TTCCTGAAGAAAGAGGGAGCGAACCCGTTT
130 TCCCT-AA-AAAGAGGGAGCGAACCCGTTT
* * * **
2680658 GAAGAAGATGTCCAAGTTCTATACTCCCTAGAGAAAGAGGGAGCAAACCCGTAAGAAGAAGATGT
1 GAAGAAGATGTTCGAGTTCTATACTCCCTA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT
* * * * *
2680723 -TCGAGTTCCATACTCCCTA-A-AGAGAGGGAACGAACCCGTTTGAAGATT-TTCGAGTTGTATA
65 CT-GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTAGAAGATTGTTCGAGTTCTATA
**
2680784 CTCCCTAATAAAGAGGGAGCGAACCCGTAA
129 CTCCCTAA-AAAGAGGGAGCGAACCCGTTT
* * *
2680814 GAAGAAGATGTTCGAGTTCCATACTCCCTAA-AGAGAGGGAGCGAACCCGTTTGAAG-A-TTGT-
1 GAAGAAGATGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTC
* * * *
2680875 TCGAGTTCTATACTTCCTAGAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTTCGAGTTCCAT
66 T-GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTAGAAG-A-TTGTTCGAGTTCTAT
*
2680940 ACTCCCTAAAGAGAGGGAGCGAACCCGTTT
128 ACTCCCTAAAAAGAGGGAGCGAACCCGTTT
*
2680970 --A-AAGATTGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG
1 GAAGAAGA-TGTTCGAGTTCTATACTCCCT-AAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG
** * * *
2681032 TCCAAGTTCTATACTCCCTAGAGAAAGAGGGAGTGAACCCGTAAGAAGATGATGTTCGAGTTCCA
64 TCTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTAGAAGAT--TGTTCGAGTTCTA
*
2681097 TACTCCCTAAAGAGAGGGAGCGAACCCGTTT
127 TACTCCCTAAAAAGAGGGAGCGAACCCGTTT
* *
2681128 GAAG-A-TTGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT
1 GAAGAAGATGTTCGAGTTCTATACTCCCT-AAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT
* * * *
2681191 CCGAGTTCTATACTCCCTAGAGAAAGAGGGAACGAACCCGTTTGAAGATT-TTCGAGTTGTATAC
65 CTGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTAGAAGATTGTTCGAGTTCTATAC
2681255 TCCCTAATAAAGAGGGAGCGAACCCGTTT
130 TCCCTAA-AAAGAGGGAGCGAACCCGTTT
* * * *
2681284 GCAGAAGAAGTTCGAGTTCTATACTCCCTAAAAAAGAGGAAGCGAAC
1 GAAGAAGATGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAGCGAAC
2681331 TCGATGGTTG
Statistics
Matches: 849, Mismatches: 100, Indels: 70
0.83 0.10 0.07
Matches are distributed among these distances:
152 20 0.02
153 6 0.01
154 94 0.11
155 76 0.09
156 251 0.30
157 63 0.07
158 336 0.40
159 1 0.00
160 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (157 bp):
GAAGAAGATGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTC
TGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTAGAAGATTGTTCGAGTTCTATACT
CCCTAAAAAGAGGGAGCGAACCCGTTT
Found at i:2680862 original size:364 final size:363
Alignment explanation
Indices: 2680191--2681380 Score: 1723
Period size: 364 Copynumber: 3.3 Consensus size: 363
2680181 TAGTGAAGCA
* * * *
2680191 GAAGAAGATGTCCGAGTTCCATACTCCCTAAATAGAGGGAGCGAACCCGTTAGAAGA-TGTCCGA
1 GAAGAAGATGTTCGAGTTCCATACTCCCTAAAGAGAGGGAGCGAACCCGTTTGAAGATTGTTCGA
* * * * ** *
2680255 GTTCTATACTCCCT-AGAGAAAGAGGGAGCAAACCCGTTCGAAGATTAT-T-CGAGTTCTATACT
66 GTTCTATAATTCCTGA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCAAGTTCTATACT
* * ** *
2680317 -TCTTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCCATACTCCCTAAAGAG
130 CCCTAG-AGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTTCGAGTTCCATACTCCCTAAAGAG
2680381 AGGGAACGAACCCGTTTGAAGATTGTTCGAGTTCTATACTTCCTAGAGAAAGAGGGAGCGAACCC
194 AGGGAACGAACCCGTTTGAAGATTGTTCGAGTTCTATACTTCCTA-AGAAAGAGGGAGCGAACCC
* * *
2680446 GTAAGAAGAAGATGTTTGAATTCCATACTCCCTAAAGAGAGGGAGTGAACCCGTTTGAAGATTAT
258 GTAAGAAGAAGATGTTCGAGTTCCATACTCCCTAAAGAGAGGGAGCGAACCCGTTTGAAGATT-T
*
2680511 TCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCATTT
322 TCGAGTTCTATACTTCCT-AAGAAAGAGGGAGCGAACCCGTTT
*
2680554 GAAGAAGATG-TCTGAGTTCCATACTCCCTAAAGAGAGGGAGCGAACCCGTTTGAAGATTATTCG
1 GAAGAAGATGTTC-GAGTTCCATACTCCCTAAAGAGAGGGAGCGAACCCGTTTGAAGATTGTTCG
2680618 AGTTCTATAATTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCAAGTTCTATACT
65 AGTTCTATAATTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCAAGTTCTATACT
*
2680683 CCCTAGAGAAAGAGGGAGCAAACCCGTAAGAAGAAGATGTTCGAGTTCCATACTCCCTAAAGAGA
130 CCCTAGAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTTCGAGTTCCATACTCCCTAAAGAGA
* * *
2680748 GGGAACGAACCCGTTTGAAGATT-TTCGAGTTGTATACTCCCTAATAAAGAGGGAGCGAACCCGT
195 GGGAACGAACCCGTTTGAAGATTGTTCGAGTTCTATACTTCCTAAGAAAGAGGGAGCGAACCCGT
2680812 AAGAAGAAGATGTTCGAGTTCCATACTCCCTAAAGAGAGGGAGCGAACCCGTTTGAAGATTGTTC
260 AAGAAGAAGATGTTCGAGTTCCATACTCCCTAAAGAGAGGGAGCGAACCCGTTTGAAGATT-TTC
**
2680877 GAGTTCTATACTTCCTAGAGAAAGAGGGAGCGAACCCGTAA
324 GAGTTCTATACTTCCTA-AGAAAGAGGGAGCGAACCCGTTT
*
2680918 GAAGAAGATGTTCGAGTTCCATACTCCCTAAAGAGAGGGAGCGAACCCGTTTAAAGATTGTTCGA
1 GAAGAAGATGTTCGAGTTCCATACTCCCTAAAGAGAGGGAGCGAACCCGTTTGAAGATTGTTCGA
*
2680983 GTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCAAGTTCTATACTC
66 GTTCTATAATTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCAAGTTCTATACTC
* *
2681048 CCTAGAGAAAGAGGGAGTGAACCCGTAAGAAGATGATGTTCGAGTTCCATACTCCCTAAAGAGAG
131 CCTAGAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTTCGAGTTCCATACTCCCTAAAGAGAG
*
2681113 GGAGCGAACCCGTTTGAAGATTGTTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGT
196 GGAACGAACCCGTTTGAAGATTGTTCGAGTTCTATACTTCCT-AAGAAAGAGGGAGCGAACCCGT
** * * * *
2681178 TTGAAGAAGATGTCCGAGTTCTATACTCCCTAGAGAAAGAGGGAACGAACCCGTTTGAAGATTTT
260 AAGAAGAAGATGTTCGAGTTCCATACTCCCTA-A-AGAGAGGGAGCGAACCCGTTTGAAGATTTT
* * *
2681243 CGAGTTGTATACTCCCTAATAAAGAGGGAGCGAACCCGTTT
323 CGAGTTCTATACTTCCTAAGAAAGAGGGAGCGAACCCGTTT
* * * * * *
2681284 GCAGAAGAAGTTCGAGTTCTATACTCCCTAAAAAAGAGGAAGCGAACTCGATGGTTGAAGATTGT
1 GAAGAAGATGTTCGAGTTCCATACTCCCT-AAAGAGAGGGAGCGAACCCG-T--TTGAAGATTGT
* *
2681349 TCGAG-TCTCAT-ACTCTCTGAAGAAATAGGGAG
62 TCGAGTTCT-ATAATTC-CTGAAGAAAGAGGGAG
2681381 TAGATACGTT
Statistics
Matches: 750, Mismatches: 59, Indels: 29
0.89 0.07 0.03
Matches are distributed among these distances:
362 1 0.00
363 53 0.07
364 369 0.49
365 39 0.05
366 185 0.25
367 39 0.05
368 27 0.04
369 5 0.01
370 32 0.04
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (363 bp):
GAAGAAGATGTTCGAGTTCCATACTCCCTAAAGAGAGGGAGCGAACCCGTTTGAAGATTGTTCGA
GTTCTATAATTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCAAGTTCTATACTC
CCTAGAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTTCGAGTTCCATACTCCCTAAAGAGAG
GGAACGAACCCGTTTGAAGATTGTTCGAGTTCTATACTTCCTAAGAAAGAGGGAGCGAACCCGTA
AGAAGAAGATGTTCGAGTTCCATACTCCCTAAAGAGAGGGAGCGAACCCGTTTGAAGATTTTCGA
GTTCTATACTTCCTAAGAAAGAGGGAGCGAACCCGTTT
Found at i:2681631 original size:3 final size:3
Alignment explanation
Indices: 2681623--2681658 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
2681613 TTGTCCGGGA
2681623 TAT TAT TAT TAT TAT TAT TA- TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2681659 ATAATAATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2687789 original size:35 final size:35
Alignment explanation
Indices: 2687706--2687790 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 35
2687696 CAAACACGGT
* *
2687706 AATCTTACATTT-CTGCTAAACCAATCAAACTCGAA
1 AATCTAACATTTCCTGCTAAACCAACCAAACTC-AA
*
2687741 AATCTTACA-TTCCTGCTAAACCAACCAAACAT-AA
1 AATCTAACATTTCCTGCTAAACCAACCAAAC-TCAA
2687775 AATAC-AACATTTCCTG
1 AAT-CTAACATTTCCTG
2687791 GTAATCTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
34 10 0.23
35 33 0.75
36 1 0.02
ACGTcount: A:0.41, C:0.27, G:0.05, T:0.27
Consensus pattern (35 bp):
AATCTAACATTTCCTGCTAAACCAACCAAACTCAA
Found at i:2687813 original size:20 final size:20
Alignment explanation
Indices: 2687788--2687839 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
2687778 ACAACATTTC
2687788 CTGGTAATCTTATATTCACA
1 CTGGTAATCTTATATTCACA
*
2687808 CTGGTAATCTTATATTCTCA
1 CTGGTAATCTTATATTCACA
*
2687828 CTGATAATCTTA
1 CTGGTAATCTTA
2687840 CTGGTAATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTATATTCACA
Found at i:2687848 original size:32 final size:32
Alignment explanation
Indices: 2687807--2687872 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
2687797 TTATATTCAC
*
2687807 ACTGGTAATCTTATA-TTCTCACTGATAATCTT
1 ACTGGTAATCTTATATTTCT-ACTAATAATCTT
2687839 ACTGGTAATCTTATATTTCTACTAATAATCTT
1 ACTGGTAATCTTATATTTCTACTAATAATCTT
2687871 AC
1 AC
2687873 ATTCTCACGG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 28 0.88
33 4 0.12
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (32 bp):
ACTGGTAATCTTATATTTCTACTAATAATCTT
Found at i:2687848 original size:52 final size:52
Alignment explanation
Indices: 2687788--2687889 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 52
2687778 ACAACATTTC
** * *
2687788 CTGGTAATCTTATA-TTCACACTGGTAATCTTATATTCTCACTGATAATCTTA
1 CTGGTAATCTTATATTTC-CACTAATAATCTTACATTCTCACGGATAATCTTA
*
2687840 CTGGTAATCTTATATTTCTACTAATAATCTTACATTCTCACGGATAATCT
1 CTGGTAATCTTATATTTCCACTAATAATCTTACATTCTCACGGATAATCT
2687890 CACATTCCGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 41 0.93
53 3 0.07
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (52 bp):
CTGGTAATCTTATATTTCCACTAATAATCTTACATTCTCACGGATAATCTTA
Found at i:2689689 original size:20 final size:20
Alignment explanation
Indices: 2689645--2689962 Score: 174
Period size: 20 Copynumber: 15.6 Consensus size: 20
2689635 AATGACCAAT
* *
2689645 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
2689664 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
2689684 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
2689704 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
2689724 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
2689744 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
2689765 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
2689788 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * * *
2689808 AGAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
2689828 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
2689848 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
2689868 AGAGTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
2689891 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * * *
2689911 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * *
2689931 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
*
2689951 AGAATCGCAACG
1 AAAATCGCAACG
2689963 GTCAAAAGAA
Statistics
Matches: 246, Mismatches: 41, Indels: 23
0.79 0.13 0.07
Matches are distributed among these distances:
19 17 0.07
20 186 0.76
21 14 0.06
23 29 0.12
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:2689841 original size:40 final size:40
Alignment explanation
Indices: 2689790--2689960 Score: 218
Period size: 40 Copynumber: 4.2 Consensus size: 40
2689780 TTTAGAAGAA
*
2689790 AATCGCAATGCGATTGATAGAATCGCAATGCGATTGATAG
1 AATCGCAATGCGATTGATAGAATCGCAATGCGATTGAGAG
*
2689830 AATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAG
1 AATCGCAATGCGATTGATAGAATCGCAATGCGATTGAGAG
* * *
2689870 AGTCGCAACGCGATTTAGA-AGAAAATCGCAATGCGACTGAGAG
1 AATCGCAATGCGA-TT-GATAG--AATCGCAATGCGATTGAGAG
* * * *
2689913 AATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAG
1 AATCGCAATGCGATTGATAGAATCGCAATGCGATTGAGAG
2689953 AATCGCAA
1 AATCGCAA
2689961 CGGTCAAAAG
Statistics
Matches: 114, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
40 74 0.65
41 6 0.05
42 4 0.04
43 30 0.26
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (40 bp):
AATCGCAATGCGATTGATAGAATCGCAATGCGATTGAGAG
Found at i:2689897 original size:83 final size:83
Alignment explanation
Indices: 2689810--2689962 Score: 234
Period size: 83 Copynumber: 1.8 Consensus size: 83
2689800 CGATTGATAG
* * * * * *
2689810 AATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAGTCG
1 AATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAGAATCG
2689875 CAACGCGATTTAGAAGAA
66 CAACGCGATTTAGAAGAA
* *
2689893 AATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATCG
1 AATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAGAATCG
2689958 CAACG
66 CAACG
2689963 GTCAAAAGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 62 1.00
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (83 bp):
AATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAGAATCG
CAACGCGATTTAGAAGAA
Found at i:2689901 original size:103 final size:103
Alignment explanation
Indices: 2689769--2689960 Score: 348
Period size: 103 Copynumber: 1.9 Consensus size: 103
2689759 GCTTCCAAGT
* * * *
2689769 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTGATAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
2689834 GCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAG
66 GCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAG
2689872 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
2689937 GCAATGCGATTTATAGAATCGCAA
66 GCAATGCGATTTATAGAATCGCAA
2689961 CGGTCAAAAG
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 85 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (103 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
GCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAG
Found at i:2690082 original size:5 final size:5
Alignment explanation
Indices: 2690054--2690094 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
2690044 CGTATTACCA
2690054 CGACC GCGACC GCGACC GCGACC CGACC CGACC CGACC CGA
1 CGACC -CGACC -CGACC -CGACC CGACC CGACC CGACC CGA
2690095 GACGAGACGG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.51
6 17 0.49
ACGTcount: A:0.20, C:0.54, G:0.27, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:2690094 original size:10 final size:11
Alignment explanation
Indices: 2690054--2690091 Score: 60
Period size: 12 Copynumber: 3.5 Consensus size: 11
2690044 CGTATTACCA
2690054 CGACCGCGACC
1 CGACCGCGACC
2690065 GCGACCGCGACC
1 -CGACCGCGACC
2690077 CGACC-CGACC
1 CGACCGCGACC
2690087 CGACC
1 CGACC
2690092 CGAGACGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.38
11 5 0.19
12 11 0.42
ACGTcount: A:0.18, C:0.55, G:0.26, T:0.00
Consensus pattern (11 bp):
CGACCGCGACC
Found at i:2690306 original size:20 final size:20
Alignment explanation
Indices: 2690281--2690346 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
2690271 TTACAATACT
*
2690281 TTGCGACTCTCTCAATCGCA
1 TTGCGACTCTATCAATCGCA
* * *
2690301 TTGCGATTCTATAAATCGCG
1 TTGCGACTCTATCAATCGCA
*
2690321 TTGCGACCCTATCAATCGCA
1 TTGCGACTCTATCAATCGCA
2690341 TTGCGA
1 TTGCGA
2690347 TTTTCTTCTA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (20 bp):
TTGCGACTCTATCAATCGCA
Found at i:2690336 original size:40 final size:42
Alignment explanation
Indices: 2690281--2690369 Score: 128
Period size: 40 Copynumber: 2.1 Consensus size: 42
2690271 TTACAATACT
* *
2690281 TTGCGACTCTCTCAATCGCATTGCGA-TTC-TATAAATCGCG
1 TTGCGACCCTATCAATCGCATTGCGATTTCTTATAAATCGCG
*
2690321 TTGCGACCCTATCAATCGCATTGCGATTTTCTTCTAAATCGCG
1 TTGCGACCCTATCAATCGCATTGCGA-TTTCTTATAAATCGCG
2690364 TTGCGA
1 TTGCGA
2690370 ACTTGGAAGC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
40 24 0.56
42 3 0.07
43 16 0.37
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (42 bp):
TTGCGACCCTATCAATCGCATTGCGATTTCTTATAAATCGCG
Found at i:2690408 original size:20 final size:20
Alignment explanation
Indices: 2690383--2690436 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
2690373 TGGAAGCTCG
*
2690383 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTGAA
*
2690403 CGTTGCGATTTTCTTTTTAA
1 CGTTGCGATTTTCTTTTGAA
2690423 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
2690437 AAATTGCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.19, G:0.19, T:0.52
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTGAA
Found at i:2690466 original size:19 final size:20
Alignment explanation
Indices: 2690423--2690473 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
2690413 TTCTTTTTAA
* *
2690423 CGTTGCGATTTTCTAAATTG
1 CGTTGCGATTTTCGAAATCG
*
2690443 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
2690462 CGTTGCGATTTT
1 CGTTGCGATTTT
2690474 ATTGGTCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:2694843 original size:20 final size:20
Alignment explanation
Indices: 2694814--2694851 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2694804 ATCATACCAT
*
2694814 ATTATCTCAAATTCTCTCAA
1 ATTATCTCAAATACTCTCAA
*
2694834 ATTATTTCAAATACTCTC
1 ATTATCTCAAATACTCTC
2694852 TGTTTAAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTATCTCAAATACTCTCAA
Found at i:2696712 original size:33 final size:30
Alignment explanation
Indices: 2696646--2696716 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
2696636 CATATATGAT
2696646 GCCGCCGCCTTTCCATTACCAGATGTCGCC
1 GCCGCCGCCTTTCCATTACCAGATGTCGCC
* *
2696676 GCCGCCGCCTTTCCATTACTAGATGTCGTC
1 GCCGCCGCCTTTCCATTACCAGATGTCGCC
*
2696706 GTCGCCGCCTT
1 GCCGCCGCCTT
2696717 CAACTGATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.11, C:0.41, G:0.21, T:0.27
Consensus pattern (30 bp):
GCCGCCGCCTTTCCATTACCAGATGTCGCC
Found at i:2697230 original size:26 final size:24
Alignment explanation
Indices: 2697159--2697230 Score: 69
Period size: 26 Copynumber: 3.0 Consensus size: 24
2697149 TTATATTTGT
2697159 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
* *
2697184 ATTT--TTTATTAT-TTATCATTTA
1 ATTTACTTTATTTTGTTA-AATTTA
2697206 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
2697231 GTTGGATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
22 7 0.19
23 10 0.27
24 2 0.05
25 4 0.11
26 11 0.30
27 3 0.08
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:2697296 original size:35 final size:33
Alignment explanation
Indices: 2697256--2697340 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
2697246 GTATTTCAGT
2697256 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAAT-TC--TTATTG
*
2697291 TAATTTGGTTATCATTTACCATTTAATTCTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATTCTTATTG
* *
2697326 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
2697341 TAAATACCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 3 0.07
38 12 0.28
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATTCTTATTG
Found at i:2700994 original size:51 final size:50
Alignment explanation
Indices: 2700878--2700994 Score: 112
Period size: 51 Copynumber: 2.3 Consensus size: 50
2700868 GTATAACGCT
* ** * *
2700878 GAGCAGGGGCGCGCTATACCCACGTGTAAGCCATGTCAACGTATGGCGTG
1 GAGCAGGGGCGCGCTATACCCACGTGGAAGCCAAATCAACATATAGCGTG
* * *
2700928 GTA-CAGGGGGTGCGCTATACCCCACGTGGCA-CCAAATCAGCATATAGCGTG
1 G-AGCA-GGGGCGCGCTATA-CCCACGTGGAAGCCAAATCAACATATAGCGTG
2700979 GAGCAGGGAGCGCGCT
1 GAGCAGGG-GCGCGCT
2700995 TTACTGCTAC
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
50 7 0.13
51 37 0.70
52 9 0.17
ACGTcount: A:0.23, C:0.26, G:0.34, T:0.16
Consensus pattern (50 bp):
GAGCAGGGGCGCGCTATACCCACGTGGAAGCCAAATCAACATATAGCGTG
Found at i:2704462 original size:30 final size:27
Alignment explanation
Indices: 2704423--2704488 Score: 78
Period size: 30 Copynumber: 2.3 Consensus size: 27
2704413 TATTAAAAAA
*
2704423 TTAAATAATACATATATATTATATTTATTT
1 TTAAATAATACATAT-TATT-TAATT-TTT
* *
2704453 TTTAATAATATATATTATTTAATTTTT
1 TTAAATAATACATATTATTTAATTTTT
2704480 TTAAATAAT
1 TTAAATAAT
2704489 TTATTAATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 11 0.34
28 4 0.12
29 4 0.12
30 13 0.41
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (27 bp):
TTAAATAATACATATTATTTAATTTTT
Found at i:2704471 original size:24 final size:28
Alignment explanation
Indices: 2704428--2704480 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 28
2704418 AAAAATTAAA
2704428 TAATACATATATATTATATTT-ATTTTT
1 TAATACATATATATTATATTTAATTTTT
2704455 TAATA-ATATATA-T-TATTTAATTTTT
1 TAATACATATATATTATATTTAATTTTT
2704480 T
1 T
2704481 TAAATAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 5 0.20
25 8 0.32
26 7 0.28
27 5 0.20
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (28 bp):
TAATACATATATATTATATTTAATTTTT
Found at i:2704483 original size:26 final size:26
Alignment explanation
Indices: 2704428--2704480 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
2704418 AAAAATTAAA
*
2704428 TAATACATATATATTATATTTATTTTT
1 TAATA-ATATATATTATATTAATTTTT
2704455 TAATAATATATATTAT-TTAATTTTT
1 TAATAATATATATTATATTAATTTTT
2704480 T
1 T
2704481 TAAATAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.36
26 11 0.44
27 5 0.20
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TAATAATATATATTATATTAATTTTT
Found at i:2707212 original size:22 final size:21
Alignment explanation
Indices: 2707178--2707230 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
2707168 ATAATTATTT
*
2707178 AAAAA-ATTAAATAAAAATACC
1 AAAAACATTTAATAAAAAT-CC
*
2707199 AAAAACATTTAATAAAAATCT
1 AAAAACATTTAATAAAAATCC
2707220 AAAAACATTTA
1 AAAAACATTTA
2707231 GGTTGAACCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAAACATTTAATAAAAATCC
Found at i:2730670 original size:24 final size:24
Alignment explanation
Indices: 2730625--2730676 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2730615 GAACGAAGAG
*
2730625 GTCTACGAATTGGAGAGCGGCTCC
1 GTCTACGAATTGGAGAGCGGCTAC
*
2730649 GTCTACGAATTGGTGGAG-GGCTAC
1 GTCTACGAATTGG-AGAGCGGCTAC
2730673 GTCT
1 GTCT
2730677 CCGATTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.19, C:0.21, G:0.35, T:0.25
Consensus pattern (24 bp):
GTCTACGAATTGGAGAGCGGCTAC
Found at i:2735804 original size:59 final size:59
Alignment explanation
Indices: 2735694--2735806 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 59
2735684 CAATTGAAGT
* **
2735694 AAACTAGAACAATGAGCATAAATTGAGTTCCTTCTGTCTCTCTGTTAGTCTGTCATCCG
1 AAACTAGAACAATGAGCATAAATTGAGTTCCTTCTATCTCTCCCTTAGTCTGTCATCCG
*
2735753 AAACTAGAACAATGAGCATAAATTGAGTTCCTTCTATCTGTCCCTCT-GTCTGTC
1 AAACTAGAACAATGAGCATAAATTGAGTTCCTTCTATCTCTCCCT-TAGTCTGTC
2735807 TGTCATCCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
59 48 0.98
60 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (59 bp):
AAACTAGAACAATGAGCATAAATTGAGTTCCTTCTATCTCTCCCTTAGTCTGTCATCCG
Found at i:2738584 original size:2 final size:2
Alignment explanation
Indices: 2738577--2738603 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2738567 TATTATTGAC
2738577 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 T
2738604 CTTTCAGGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2740192 original size:21 final size:20
Alignment explanation
Indices: 2740158--2740213 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
2740148 TTAAGCCAGT
* *
2740158 TACATTTTCTCATAAACTTA
1 TACATTGTCTCATAAACATA
*
2740178 TACGTTGTACTCAT-AACATA
1 TACATTGT-CTCATAAACATA
2740198 TACATTGTCTCATAAA
1 TACATTGTCTCATAAA
2740214 ATAAAATCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 5 0.17
20 20 0.67
21 5 0.17
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (20 bp):
TACATTGTCTCATAAACATA
Found at i:2742410 original size:127 final size:126
Alignment explanation
Indices: 2742273--2742529 Score: 435
Period size: 127 Copynumber: 2.0 Consensus size: 126
2742263 AAAAATACTA
*
2742273 TTTT-AAATAAAAATAATAATATATAGAATTGACATCGTAAAATTGAAATATAAAGATTAAATTT
1 TTTTAAAATAAAAATAATAATATATAGAATTGAAATCGTAAAATTGAAATATAAAGATTAAATTT
* * *
2742337 TAAAATTAAAATTGTACAGATATTAGTGGCATGTTATAAATTTTCTATTGGTCTCTCGGTAT
66 TAAAATTAAAATTGTACAAATATTAGTGGCATGTTATAAATTTTCTATTGGTATCTCAGT-T
*
2742399 TTTTAAAATAAAAATAATAATATATAGAATTGAAATCGTAAATTTGAAATATAAAGATTAAATTT
1 TTTTAAAATAAAAATAATAATATATAGAATTGAAATCGTAAAATTGAAATATAAAGATTAAATTT
* *
2742464 TAAAATTAAAATTGTACAAATGTTAGTGGCATGTTATAATTTTTCTATTGGTATCTCAGTT
66 TAAAATTAAAATTGTACAAATATTAGTGGCATGTTATAAATTTTCTATTGGTATCTCAGTT
2742525 TTTTA
1 TTTTA
2742530 TGACTTTATC
Statistics
Matches: 123, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
126 10 0.08
127 113 0.92
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.40
Consensus pattern (126 bp):
TTTTAAAATAAAAATAATAATATATAGAATTGAAATCGTAAAATTGAAATATAAAGATTAAATTT
TAAAATTAAAATTGTACAAATATTAGTGGCATGTTATAAATTTTCTATTGGTATCTCAGTT
Found at i:2752559 original size:120 final size:120
Alignment explanation
Indices: 2752216--2756411 Score: 6775
Period size: 120 Copynumber: 35.0 Consensus size: 120
2752206 CAAATTGACT
* * *
2752216 AAAACTTAGCAAAAGGAAACCATTCCTTAAATTTATTTCCCTGACTTAATCGTTTACAAAGATGT
1 AAAACTTAGC-AAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGT
*
2752281 GGCC-AACTCTATCTATAGGACGGTTCTATGACTTCCAACATAAACTAAACTAGGA
65 GGCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
** * *
2752336 AAAACTTAGCAAAGGAAATCATTTCTTAAATTTATTT-CCCGACTTAATTGTTTAGAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
2752400 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACAT-AACTAAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACT-AAACTAGGA
2752455 AAAACTTAGCGAAA-GAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGT
1 AAAACTTAGC-AAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGT
* * *
2752519 GGCCTAACTCTATTTATAGGTCGGTTCTATGACTTCCAACATAAATTAAACTAGGA
65 GGCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
* *
2752575 AAAACTTAGCAAAGGAAGTCATTTCTTAAATTTATTTCCCTGACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* *
2752640 GCCTAACTCTATCTATAGGTCGGTTCTATGACTTCCAACATAAATTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
* **
2752695 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTT-CCCGACGTAATTTTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* *
2752759 GCCTAACTCTATCTGTAGGCCGGTTCTATGACTTCCAACATAAATTAAACTAGG-
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
* *
2752813 AAAACTTAGCAAATGAAGCTATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* * *
2752878 GCCTAACTCTGTCTATAGGCCGGTTTTATTACTTCCAACATAAACTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
*
2752933 AAAACTTAGCAAAGGAAGTCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* * *
2752998 GCCTAACTCTATCTACAGGTCGGTTCTATTACTTCCAACATAAACTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
*
2753053 AAAACTTAACAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* *
2753118 GCATAACTCTATCTATAGGCTGGTTCTATGACTTCCAACATAAACTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
* *
2753173 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCTCGACTTAATTGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* *
2753238 GCCTAACTCTATCTATAGGCAGATTCTATGACTTCCAACAT-AACTTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAAC-TAAACTAGGA
* * *
2753293 AAAAATTAGCAAAGGAAGTCATTTCTTAAATTTATTTCCCTGACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* * *
2753358 GCCTAACTCTATCTATAGGTCAGTTCTATGACTTCCAACATAAATTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
* *
2753413 AAAACTTAGCAAAGGAAGTCATTCCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* ** *
2753478 GCATAACTCTATCTATAGGTTGCTTCTATGACTTCCAACATAAACTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
*
2753533 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCTCGACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* *
2753598 GCATAACTCTATCTATAGGCTGGTTCTATGACTTCCAACATAAACTAAACTAGG-
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
* *
2753652 AAAGCTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATTGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
2753717 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACAT-AACTTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAAC-TAAACTAGGA
**
2753772 AAAACTTAGCAAAGGAAGTAATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* ** *
2753837 GCATAACTCTATCTATAGGTTGCTTCTATGACTTCCAACATAAACTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
*
2753892 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTACTTCCCCGACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* * * * *
2753957 GCATAACTCTATCTATAGGTCGGTTCTATGACATCCAGCATAAACTAAACTACGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
2754012 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
** **
2754077 GCCTAACTCTATCTATAGGTTGGTTCTATGACTTCCAACATAATTTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
* *
2754132 AAAACTTAGCAAAGGAAGTCATTTCTTAAATTTATTTCCCCGACTTAATCTTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* * ** *
2754197 ACATAACTCTATCTATAGGTTGCTTCTATGACTTCCAACATAAACTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
2754252 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
*
2754317 GCATAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
* *
2754372 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTTCCCGACTTAATTGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* * * *
2754437 GCCTAATTTTATCTATAGGCTGATTCTATGACTTCCAACAT-AACTTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAAC-TAAACTAGGA
**
2754492 AAAACTTAGCAAAGGAAGTAATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* * ** *
2754557 GCATAACTATATCTATAGGTTGCTTCTATGACTTCCAACATAAACTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
*
2754612 AAAACTTAGCAAAGGAAGTCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* * *
2754677 GCATAACTCTATCTATAGGCCGGTTTTATGACTTCCAGCATAAACTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
** *
2754732 AAAACTTAGCAAAGGAAAACATTTCTTAAATTTATTTCCCCGACTTAATTGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* * *
2754797 GCCTAACTCTAACTATAGGCCGATTCTATGACTTCCAACGT-AACTTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAAC-TAAACTAGGA
2754852 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
*
2754917 GCATAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
*
2754972 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATTGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
*
2755037 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACAT-AACTTAAACTAGAA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAAC-TAAACTAGGA
** *
2755092 AAAACTTAGCAAAGGAAGTAATTTCTTAAATTTATTTCCCCGACTTAATCGATTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* * ** *
2755157 GCATAACTCTTTCTATAGGTTGCTTCTATGACTTCCAACATAAACTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
*
2755212 AAAACTTAGCAAAGGAAGTCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* * *
2755277 GCATAACTCTATCTATAGGCCGATTCTATGACTTCCAGCATAAACTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
* *
2755332 AAAACTTAGCAAGGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATTGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
*
2755397 GCCTAACTCTATCTATAGGTCGGTTCTATGACTTCCAACAT-AACTTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAAC-TAAACTAGGA
* **
2755452 AAAACTTAGCAAATGAAGTAATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* * *
2755517 GCATAACTCTATCTATAGGCTGGTTCTATGACTTCTAACATAAACTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
* *
2755572 AAAACTTAGCAAAGGAAGTCATTTCTTAAATTTATTTCCTCGACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* *
2755637 GCCTAACTCTATCTATAGGTCGGTTCTATGACTTCCAACATAAACTAAAGTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
*
2755692 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATTGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* *
2755757 GCCTAACTCTATCTATAGGCCAGTTCTATGACTTCCAACATAAACTAAACTAAGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
* **
2755812 AAAACTTAGCAAAGGAAGTCATTTCTTAAATTTATTTCCCTAACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* *
2755877 GCCTAACTCTATCTATAGGCTGGTTCTATGACTTCCAACATAAATTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
* * * *
2755932 AAAACTTATCAAAGAAAGTCATTTCTTAAATTTATTTCCCCGACTTATTCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* *
2755997 GCATAACTCTATCTATAGGTCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
* * * *
2756052 AAAACTTAACAAAGGAAGTCATTTTTTAAATTTATTTCCCCGACTTAATCGATTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
*
2756117 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAATTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
2756172 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* * * *
2756237 ACCTAACTCTATCTGTAGGCCAGTTCTATGACTTCCAACATGAACTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
* ** * * *
2756292 AACACTTATTAAAGGAAGCTATTTCTTAAA-TT-TTTCCCCAACTAAATCGTTTACAAAGATGTG
1 AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
* *
2756355 GCCTAACTTTATCTATAGGCCAGTTCTATGACTTCCAACATAAACTAAACTAGGA
66 GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
2756410 AA
1 AA
2756412 TTATAAACCA
Statistics
Matches: 3803, Mismatches: 252, Indels: 44
0.93 0.06 0.01
Matches are distributed among these distances:
118 151 0.04
119 379 0.10
120 3253 0.86
121 20 0.01
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (120 bp):
AAAACTTAGCAAAGGAAGCCATTTCTTAAATTTATTTCCCCGACTTAATCGTTTACAAAGATGTG
GCCTAACTCTATCTATAGGCCGGTTCTATGACTTCCAACATAAACTAAACTAGGA
Found at i:2764237 original size:2 final size:2
Alignment explanation
Indices: 2764232--2764259 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2764222 AAAATAAATG
2764232 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
2764260 AATTATCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2769361 original size:29 final size:29
Alignment explanation
Indices: 2769302--2769392 Score: 86
Period size: 28 Copynumber: 3.2 Consensus size: 29
2769292 TGATTAATTT
*
2769302 TAATGATAA-AAATTAAT-ACTATTTATTA
1 TAAT-ATAATAAATTAATAATTATTTATTA
*
2769330 TAATA-GATCAAATTAATAATTATTT-TTAA
1 TAATATAAT-AAATTAATAATTATTTATT-A
2769359 TAATATAATAAATTTAATAATTA-TTA-TA
1 TAATATAATAAA-TTAATAATTATTTATTA
2769387 TAATAT
1 TAATAT
2769393 TTTTTGAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 21 0.40
29 18 0.34
30 12 0.23
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
TAATATAATAAATTAATAATTATTTATTA
Found at i:2771325 original size:24 final size:24
Alignment explanation
Indices: 2771298--2771343 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
2771288 CTATCCATAA
2771298 CAAA-TCTATTTGAGTTTTTTCTTC
1 CAAATTCTATTTGA-TTTTTTCTTC
* *
2771322 CAAATTTTATTTTATTTTTTCT
1 CAAATTCTATTTGATTTTTTCT
2771344 ATAATCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.22, C:0.13, G:0.04, T:0.61
Consensus pattern (24 bp):
CAAATTCTATTTGATTTTTTCTTC
Found at i:2774706 original size:2 final size:2
Alignment explanation
Indices: 2774699--2774729 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2774689 AATATGGATG
2774699 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
2774730 TTATTTTAAA
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:2776466 original size:46 final size:47
Alignment explanation
Indices: 2776412--2776501 Score: 155
Period size: 46 Copynumber: 1.9 Consensus size: 47
2776402 TCGAATAAAT
*
2776412 GCATGCGAACTAGATATCATGCGGTTAGG-TTTATTTTTTTGAACAA
1 GCATGCGAACTAGATATCATGCGGTTAGGATTTATTTTTGTGAACAA
*
2776458 GCATGCGAATTAGATATCATGCGGTTAGGATTTATTTTTGTGAA
1 GCATGCGAACTAGATATCATGCGGTTAGGATTTATTTTTGTGAA
2776502 TAACAAAGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
46 28 0.68
47 13 0.32
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (47 bp):
GCATGCGAACTAGATATCATGCGGTTAGGATTTATTTTTGTGAACAA
Found at i:2786201 original size:19 final size:18
Alignment explanation
Indices: 2786153--2786209 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
2786143 AAGAAGAAAT
*
2786153 AAAA-GAGAAAAAAATGA
1 AAAATGAGAAAAAAACGA
2786170 GAAAATGAG-AAAAAA-GA
1 -AAAATGAGAAAAAAACGA
2786187 AAAATGATGGAAAAAAACGA
1 AAAATGA--GAAAAAAACGA
2786207 AAA
1 AAA
2786210 GGAAAAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.21
17 2 0.06
18 11 0.32
19 9 0.26
20 5 0.15
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.07
Consensus pattern (18 bp):
AAAATGAGAAAAAAACGA
Found at i:2786202 original size:18 final size:18
Alignment explanation
Indices: 2786161--2786193 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
2786151 ATAAAAGAGA
2786161 AAAAAATGAGAAAATGAG
1 AAAAAATGAGAAAATGAG
2786179 AAAAAA-GA-AAAATGA
1 AAAAAATGAGAAAATGA
2786194 TGGAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (18 bp):
AAAAAATGAGAAAATGAG
Found at i:2786234 original size:19 final size:19
Alignment explanation
Indices: 2786143--2786247 Score: 69
Period size: 19 Copynumber: 5.7 Consensus size: 19
2786133 ATTTTGCTTG
*
2786143 AAGAAGAAATAAAAGAGAAAA
1 AAGAAGAAA-AAATG-GAAAA
* *
2786164 AA-ATGAGAAAATGAGAAAA
1 AAGAAGAAAAAATG-GAAAA
**
2786183 AAGAA-AAATGATGGAAAA
1 AAGAAGAAAAAATGGAAAA
*
2786201 AA-ACG--AAAA-GGAAAA
1 AAGAAGAAAAAATGGAAAA
2786216 AAGAAGAAAAAATGGAAAA
1 AAGAAGAAAAAATGGAAAA
**
2786235 GGGAAGAAAAAAT
1 AAGAAGAAAAAAT
2786248 AAAAATGAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
15 8 0.12
16 4 0.06
17 1 0.02
18 11 0.17
19 34 0.52
20 5 0.08
21 2 0.03
ACGTcount: A:0.70, C:0.01, G:0.22, T:0.07
Consensus pattern (19 bp):
AAGAAGAAAAAATGGAAAA
Found at i:2786261 original size:20 final size:20
Alignment explanation
Indices: 2786238--2786294 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
2786228 TGGAAAAGGG
2786238 AAGAAAAAATAAAA-ATGAAA
1 AAGAAAAAATAAAAGA-GAAA
*
2786258 AAGAAAAATTAAAAGAGAAA
1 AAGAAAAAATAAAAGAGAAA
*
2786278 AAAAAGAGAAATAAAAG
1 AAGAA-A-AAATAAAAG
2786295 GAGGGTTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 21 0.68
21 2 0.06
22 8 0.26
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (20 bp):
AAGAAAAAATAAAAGAGAAA
Found at i:2786265 original size:62 final size:62
Alignment explanation
Indices: 2786153--2786284 Score: 139
Period size: 62 Copynumber: 2.1 Consensus size: 62
2786143 AAGAAGAAAT
* **
2786153 AAAAG-AGAAAAAAATGAGAAAATGAGAAAAAAGAAAAATGATGGAAAAAAACGAAAAG-GAA
1 AAAAGAAG-AAAAAATGAGAAAAGGAGAAAAAAGAAAAATGATAAAAAAAAACGAAAAGAGAA
* **
2786214 AAAAGAAGAAAAAATG-GAAAAGGGAAGAAAAAATAAAAATGA-AAAAGAAAAATTAAAAGAGAA
1 AAAAGAAGAAAAAATGAGAAAA-GG-AGAAAAAAGAAAAATGATAAAA-AAAAACGAAAAGAGAA
2786277 AAAA-AAGA
1 AAAAGAAGA
2786285 GAAATAAAAG
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
60 5 0.08
61 16 0.27
62 32 0.53
63 7 0.12
ACGTcount: A:0.73, C:0.01, G:0.20, T:0.07
Consensus pattern (62 bp):
AAAAGAAGAAAAAATGAGAAAAGGAGAAAAAAGAAAAATGATAAAAAAAAACGAAAAGAGAA
Found at i:2788057 original size:55 final size:51
Alignment explanation
Indices: 2787603--2788333 Score: 847
Period size: 51 Copynumber: 13.9 Consensus size: 51
2787593 GAAGCAAATT
* *
2787603 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCAGACA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
*
2787654 AGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* *
2787705 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* *
2787756 AGTTTGTCGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* *
2787807 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* *
2787858 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* *
2787909 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * * *
2787960 CGTTTATTGAAGATCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACC
1 CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * * **
2788011 CGTTTGTTGAAGATTATTCGAGTCTTATACTCCCTGAACGAATAGGGAGCAAACA
1 CGTTTGTTGAAG---ATT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* *
2788066 CGTTTGTTGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACC
1 CGTTTGTTGAAGATTG----AGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * * *
2788121 CGTTTGTTGAAGATTATTCGAGTCTTATACTCCCTGAACGAATAGGGAGCAGACA
1 CGTTTGTTGAAG---ATT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * * *
2788176 CGTTTGTTGAAGATTGTTCAAGTCTTATACTCTCTGAATGAATAGAGAGCAGACA
1 CGTTTGTTGAAGATTG----AGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* * * * *
2788231 CATTT-TATGAAGATTGTTCAAGTCTTATACTCTCTGAATGAATAGAGAGCAGACA
1 CGTTTGT-TGAAGATTG----AGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
* *
2788286 CATTT-TATGAAGATTGTTCGAGTCTTATACT-TCCTGAAGGAATAGGGA
1 CGTTTGT-TGAAGA---TT-GAGTCCTATACTCT-CTGAAGGAATAGGGA
2788334 ACAGACTCGT
Statistics
Matches: 622, Mismatches: 36, Indels: 40
0.89 0.05 0.06
Matches are distributed among these distances:
51 356 0.57
52 6 0.01
54 4 0.01
55 249 0.40
58 5 0.01
59 2 0.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (51 bp):
CGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
Found at i:2790113 original size:2 final size:2
Alignment explanation
Indices: 2790106--2790182 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
2790096 AATATGGATG
2790106 TA TA TA TA 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 TA TA TA TA
2790148 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
2790183 TTATTTTAAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2793320 original size:17 final size:18
Alignment explanation
Indices: 2793298--2793332 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2793288 CAATAATATT
2793298 ATATAAT-TAAAATAAAA
1 ATATAATATAAAATAAAA
*
2793315 ATATAATATAATATAAAA
1 ATATAATATAAAATAAAA
2793333 CTAGCATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATATAATATAAAATAAAA
Found at i:2795835 original size:26 final size:27
Alignment explanation
Indices: 2795783--2795837 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
2795773 TTAAAAGACA
*
2795783 ATAATTTTTCAAAAATATATGAAATTT
1 ATAATTTTTCAAAAATATATAAAATTT
*
2795810 ATAATTTTT-AAAATTATA-AAATATTT
1 ATAATTTTTCAAAAATATATAAA-ATTT
2795836 AT
1 AT
2795838 TATTATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.08
26 14 0.56
27 9 0.36
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
ATAATTTTTCAAAAATATATAAAATTT
Found at i:2802716 original size:7 final size:7
Alignment explanation
Indices: 2802704--2802728 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2802694 ACTCTTTTGT
2802704 TTTCCCC
1 TTTCCCC
2802711 TTTCCCC
1 TTTCCCC
2802718 TTTCCCC
1 TTTCCCC
2802725 TTTC
1 TTTC
2802729 TTTACTCTTG
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (7 bp):
TTTCCCC
Found at i:2818257 original size:16 final size:16
Alignment explanation
Indices: 2818236--2818266 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2818226 GTCGAGCGTG
*
2818236 GATGAGCACCGTTAAC
1 GATGAGCACCATTAAC
2818252 GATGAGCACCATTAA
1 GATGAGCACCATTAA
2818267 ATTAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (16 bp):
GATGAGCACCATTAAC
Found at i:2820458 original size:22 final size:22
Alignment explanation
Indices: 2820417--2820467 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
2820407 AATTTTTAAC
*
2820417 TAATTTATAATTATATGTTT-A
1 TAATTTATAATTATACGTTTGA
2820438 GTAATTTATAAATT-TACGTTTGA
1 -TAATTTAT-AATTATACGTTTGA
2820461 TAATTTA
1 TAATTTA
2820468 ATTTAATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (22 bp):
TAATTTATAATTATACGTTTGA
Found at i:2828709 original size:84 final size:82
Alignment explanation
Indices: 2828525--2830229 Score: 1524
Period size: 84 Copynumber: 20.6 Consensus size: 82
2828515 GGCTACCTGC
* * * * *
2828525 CACC-AAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACACCATTTGCAGTATAGCTTAAG
1 CACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAG
* *
2828589 TCGAGAAGAGCTATCTG
66 TCGAGAAGGGTTATCTG
* * * * * * *
2828606 --CCAAAGACCCTT-AAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCA
1 CACCAAAGA-CCTTCGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTTA
* *
2828668 AGGCTAGAAGGGTTATCTG
64 AGTCGAGAAGGGTTATCTG
* * *
2828687 TCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAA
1 -CACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAA
* *
2828752 GTCTAGAAGGGTTGTCTG
65 GTCGAGAAGGGTTATCTG
* * *
2828770 CCAACACAAGACCTTTGAGTTCGACTATGCTCAGC-TCAACGGCACATCATTTGCAGCATAACTT
1 -CACCA-AAGACCTTCGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTT
2828834 AAGTCGAGAAGGGTTATCTG
63 AAGTCGAGAAGGGTTATCTG
* * * *
2828854 CCAACACAAGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTTGCAGTATAGCTT
1 -CACCA-AAGACCTTCGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTT
*
2828918 AAGTCGAGAAGGGCTATCTG
63 AAGTCGAGAAGGGTTATCTG
** * * * * *
2828938 --CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAA
1 CACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAA
*
2829001 GGT-TAGAAGGGTTATCTG
65 -GTCGAGAAGGGTTATCTG
* * * * *
2829019 TGACCAAAAGATCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTG
1 -CACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTT-
* *
2829084 AA-TCTAGAAGGGTTGTCTG
63 AAGTCGAGAAGGGTTATCTG
* * * *
2829103 CCAACCAAAAACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTTGCAGTATAGCTT
1 -C-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTT
*
2829167 AAGTCGAGAAGGGCTATCTG
63 AAGTCGAGAAGGGTTATCTG
** * * * * *
2829187 --CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAA
1 CACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAA
* *
2829250 GGCTAGAAGGGTTATCTG
65 GTCGAGAAGGGTTATCTG
* * * * * ** *
2829268 TGACCAAAAGATCTTCGAGTTCGACTACGCTCAGCTCCAAGGAATATCATTTGCAATACAACTTG
1 -CACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTT-
* *
2829333 AA-TCTAGAAGGGTTGTCTG
63 AAGTCGAGAAGGGTTATCTG
* * * * * *
2829352 CCAACCAAAAACCTTTGAGTTCGACTACACTCAGC-TCAACGTCACATCATTTGCAGTATAGCTT
1 -C-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTT
*
2829416 AAGTCGAGAAGGGCTATCTG
63 AAGTCGAGAAGGGTTATCTG
** * * * * *
2829436 --CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCAAGGGCATATTCATTTACAGCATAACTCA
1 CACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCAA-GGCACA-TCATTTGCAGCATAACTTA
* *
2829499 AGGCTAGAAGGGTTATCTG
64 AGTCGAGAAGGGTTATCTG
* * * * *
2829518 TGACCAAAAGATCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTG
1 -CACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTT-
* *
2829583 AA-TCTAGAAGGGTTGTCTG
63 AAGTCGAGAAGGGTTATCTG
* * *
2829602 CCAACCAAAGACCTTTGAGTTCGACTATGCTCAGC-TCAACGGCACATCATTTGCAGCATAGCTT
1 -C-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTT
* *
2829666 AAGTCGATAAGGGCTATCTG
63 AAGTCGAGAAGGGTTATCTG
** * * * * *
2829686 --CCAAAGACCCCCGAGTTCGA-TCACACTCAGCTTCGAGGGCACATGATTTGCAGTATAAATTA
1 CACCAAAGACCTTCGAGTTCGACT-ACGCTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTA
*
2829748 AGTCAAGAAGGGTTATCTG
64 AGTCGAGAAGGGTTATCTG
* * * *
2829767 CTAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTA
1 C--ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTA
*
2829832 AGTCGAGAAGGGCTATCTG
64 AGTCGAGAAGGGTTATCTG
** * * * *
2829851 --CCAAAGACCCCCGAGTTCGA-TCACACTCAGCTTCGAGGGCACATGATTTGCAGTATAACTTA
1 CACCAAAGACCTTCGAGTTCGACT-ACGCTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTA
*
2829913 AGTCAAGAAGGGTTATCTG
64 AGTCGAGAAGGGTTATCTG
* * * *
2829932 CTAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGACACATCATTTGCAGCATAGCTTA
1 C--ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTA
*
2829997 AGTCGAGAAGGGCTATCTG
64 AGTCGAGAAGGGTTATCTG
** * * * * * * *
2830016 --CCAAAGACCCCCGAGTTTGATTACACTCAGCTTCGAGGGCACATTATTTGCAGCATACCTGAA
1 CACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAA
*
2830079 GTCGAGAAGGGTTGTCTG
65 GTCGAGAAGGGTTATCTG
* * * *
2830097 CCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAGCACAACTTA
1 -C-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTA
*
2830162 AGTCGAGAAGGGCTATCTG
64 AGTCGAGAAGGGTTATCTG
** * * * * *
2830181 --CCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGTCATATCATTT
1 CACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGG-CACATCATTT
2830230 ACAACATAGC
Statistics
Matches: 1315, Mismatches: 247, Indels: 124
0.78 0.15 0.07
Matches are distributed among these distances:
79 4 0.00
80 205 0.16
81 252 0.19
82 36 0.03
83 65 0.05
84 567 0.43
85 156 0.12
86 30 0.02
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (82 bp):
CACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAG
TCGAGAAGGGTTATCTG
Found at i:2829075 original size:249 final size:249
Alignment explanation
Indices: 2828529--2830254 Score: 1981
Period size: 249 Copynumber: 6.9 Consensus size: 249
2828519 ACCTGCCACC
* * * *
2828529 AAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACACCATTTGCAGTATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
* * * * * * * * * *
2828594 AAGAGCTATCTG----CCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTT
66 AAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTT
* * * * * * * ** * *
2828655 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAG
130 GCAGTATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGATTACACTCAG
* * * * * * * ** * *
2828720 C-TCCAAGGCATATCATTTGCAGCACAACTTAA-GTCTAGAAGGGTTGTCTGCCAACAC
192 CTTCGAGGGCACATCATTTACAGCATAACTCAAGGT-TAGAAGGGTTATCTGTGACCAA
* *
2828777 AAGACCTTTGAGTTCGACTATGCTCAGCT-CAACGGCACATCATTTGCAGCATAACTTAAGTCGA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGA
*
2828841 GAAGGGTTATCTGCCAA-CACAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATT
65 GAAGGGTTGTCTGCCAACCA-AAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATT
2828905 TGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCT
129 TGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCT
2828970 TCGAGGGCACATCATTTACAGCATAACTCAAGGTTAGAAGGGTTATCTGTGACCAA
194 TCGAGGGCACATCATTTACAGCATAACTCAAGGTTAGAAGGGTTATCTGTGACCAA
* * * *
2829026 AAGATCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTT-AAGTCGA
*
2829090 GAAGGGTTGTCTGCCAACCAAAAACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTT
65 GAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTT
2829155 GCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTT
130 GCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTT
*
2829220 CGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
195 CGAGGGCACATCATTTACAGCATAACTCAAGGTTAGAAGGGTTATCTGTGACCAA
* * * ** * *
2829275 AAGATCTTCGAGTTCGACTACGCTCAGCTCCAAGGAATATCATTTGCAATACAACTTGAA-TCTA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTT-AAGTCGA
* * *
2829339 GAAGGGTTGTCTGCCAACCAAAAACCTTTGAGTTCGACTACACTCAGCTCAACGTCACATCATTT
65 GAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTT
2829404 GCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTT
130 GCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTT
* * *
2829469 CAAGGGCATATTCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
195 CGAGGGCACA-TCATTTACAGCATAACTCAAGGTTAGAAGGGTTATCTGTGACCAA
* * * *
2829525 AAGATCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTT-AAGTCGA
*
2829589 GAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTATGCTCAGCTCAACGGCACATCATTT
65 GAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTT
* * *
2829654 GCAGCATAGCTTAAGTCGATAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATCACACTCAGCTT
130 GCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTT
* * * * * * *
2829719 CGAGGGCACATGATTTGCAGTATAAATTAA-GTCAAGAAGGGTTATCTGCT-AACAA
195 CGAGGGCACATCATTTACAGCATAACTCAAGGT-TAGAAGGGTTATCTG-TGACCAA
* *
2829774 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
* * *** * * * *
2829839 AAGGGCTATCTG----CCAAAGACCCCCGAGTTCGA-TCACACTCAGCTTCGAGGGCACATGATT
66 AAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACT-ACGCTCAGC-TCAACGGCACATCATT
* * * *** * *
2829899 TGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCTC
129 TGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGC---C-AAAGACCCCCGAGTTCGATTACACTC
* * * * * * *
2829964 AGCTTC-AAGACACATCATTTGCAGCATAGCTTAA-GTCGAGAAGGGCTATC--TG-CC-A
190 AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGT-TAGAAGGGTTATCTGTGACCAA
** * * * * * * * *
2830019 AAGACCCCCGAGTTTGATTACACTCAGCTTCGAGGGCACATTATTTGCAGCATACCTGAAGTCGA
1 AAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
* *
2830084 GAAGGGTTGTCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATT
65 GAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATT
* * * * *
2830148 TGTAGCACAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACT
129 TGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCT
* * * * **
2830213 TCGAGGTCATATCATTTACAACATAGCTCAAGGCAAGAAGGG
194 TCGAGGGCACATCATTTACAGCATAACTCAAGGTTAGAAGGG
2830255 CTATTTGTCA
Statistics
Matches: 1300, Mismatches: 147, Indels: 64
0.86 0.10 0.04
Matches are distributed among these distances:
244 1 0.00
245 73 0.06
246 116 0.09
247 4 0.00
248 95 0.07
249 644 0.50
250 301 0.23
251 42 0.03
252 24 0.02
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (249 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
AAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTG
CAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTC
GAGGGCACATCATTTACAGCATAACTCAAGGTTAGAAGGGTTATCTGTGACCAA
Found at i:2830254 original size:165 final size:166
Alignment explanation
Indices: 2828537--2830229 Score: 1564
Period size: 165 Copynumber: 10.2 Consensus size: 166
2828527 CCAAGACCTT
** * * * * * * *
2828537 CGAGTTCGACTACGTTCAGCTCCAAGGCACACCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTA
1 CGAGTTCGACTACACTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTA
* * * * * * * * *
2828602 TCTG----CCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATA
66 TCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAACGGCACATCATTTGCAGCATA
* * * * **
2828663 ACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTT
131 ACTTAAGTCGAGAAGGGCTATCTG--ACCAAAGACCCC
* * * * *
2828701 CGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTG
1 CGAGTTCGACTACACTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTA
*
2828766 TCTGCCAA-CACAAGACCTTTGAGTTCGACTATGCTCAGCT-CAACGGCACATCATTTGCAGCAT
66 TCTGCCAACCA-AAGACCTTTGAGTTCGACTACGCTCAGCTCCAACGGCACATCATTTGCAGCAT
* * **
2828829 AACTTAAGTCGAGAAGGGTTATCTGCCAACACAAGACCTT
130 AACTTAAGTCGAGAAGGGCTATCTG--ACCA-AAGACCCC
* * * * * *
2828869 TGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCT
1 CGAGTTCGACTACACTCAGCTTCAA-GGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTT
*** * * * * * *
2828933 ATCTG----CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCAT
65 ATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAACGGCACATCATTTGCAGCAT
* * * * **
2828994 AACTCAAGGT-TAGAAGGGTTATCTGTGACCAAAAGATCTT
130 AACTTAA-GTCGAGAAGGGCTATC--TGACC-AAAGACCCC
* * * *
2829034 CGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTT
1 CGAGTTCGACTACACTCAGCTTCAAGGCACATCATTTGCAGCATAACTT-AAGTCTAGAAGGGTT
* * *
2829098 GTCTGCCAACCAAAAACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGTAT
65 ATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAACGGCACATCATTTGCAGCAT
*
2829162 AGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCC
130 AACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCC
* * * * *
2829198 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTT
1 CGAGTTCGACTACACTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTT
** * * * * **
2829263 ATCTG-TGACCAAAAGATCTTCGAGTTCGACTACGCTCAGCTCCAA-GGAATATCATTTGCAATA
65 ATCTGCCAACC-AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAACGGCACATCATTTGCAGCA
* * * * * **
2829326 CAACTTGAA-TCTAGAAGGGTTGTCTGCCAACCAAAAACCTT
129 TAACTT-AAGTCGAGAAGGGCTATCTG---ACCAAAGACCCC
* * * * * *
2829367 TGAGTTCGACTACACTCAGC-TCAACGTCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCT
1 CGAGTTCGACTACACTCAGCTTCAA-GGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTT
*** * * * * * *
2829431 ATCTG----CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCAAGGGCATATTCATTTACAGCA
65 ATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAACGGCACA-TCATTTGCAGCA
* * * * * **
2829492 TAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTT
129 TAACTTAAGTCGAGAAGGGCTATC--TGACC-AAAGACCCC
* * * *
2829533 CGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTT
1 CGAGTTCGACTACACTCAGCTTCAAGGCACATCATTTGCAGCATAACTT-AAGTCTAGAAGGGTT
* *
2829597 GTCTGCCAACCAAAGACCTTTGAGTTCGACTATGCTCAGCT-CAACGGCACATCATTTGCAGCAT
65 ATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAACGGCACATCATTTGCAGCAT
* *
2829661 AGCTTAAGTCGATAAGGGCTATCTG-CCAAAGACCCC
130 AACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCC
* * * * *
2829697 CGAGTTCGA-TCACACTCAGCTTCGAGGGCACATGATTTGCAGTATAAATTAAGTCAAGAAGGGT
1 CGAGTTCGACT-ACACTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGT
* *
2829761 TATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCA
64 TATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAACGGCACATCATTTGCAGCA
*
2829825 TAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCC
129 TAACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCC
* * * *
2829862 CGAGTTCGA-TCACACTCAGCTTCGAGGGCACATGATTTGCAGTATAACTTAAGTCAAGAAGGGT
1 CGAGTTCGACT-ACACTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGT
* * * *
2829926 TATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTTCAA-GACACATCATTTGCAGCA
64 TATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAACGGCACATCATTTGCAGCA
*
2829990 TAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCC
129 TAACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCC
* * * * * * *
2830027 CGAGTTTGATTACACTCAGCTTCGAGGGCACATTATTTGCAGCATACCTGAAGTCGAGAAGGGTT
1 CGAGTTCGACTACACTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTT
* * * * *
2830092 GTCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTGTAGCAC
65 ATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAACGGCACATCATTTGCAGCAT
2830156 AACTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCC
130 AACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCC
* * * *
2830192 CGAGTTCGATTACACTCAACTTCGAGGTCATATCATTT
1 CGAGTTCGACTACACTCAGCTTCAAGG-CACATCATTT
2830230 ACAACATAGC
Statistics
Matches: 1288, Mismatches: 193, Indels: 95
0.82 0.12 0.06
Matches are distributed among these distances:
163 1 0.00
164 170 0.13
165 674 0.52
166 105 0.08
167 60 0.05
168 192 0.15
169 60 0.05
170 26 0.02
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (166 bp):
CGAGTTCGACTACACTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTA
TCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAACGGCACATCATTTGCAGCATA
ACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCC
Found at i:2861932 original size:44 final size:43
Alignment explanation
Indices: 2861837--2861959 Score: 124
Period size: 44 Copynumber: 2.8 Consensus size: 43
2861827 AAACCCGATA
** *
2861837 GATGCATCGATGCAT-GGCTCTTGTGCATCGATGCACATTCAAGG
1 GATGCATCGATGCATCGGCTAATGT--ATCGATGCACATTAAAGG
*
2861881 GCGTGCATCGATGCATCGGCTAATGTATCGATGCACAATTAAAGG
1 G-ATGCATCGATGCATCGGCTAATGTATCGATGCAC-ATTAAAGG
* * *
2861926 GATGCATCGGTGCA-CTGTTAAGTGTATCGATGCA
1 GATGCATCGATGCATCGGCTAA-TGTATCGATGCA
2861960 TTAAGCACAA
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
43 5 0.07
44 34 0.51
45 21 0.31
46 7 0.10
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (43 bp):
GATGCATCGATGCATCGGCTAATGTATCGATGCACATTAAAGG
Found at i:2867862 original size:45 final size:46
Alignment explanation
Indices: 2867775--2867866 Score: 150
Period size: 45 Copynumber: 2.0 Consensus size: 46
2867765 TGAAATAGCC
* *
2867775 TGAGTACATTGATGCATGGTCTTGTGCATCGATGCATCAAATGCAT
1 TGAGTACATTGATGCATGGTCATGTGCATCGATGCATAAAATGCAT
*
2867821 TGAGTGCATTGATGCATGGT-ATGTGCATCGATGCATAAAATGCAT
1 TGAGTACATTGATGCATGGTCATGTGCATCGATGCATAAAATGCAT
2867866 T
1 T
2867867 CGATGTTCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
45 24 0.56
46 19 0.44
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (46 bp):
TGAGTACATTGATGCATGGTCATGTGCATCGATGCATAAAATGCAT
Found at i:2869417 original size:34 final size:33
Alignment explanation
Indices: 2869375--2869444 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 33
2869365 AAAATCTTAG
2869375 ACTTCTTCATATTTAATTTAAACCCCGCAGCCA
1 ACTTCTTCATATTTAATTTAAACCCCGCAGCCA
* * *
2869408 ACTTACTTCATATTTAATTTTAACCCCGTATCCA
1 ACTT-CTTCATATTTAATTTAAACCCCGCAGCCA
2869442 ACT
1 ACT
2869445 CAAATATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 4 0.12
34 29 0.88
ACGTcount: A:0.30, C:0.29, G:0.04, T:0.37
Consensus pattern (33 bp):
ACTTCTTCATATTTAATTTAAACCCCGCAGCCA
Found at i:2876582 original size:35 final size:35
Alignment explanation
Indices: 2876543--2876610 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
2876533 TCAAAATTCC
*
2876543 AAAACACTTCAATTACATTCTAAAC-CTCAAATTTT
1 AAAACACTTCAATTACATTATAAACTC-CAAATTTT
*
2876578 AAAACACTTCAATTATATTATAAACTCCAAATT
1 AAAACACTTCAATTACATTATAAACTCCAAATT
2876611 AAAGTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 29 0.97
36 1 0.03
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.34
Consensus pattern (35 bp):
AAAACACTTCAATTACATTATAAACTCCAAATTTT
Found at i:2876662 original size:35 final size:35
Alignment explanation
Indices: 2876616--2876682 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
2876606 AAATTAAAGT
*
2876616 ATTTTAGAATTTAGGGTTTAGAATATAATTGAATC
1 ATTTTAGAATTTAGGGTTTAGAATAAAATTGAATC
* *
2876651 ATTTTGGAATTTGGGGTTTAGAATAAAATTGA
1 ATTTTAGAATTTAGGGTTTAGAATAAAATTGA
2876683 GGATTGTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.36, C:0.01, G:0.21, T:0.42
Consensus pattern (35 bp):
ATTTTAGAATTTAGGGTTTAGAATAAAATTGAATC
Found at i:2881655 original size:17 final size:18
Alignment explanation
Indices: 2881621--2881663 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
2881611 TTTAAAAAAA
2881621 TTAAAATAAATTATTATAT
1 TTAAAA-AAATTATTATAT
*
2881640 TTAAAAAATTTA-TATAT
1 TTAAAAAAATTATTATAT
*
2881657 ATAAAAA
1 TTAAAAA
2881664 CAACCCCTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 11 0.50
18 5 0.23
19 6 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAAAAAAATTATTATAT
Found at i:2883944 original size:21 final size:21
Alignment explanation
Indices: 2883918--2883993 Score: 116
Period size: 21 Copynumber: 3.6 Consensus size: 21
2883908 GATTTACATA
2883918 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
2883939 TTCGCATTGCGATAATCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
2883960 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
* *
2883981 TTCTCGTTGCGAT
1 TTCGCATTGCGAT
2883994 TTTCCAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:2884000 original size:42 final size:42
Alignment explanation
Indices: 2883899--2884005 Score: 126
Period size: 42 Copynumber: 2.6 Consensus size: 42
2883889 ACTTCGACTA
* * *
2883899 TCGCATTGCGAT-TTACATATTCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAATCCAAATTCGCATTGCGATAGTCCAAGT
* *
2883940 TCGCATTGCGATAATCCAAGTTCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAATCCAAATTCGCATTGCGATAGTCCAAGT
* * **
2883982 TCTCGTTGCGATTTTCCAAATTCG
1 TCGCATTGCGATAATCCAAATTCG
2884006 ACTATCGCAA
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 12 0.22
42 43 0.78
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (42 bp):
TCGCATTGCGATAATCCAAATTCGCATTGCGATAGTCCAAGT
Found at i:2884100 original size:21 final size:21
Alignment explanation
Indices: 2884049--2884179 Score: 92
Period size: 21 Copynumber: 6.3 Consensus size: 21
2884039 CGATTTACAT
*
2884049 ATTCGCATTGCGATAGTC-AA
1 ATTCGCGTTGCGATAGTCGAA
*
2884069 ATTCACGTTGCGATAGTCGAA
1 ATTCGCGTTGCGATAGTCGAA
* * *
2884090 GTTCGCGTTGCGATTTATTCCAA
1 ATTCGCGTTGCGA--TAGTCGAA
*
2884113 ATT--CGTTGCTATAGTCGAA
1 ATTCGCGTTGCGATAGTCGAA
* * *
2884132 GTTCGCGTTGCGATTTATTCCAA
1 ATTCGCGTTGCGA--TAGTCGAA
*
2884155 ATT--CGTTGCGATAGTCCAA
1 ATTCGCGTTGCGATAGTCGAA
*
2884174 AATCGC
1 ATTCGC
2884180 AACGACTGGT
Statistics
Matches: 85, Mismatches: 17, Indels: 17
0.71 0.14 0.14
Matches are distributed among these distances:
19 17 0.20
20 16 0.19
21 36 0.42
23 16 0.19
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (21 bp):
ATTCGCGTTGCGATAGTCGAA
Found at i:2884128 original size:42 final size:42
Alignment explanation
Indices: 2884074--2884170 Score: 185
Period size: 42 Copynumber: 2.3 Consensus size: 42
2884064 GTCAAATTCA
2884074 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
*
2884116 CGTTGCTATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
2884158 CGTTGCGATAGTC
1 CGTTGCGATAGTC
2884171 CAAAATCGCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.36
Consensus pattern (42 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:2884928 original size:21 final size:21
Alignment explanation
Indices: 2884904--2884975 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
2884894 ATTTTGGACT
2884904 ATCGCAACGAATTTAGAATAA
1 ATCGCAACGAATTTAGAATAA
* * *
2884925 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTAGAATAA
* *
2884946 ATCGCAACAAATTTGGAATAA
1 ATCGCAACGAATTTAGAATAA
2884967 ATCGCAACG
1 ATCGCAACG
2884976 CGAACTTCGA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
19 8 0.21
21 22 0.56
23 9 0.23
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAATTTAGAATAA
Found at i:2884959 original size:42 final size:42
Alignment explanation
Indices: 2884900--2884994 Score: 172
Period size: 42 Copynumber: 2.3 Consensus size: 42
2884890 TGCGATTTTG
*
2884900 GACTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACAAATTTAGAATAAATCGCAACGCGAACTTC
*
2884942 GACTATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACAAATTTAGAATAAATCGCAACGCGAACTTC
2884984 GACTATCGCAA
1 GACTATCGCAA
2884995 TGCGAACTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACAAATTTAGAATAAATCGCAACGCGAACTTC
Found at i:2885017 original size:21 final size:21
Alignment explanation
Indices: 2884925--2885015 Score: 96
Period size: 21 Copynumber: 4.3 Consensus size: 21
2884915 TTTAGAATAA
2884925 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * * *
2884946 ATCGCAA--CAAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
2884965 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
* *
2884988 ATCGCAATGCGAACTTTGACT
1 ATCGCAACGCGAACTTCGACT
2885009 ATCGCAA
1 ATCGCAA
2885016 TGTGAATATG
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
19 8 0.14
21 40 0.71
23 8 0.14
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:2889749 original size:22 final size:21
Alignment explanation
Indices: 2889719--2889760 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
2889709 AAAATACAAT
* *
2889719 ATTATTATTTTTATAAATAATA
1 ATTAATATTATTAT-AATAATA
2889741 ATTAATATTATTATAATAAT
1 ATTAATATTATTATAATAAT
2889761 TTTTTCTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTAATATTATTATAATAATA
Found at i:2894875 original size:17 final size:18
Alignment explanation
Indices: 2894853--2894886 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2894843 AATAGCAAGC
2894853 AATAATGGAT-GAAAAGG
1 AATAATGGATGGAAAAGG
*
2894870 AATAATTGATGGAAAAG
1 AATAATGGATGGAAAAG
2894887 AAACTGAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.53, C:0.00, G:0.26, T:0.21
Consensus pattern (18 bp):
AATAATGGATGGAAAAGG
Found at i:2896249 original size:16 final size:15
Alignment explanation
Indices: 2896224--2896274 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
2896214 CCTAAGTTTT
2896224 TAAATCTAAAATAATA
1 TAAA-CTAAAATAATA
*
2896240 TAAACTTAAAATGATA
1 TAAAC-TAAAATAATA
*
2896256 TGAACTAATAATAAT-
1 TAAACTAA-AATAATA
2896271 TAAA
1 TAAA
2896275 AGTTAAAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 7 0.24
16 22 0.76
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (15 bp):
TAAACTAAAATAATA
Found at i:2896806 original size:16 final size:17
Alignment explanation
Indices: 2896774--2896806 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2896764 TTTAATTATG
2896774 ATATACTTATGTTTTAA
1 ATATACTTATGTTTTAA
*
2896791 ATATATTTAT-TTTTAA
1 ATATACTTATGTTTTAA
2896807 CTATTTAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (17 bp):
ATATACTTATGTTTTAA
Done.