Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008236.1 Hibiscus syriacus cultivar Beakdansim tig00110882_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: 1100419
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:610285 original size:42 final size:42
Alignment explanation
Indices: 610204--610302 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
610194 TCGGGCGGGA
* * *
610204 CCTCTTGAACGATGACAGGGGCCTCTTGAACAGTGGGAGGGG
1 CCTCTTGAATGATGACAGGGGCCTCTTGAACAGTAGGAGGCG
* *
610246 CTTCTTCG-ATGATGAGAGGGGCCTCTTGAACTA-TAGGAGGCG
1 CCTCTT-GAATGATGACAGGGGCCTCTTGAAC-AGTAGGAGGCG
610288 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
610303 TAGATGCATC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.02
42 45 0.94
43 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.24
Consensus pattern (42 bp):
CCTCTTGAATGATGACAGGGGCCTCTTGAACAGTAGGAGGCG
Found at i:610730 original size:63 final size:63
Alignment explanation
Indices: 610636--610757 Score: 138
Period size: 63 Copynumber: 1.9 Consensus size: 63
610626 ACCGCGTAAC
* * * *
610636 GCACCATTGTCATCGCGTAAAAAACCCACCTCACCACGTAAAG-ATCGAACCTCATCACGCCAT
1 GCACCATTATCATCACGTAAAAAACCCACCTCACCACGCAAAGCACCG-ACCTCATCACGCCAT
* ** * **
610699 GCACCATTATCTTCACGTAAAGTACCGACCTCATGACGCAAAGCACCGACCTCATCACG
1 GCACCATTATCATCACGTAAAAAACCCACCTCACCACGCAAAGCACCGACCTCATCACG
610758 TAATTCCCCT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
63 45 0.94
64 3 0.06
ACGTcount: A:0.32, C:0.36, G:0.14, T:0.18
Consensus pattern (63 bp):
GCACCATTATCATCACGTAAAAAACCCACCTCACCACGCAAAGCACCGACCTCATCACGCCAT
Found at i:612653 original size:19 final size:19
Alignment explanation
Indices: 612631--612674 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
612621 AGAAAAATAT
*
612631 AATAATAATAA-AAATTCAA
1 AATAAAAATAAGAAATT-AA
612650 AATAAAAATAAGAAATTAA
1 AATAAAAATAAGAAATTAA
612669 AA-AAAA
1 AATAAAA
612675 CTAACCCTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 14 0.61
20 5 0.22
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (19 bp):
AATAAAAATAAGAAATTAA
Found at i:612965 original size:20 final size:20
Alignment explanation
Indices: 612912--613066 Score: 118
Period size: 20 Copynumber: 7.8 Consensus size: 20
612902 TATTTAACTT
*
612912 TCGCGTTACGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
* * *
612932 TCACGCTGCTAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
* *
612952 TCGTGTTACGAATTTGACT-
1 TCGCGTTGCGAATTTGACTA
* *
612971 TCTGTGTTGCG-ATTT-ACAAA
1 TC-GCGTTGCGAATTTGAC-TA
* *
612991 TTCACGTTGCGAATTTGACTT
1 -TCGCGTTGCGAATTTGACTA
* * *
613012 TTGTGTTACGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
* *
613032 TCGCGTTGCGAATTTAACTT
1 TCGCGTTGCGAATTTGACTA
*
613052 TCGCATTGCGAATTT
1 TCGCGTTGCGAATTT
613067 AACTTCAGTG
Statistics
Matches: 103, Mismatches: 26, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
18 2 0.02
19 6 0.06
20 87 0.84
21 6 0.06
22 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGACTA
Found at i:613025 original size:60 final size:61
Alignment explanation
Indices: 612932--613047 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 61
612922 AATTTGACTA
* *
612932 TCACGCTGCTAATTTGACTATCGTGTTACGAATTTGACT-TCTGTGTTGCG-ATTTACAAAT
1 TCACGCTGCGAATTTGACTATCGTGTTACGAATTTGACTATC-GCGTTGCGAATTTACAAAT
* * *
612992 TCACGTTGCGAATTTGACTTTTGTGTTACGAATTTGACTATCGCGTTGCGAATTTA
1 TCACGCTGCGAATTTGACTATCGTGTTACGAATTTGACTATCGCGTTGCGAATTTA
613048 ACTTTCGCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
60 42 0.86
61 7 0.14
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (61 bp):
TCACGCTGCGAATTTGACTATCGTGTTACGAATTTGACTATCGCGTTGCGAATTTACAAAT
Found at i:613061 original size:60 final size:60
Alignment explanation
Indices: 612942--613071 Score: 156
Period size: 60 Copynumber: 2.2 Consensus size: 60
612932 TCACGCTGCT
* * *
612942 AATTTGACTATCGTGTTACGAATTTGACTTCTGTGTTGCGATTTACAAATTCACGTTGCG
1 AATTTGACTTTCGTGTTACGAATTTGACTTCTGCGTTGCGATTTACAAATTCACATTGCG
* ** *
613002 AATTTGACTTTTGTGTTACGAATTTGACTATC-GCGTTGCGAATTTA-ACTTTCGCATTGCG
1 AATTTGACTTTCGTGTTACGAATTTGACT-TCTGCGTTGCG-ATTTACAAATTCACATTGCG
*
613062 AATTTAACTT
1 AATTTGACTT
613072 CAGTGTTGCG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 53 0.88
61 7 0.12
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (60 bp):
AATTTGACTTTCGTGTTACGAATTTGACTTCTGCGTTGCGATTTACAAATTCACATTGCG
Found at i:613080 original size:20 final size:19
Alignment explanation
Indices: 612942--613086 Score: 87
Period size: 20 Copynumber: 7.3 Consensus size: 19
612932 TCACGCTGCT
* *
612942 AATTTGACTATCGTGTTACG
1 AATTTAACT-TCGTGTTGCG
*
612962 AATTTGACTTCTGTGTTGCG
1 AATTTAACTTC-GTGTTGCG
* **
612982 -ATTTACAAATTCACGTTGCG
1 AATTT--AACTTCGTGTTGCG
* * *
613002 AATTTGACTTTTGTGTTACG
1 AATTTAAC-TTCGTGTTGCG
* *
613022 AATTTGACTATCGCGTTGCG
1 AATTTAACT-TCGTGTTGCG
**
613042 AATTTAACTTTCGCATTGCG
1 AATTTAAC-TTCGTGTTGCG
613062 AATTTAACTTCAGTGTTGCG
1 AATTTAACTTC-GTGTTGCG
613082 -ATTTA
1 AATTTA
613087 CAGATTCGCG
Statistics
Matches: 99, Mismatches: 18, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
19 16 0.16
20 74 0.75
21 9 0.09
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.41
Consensus pattern (19 bp):
AATTTAACTTCGTGTTGCG
Found at i:613080 original size:40 final size:40
Alignment explanation
Indices: 612995--613086 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 40
612985 TACAAATTCA
* * ** *
612995 CGTTGCGAATTTGACTTTTGTGTTACGAATTTGACTATCG
1 CGTTGCGAATTTAACTTTCGCATTACGAATTTAACTATCG
*
613035 CGTTGCGAATTTAACTTTCGCATTGCGAATTTAACT-TCAG
1 CGTTGCGAATTTAACTTTCGCATTACGAATTTAACTATC-G
*
613075 TGTTGCG-ATTTA
1 CGTTGCGAATTTA
613087 CAGATTCGCG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 7 0.16
40 37 0.84
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (40 bp):
CGTTGCGAATTTAACTTTCGCATTACGAATTTAACTATCG
Found at i:613153 original size:20 final size:19
Alignment explanation
Indices: 613104--613157 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
613094 GCGTTGTGAT
613104 ATTCGCGTTGCGAAATTGG
1 ATTCGCGTTGCGAAATTGG
** *
613123 AAACTGGGTTGCGAAATTGG
1 ATTC-GCGTTGCGAAATTGG
613143 AGTTCGCGTTGCGAA
1 A-TTCGCGTTGCGAA
613158 TTTATTGGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.28
Consensus pattern (19 bp):
ATTCGCGTTGCGAAATTGG
Found at i:614435 original size:25 final size:25
Alignment explanation
Indices: 614406--614461 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 25
614396 GTATAAATGA
*
614406 AAATGCTTTTAAGTTGAATTTGATC
1 AAATGCCTTTAAGTTGAATTTGATC
614431 AAATGGCCTTTAAGTTGAATTTGATC
1 AAAT-GCCTTTAAGTTGAATTTGATC
614457 AAATG
1 AAATG
614462 GCCTAAACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (25 bp):
AAATGCCTTTAAGTTGAATTTGATC
Found at i:614443 original size:26 final size:26
Alignment explanation
Indices: 614413--614465 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
614403 TGAAAATGCT
614413 TTTAAGTTGAATTTGATCAAATGGCC
1 TTTAAGTTGAATTTGATCAAATGGCC
614439 TTTAAGTTGAATTTGATCAAATGGCC
1 TTTAAGTTGAATTTGATCAAATGGCC
614465 T
1 T
614466 AAACCCTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (26 bp):
TTTAAGTTGAATTTGATCAAATGGCC
Found at i:614499 original size:2 final size:2
Alignment explanation
Indices: 614494--614524 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
614484 ACACACACAC
614494 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
614525 TGTGATTGTT
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:614715 original size:3 final size:3
Alignment explanation
Indices: 614703--614759 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
614693 TTTTTTATCG
* ** *
614703 TTA TTT TTA TTA -TA TTA TTA TTA TTA TTA TTA TCG TTA -TC TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
614749 TT- TTA TTA TTA
1 TTA TTA TTA TTA
614760 ATATATTACA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
2 5 0.12
3 38 0.88
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:614718 original size:11 final size:11
Alignment explanation
Indices: 614704--614767 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
614694 TTTTTATCGT
*
614704 TATTTTTATTA
1 TATTATTATTA
614715 TATTATTATTA
1 TATTATTATTA
614726 TTATTATTATCGTTA
1 -TATTATTA---TTA
* *
614741 TCTTATTATTT
1 TATTATTATTA
*
614752 TATTATTAATA
1 TATTATTATTA
614763 TATTA
1 TATTA
614768 CAAATTTTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
11 25 0.58
12 8 0.19
14 7 0.16
15 3 0.07
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTATTATTA
Found at i:614726 original size:20 final size:22
Alignment explanation
Indices: 614703--614757 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
614693 TTTTTTATCG
614703 TTATTTTTATTAT-ATTA-TTA
1 TTATTTTTATTATCATTACTTA
* *
614723 TTATTATTATTATCGTTATCTTA
1 TTATTTTTATTATCATTA-CTTA
614746 TTA-TTTTATTAT
1 TTATTTTTATTAT
614758 TAATATATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 12 0.41
21 3 0.10
22 8 0.28
23 6 0.21
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTTTTATTATCATTACTTA
Found at i:618214 original size:30 final size:30
Alignment explanation
Indices: 618164--618222 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
618154 ATTTTACATG
**
618164 TACTAACTTATTTTTCTCTTTTGTTTGTGTA
1 TACTAACTTATTCCTCTCTTTTG-TTGTGTA
618195 TACTAAC-TATTCCTCTCTTTTGTTGTGT
1 TACTAACTTATTCCTCTCTTTTGTTGTGT
618223 CATTTTGTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 6 0.23
30 13 0.50
31 7 0.27
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.58
Consensus pattern (30 bp):
TACTAACTTATTCCTCTCTTTTGTTGTGTA
Found at i:620348 original size:22 final size:20
Alignment explanation
Indices: 620303--620354 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
620293 AAGATCAAAC
620303 CAAAGAAAAAAAACAAAGAG
1 CAAAGAAAAAAAACAAAGAG
*
620323 CAAAGAAAATCAAAGCAAA-AG
1 CAAAGAAAA--AAAACAAAGAG
620344 TCAAAGAAAAA
1 -CAAAGAAAAA
620355 GCAAAGAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 10 0.36
21 2 0.07
22 16 0.57
ACGTcount: A:0.71, C:0.12, G:0.13, T:0.04
Consensus pattern (20 bp):
CAAAGAAAAAAAACAAAGAG
Found at i:620353 original size:11 final size:12
Alignment explanation
Indices: 620323--620362 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
620313 AAACAAAGAG
620323 CAAAG-AAAA-T
1 CAAAGAAAAAGT
*
620333 CAAAGCAAAAGT
1 CAAAGAAAAAGT
620345 CAAAGAAAAAG-
1 CAAAGAAAAAGT
620356 CAAAGAA
1 CAAAGAA
620363 CAAAAGAGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 5 0.19
11 11 0.41
12 11 0.41
ACGTcount: A:0.68, C:0.12, G:0.15, T:0.05
Consensus pattern (12 bp):
CAAAGAAAAAGT
Found at i:621543 original size:14 final size:14
Alignment explanation
Indices: 621512--621559 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
621502 GATTGAGAAA
*
621512 ACATACAT-CA-AC
1 ACATACATACACAT
* *
621524 ACATACATATATAT
1 ACATACATACACAT
621538 ACATACATACACAT
1 ACATACATACACAT
621552 ACATACAT
1 ACATACAT
621560 GATACAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 21 0.70
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (14 bp):
ACATACATACACAT
Found at i:622210 original size:35 final size:35
Alignment explanation
Indices: 622100--622215 Score: 137
Period size: 35 Copynumber: 3.3 Consensus size: 35
622090 TGAGAATTTT
* *
622100 AAAACAAATTTTTGTCTCGCTTGAGACAA-TTCTTTC
1 AAAACAAA-TTTTGTCTCGATTGAGACAATTTC-TTA
* *
622136 AAAGCAAATTTTGTCTCGATTGAGACAGCTTTC-TA
1 AAAACAAATTTTGTCTCGATTGAGACA-ATTTCTTA
* *
622171 AAAACAAATTTTGTCTCGTTTGAGACAATTTCTTG
1 AAAACAAATTTTGTCTCGATTGAGACAATTTCTTA
622206 AAAACAAATT
1 AAAACAAATT
622216 CCGCCTCACT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
34 4 0.06
35 55 0.80
36 7 0.10
37 3 0.04
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (35 bp):
AAAACAAATTTTGTCTCGATTGAGACAATTTCTTA
Found at i:622231 original size:70 final size:71
Alignment explanation
Indices: 622100--622232 Score: 164
Period size: 70 Copynumber: 1.9 Consensus size: 71
622090 TGAGAATTTT
* ** * *
622100 AAAACAAATTTTTGTCTCGCTTGAGACAATTCTTTCAAAGCAAATTTTGTCTCGATTGAGACAGC
1 AAAACAAATTTTTGTCTCGCTTGAGACAATTCTTTCAAAACAAATTCCGCCTCGATGGAGACAGC
622165 TTTCTA
66 TTTCTA
* *
622171 AAAACAAA-TTTTGTCTCGTTTGAGACAATT-TCTTGAAAACAAATTCCGCCTC-ACTGGAGACA
1 AAAACAAATTTTTGTCTCGCTTGAGACAATTCT-TTCAAAACAAATTCCGCCTCGA-TGGAGACA
622233 TTTTTCATTG
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
69 2 0.04
70 43 0.81
71 8 0.15
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (71 bp):
AAAACAAATTTTTGTCTCGCTTGAGACAATTCTTTCAAAACAAATTCCGCCTCGATGGAGACAGC
TTTCTA
Found at i:622398 original size:36 final size:35
Alignment explanation
Indices: 622318--622398 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
622308 ATTTTGTTTT
* *
622318 GCTTGAGACAATTTCTTTAAAAACAAAGTTGTATC
1 GCTTGAGACAAATTCTTTAAAAACAAACTTGTATC
* * *
622353 ACTTAAGACAAATTCTCTT-AAAACAAACTTCGTCTC
1 GCTTGAGACAAATTCT-TTAAAAACAAACTT-GTATC
622389 GCTTGAGACA
1 GCTTGAGACA
622399 TTTTTCCTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
35 23 0.62
36 14 0.38
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (35 bp):
GCTTGAGACAAATTCTTTAAAAACAAACTTGTATC
Found at i:622511 original size:103 final size:104
Alignment explanation
Indices: 622372--622608 Score: 274
Period size: 103 Copynumber: 2.3 Consensus size: 104
622362 AAATTCTCTT
*
622372 AAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAACCTT-GAATTTGATTCAC
1 AAAACAAACTTCG-CTCGCTTGAGACATTTTCCCTTTGAGATACAAA-CTTCGAATTTGATTCAC
622436 -TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC
64 ATT-AAACAAAATTAATCTCA-CTTGAGATTGTTGTTTCTTTC
* * * * *
622477 AAAACAAATTTCG-TCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACAT
1 AAAACAAACTTCGCTCGCTTGAGACATTTTCCCTTTGAGATACAAACTTCGAATTTGATTCACAT
* *
622541 TAAACAAAGTTGATCTCACTTGAGATTG-T-TTTC--TC
66 TAAACAAAATTAATCTCACTTGAGATTGTTGTTTCTTTC
* *
622576 AAAAACAAACTTTGTCTCGCTTGAGACAATTTC
1 -AAAACAAACTTCG-CTCGCTTGAGACATTTTC
622609 TAAAAACAAA
Statistics
Matches: 114, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
99 2 0.02
100 11 0.10
101 4 0.04
102 21 0.18
103 62 0.54
104 2 0.02
105 12 0.11
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (104 bp):
AAAACAAACTTCGCTCGCTTGAGACATTTTCCCTTTGAGATACAAACTTCGAATTTGATTCACAT
TAAACAAAATTAATCTCACTTGAGATTGTTGTTTCTTTC
Found at i:622624 original size:34 final size:34
Alignment explanation
Indices: 622570--622676 Score: 124
Period size: 34 Copynumber: 3.1 Consensus size: 34
622560 TTGAGATTGT
*
622570 TTTCTCAAAAACAAACTTTGTCTCGCTTGAGACAA
1 TTTCT-AAAAACAAATTTTGTCTCGCTTGAGACAA
** *
622605 TTTCTAAAAACAAATTTTGTCTCATTTGAGACTA
1 TTTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
* * * * *
622639 TATCTTAAAGCAAATTTCGTCTCGCTTGAGACAT
1 TTTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
622673 TTTC
1 TTTC
622677 CTTTGAGATA
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
34 54 0.92
35 5 0.08
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (34 bp):
TTTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
Found at i:622769 original size:270 final size:266
Alignment explanation
Indices: 622221--622832 Score: 722
Period size: 270 Copynumber: 2.3 Consensus size: 266
622211 AAATTCCGCC
* * *
622221 TCACTGGAGACATTTTTCATTGAGATACAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATC
1 TCACTTGAGACATTTTCCTTTGAGATACAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATC
* * *
622286 TCACTTGAGATCGTTTTCTCAAATTTTGTTTTGCTTGAGACAATTTCTTTAAAAACAAAGTTGTA
66 TCACTTGAGATCGTTTTCTCAAACTTTGTCTCGCTTGAGACAATTTC-TTAAAAACAAAGTTGTA
*
622351 TCACTTAAGACAAATTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATAC
130 TCACTTAAGACAAATTATCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATAC
*
622416 AAACCTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGTTGTTTCTTTCAAAA
195 AAACCTTGAATTTGATTCACTTAAAAC-AAA-TAATCTCACCTTAGATTGTTGTTTATTTCAAAA
*
622481 CAAATTTCG
258 CAAAATTCG
* * *
622490 TCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACATTAAACAAAGTTGAT
1 TCACTTGAGACATTTT-CCTTTGAGATACAAATTTCGAATTTGTTTCACATTAAACAAAGTTGAT
*
622555 CTCACTTGAGATTGTTTTCTCAAAAACAAACTTTGTCTCGCTTGAGACAATTTC-TAAAAACAAA
65 CTCACTTGAGATCGTTTTCT------CAAACTTTGTCTCGCTTGAGACAATTTCTTAAAAACAAA
* * * * * * *
622619 TTTTGTCTCATTTGAGAC-TA-TATCTTAAAGCAAATTTCGTCTCGCTTGAGACA-TTTTCCTTT
124 -GTTGTATCACTTAAGACAAATTATCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTT
* ** * *
622681 GAGATACTAATTTTGAATTTGTTTCACTTAAAAC-AA-AATCTCA-CTTGATATTGTTGTTTATT
188 GAGATACAAACCTTGAATTTGATTCACTTAAAACAAATAATCTCACCTT-AGATTGTTGTTTATT
*
622743 TCGAAACAAAATTCG
252 TCAAAACAAAATTCG
* * * *
622758 TTTCACTTGAGACATTTTTCTCTGAGATACAAATTT-AAATTTGTTGT-AC-TTGAAACAAAATT
1 --TCACTTGAGACATTTTCCTTTGAGATACAAATTTCGAATTTGTT-TCACATT-AAACAAAGTT
* *
622820 AATATCACTTGAG
62 GATCTCACTTGAG
622833 TTTTTCAAAA
Statistics
Matches: 295, Mismatches: 35, Indels: 27
0.83 0.10 0.08
Matches are distributed among these distances:
267 5 0.02
268 63 0.21
269 29 0.10
270 80 0.27
272 39 0.13
273 30 0.10
274 11 0.04
275 13 0.04
276 25 0.08
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (266 bp):
TCACTTGAGACATTTTCCTTTGAGATACAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATC
TCACTTGAGATCGTTTTCTCAAACTTTGTCTCGCTTGAGACAATTTCTTAAAAACAAAGTTGTAT
CACTTAAGACAAATTATCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACA
AACCTTGAATTTGATTCACTTAAAACAAATAATCTCACCTTAGATTGTTGTTTATTTCAAAACAA
AATTCG
Found at i:623011 original size:28 final size:29
Alignment explanation
Indices: 622979--623074 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 29
622969 TTCTTGAGAT
622979 AAATC-TTGAGTCTGTTCCTTTTGAATAA
1 AAATCTTTGAGTCTGTTCCTTTTGAATAA
* *
623007 AAATCTTGGAGTTTGTTCC-TTTGAATAA
1 AAATCTTTGAGTCTGTTCCTTTTGAATAA
* *
623035 ATATCTTTGAGT-TGTTTCTTTTG-A-AA
1 AAATCTTTGAGTCTGTTCCTTTTGAATAA
623061 AAATCTTTGAGTCT
1 AAATCTTTGAGTCT
623075 ATTTATTTGA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
26 13 0.22
27 7 0.12
28 28 0.47
29 11 0.19
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (29 bp):
AAATCTTTGAGTCTGTTCCTTTTGAATAA
Found at i:623083 original size:26 final size:27
Alignment explanation
Indices: 622998--623086 Score: 76
Period size: 28 Copynumber: 3.3 Consensus size: 27
622988 GTCTGTTCCT
* * *
622998 TTTGAATAAAAATCTTGGAGTT-TGTTCC
1 TTTGAA-AAATATCTTTGAGTTAT-TTCA
* *
623026 TTTGAATAAATATCTTTGAGTTGTTTCT
1 TTTGAA-AAATATCTTTGAGTTATTTCA
623054 TTTGAAAAA-ATCTTTGAGTCTATTT-A
1 TTTGAAAAATATCTTTGAGT-TATTTCA
623080 TTTGAAA
1 TTTGAAA
623087 CAAAGTTTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
26 17 0.31
27 7 0.13
28 29 0.54
29 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (27 bp):
TTTGAAAAATATCTTTGAGTTATTTCA
Found at i:623170 original size:52 final size:51
Alignment explanation
Indices: 623082--623182 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 51
623072 TCTATTTATT
*
623082 TGAAACAAAGTTTTGTCTCTTGAGACAATTTCGTG-AAAAATCTTTGAGTC
1 TGAAACAAAGTTTTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
*
623132 TGAAACAAAGTGTTGTCTCTCTTGAGACAATTTTGTGAAAAAATCTTTGAG
1 TGAAACAAAGT-TT-TCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAG
623183 ATTGTTTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
50 11 0.24
51 2 0.04
52 20 0.43
53 13 0.28
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (51 bp):
TGAAACAAAGTTTTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
Found at i:623206 original size:30 final size:30
Alignment explanation
Indices: 623170--623232 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
623160 AATTTTGTGA
*
623170 AAAAATCTTTGAGAT-TGTTTCTTTTGAAAC
1 AAAAATCTTTGAG-TCTGTTTCTTTGGAAAC
623200 AAAAATCTTTGAGTCTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAAC
623230 AAA
1 AAA
623233 TTTTTGTCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (30 bp):
AAAAATCTTTGAGTCTGTTTCTTTGGAAAC
Found at i:623322 original size:64 final size:65
Alignment explanation
Indices: 623186--623342 Score: 165
Period size: 64 Copynumber: 2.4 Consensus size: 65
623176 CTTTGAGATT
* * * *
623186 GTTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAATTTTTGTCTCTCTTAAGA
1 GTTTCTTTTG-AA-AAAAATCTTTGAATCTATTTCTTTGAAAACAAATTTTTGTATCTCTTAAGA
*
623251 TA
64 CA
* ** *
623253 ATTTCTTTTGAAAAAAATCTTTGAATCTATTTCTCTT-AAAATGAA-TTTTGTATCTCTTGAGAC
1 GTTTCTTTTGAAAAAAATCTTTGAATCTATTTCT-TTGAAAACAAATTTTTGTATCTCTTAAGAC
623316 A
65 A
* **
623317 GTTTCTCTTGAAGTAAATCTTTGAAT
1 GTTTCTTTTGAAAAAAATCTTTGAAT
623343 ATGTTCATTT
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
64 38 0.50
65 25 0.33
66 4 0.05
67 9 0.12
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (65 bp):
GTTTCTTTTGAAAAAAATCTTTGAATCTATTTCTTTGAAAACAAATTTTTGTATCTCTTAAGACA
Found at i:623567 original size:118 final size:116
Alignment explanation
Indices: 623387--623599 Score: 256
Period size: 118 Copynumber: 1.8 Consensus size: 116
623377 TTAACAAAAT
* * *
623387 CATCTTTGAGTCTATTTCTTTAAAACAAATGTTGTCTCTCTTGAGACAATTTCTAATTAAAAACT
1 CATCTTTGAGTATATTTCTTTAAAACAAATGTTGTATCTCTTAAGACAATTTCTAATTAAAAA--
623452 AA-CTTTTGAGATTG-TTCATTTGAAACAAATTTGGTCTTACTTAAGATGTAATC
64 AATC-TTTGAGATTGTTTCATTTGAAA-AAATTTGGTCTTACTTAAGATGTAATC
* * *
623505 CATCTTTGAGTATGTTTCTTTGAAACAAAAT-TT-TATCTCTTAAAGACAATTTCT-TTTGAAAA
1 CATCTTTGAGTATATTTCTTTAAAAC-AAATGTTGTATCTCTT-AAGACAATTTCTAATT-AAAA
* *
623567 AAATCTTTGAGTTTGTTTCCTTTGAAAAAATTT
63 AAATCTTTGAGATTGTTTCATTTGAAAAAATTT
623600 CTCGAGACAA
Statistics
Matches: 82, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
116 17 0.21
117 20 0.24
118 41 0.50
119 4 0.05
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.43
Consensus pattern (116 bp):
CATCTTTGAGTATATTTCTTTAAAACAAATGTTGTATCTCTTAAGACAATTTCTAATTAAAAAAA
TCTTTGAGATTGTTTCATTTGAAAAAATTTGGTCTTACTTAAGATGTAATC
Found at i:624335 original size:39 final size:38
Alignment explanation
Indices: 624278--624467 Score: 116
Period size: 39 Copynumber: 4.7 Consensus size: 38
624268 CCAGCCGTCC
* *
624278 TCATCATGTAGGAACGTGTCATCCCCAGACCAGATCTCT
1 TCATCACGTAGGACCGTGTCA-CCCCAGACCAGATCTCT
** * *
624317 TCATCACGTAGGACCGTGTCAACCATAGATAACCAG-CCGTCC
1 TCATCACGTAGGACCGTGTC-ACCCCAG---ACCAGATC-TCT
* ** *
624359 TCATCACGTAGGAACCATGTTCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGG-ACCGTG-TCACC-CCAGA---CCAGATCTCT
*
624403 TCATCACGTATGAGCCGTGTCATTCCCC-GACCAGATCTC-
1 TCATCACGTAGGA-CCGTGTCA--CCCCAGACCAGATCTCT
624442 TCATCACGTAGGAGCCGTGTCACCCC
1 TCATCACGTAGGA-CCGTGTCACCCC
624468 TAGATAACTA
Statistics
Matches: 120, Mismatches: 16, Indels: 32
0.71 0.10 0.19
Matches are distributed among these distances:
37 4 0.03
39 43 0.36
40 9 0.08
41 2 0.02
42 19 0.16
43 14 0.12
44 26 0.22
45 3 0.03
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.24
Consensus pattern (38 bp):
TCATCACGTAGGACCGTGTCACCCCAGACCAGATCTCT
Found at i:624603 original size:131 final size:128
Alignment explanation
Indices: 624293--624732 Score: 518
Period size: 126 Copynumber: 3.4 Consensus size: 128
624283 ATGTAGGAAC
* * * * *
624293 GTGTCATCCCCAGACCAGATCTCTTCATCACGTAGGA-CCGTGTCAACCATAGATAACCAGCCGT
1 GTGTCATCCTC-GACCAGATCTCCTCATCACGTAGGAGCCGTGTCACCCTTAGATAACCAGACGT
*
624357 CCTCATCACGTAGGAACCATG---TTCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCC
65 CCTCATCACGTAGGAACCATGTTATTCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAG-T
* * *
624419 GTGTCATTCCCCGACCAGATCT-CTCATCACGTAGGAGCCGTGTCACCCCTAGATAACTAGACGT
1 GTGTCA-TCCTCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCACCCTTAGATAACCAGACGT
*
624483 CCTCATCACGTAGGAACCATGTTATTGC-CCTTCCTAAAGATGGCC-GAAATCTTCATCACGTAT
65 CCTCATCACGTAGGAACCATGTTATT-CACCTT--T--AGATGGCCAGAACTCTTCATCACGTAT
624546 GAGT
125 GAGT
* * *
624550 GTGTCATCCTTGACCAGATTTCCTCATCACGTAGGAGCCGTGTCACCCTTAGATAACCAGTCGTC
1 GTGTCATCCTCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCACCCTTAGATAACCAGACGTC
** **
624615 CTCATCACGTAGGAACTGTGTTA-TCACCTTTAGATGGCCAAGAACTCTTCATCATATATGAGT
66 CTCATCACGTAGGAACCATGTTATTCACCTTTAGATGGCC-AGAACTCTTCATCACGTATGAGT
* * * ***
624678 AATGTCATCCCTCGACCAGATTTCTTCATCACGTAGGAATTGTGTCACCCTTAGA
1 -GTGTCAT-CCTCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCACCCTTAGA
624733 CGACCCGAAC
Statistics
Matches: 274, Mismatches: 24, Indels: 28
0.84 0.07 0.09
Matches are distributed among these distances:
125 13 0.05
126 68 0.25
127 5 0.02
128 20 0.07
129 13 0.05
130 59 0.22
131 68 0.25
132 20 0.07
133 8 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (128 bp):
GTGTCATCCTCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCACCCTTAGATAACCAGACGTC
CTCATCACGTAGGAACCATGTTATTCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGT
Found at i:634009 original size:18 final size:17
Alignment explanation
Indices: 633975--634018 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
633965 TATTTGAAGT
* *
633975 AAATATTTATTATTATA
1 AAATATTTATGACTATA
*
633992 TATATATTTATGACTATA
1 -AAATATTTATGACTATA
634010 AAATATTTA
1 AAATATTTA
634019 AATAAATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
AAATATTTATGACTATA
Found at i:635396 original size:3 final size:3
Alignment explanation
Indices: 635388--635494 Score: 162
Period size: 3 Copynumber: 35.3 Consensus size: 3
635378 ATTAATATTT
* *
635388 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA T-A TATA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
*
635433 TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
635479 TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
635495 TAAAATATGG
Statistics
Matches: 95, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.02
3 88 0.93
4 5 0.05
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:636837 original size:20 final size:20
Alignment explanation
Indices: 636812--636881 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
636802 TCTACAGTGT
636812 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
* * *
636832 CGTTGCGATAGTCTACA-GT-G
1 CGTTGCGAT--TTTCCATTTCG
636852 TCGTTGCGATTTTCCATTTCG
1 -CGTTGCGATTTTCCATTTCG
636873 CGTTGCGAT
1 CGTTGCGAT
636882 AGTTGAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
19 4 0.10
20 20 0.51
21 11 0.28
22 4 0.10
ACGTcount: A:0.13, C:0.23, G:0.24, T:0.40
Consensus pattern (20 bp):
CGTTGCGATTTTCCATTTCG
Found at i:636899 original size:41 final size:41
Alignment explanation
Indices: 636788--636884 Score: 194
Period size: 41 Copynumber: 2.4 Consensus size: 41
636778 TAGTTGAAAA
636788 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
636829 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
636870 TCGCGTTGCGATAGT
1 TCGCGTTGCGATAGT
636885 TGAAAATTGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.14, C:0.22, G:0.26, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
Found at i:636942 original size:103 final size:103
Alignment explanation
Indices: 636763--636987 Score: 360
Period size: 103 Copynumber: 2.2 Consensus size: 103
636753 ATTCACGTTG
*
636763 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCAT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTGTCATTGCGATTTTCCAT
* *
636828 TTCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTC
66 CTCGCATTGCGATAGTCTACAGTGTCGTTGCGATTTTC
* * * * *
636866 CATTTCGCGTTGCGATAGTTGAAAATTGTGTTGCTATAGTGTACAGTGTCATTGCGATTTTTCAT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTGTCATTGCGATTTTCCAT
*
636931 CTCGCATTGCGATAGTGTACAGTGTCGTTGCGATTTTC
66 CTCGCATTGCGATAGTCTACAGTGTCGTTGCGATTTTC
*
636969 CATTTCACGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
636988 CTACAGTGTC
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 112 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (103 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTGTCATTGCGATTTTCCAT
CTCGCATTGCGATAGTCTACAGTGTCGTTGCGATTTTC
Found at i:636948 original size:41 final size:41
Alignment explanation
Indices: 636896--637011 Score: 169
Period size: 41 Copynumber: 2.8 Consensus size: 41
636886 GAAAATTGTG
* * * *
636896 TTGCTATAGTGTACAGTGTCATTGCGATTTTTCATCTCGCA
1 TTGCGATAGTGTACAGTGTCGTTGCGATTTTCCATCTCACA
* *
636937 TTGCGATAGTGTACAGTGTCGTTGCGATTTTCCATTTCACG
1 TTGCGATAGTGTACAGTGTCGTTGCGATTTTCCATCTCACA
*
636978 TTGCGATAGTCTACAGTGTCGTTGCGATTTTCCA
1 TTGCGATAGTGTACAGTGTCGTTGCGATTTTCCA
637012 AATTCGTTGC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (41 bp):
TTGCGATAGTGTACAGTGTCGTTGCGATTTTCCATCTCACA
Found at i:636961 original size:62 final size:63
Alignment explanation
Indices: 636832--636964 Score: 171
Period size: 62 Copynumber: 2.1 Consensus size: 63
636822 TTCCATTTCG
* * * *
636832 CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATTGT
1 CGTTGCGATAGTCTACAGTGTCATTGCGATTTTCCATCTCGCATTGCGATAGTTGAAAAGTGT
* * * * *
636895 -GTTGCTATAGTGTACAGTGTCATTGCGATTTTTCATCTCGCATTGCGATAG-TGTACAGTGT
1 CGTTGCGATAGTCTACAGTGTCATTGCGATTTTCCATCTCGCATTGCGATAGTTGAAAAGTGT
636956 CGTTGCGAT
1 CGTTGCGAT
636965 TTTCCATTTC
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
61 7 0.12
62 52 0.88
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (63 bp):
CGTTGCGATAGTCTACAGTGTCATTGCGATTTTCCATCTCGCATTGCGATAGTTGAAAAGTGT
Found at i:637126 original size:6 final size:6
Alignment explanation
Indices: 637115--637170 Score: 112
Period size: 6 Copynumber: 9.3 Consensus size: 6
637105 GACACGTATT
637115 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
637163 ACCACG AC
1 ACCACG AC
637171 GGCGGCGGCG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.34, C:0.50, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:637660 original size:5 final size:6
Alignment explanation
Indices: 637655--637769 Score: 99
Period size: 6 Copynumber: 19.5 Consensus size: 6
637645 TCTCGTCTCG
* *
637655 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTAGT GGTAGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
* * * * * * * *
637701 GGTAGT GGTAGT GGTAGT GGTAGT GGTAGT GGTAGT GGTAGT GGTAGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
* * *
637749 GGTAGT GGTAGT GGTAGT GGT
1 GGTCGT GGTCGT GGTCGT GGT
637770 AATGGTAATG
Statistics
Matches: 108, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
5 10 0.09
6 98 0.91
ACGTcount: A:0.11, C:0.05, G:0.51, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:637820 original size:6 final size:6
Alignment explanation
Indices: 637669--637818 Score: 228
Period size: 6 Copynumber: 25.0 Consensus size: 6
637659 GGGTCGGGTC
* * *
637669 GTGGTC GTGGTC GTGGTC GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA
1 GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA
637717 GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA
1 GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA
* * * *
637765 GTGGTA ATGGTA ATGGTA GTGGTA ATGGTA GTGGTA ATGGTA GTGGTA
1 GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA GTGGTA
*
637813 ATGGTA
1 GTGGTA
637819 ATACGTGTCT
Statistics
Matches: 136, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 136 1.00
ACGTcount: A:0.18, C:0.02, G:0.47, T:0.33
Consensus pattern (6 bp):
GTGGTA
Found at i:637933 original size:41 final size:41
Alignment explanation
Indices: 637887--638025 Score: 235
Period size: 41 Copynumber: 3.4 Consensus size: 41
637877 GACACTGTAG
* * *
637887 ACTATCGCAACACGAAA-AGGAAAATCGTAACGCGATTTTCA
1 ACTATCGCAACGCGAAATA-GAAAATCGCAATGCGATTTTCA
637928 ACTATCGCAACGCGAAATAGAAAATCGCAATGCGATTTTCA
1 ACTATCGCAACGCGAAATAGAAAATCGCAATGCGATTTTCA
637969 ACTATCGCAACGCGAAATAGAAAATCGCAATGCGATTTTCA
1 ACTATCGCAACGCGAAATAGAAAATCGCAATGCGATTTTCA
638010 ACTATCGCAACGCGAA
1 ACTATCGCAACGCGAA
638026 TTTGCGATAC
Statistics
Matches: 94, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
41 93 0.99
42 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATAGAAAATCGCAATGCGATTTTCA
Found at i:637939 original size:21 final size:21
Alignment explanation
Indices: 637910--638024 Score: 99
Period size: 21 Copynumber: 5.6 Consensus size: 21
637900 GAAAAGGAAA
*
637910 ATCGTAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
637931 ATCGCAACGCGAAATAGAA-A
1 ATCGCAACGCGATTTTCAACT
*
637951 ATCGCAATGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
637972 ATCGCAACGCGAAATAGAA-A
1 ATCGCAACGCGATTTTCAACT
*
637992 ATCGCAATGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
638013 ATCGCAACGCGA
1 ATCGCAACGCGA
638025 ATTTGCGATA
Statistics
Matches: 67, Mismatches: 25, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
20 28 0.42
21 39 0.58
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:637956 original size:20 final size:20
Alignment explanation
Indices: 637931--638003 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
637921 ATTTTCAACT
637931 ATCGCAACGCGAAATAGAAA
1 ATCGCAACGCGAAATAGAAA
* ** ** *
637951 ATCGCAATGCGATTTTCAACT
1 ATCGCAACGCGAAATAGAA-A
637972 ATCGCAACGCGAAATAGAAA
1 ATCGCAACGCGAAATAGAAA
*
637992 ATCGCAATGCGA
1 ATCGCAACGCGA
638004 TTTTCAACTA
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 25 0.64
21 14 0.36
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAATAGAAA
Found at i:645911 original size:22 final size:22
Alignment explanation
Indices: 645886--645943 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
645876 GATTTTTAAC
645886 TAATATATAATTATAA-GTTTAT
1 TAATATATAATT-TAATGTTTAT
*
645908 TAATTTATAATTTAATGTTT-T
1 TAATATATAATTTAATGTTTAT
645929 ATAA-AT-TAATTTAAT
1 -TAATATATAATTTAAT
645944 AGTGTTCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 9 0.28
21 5 0.16
22 18 0.56
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (22 bp):
TAATATATAATTTAATGTTTAT
Found at i:646838 original size:3 final size:3
Alignment explanation
Indices: 646830--646857 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
646820 AAACAATTTA
646830 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
646858 CATAAAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:647193 original size:3 final size:3
Alignment explanation
Indices: 647185--647217 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
647175 ATGTTATTTC
647185 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
647218 TGTTTGACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:649917 original size:36 final size:37
Alignment explanation
Indices: 649846--649930 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 37
649836 ATCCCATTAT
*
649846 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
* *
649882 TATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
1 CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
649918 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
649931 TTGGTTACCA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 13 0.30
37 30 0.70
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.33
Consensus pattern (37 bp):
CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
Found at i:656597 original size:21 final size:23
Alignment explanation
Indices: 656568--656609 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
656558 TTTTAATAAT
*
656568 TATGTCTTTAT-G-ACGTTTTTC
1 TATGCCTTTATAGCACGTTTTTC
656589 TATGCCTTTATAGCACGTTTT
1 TATGCCTTTATAGCACGTTTT
656610 CCTCTGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 1 0.06
23 7 0.39
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (23 bp):
TATGCCTTTATAGCACGTTTTTC
Found at i:656620 original size:23 final size:21
Alignment explanation
Indices: 656568--656624 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 21
656558 TTTTAATAAT
*
656568 TATGTCTTTATGACGTTTTTC
1 TATGTCTTTATGACGTTTTCC
*
656589 TATGCCTTTATAGCACGTTTTCC
1 TATGTCTTTAT-G-ACGTTTTCC
*
656612 TCTGTCTTT-TGAC
1 TATGTCTTTATGAC
656625 ATGTTTTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 2 0.07
21 11 0.37
22 2 0.07
23 15 0.50
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.51
Consensus pattern (21 bp):
TATGTCTTTATGACGTTTTCC
Found at i:657863 original size:10 final size:10
Alignment explanation
Indices: 657848--657876 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
657838 AATTAGCCTA
657848 AAAATTAAAG
1 AAAATTAAAG
657858 AAAATTAAAG
1 AAAATTAAAG
657868 AAAATTAAA
1 AAAATTAAA
657877 CAAGCTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (10 bp):
AAAATTAAAG
Found at i:661435 original size:10 final size:10
Alignment explanation
Indices: 661420--661446 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
661410 GGAACAACTA
661420 TTTTTATATT
1 TTTTTATATT
661430 TTTTTATATT
1 TTTTTATATT
661440 TTTTTAT
1 TTTTTAT
661447 GAATAATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTATATT
Found at i:669308 original size:23 final size:25
Alignment explanation
Indices: 669264--669309 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
669254 ACGAAGGATT
*
669264 AACTTGTGTGATTGTATTTAAAAAA
1 AACTTGTGTGATTGTATATAAAAAA
669289 AACTTGTGTGATTG-A-ATAAAA
1 AACTTGTGTGATTGTATATAAAA
669310 TTCAGTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 1 0.05
25 14 0.70
ACGTcount: A:0.41, C:0.04, G:0.17, T:0.37
Consensus pattern (25 bp):
AACTTGTGTGATTGTATATAAAAAA
Found at i:671800 original size:30 final size:30
Alignment explanation
Indices: 671760--671831 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
671750 CCCGCAGGAC
671760 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
671790 CTATCTAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
671820 CTGTCCATAGGT
1 CTATCCAGAGGT
671832 TCCGAAGAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:671856 original size:31 final size:30
Alignment explanation
Indices: 671815--671942 Score: 116
Period size: 31 Copynumber: 4.1 Consensus size: 30
671805 AAAGATCCTC
*
671815 GGTAACTGTCCATAGGTTCCGAAGAACCTA
1 GGTAACTGTCCATAGGTTCCGAAGAACATA
* **
671845 GGTGAACTGTCCATATGTTCCTTAGAACATA
1 GGT-AACTGTCCATAGGTTCCGAAGAACATA
*
671876 GGTATACTGTCCATATG-TCTCGAA-AGACATA
1 GGTA-ACTGTCCATAGGTTC-CGAAGA-ACATA
* * *
671907 GGTAATTATGTCCATATGTTCCGTAGAACATA
1 GGTAA--CTGTCCATAGGTTCCGAAGAACATA
671939 GGTA
1 GGTA
671943 TCCTCGACTC
Statistics
Matches: 82, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
30 8 0.10
31 49 0.60
32 22 0.27
33 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (30 bp):
GGTAACTGTCCATAGGTTCCGAAGAACATA
Found at i:673240 original size:21 final size:21
Alignment explanation
Indices: 673214--673257 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
673204 ATTTTATTCG
* *
673214 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
673235 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
673256 CT
1 CT
673258 AGCCCAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:684572 original size:7 final size:7
Alignment explanation
Indices: 684560--684590 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
684550 GTCAAAGAAA
684560 GTCAACG
1 GTCAACG
684567 GTCAACG
1 GTCAACG
684574 GTCAACG
1 GTCAACG
684581 GTCAACG
1 GTCAACG
684588 GTC
1 GTC
684591 GGGTCGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:684597 original size:5 final size:5
Alignment explanation
Indices: 684587--684631 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
684577 AACGGTCAAC
*
684587 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTC- GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTCG GGTC
684632 AGACCGGTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 4 0.11
5 27 0.77
7 4 0.11
ACGTcount: A:0.04, C:0.22, G:0.53, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:684608 original size:22 final size:22
Alignment explanation
Indices: 684580--684624 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
684570 AACGGTCAAC
684580 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
684602 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
684624 G
1 G
684625 TCGGGTCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.09, C:0.22, G:0.51, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:684639 original size:14 final size:13
Alignment explanation
Indices: 684580--684640 Score: 51
Period size: 14 Copynumber: 4.9 Consensus size: 13
684570 AACGGTCAAC
684580 GGTCA-ACGGTCG
1 GGTCAGACGGTCG
684592 GGTC-G--GGTCG
1 GGTCAGACGGTCG
684602 GGTCA-ACGGTCG
1 GGTCAGACGGTCG
* *
684614 GGTCGGGTCGGTCG
1 GGTC-AGACGGTCG
684628 GGTCAGACCGGTC
1 GGTCAGA-CGGTC
684641 AAACCGGTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
10 9 0.24
12 13 0.34
13 1 0.03
14 15 0.39
ACGTcount: A:0.10, C:0.25, G:0.48, T:0.18
Consensus pattern (13 bp):
GGTCAGACGGTCG
Found at i:684640 original size:9 final size:9
Alignment explanation
Indices: 684628--684687 Score: 75
Period size: 10 Copynumber: 6.3 Consensus size: 9
684618 GGGTCGGTCG
*
684628 GGTCAGACC
1 GGTCAAACC
684637 GGTCAAACC
1 GGTCAAACC
*
684646 GGTTCGAACC
1 GG-TCAAACC
684656 GGTCGAAACC
1 GGTC-AAACC
684666 GGTCAAACC
1 GGTCAAACC
684675 GGTCAGAACC
1 GGTCA-AACC
684685 GGT
1 GGT
684688 TGAAAATCGA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
9 22 0.49
10 23 0.51
ACGTcount: A:0.27, C:0.30, G:0.30, T:0.13
Consensus pattern (9 bp):
GGTCAAACC
Found at i:684658 original size:19 final size:19
Alignment explanation
Indices: 684634--684688 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
684624 GTCGGGTCAG
*
684634 ACCGGTCAAACCGGTTCGA
1 ACCGGTCAAACCGGTTCAA
684653 ACCGGTCGAAACCGG-TCAA
1 ACCGGTC-AAACCGGTTCAA
684672 ACCGGTCAGAACCGGTT
1 ACCGGTCA-AACCGGTT
684689 GAAAATCGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 1 0.03
19 23 0.72
20 8 0.25
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.15
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCAA
Found at i:684669 original size:29 final size:29
Alignment explanation
Indices: 684634--684692 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
684624 GTCGGGTCAG
684634 ACCGGTCAAACCGGTTC-GAACCGGTCGAA
1 ACCGGTCAAACCGG-TCAGAACCGGTCGAA
*
684663 ACCGGTCAAACCGGTCAGAACCGGTTGAA
1 ACCGGTCAAACCGGTCAGAACCGGTCGAA
684692 A
1 A
684693 ATCGATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.31, C:0.29, G:0.27, T:0.14
Consensus pattern (29 bp):
ACCGGTCAAACCGGTCAGAACCGGTCGAA
Found at i:691896 original size:5 final size:5
Alignment explanation
Indices: 691886--691931 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
691876 AACGGTCAAC
*
691886 GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTC- GGTCG GGTCG GGTCG
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG
691932 ATTGGGTCAG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
4 4 0.11
5 28 0.78
7 4 0.11
ACGTcount: A:0.04, C:0.22, G:0.54, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:691899 original size:17 final size:17
Alignment explanation
Indices: 691879--691930 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
691869 GAAAGTCAAC
691879 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
691896 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
691913 GGT---CGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
691927 GGTC
1 GGTC
691931 GATTGGGTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 14 0.41
17 20 0.59
ACGTcount: A:0.08, C:0.23, G:0.50, T:0.19
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:691921 original size:14 final size:14
Alignment explanation
Indices: 691885--691931 Score: 67
Period size: 14 Copynumber: 3.1 Consensus size: 14
691875 CAACGGTCAA
691885 CGGTCGGGTCGGGT
1 CGGTCGGGTCGGGT
691899 CAACGGTCGGGTCGGGT
1 ---CGGTCGGGTCGGGT
691916 CGGTCGGGTCGGGT
1 CGGTCGGGTCGGGT
691930 CG
1 CG
691932 ATTGGGTCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
14 16 0.53
17 14 0.47
ACGTcount: A:0.04, C:0.23, G:0.53, T:0.19
Consensus pattern (14 bp):
CGGTCGGGTCGGGT
Found at i:691938 original size:14 final size:14
Alignment explanation
Indices: 691905--691939 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
691895 GGGTCAACGG
*
691905 TCGGGTCGGGTCGG
1 TCGGGTCGGGTCGA
691919 TCGGGTCGGGTCGA
1 TCGGGTCGGGTCGA
*
691933 TTGGGTC
1 TCGGGTC
691940 AGACCGGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.03, C:0.20, G:0.51, T:0.26
Consensus pattern (14 bp):
TCGGGTCGGGTCGA
Found at i:691948 original size:9 final size:9
Alignment explanation
Indices: 691936--692004 Score: 75
Period size: 9 Copynumber: 7.3 Consensus size: 9
691926 GGGTCGATTG
*
691936 GGTCAGACC
1 GGTCAAACC
*
691945 GGTCAAATC
1 GGTCAAACC
*
691954 GGTTCAGACC
1 GG-TCAAACC
691964 GGTCAAACC
1 GGTCAAACC
*
691973 GGTTCGAACC
1 GG-TCAAACC
691983 GGTCAAACC
1 GGTCAAACC
691992 GGTCATAACC
1 GGTCA-AACC
692002 GGT
1 GGT
692005 TGAAAACCGA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
9 28 0.56
10 22 0.44
ACGTcount: A:0.26, C:0.29, G:0.28, T:0.17
Consensus pattern (9 bp):
GGTCAAACC
Found at i:691962 original size:19 final size:19
Alignment explanation
Indices: 691938--691994 Score: 89
Period size: 19 Copynumber: 3.0 Consensus size: 19
691928 GTCGATTGGG
*
691938 TCAGACCGGTCAAATCGGT
1 TCAGACCGGTCAAACCGGT
691957 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
691976 TC-GAACCGGTCAAACCGGT
1 TCAG-ACCGGTCAAACCGGT
691995 CATAACCGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 1 0.03
19 35 0.97
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.18
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:692001 original size:19 final size:19
Alignment explanation
Indices: 691942--692004 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
691932 ATTGGGTCAG
* *
691942 ACCGGTCAAATCGGTTCAG
1 ACCGGTCAAACCGGTTCAA
*
691961 ACCGGTCAAACCGGTTCGA
1 ACCGGTCAAACCGGTTCAA
691980 ACCGGTCAAACCGG-TCATA
1 ACCGGTCAAACCGGTTCA-A
691999 ACCGGT
1 ACCGGT
692005 TGAAAACCGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
18 2 0.05
19 37 0.95
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.17
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCAA
Found at i:694590 original size:2 final size:2
Alignment explanation
Indices: 694540--694573 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
694530 TCTTATACTC
694540 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
694574 CATAAAATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:694843 original size:21 final size:21
Alignment explanation
Indices: 694819--694879 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
694809 GCGCATAATT
*
694819 TGTCCCGAATGACCACATAGA
1 TGTCCCGAAGGACCACATAGA
694840 TGTCCCGAAGGACCACATAGA
1 TGTCCCGAAGGACCACATAGA
*
694861 TGTCCCGGAGGACCACATA
1 TGTCCCGAAGGACCACATA
694880 TAACACATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.31, C:0.30, G:0.23, T:0.16
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATAGA
Found at i:699702 original size:22 final size:23
Alignment explanation
Indices: 699674--699721 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
699664 CTTTTAAAAT
699674 TTATATTT-ATCAATTAA-TTTAA
1 TTATATTTGAT-AATTAATTTTAA
*
699696 TTATATTTGATATTTAATTTTAA
1 TTATATTTGATAATTAATTTTAA
699719 TTA
1 TTA
699722 AAATATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATATTTGATAATTAATTTTAA
Found at i:702746 original size:60 final size:60
Alignment explanation
Indices: 702661--702777 Score: 171
Period size: 60 Copynumber: 1.9 Consensus size: 60
702651 TAATAGTCAA
* * * * *
702661 GTGATTATTTTGTAACTTTTAATAGTTGATGGACTCAACAAAGCAACACCCTATAGTTAT
1 GTGACTATTTTGTAACTTTCAATAGTTGAAGAACTCAACAAAGCAACACCATATAGTTAT
* *
702721 GTGACTATTTTTTAACTTTCAATAGTTGAAGAACTTAACAAAGCAACACCATATAGT
1 GTGACTATTTTGTAACTTTCAATAGTTGAAGAACTCAACAAAGCAACACCATATAGT
702778 CAGAGGATCA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (60 bp):
GTGACTATTTTGTAACTTTCAATAGTTGAAGAACTCAACAAAGCAACACCATATAGTTAT
Found at i:702799 original size:60 final size:60
Alignment explanation
Indices: 702669--702799 Score: 135
Period size: 60 Copynumber: 2.2 Consensus size: 60
702659 AAGTGATTAT
* * * * * *
702669 TTTGTA-ACTTTTAATAGTTGATGGACTCAACAAAGCAACACCCTATAGTTATGTGACTA
1 TTTGTATACTTTCAATAGTTGAAGAACTCAACAAAGCAACACCATATAGTCATGGGACTA
* *
702728 TTT-TTTAACTTTCAATAGTTGAAGAACTTAACAAAGCAACACCATATAGTCA-GAGGA-TCA
1 TTTGTAT-ACTTTCAATAGTTGAAGAACTCAACAAAGCAACACCATATAGTCATG-GGACT-A
702788 TTTGTATACTTT
1 TTTGTATACTTT
702800 ACCTTTTTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
58 1 0.02
59 5 0.09
60 50 0.86
61 2 0.03
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (60 bp):
TTTGTATACTTTCAATAGTTGAAGAACTCAACAAAGCAACACCATATAGTCATGGGACTA
Found at i:706789 original size:97 final size:97
Alignment explanation
Indices: 706635--706812 Score: 286
Period size: 97 Copynumber: 1.8 Consensus size: 97
706625 TTGGCCTCCT
* * * **
706635 CCAATTTTTAATTTTTAATTAATATTACAAATATATAAAGAAAAATTTATCTGGT-CCCCTCAAT
1 CCAATTTTTAATTATTAATTAATATTAAAAAAATATAAAGAAAAATTTATCCAGTCCCCCTCAAT
706699 TAAAAAAATTATATGTCTCCTCTTGGCTCGTG
66 TAAAAAAATTATATGTCTCCTCTTGGCTCGTG
*
706731 CCAATTTTTTAATTATTATTTAATATTAAAAAAATATAAAGAAAAATTTATCCAGTCCCCCTCAA
1 CCAA-TTTTTAATTATTAATTAATATTAAAAAAATATAAAGAAAAATTTATCCAGTCCCCCTCAA
706796 TTAAAAAAATTATATGT
65 TTAAAAAAATTATATGT
706813 ATGAAAAATA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
96 4 0.05
97 45 0.61
98 25 0.34
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.39
Consensus pattern (97 bp):
CCAATTTTTAATTATTAATTAATATTAAAAAAATATAAAGAAAAATTTATCCAGTCCCCCTCAAT
TAAAAAAATTATATGTCTCCTCTTGGCTCGTG
Found at i:708568 original size:19 final size:19
Alignment explanation
Indices: 708544--708590 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
708534 CGCTGTTGCA
708544 GCTCCATAGGTCGCCAAGT
1 GCTCCATAGGTCGCCAAGT
*
708563 GCTCCATAAGTCGCCAAGT
1 GCTCCATAGGTCGCCAAGT
708582 GCTCCATAG
1 GCTCCATAG
708591 ATCGTCGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.21
Consensus pattern (19 bp):
GCTCCATAGGTCGCCAAGT
Found at i:716003 original size:34 final size:36
Alignment explanation
Indices: 715945--716023 Score: 128
Period size: 34 Copynumber: 2.3 Consensus size: 36
715935 TCTAGAGGGT
715945 ACAGATTC-CCCTCAGGGGGTATCGATTCCCCGGGA
1 ACAGATTCTCCCTCAGGGGGTATCGATTCCCCGGGA
*
715980 ACAGATTCTCCC-CA-GGGGTATCGATTCCCCGGGT
1 ACAGATTCTCCCTCAGGGGGTATCGATTCCCCGGGA
716014 ACAGATTCTC
1 ACAGATTCTC
716024 TCCTGCATGG
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
34 29 0.69
35 10 0.24
36 3 0.07
ACGTcount: A:0.20, C:0.32, G:0.25, T:0.23
Consensus pattern (36 bp):
ACAGATTCTCCCTCAGGGGGTATCGATTCCCCGGGA
Found at i:716166 original size:21 final size:21
Alignment explanation
Indices: 716140--716181 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
716130 ATTTGAATAT
*
716140 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
716161 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
716182 CCCATTCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:734424 original size:21 final size:21
Alignment explanation
Indices: 734398--734437 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
734388 CAGAACCCCA
*
734398 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
734419 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
734438 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:738330 original size:22 final size:21
Alignment explanation
Indices: 738288--738327 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
738278 GAGTTTGTTT
*
738288 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
738309 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
738328 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:740657 original size:19 final size:19
Alignment explanation
Indices: 740633--740725 Score: 90
Period size: 20 Copynumber: 5.0 Consensus size: 19
740623 ATCATATTGT
740633 CCAGGGGTACAGATTCCCC
1 CCAGGGGTACAGATTCCCC
*
740652 CCAGGGGGGACAGATTCCCC
1 CCA-GGGGTACAGATTCCCC
740672 CCAGGGGGTATC-GATT--CC
1 CCA-GGGGTA-CAGATTCCCC
*
740690 CC--GGGAACAGATTCCCC
1 CCAGGGGTACAGATTCCCC
740707 CCAGGGGTATC-GATTCCCC
1 CCAGGGGTA-CAGATTCCCC
740726 GGGTACAGAT
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
14 1 0.02
15 8 0.13
17 4 0.06
18 4 0.06
19 15 0.24
20 29 0.47
21 1 0.02
ACGTcount: A:0.19, C:0.35, G:0.29, T:0.16
Consensus pattern (19 bp):
CCAGGGGTACAGATTCCCC
Found at i:740714 original size:34 final size:35
Alignment explanation
Indices: 740661--740739 Score: 142
Period size: 34 Copynumber: 2.3 Consensus size: 35
740651 CCCAGGGGGG
740661 ACAGATTCCCCCCAGGGGGTATCGATTCCCCGGGA
1 ACAGATTCCCCCCAGGGGGTATCGATTCCCCGGGA
*
740696 ACAGATTCCCCCCA-GGGGTATCGATTCCCCGGGT
1 ACAGATTCCCCCCAGGGGGTATCGATTCCCCGGGA
740730 ACAGATTCCC
1 ACAGATTCCC
740740 TCTGCATGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
34 29 0.67
35 14 0.33
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.19
Consensus pattern (35 bp):
ACAGATTCCCCCCAGGGGGTATCGATTCCCCGGGA
Found at i:740736 original size:15 final size:15
Alignment explanation
Indices: 740684--740739 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
740674 AGGGGGTATC
*
740684 GATTCCCCGGGAACA
1 GATTCCCCGGGTACA
740699 GATTCCCCCCAGGGGTATC-
1 GATT--CCCC--GGGTA-CA
740718 GATTCCCCGGGTACA
1 GATTCCCCGGGTACA
740733 GATTCCC
1 GATTCCC
740740 TCTGCATGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
14 1 0.03
15 16 0.47
17 8 0.24
19 8 0.24
20 1 0.03
ACGTcount: A:0.20, C:0.36, G:0.25, T:0.20
Consensus pattern (15 bp):
GATTCCCCGGGTACA
Found at i:742538 original size:35 final size:35
Alignment explanation
Indices: 742493--742562 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
742483 TAAATATAGA
742493 GTATGTATTCACCTTTATAATTATGAGAGAGAATT
1 GTATGTATTCACCTTTATAATTATGAGAGAGAATT
742528 GTATGTATTCACCTTTATAATTATGAGAGAGAATT
1 GTATGTATTCACCTTTATAATTATGAGAGAGAATT
742563 ATTTTAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (35 bp):
GTATGTATTCACCTTTATAATTATGAGAGAGAATT
Found at i:754892 original size:35 final size:35
Alignment explanation
Indices: 754845--754930 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
754835 AAAACAGTCA
* * *
754845 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
754880 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
*
754915 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
754931 ATTTCAATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:754938 original size:19 final size:20
Alignment explanation
Indices: 754899--754939 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
754889 TTCTAAACCC
754899 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATA-TTCAAT
754920 TAAATTCTAAAAT-TTCAAT
1 TAAATTCTAAAATATTCAAT
754939 T
1 T
754940 TAAGGTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 7 0.35
21 13 0.65
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAATTCTAAAATATTCAAT
Found at i:755094 original size:16 final size:18
Alignment explanation
Indices: 755062--755095 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
755052 TATTAATGTA
755062 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
755080 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
755096 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:761110 original size:13 final size:13
Alignment explanation
Indices: 761092--761118 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
761082 TGTTAGACAG
761092 TATTATAAGTTAA
1 TATTATAAGTTAA
761105 TATTATAAGTTAA
1 TATTATAAGTTAA
761118 T
1 T
761119 GTCCACCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TATTATAAGTTAA
Found at i:774866 original size:11 final size:11
Alignment explanation
Indices: 774850--774875 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
774840 ATTCATTGAA
774850 ATTTCTCAAAG
1 ATTTCTCAAAG
774861 ATTTCTCAAAG
1 ATTTCTCAAAG
774872 ATTT
1 ATTT
774876 GACAAAGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (11 bp):
ATTTCTCAAAG
Found at i:778649 original size:23 final size:23
Alignment explanation
Indices: 778623--778672 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
778613 TTAAGAGTGT
778623 TGTTGCTAGTTAGTTAAAGAAGC
1 TGTTGCTAGTTAGTTAAAGAAGC
*
778646 TGTTGCTAGTTAGTTAAAGAAGT
1 TGTTGCTAGTTAGTTAAAGAAGC
778669 TGTT
1 TGTT
778673 AGCTGGCGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.28, C:0.06, G:0.26, T:0.40
Consensus pattern (23 bp):
TGTTGCTAGTTAGTTAAAGAAGC
Found at i:781832 original size:27 final size:27
Alignment explanation
Indices: 781793--781858 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
781783 ATACACTCTA
**
781793 CACCACCTGGGAGTGTTGCTGAAGAAT
1 CACCACCTGGGAGTGGGGCTGAAGAAT
* *
781820 CACCACCTTGGAGTGGGGTTGAAGAAT
1 CACCACCTGGGAGTGGGGCTGAAGAAT
*
781847 CATCACCTGGGA
1 CACCACCTGGGA
781859 ATAATGCTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (27 bp):
CACCACCTGGGAGTGGGGCTGAAGAAT
Found at i:783801 original size:23 final size:23
Alignment explanation
Indices: 783775--783826 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
783765 TGTTAAGAGT
783775 GTTGTTGCTAGTTAGTTAAAGAA
1 GTTGTTGCTAGTTAGTTAAAGAA
783798 GTTGTTGCTAGTTAGTTAAAGAA
1 GTTGTTGCTAGTTAGTTAAAGAA
783821 GTTGTT
1 GTTGTT
783827 AGCTGGCGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.27, C:0.04, G:0.27, T:0.42
Consensus pattern (23 bp):
GTTGTTGCTAGTTAGTTAAAGAA
Found at i:785894 original size:22 final size:23
Alignment explanation
Indices: 785866--785909 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
785856 ATTTCATTAG
*
785866 TAAGATGTA-TATAGTGTTGATA
1 TAAGATGTAGTATAGTGGTGATA
785888 TAAGATGTAGTATAGTGGTGAT
1 TAAGATGTAGTATAGTGGTGAT
785910 GGAAAGCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.34, C:0.00, G:0.27, T:0.39
Consensus pattern (23 bp):
TAAGATGTAGTATAGTGGTGATA
Found at i:787356 original size:2 final size:2
Alignment explanation
Indices: 787349--787396 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
787339 TTGGGGTAAT
787349 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
787391 TA TA TA
1 TA TA TA
787397 ATTTACACTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:787640 original size:30 final size:30
Alignment explanation
Indices: 787604--787697 Score: 91
Period size: 30 Copynumber: 3.1 Consensus size: 30
787594 TGTTGTATGG
* *
787604 AAGACGTCTAAAAGATTTGACGATTTTTGA
1 AAGACGTCTAAAAGAGTCGACGATTTTTGA
* *
787634 AAGACGTTTAGAAGAGTCGACGATTTTTGA
1 AAGACGTCTAAAAGAGTCGACGATTTTTGA
* * * * *
787664 AAAACG-CTTACAATACTCGACGACTTTTGA
1 AAGACGTC-TAAAAGAGTCGACGATTTTTGA
787694 AAGA
1 AAGA
787698 TTCATGAGAA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (30 bp):
AAGACGTCTAAAAGAGTCGACGATTTTTGA
Found at i:789077 original size:2 final size:2
Alignment explanation
Indices: 789072--789105 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
789062 TTTGAAGAAG
789072 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
789106 ATTATAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:789252 original size:14 final size:14
Alignment explanation
Indices: 789235--789273 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
789225 AAATATTTAA
789235 ATAAAATTTAAATT
1 ATAAAATTTAAATT
**
789249 ATAAAATAAAAATT
1 ATAAAATTTAAATT
789263 -TAAAATTTAAA
1 ATAAAATTTAAA
789274 AAATTTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAAAATTTAAATT
Found at i:789273 original size:20 final size:18
Alignment explanation
Indices: 789229--789274 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 18
789219 GAATAAAAAT
789229 ATTT-AAATAAAATTTAA
1 ATTTAAAATAAAATTTAA
789246 ATTATAAAATAAAAATTTAAA
1 ATT-TAAAAT-AAAATTT-AA
789267 ATTTAAAA
1 ATTTAAAA
789275 AATTTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 3 0.12
18 1 0.04
19 4 0.16
20 12 0.48
21 5 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTTAAAATAAAATTTAA
Found at i:792614 original size:100 final size:98
Alignment explanation
Indices: 792431--792630 Score: 289
Period size: 100 Copynumber: 2.0 Consensus size: 98
792421 CAGAGGTAAT
*
792431 ATTTCTATCACATATACTTTTAGTATTTTTGTTCACAAGGTTAAAACAGTAAAAAAATCTTATTT
1 ATTTCTATCACATATACTTTTAGTATTTTTCTTCACAAGGTTAAAACAGTAAAAAAATC-T-TTT
792496 ATTTATTTATTTTATTTTTAAATATACTTAATAAA
64 ATTTATTTATTTTATTTTTAAATATACTTAATAAA
*
792531 ATTTCTATCACATATACTTTTAGTATTTTTTTTTCTTCATAAGGTTAAAACAGTAAAAAAATC-T
1 ATTTCTATCACATATACTTTTAGTA----TTTTTCTTCACAAGGTTAAAACAGTAAAAAAATCTT
*
792595 TT-TTTATTT-TTTTATTTTTTAAATATGCTTAATAAA
62 TTATTTATTTATTTTA-TTTTTAAATATACTTAATAAA
792631 TTAAGTATTA
Statistics
Matches: 92, Mismatches: 3, Indels: 10
0.88 0.03 0.10
Matches are distributed among these distances:
99 5 0.05
100 52 0.57
101 3 0.03
104 32 0.35
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (98 bp):
ATTTCTATCACATATACTTTTAGTATTTTTCTTCACAAGGTTAAAACAGTAAAAAAATCTTTTAT
TTATTTATTTTATTTTTAAATATACTTAATAAA
Found at i:800058 original size:10 final size:10
Alignment explanation
Indices: 800045--800074 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
800035 GTGTGTGTGT
800045 GTGAGAGAGA
1 GTGAGAGAGA
800055 GTGAGAGAGA
1 GTGAGAGAGA
*
800065 GAGAGAGAGA
1 GTGAGAGAGA
800075 TTACATGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.50, T:0.07
Consensus pattern (10 bp):
GTGAGAGAGA
Found at i:811090 original size:2 final size:2
Alignment explanation
Indices: 811083--811112 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
811073 AAACTCAGTT
811083 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
811113 ATTGTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:812965 original size:41 final size:42
Alignment explanation
Indices: 812920--813127 Score: 235
Period size: 41 Copynumber: 4.9 Consensus size: 42
812910 ATTCACGTTG
*
812920 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCG-TTTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTTC
* *
812961 CATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGA-TTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTTC
*** *
813002 CATTTCGCGTTGCGATAGTTG-AAATCGCAACGCGATCTCAATCATC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-T---T-TTC
* * *
813048 GCAAATTCACGTTGCGATAGTTGAAAATCGCGTTGTGATTTTT-
1 -C-ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTTC
813091 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
813128 AGTCTACAGT
Statistics
Matches: 139, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
40 10 0.07
41 91 0.65
42 2 0.01
44 1 0.01
45 2 0.01
46 2 0.01
47 1 0.01
48 19 0.14
49 11 0.08
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (42 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTTC
Found at i:813016 original size:20 final size:20
Alignment explanation
Indices: 812945--813017 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
812935 TAGTTGAAAA
*
812945 TCGCGTTGCGTTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
812965 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGAT-TTTCCATT
812986 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
813006 TCGCGTTGCGAT
1 TCGCGTTGCGAT
813018 AGTTGAAATC
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.63
21 15 0.37
ACGTcount: A:0.11, C:0.22, G:0.27, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:813029 original size:20 final size:21
Alignment explanation
Indices: 812924--813029 Score: 67
Period size: 20 Copynumber: 5.2 Consensus size: 21
812914 ACGTTGCATT
*
812924 TCGCATTGCGATAGTT-GAAAA
1 TCGCGTTGCGATAGTTCG-AAA
** * **
812945 TCGCGTTGCG-TTTTTCCATT
1 TCGCGTTGCGATAGTTCGAAA
* *
812965 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGATAGTTCGAAA
* * **
812986 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTCGAAA
813006 TCGCGTTGCGATAGTT-GAAA
1 TCGCGTTGCGATAGTTCGAAA
813026 TCGC
1 TCGC
813030 AACGCGATCT
Statistics
Matches: 61, Mismatches: 21, Indels: 7
0.69 0.24 0.08
Matches are distributed among these distances:
20 34 0.56
21 27 0.44
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTCGAAA
Found at i:813081 original size:21 final size:21
Alignment explanation
Indices: 813057--813130 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
813047 CGCAAATTCA
813057 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGATAGTTGAAAATCG
* * ** **
813078 CGTTGTGAT-TTTTCATTTCG
1 CGTTGCGATAGTTGAAAATCG
813098 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGATAGTTGAAAATCG
813119 CGTTGCGATAGT
1 CGTTGCGATAGT
813131 CTACAGTTGT
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 14 0.35
21 26 0.65
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (21 bp):
CGTTGCGATAGTTGAAAATCG
Found at i:813244 original size:6 final size:6
Alignment explanation
Indices: 813233--813262 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
813223 GTGTCGAAGA
813233 CACGAC CACGAC CACGAC CACGAC C-CGAC C
1 CACGAC CACGAC CACGAC CACGAC CACGAC C
813263 TGAGACGGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.30, C:0.53, G:0.17, T:0.00
Consensus pattern (6 bp):
CACGAC
Found at i:813748 original size:6 final size:6
Alignment explanation
Indices: 813739--813774 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
813729 CCGCCGCCGC
813739 CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT
1 CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT
813775 AATATGTGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
CGTGGT
Found at i:813956 original size:42 final size:42
Alignment explanation
Indices: 813871--813993 Score: 137
Period size: 41 Copynumber: 3.0 Consensus size: 42
813861 ACGAATTTGA
* * * *
813871 AAAATCGCAACGACAACTGTAGACTACCGTAA--TGAATTTGG
1 AAAATCGCAACGACAACTGTAGACTATCGCAACGCGAA-ATGG
813912 AAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGG
1 AAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGG
* * *
813954 AAAATCGCAACG-CGATTTTCA-ACTATCGCAACGCGAAATG
1 AAAATCGCAACGACAACTGT-AGACTATCGCAACGCGAAATG
813994 CAACGCGAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 53 0.74
42 16 0.22
43 3 0.04
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.19
Consensus pattern (42 bp):
AAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGG
Found at i:813997 original size:21 final size:21
Alignment explanation
Indices: 813934--813997 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
813924 ACAACTGTAG
*
813934 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
813955 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
813975 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
813996 AC
1 AC
813998 GCGAATTTGC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:818729 original size:39 final size:39
Alignment explanation
Indices: 818659--818775 Score: 112
Period size: 39 Copynumber: 3.0 Consensus size: 39
818649 TCCAATAATA
* * * * *
818659 CCTAAGCACTAAGCTGATGAGTTTGCAGTAAGGACTTAC
1 CCTAAACACAAAGCTGAGGAGTCTGCGGTAAGGACTTAC
* *
818698 CCTAAACACAAA-ATCGAGGAGTCTGCGGTAAGGACTTAT
1 CCTAAACACAAAGCT-GAGGAGTCTGCGGTAAGGACTTAC
* * *
818737 CTTGAGCACAAAGCTGAGGAG-CATGCGGTAAGGACTTAC
1 CCTAAACACAAAGCTGAGGAGTC-TGCGGTAAGGACTTAC
818776 AAGTCATAGA
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
38 2 0.03
39 60 0.95
40 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (39 bp):
CCTAAACACAAAGCTGAGGAGTCTGCGGTAAGGACTTAC
Found at i:832728 original size:2 final size:2
Alignment explanation
Indices: 832716--832749 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
832706 TCATTTATCC
*
832716 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
832750 CCTTTGTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:834007 original size:32 final size:32
Alignment explanation
Indices: 833971--834044 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
833961 GCATCTTTAA
*
833971 AGATTCAACAGTAAATGTTGGGGCATATTTGG
1 AGATTCAACAGTAAATATTGGGGCATATTTGG
* * *
834003 AGATTCAACATTGAATATTGTGGCATATTTGG
1 AGATTCAACAGTAAATATTGGGGCATATTTGG
* *
834035 GGATTTAACA
1 AGATTCAACA
834045 TCCTGATGCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.34
Consensus pattern (32 bp):
AGATTCAACAGTAAATATTGGGGCATATTTGG
Found at i:834657 original size:43 final size:43
Alignment explanation
Indices: 834596--834715 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
834586 ATGAAGGGGT
* *
834596 CATCCGCGATTTTAACTCCACGACGGAGGATATCGTACCCACA
1 CATCCACGATTTTAACTCCACGACGGAGGATATCGTACCAACA
* *
834639 CATCCACGATTTTAACTCCACGGCAGAGGATATCGTACCAACA
1 CATCCACGATTTTAACTCCACGACGGAGGATATCGTACCAACA
* * *
834682 GATCCACGATTTCAACTCCACAACGGAGGATATC
1 CATCCACGATTTTAACTCCACGACGGAGGATATC
834716 ATGCCCATAT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (43 bp):
CATCCACGATTTTAACTCCACGACGGAGGATATCGTACCAACA
Found at i:834738 original size:43 final size:43
Alignment explanation
Indices: 834596--834749 Score: 164
Period size: 43 Copynumber: 3.6 Consensus size: 43
834586 ATGAAGGGGT
* * *
834596 CATCCGCGATTTTAACTCCACGACGGAGGATATCGTACCCACA
1 CATCCACGATTTCAACTCCACAACGGAGGATATCGTACCCACA
* ** * *
834639 CATCCACGATTTTAACTCCACGGCAGAGGATATCGTACCAACA
1 CATCCACGATTTCAACTCCACAACGGAGGATATCGTACCCACA
* * * *
834682 GATCCACGATTTCAACTCCACAACGGAGGATATCATGCCCATA
1 CATCCACGATTTCAACTCCACAACGGAGGATATCGTACCCACA
* * * *
834725 TATTCACGGTTTCAACTTCACAACG
1 CATCCACGATTTCAACTCCACAACG
834750 AAAGGAATCG
Statistics
Matches: 94, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 94 1.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.23
Consensus pattern (43 bp):
CATCCACGATTTCAACTCCACAACGGAGGATATCGTACCCACA
Found at i:834761 original size:86 final size:86
Alignment explanation
Indices: 834597--834761 Score: 188
Period size: 86 Copynumber: 1.9 Consensus size: 86
834587 TGAAGGGGTC
* * * * * **
834597 ATCCGCGATTTTAACTCCACGACGGAGGATATCGTACCCACACATCCACGATTTTAACTCCACGG
1 ATCCACGATTTCAACTCCACAACGGAGGATATCATACCCACACATCCACGATTTCAACTCCACAA
*
834662 CAGAGGATATCGTACCAACAG
66 CAAAGGATATCGTACCAACAG
* * * * * *
834683 ATCCACGATTTCAACTCCACAACGGAGGATATCATGCCCATATATTCACGGTTTCAACTTCACAA
1 ATCCACGATTTCAACTCCACAACGGAGGATATCATACCCACACATCCACGATTTCAACTCCACAA
834748 CGAAAGGA-ATCGTA
66 C-AAAGGATATCGTA
834762 TACACGAGCA
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
86 59 0.92
87 5 0.08
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.22
Consensus pattern (86 bp):
ATCCACGATTTCAACTCCACAACGGAGGATATCATACCCACACATCCACGATTTCAACTCCACAA
CAAAGGATATCGTACCAACAG
Found at i:835033 original size:43 final size:43
Alignment explanation
Indices: 834971--835073 Score: 145
Period size: 43 Copynumber: 2.4 Consensus size: 43
834961 ACGAATGGGC
*
834971 CATCCACAATTTCAACTCCACGACGGAGGATATCATACCCACGA
1 CATCCACGATTTCAACTCCACGACGGAGGATATCATACCCAC-A
* * *
835015 -ATCCATGATTTCAACTCCACGACGTAGGATATCATGCCCACA
1 CATCCACGATTTCAACTCCACGACGGAGGATATCATACCCACA
*
835057 CATCCACGGTTTCAACT
1 CATCCACGATTTCAACT
835074 TCATGACGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 1 0.02
43 51 0.98
ACGTcount: A:0.31, C:0.33, G:0.14, T:0.22
Consensus pattern (43 bp):
CATCCACGATTTCAACTCCACGACGGAGGATATCATACCCACA
Found at i:835046 original size:332 final size:334
Alignment explanation
Indices: 834639--835343 Score: 916
Period size: 332 Copynumber: 2.1 Consensus size: 334
834629 CGTACCCACA
* * * *
834639 CATCCACGATTTTAACTCCACGGCAGAGGATATCGTACCAACAGATCCACGATTTCAACTCCACA
1 CATCCACGATTTCAACTCCACGACGGAGGATATCATACCAACAGATCCACGATTTCAACTCCACA
* * * * *
834704 ACGGAGGATATCATGCCCATATATTCACGGTTTCAACTTCACAACGAAAGGAATCGTATACACGA
66 ACGGAGGATATCATGCCCACACATCCACGGTTTCAACTTCACAACGAAAGGAATCGTACACACAA
* * * *
834769 GCAGCATCCATCTGTTGATTGGATTTCAACTTCATGACGAAGGATATCCAACTCAAAGAATGAGT
131 GCAGCATCCATCTCTAGATTGGATTTCAACTTCAGGACGAAGGATATCCAACTCAAAGAAGGAGT
* *
834834 GTCTGTCAATAAACTTTACAGTTTCAGAGCCAATTTCAACTTCACGGCGAAGGATATTGGACTCG
196 GTCTGTCAATAAACTTTACAGTTTCAGAGCCAACTTCAACTTCACGACGAAGGATATTGGACTCG
* * *
834899 AAACAA-C-AC-AAGCTTGGATTTTAACTTCACGATGAAGGATATTCAAGTT-GCTCAACTTCAC
261 AAACAAGCAACTAA-CTTGGATTTCAACTTCACGACGAAGGATATCCAA-TTAGCTCAACTTCAC
*
834960 GACGAATGGGC
324 GACGAAGGGGC
* * *
834971 CATCCACAATTTCAACTCCACGACGGAGGATATCATACCCAC-GAATCCATGATTTCAACTCCAC
1 CATCCACGATTTCAACTCCACGACGGAGGATATCATACCAACAG-ATCCACGATTTCAACTCCAC
* * ** *
835035 GACGTAGGATATCATGCCCACACATCCACGGTTTCAACTTCATGACGAAGGGAATCGTACACACA
65 AACGGAGGATATCATGCCCACACATCCACGGTTTCAACTTCACAACGAAAGGAATCGTACACACA
* * * * * *
835100 AGCATCATCTATCTCTAGGTTGGATTTCAACTTCAGGACGAATGATATCCAACTCAGAGAGGGAG
130 AGCAGCATCCATCTCTAGATTGGATTTCAACTTCAGGACGAAGGATATCCAACTCAAAGAAGGAG
* * * * *
835165 TGTTTGTCAATAAACTTTCCAGTTTCATAGTCAACTTCAACTTCACGACGAAGGATATTGGCCTC
195 TGTCTGTCAATAAACTTTACAGTTTCAGAGCCAACTTCAACTTCACGACGAAGGATATTGGACTC
* *
835230 GAAACAATGCAACTTAACTTGGATTTCAACTTCTCGACGAAGGATATCCAATTCAAGGTTCAACT
260 GAAACAA-GCAAC-TAACTTGGATTTCAACTTCACGACGAAGGATATCCAATT--A-GCTCAACT
*
835295 TCACGACGAAGGGGT
320 TCACGACGAAGGGGC
* *
835310 CATCCACGATTTCAACTTCACGACGAAGGATATC
1 CATCCACGATTTCAACTCCACGACGGAGGATATC
835344 GTGTCCACCA
Statistics
Matches: 319, Mismatches: 44, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
331 1 0.00
332 230 0.72
334 1 0.00
335 4 0.01
336 30 0.09
337 2 0.01
339 51 0.16
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (334 bp):
CATCCACGATTTCAACTCCACGACGGAGGATATCATACCAACAGATCCACGATTTCAACTCCACA
ACGGAGGATATCATGCCCACACATCCACGGTTTCAACTTCACAACGAAAGGAATCGTACACACAA
GCAGCATCCATCTCTAGATTGGATTTCAACTTCAGGACGAAGGATATCCAACTCAAAGAAGGAGT
GTCTGTCAATAAACTTTACAGTTTCAGAGCCAACTTCAACTTCACGACGAAGGATATTGGACTCG
AAACAAGCAACTAACTTGGATTTCAACTTCACGACGAAGGATATCCAATTAGCTCAACTTCACGA
CGAAGGGGC
Done.