Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008866.1 Hibiscus syriacus cultivar Beakdansim tig00112100_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: 80310
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Found at i:8950 original size:16 final size:17
Alignment explanation
Indices: 8897--8958 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
8887 TTTTTAAAAA
*
8897 AATAAT-AATATAATAT
1 AATAATAAAAATAATAT
*
8913 AATGAATAAAAATCGAAAAT
1 AAT-AATAAAAAT--AATAT
8933 AATAA-AAAAATAATAT
1 AATAATAAAAATAATAT
8949 AATATATAAA
1 AATA-ATAAA
8959 GTTATAAGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
16 11 0.30
17 4 0.11
18 13 0.35
19 2 0.05
20 7 0.19
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (17 bp):
AATAATAAAAATAATAT
Found at i:9654 original size:37 final size:37
Alignment explanation
Indices: 9604--9708 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 37
9594 GTGCTTGTGG
* * *
9604 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAATTTGAATCCTAGTAGAACTCT
* ** * * *
9641 ATCCTATTTTTAGGAGTTTGAATCCTAACAAAATTTT
1 ATCCTATTTTTAGGAATTTGAATCCTAGTAGAACTCT
*
9678 ATCTTATTTTTAGGAATTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAATTTGAATCCTAGTAG
9709 GACGAAAATG
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.43
Consensus pattern (37 bp):
ATCCTATTTTTAGGAATTTGAATCCTAGTAGAACTCT
Found at i:9823 original size:2 final size:2
Alignment explanation
Indices: 9816--9850 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9806 TCATTCCTCT
9816 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
9851 GAGTGAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22540 original size:20 final size:20
Alignment explanation
Indices: 22517--22568 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
22507 AACGCGATCC
22517 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
22537 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
22557 CCAAAATCGCAA
1 CCAGAATCGCAA
22569 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:22585 original size:21 final size:20
Alignment explanation
Indices: 22558--22656 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
22548 AATCAGTTTC
22558 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
22579 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
22600 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
22620 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
22641 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
22657 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:22685 original size:20 final size:20
Alignment explanation
Indices: 22623--22816 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
22613 CGATTTTCCA
* ** *
22623 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
22643 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
22663 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
22683 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
22703 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
22723 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
22743 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
22763 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
22783 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
22804 AAATCGCAACGCG
1 AAATCGCAACGCG
22817 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:22707 original size:60 final size:60
Alignment explanation
Indices: 22623--22816 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
22613 CGATTTTCCA
* ** * *
22623 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
22683 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
22743 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
22804 AAATCGCAACGCG
1 AAATCGCAACGCG
22817 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:23234 original size:33 final size:33
Alignment explanation
Indices: 23195--23265 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
23185 TTCACTTAGA
*
23195 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
23228 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
23261 TTTCA
1 TTTCA
23266 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:23405 original size:14 final size:14
Alignment explanation
Indices: 23386--23439 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
23376 AGAATGACTG
23386 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
23400 TCGCAACGCGAAATGAAA
1 TCGCAA--CGAGA-G-AA
23418 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
23432 TCGCAACG
1 TCGCAACG
23440 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 8 0.24
17 1 0.03
18 8 0.24
ACGTcount: A:0.41, C:0.24, G:0.26, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:23421 original size:18 final size:16
Alignment explanation
Indices: 23396--23444 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
23386 TCGCAACGAG
23396 AGAATCGCAACGCGAA
1 AGAATCGCAACGCGAA
*
23412 ATGAAATCGCAA--CGAG
1 A-G-AATCGCAACGCGAA
23428 AGAATCGCAACGCGAA
1 AGAATCGCAACGCGAA
23444 A
1 A
23445 CCAAAATCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.30
15 1 0.04
16 9 0.33
17 1 0.04
18 8 0.30
ACGTcount: A:0.45, C:0.22, G:0.24, T:0.08
Consensus pattern (16 bp):
AGAATCGCAACGCGAA
Found at i:23473 original size:19 final size:19
Alignment explanation
Indices: 23451--23548 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
23441 GAAACCAAAA
*
23451 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
23470 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
23484 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
23503 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
23517 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
23536 TCGCGTTGCGATT
1 TCGCGTTGCGATT
23549 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:23492 original size:14 final size:14
Alignment explanation
Indices: 23473--23562 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
23463 TTTCATTTCG
23473 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
23487 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
23506 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
23520 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
23537 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
23553 CGTTGCGATT
1 CGTTGCGATT
23563 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:23498 original size:33 final size:33
Alignment explanation
Indices: 23456--23570 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
23446 CAAAATCGCA
23456 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
23489 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
23522 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
23555 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
23571 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:25492 original size:91 final size:93
Alignment explanation
Indices: 25240--25613 Score: 697
Period size: 91 Copynumber: 4.1 Consensus size: 93
25230 TAGATTGCTT
*
25240 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
25305 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
25333 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
25397 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
25424 AGT-AATTTGTTCGGTTGCTGCCAA-TCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
25487 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
25514 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCT-AACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
25578 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
25606 AGTAAATT
1 AGTAAATT
25614 ATCCATTCAA
Statistics
Matches: 275, Mismatches: 1, Indels: 11
0.96 0.00 0.04
Matches are distributed among these distances:
89 36 0.13
90 36 0.13
91 116 0.42
92 26 0.09
93 61 0.22
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:25697 original size:19 final size:19
Alignment explanation
Indices: 25657--25782 Score: 98
Period size: 19 Copynumber: 7.3 Consensus size: 19
25647 TAGTTTACTT
* *
25657 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
25677 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
25696 TCGCAACGCG-AATGAAAA
1 TCGCAACGCGAAACCAAAA
*
25714 TCGCAA--CG-----AGAA
1 TCGCAACGCGAAACCAAAA
25726 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
25745 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
25759 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
25778 TCGCA
1 TCGCA
25783 TTGCGATTTT
Statistics
Matches: 86, Mismatches: 8, Indels: 25
0.72 0.07 0.21
Matches are distributed among these distances:
12 9 0.10
14 12 0.14
15 1 0.01
16 4 0.05
17 2 0.02
18 13 0.15
19 32 0.37
20 13 0.15
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:25715 original size:18 final size:18
Alignment explanation
Indices: 25673--25727 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
25663 CACGAAACTT
*
25673 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCG-AATC
*
25692 AAAATCGCAACGCGAATG
1 AAAATCGCAACGCGAATC
*
25710 AAAATCGCAACGAGAATC
1 AAAATCGCAACGCGAATC
25728 GCAACGCGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 18 0.56
19 14 0.44
ACGTcount: A:0.47, C:0.25, G:0.18, T:0.09
Consensus pattern (18 bp):
AAAATCGCAACGCGAATC
Found at i:25767 original size:33 final size:31
Alignment explanation
Indices: 25692--25782 Score: 130
Period size: 33 Copynumber: 2.9 Consensus size: 31
25682 ACGCGAAACC
**
25692 AAAATCGCAACGCG-AATGAAAATCGCAACG
1 AAAATCGCAACGCGAAACCAAAATCGCAACG
*
25722 AGAATCGCAACGCGAAACCAAAATCGCAACG
1 AAAATCGCAACGCGAAACCAAAATCGCAACG
25753 ACAAGATCGCAACGCGAAACCAAAATCGCA
1 A-AA-ATCGCAACGCGAAACCAAAATCGCA
25783 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
30 13 0.24
31 15 0.28
32 1 0.02
33 25 0.46
ACGTcount: A:0.46, C:0.27, G:0.19, T:0.08
Consensus pattern (31 bp):
AAAATCGCAACGCGAAACCAAAATCGCAACG
Found at i:25800 original size:19 final size:19
Alignment explanation
Indices: 25778--25912 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
25768 GAAACCAAAA
*
25778 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
25797 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
25813 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
25830 TCGCGTTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
25846 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
25863 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
25882 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
25902 TCGTGTTGCGA
1 TCGCGTTGCGA
25913 AAGTAAACTA
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:25819 original size:14 final size:14
Alignment explanation
Indices: 25800--25856 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
25790 TTTCATTTCG
25800 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
25814 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
25831 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
25847 CGTTGCGATT
1 CGTTGCGATT
25857 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.09, C:0.21, G:0.25, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:25825 original size:33 final size:33
Alignment explanation
Indices: 25783--25875 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
25773 CAAAATCGCA
*
25783 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
25816 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
25849 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
25876 TTGGTTTCGC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:27696 original size:11 final size:11
Alignment explanation
Indices: 27677--27710 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
27667 TGATTCAATA
27677 GTTTATTGATT
1 GTTTATTGATT
*
27688 GTTTTTTGATT
1 GTTTATTGATT
27699 GTTTAATTGATT
1 GTTT-ATTGATT
27711 TGTAAAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (11 bp):
GTTTATTGATT
Found at i:27738 original size:38 final size:38
Alignment explanation
Indices: 27690--27762 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
27680 TATTGATTGT
*
27690 TTTTTGATTGTTTAATTGATTTGTAAAAGTTGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
27728 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
27763 TGTAAAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:27749 original size:19 final size:19
Alignment explanation
Indices: 27685--27749 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
27675 TAGTTTATTG
*
27685 ATTGTTTTTTGATTGTTTA
1 ATTGATTTTTGATTGTTTA
* * ** *
27704 ATTGATTTGTAAAAG-TTG
1 ATTGATTTTTGATTGTTTA
*
27722 ATTCAATTTTTGATTGTTTA
1 ATT-GATTTTTGATTGTTTA
27742 ATTGATTT
1 ATTGATTT
27750 GTAAAAGATG
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
18 5 0.16
19 21 0.68
20 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (19 bp):
ATTGATTTTTGATTGTTTA
Found at i:27763 original size:14 final size:14
Alignment explanation
Indices: 27744--27779 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
27734 ATTGTTTAAT
27744 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
27758 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
27772 TGATTTGT
1 TGATTTGT
27780 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:27900 original size:19 final size:19
Alignment explanation
Indices: 27884--27985 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
27874 CAAAATGACT
27884 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
27903 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
27922 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
27936 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
27955 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
27975 ATCGCAATGCG
1 ATCGCAATGCG
27986 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:28034 original size:33 final size:33
Alignment explanation
Indices: 27992--28250 Score: 140
Period size: 33 Copynumber: 7.5 Consensus size: 33
27982 TGCGTTTATA
27992 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
*
28025 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
*
28061 -TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
* **
28096 ATTTCGCATTGCGATTTTCATTTTTGCGATTTTC
1 ATTTCGCATTGCGATTATC-TCGTTGCGATTTTC
* * *
28130 ATTTCGCTTTTTC-ATTTTTTATTTCGCATTGCGATTCTCTC
1 ATTTCGC-ATTGCGA----TTATCTCG--TTGCGATT-T-TC
* * * * *
28171 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTATCTCGTTGCGATTTTC
*
28202 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
28235 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
28251 TTCATTTCGC
Statistics
Matches: 180, Mismatches: 22, Indels: 48
0.72 0.09 0.19
Matches are distributed among these distances:
31 9 0.05
32 5 0.03
33 77 0.43
34 19 0.11
35 16 0.09
36 18 0.10
37 1 0.01
38 15 0.08
39 8 0.04
40 6 0.03
41 6 0.03
ACGTcount: A:0.14, C:0.21, G:0.16, T:0.49
Consensus pattern (33 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
Found at i:28038 original size:19 final size:19
Alignment explanation
Indices: 28014--28335 Score: 328
Period size: 19 Copynumber: 18.4 Consensus size: 19
28004 GATTATCTCG
28014 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
28033 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
28052 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
28066 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
28085 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
28104 TTGCGATTTTCATTT----
1 TTGCGATTTTCATTTCGCA
*
28119 TTGCGATTTTCATTTCGCTT
1 TTGCGATTTTCATTTCGC-A
* *
28139 TTTC-ATTTTTTATTTCGCA
1 TTGCGA-TTTTCATTTCGCA
*
28158 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
28172 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
28191 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
28210 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
28224 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
28243 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
28262 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
28276 TTGCGATTTTCATTTCCGC-
1 TTGCGATTTTCATTT-CGCA
28295 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
28309 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
28328 TTGCGATT
1 TTGCGATT
28336 GTATTTTCCG
Statistics
Matches: 258, Mismatches: 13, Indels: 64
0.77 0.04 0.19
Matches are distributed among these distances:
14 35 0.14
15 16 0.06
16 30 0.12
17 28 0.11
18 2 0.01
19 132 0.51
20 15 0.06
ACGTcount: A:0.13, C:0.21, G:0.17, T:0.49
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:28280 original size:33 final size:33
Alignment explanation
Indices: 28033--28335 Score: 217
Period size: 33 Copynumber: 8.8 Consensus size: 33
28023 TCATTTCGCA
*
28033 TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
28066 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * *
28102 CATTGCGATTTTCATTTTTGCGATTTTC-ATT-TCGCTT
1 --TTGCGATTTTCA-TTTCGC-A-TTGCGATTCTCTC-G
* *
28139 TTTC-ATTTTTTATTTCGCATTGCGATTCTCTCG
1 TTGCGA-TTTTCATTTCGCATTGCGATTCTCTCG
*
28172 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
28208 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
28243 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
28276 TTGCGATTTTCATTTCCGC-TTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
* *
28309 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
28336 GTATTTTCCG
Statistics
Matches: 216, Mismatches: 27, Indels: 54
0.73 0.09 0.18
Matches are distributed among these distances:
31 9 0.04
32 11 0.05
33 109 0.50
34 14 0.06
35 16 0.07
36 11 0.05
37 2 0.01
38 22 0.10
39 8 0.04
40 11 0.05
41 3 0.01
ACGTcount: A:0.13, C:0.21, G:0.17, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:28296 original size:158 final size:158
Alignment explanation
Indices: 27992--28296 Score: 549
Period size: 158 Copynumber: 1.9 Consensus size: 158
27982 TGCGTTTATA
27992 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
* * **
28057 ATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTTTG
66 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCATCGTTG
28122 CGATTTTCATTTCGCTTTTTCATTTTTT
131 CGATTTTCATTTCGCTTTTTCATTTTTT
*
28150 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
28215 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTC-TCGTTG
66 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCATCGTTG
28279 CGATTTTCATTTCCGCTT
131 CGATTTTCATTT-CGCTT
28297 GCGATTTTCA
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
157 16 0.11
158 125 0.89
ACGTcount: A:0.13, C:0.22, G:0.16, T:0.49
Consensus pattern (158 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCATCGTTG
CGATTTTCATTTCGCTTTTTCATTTTTT
Found at i:28335 original size:52 final size:52
Alignment explanation
Indices: 27992--28307 Score: 510
Period size: 52 Copynumber: 6.0 Consensus size: 52
27982 TGCGTTTATA
*
27992 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
28044 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* ** * * *
28096 ATTTCGCATTGCGATTTTCATTTTTGCGATTTTCATTTCGCTTTTTC-ATTTTTT
1 ATTTCGCATTGCGATTCTC-TCGTTGCGATTTTCATTTCGC-ATTGCGA-TTTTC
28150 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
28202 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
28254 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGC-TTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
28306 AT
1 AT
28308 GTTGGGATTT
Statistics
Matches: 244, Mismatches: 15, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
52 176 0.72
53 43 0.18
54 25 0.10
ACGTcount: A:0.14, C:0.22, G:0.16, T:0.49
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:30610 original size:12 final size:12
Alignment explanation
Indices: 30595--30619 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30585 TTTTCGGGGA
30595 CTTTTTCTTCTT
1 CTTTTTCTTCTT
30607 CTTTTTCTTCTT
1 CTTTTTCTTCTT
30619 C
1 C
30620 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:31523 original size:20 final size:20
Alignment explanation
Indices: 31495--31863 Score: 442
Period size: 20 Copynumber: 18.4 Consensus size: 20
31485 AAATTTCAGT
* * * *
31495 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
31515 GTTGCGATTTAACGGATTA-TC
1 GTTGCGATTT-ACGGA-TACGC
* * *
31536 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
31556 GTTGCGATTTAC-GATTA-TC
1 GTTGCGATTTACGGA-TACGC
31575 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
31595 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
31615 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
31635 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
31655 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
31675 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
31695 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
31715 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
31735 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
31755 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
31775 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
31795 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
31815 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
31835 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
31855 GTTGCGATT
1 GTTGCGATT
31864 ATGGAAAATC
Statistics
Matches: 308, Mismatches: 31, Indels: 20
0.86 0.09 0.06
Matches are distributed among these distances:
19 21 0.07
20 267 0.87
21 19 0.06
22 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:40456 original size:23 final size:23
Alignment explanation
Indices: 40421--40478 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
40411 TACTAAACTG
* *
40421 GACTTGAACCACTTCAATAATTT
1 GACTTAAAACACTTCAATAATTT
40444 GACTTAAAACACTTCAATAATTT
1 GACTTAAAACACTTCAATAATTT
40467 GACTTAAAACAC
1 GACTTAAAACAC
40479 CATCAAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (23 bp):
GACTTAAAACACTTCAATAATTT
Found at i:41738 original size:5 final size:5
Alignment explanation
Indices: 41690--41725 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
41680 AGAATGAAAG
41690 GGAGA GGAGA GGAGA GGAGA GGAGA GGAGA GGAGA G
1 GGAGA GGAGA GGAGA GGAGA GGAGA GGAGA GGAGA G
41726 AGTGAGAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (5 bp):
GGAGA
Found at i:43878 original size:24 final size:24
Alignment explanation
Indices: 43844--43899 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
43834 CTATTCTTTC
*
43844 GCTTCATTTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
43868 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
43892 GCTTCAAT
1 GCTTCAAT
43900 CGAACTTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAATTTTAG
Found at i:44748 original size:60 final size:60
Alignment explanation
Indices: 44624--44793 Score: 149
Period size: 60 Copynumber: 2.9 Consensus size: 60
44614 AGTATGATTC
* * * * * *
44624 TCATTTTAAATCAATCTCT-AAACTTTTAAATATTCCAATTTGAT----ACCTATGACTA
1 TCATTCTAAATTAATCCCTAAAACTTTTAAACATTCAAATTTGATCCCAAACTATGACTA
* *
44679 TCATTCTAAATTAAT-CCTCAAACTTTTGAACATTTC-AATTTGATCCCCAAACTATGACCT-
1 TCATTCTAAATTAATCCCTAAAACTTTTAAACA-TTCAAATTTGAT-CCCAAACTATGA-CTA
** * *
44739 TCATTCTAAATTGGTCCCTAAAATTTTTAAACATTCAAATTTTATCCCAAACTAT
1 TCATTCTAAATTAATCCCTAAAACTTTTAAACATTCAAATTTGATCCCAAACTAT
44794 ACATATATGC
Statistics
Matches: 93, Mismatches: 12, Indels: 15
0.77 0.10 0.12
Matches are distributed among these distances:
54 2 0.02
55 32 0.34
56 3 0.03
60 33 0.35
61 23 0.25
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.39
Consensus pattern (60 bp):
TCATTCTAAATTAATCCCTAAAACTTTTAAACATTCAAATTTGATCCCAAACTATGACTA
Found at i:45036 original size:60 final size:60
Alignment explanation
Indices: 44910--45067 Score: 155
Period size: 60 Copynumber: 2.6 Consensus size: 60
44900 GAATTTGGCG
* * *
44910 ATAAAATTGGAATA-TTAAGAAGCTTGAGG-ACTAATTTAGAAA-G-GGGTCATAGTTTAGGT
1 ATAAAATTAGAATATTTAA-AAGCTTAAGGAAC-AATTTA-AAATGAGAGTCATAGTTTAGGT
* * * * * *
44969 ATGAAATTATAATGTTTGAAAGTTTAAGGAATAATTTAAAATGAGAGTCATAGTTTGAGG-
1 ATAAAATTAGAATATTTAAAAGCTTAAGGAACAATTTAAAATGAGAGTCATAGTTT-AGGT
*
45029 ATAAAATTAGAATATTTAAAAGCTTAAGGACCAATTTAA
1 ATAAAATTAGAATATTTAAAAGCTTAAGGAACAATTTAA
45068 TATACAAATT
Statistics
Matches: 78, Mismatches: 16, Indels: 9
0.76 0.16 0.09
Matches are distributed among these distances:
58 3 0.04
59 25 0.32
60 47 0.60
61 3 0.04
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.32
Consensus pattern (60 bp):
ATAAAATTAGAATATTTAAAAGCTTAAGGAACAATTTAAAATGAGAGTCATAGTTTAGGT
Found at i:45832 original size:29 final size:29
Alignment explanation
Indices: 45798--45890 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
45788 ATGATCATAA
45798 TTTAAGGATAAAATTAGAATATTCAAAAG
1 TTTAAGGATAAAATTAGAATATTCAAAAG
* * * * *
45827 TTTAAGAACT-AATTTAGAGTGAGTC-ATAG
1 TTTAAGGA-TAAAATTAGAAT-ATTCAAAAG
*
45856 TTTAGGGATAAAATTAGAATATTCAAAAG
1 TTTAAGGATAAAATTAGAATATTCAAAAG
45885 TTTAAG
1 TTTAAG
45891 AACCAATTTA
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
28 4 0.08
29 40 0.83
30 4 0.08
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.33
Consensus pattern (29 bp):
TTTAAGGATAAAATTAGAATATTCAAAAG
Found at i:45877 original size:58 final size:59
Alignment explanation
Indices: 45747--45900 Score: 213
Period size: 58 Copynumber: 2.6 Consensus size: 59
45737 TTTGGGTATG
** *
45747 AAATTAGAATATTCAAAAGTTTGGGGGACCAATTTAGAAAGATGATCATAATTTAAGGATA
1 AAATTAGAATATTCAAAAGTTT-AAGAACCAATTTAG-AAGATGATCATAATTTAAGGATA
* * *
45808 AAATTAGAATATTCAAAAGTTTAAGAACTAATTTAG-AG-TGAGTCATAGTTTAGGGATA
1 AAATTAGAATATTCAAAAGTTTAAGAACCAATTTAGAAGATGA-TCATAATTTAAGGATA
45866 AAATTAGAATATTCAAAAGTTTAAGAACCAATTTA
1 AAATTAGAATATTCAAAAGTTTAAGAACCAATTTA
45901 AAATAAAAGA
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
57 3 0.04
58 50 0.59
60 10 0.12
61 22 0.26
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.31
Consensus pattern (59 bp):
AAATTAGAATATTCAAAAGTTTAAGAACCAATTTAGAAGATGATCATAATTTAAGGATA
Found at i:45905 original size:29 final size:29
Alignment explanation
Indices: 45811--45905 Score: 84
Period size: 29 Copynumber: 3.3 Consensus size: 29
45801 AAGGATAAAA
*
45811 TTAGAATATTCAAAAGTTTAAGAACTAAT
1 TTAGAATATTCAAAAGTTTAAGAACAAAT
* * * * * * *
45840 TTAGAGTGAGTC-ATAGTTTAGGGATAAAA
1 TTAGAAT-ATTCAAAAGTTTAAGAACAAAT
*
45869 TTAGAATATTCAAAAGTTTAAGAACCAAT
1 TTAGAATATTCAAAAGTTTAAGAACAAAT
*
45898 TTAAAATA
1 TTAGAATA
45906 AAAGATATAG
Statistics
Matches: 47, Mismatches: 17, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
28 3 0.06
29 41 0.87
30 3 0.06
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (29 bp):
TTAGAATATTCAAAAGTTTAAGAACAAAT
Found at i:47254 original size:45 final size:46
Alignment explanation
Indices: 47188--47294 Score: 146
Period size: 45 Copynumber: 2.3 Consensus size: 46
47178 GGTGCACTAA
* *
47188 GAGTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AAAGAGCTT
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAA-ACCAT
* * *
47233 GAGTGCATTGATGCATCAAATGGATTCGATGTTTTCATAAAACCAT
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCAT
47279 GAGTGCATCGATGCAT
1 GAGTGCATCGATGCAT
47295 GGATAGTGCA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
45 28 0.52
46 23 0.43
47 3 0.06
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (46 bp):
GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCAT
Found at i:51428 original size:3 final size:3
Alignment explanation
Indices: 51420--51497 Score: 70
Period size: 3 Copynumber: 26.0 Consensus size: 3
51410 ATTTGGGCCT
* * * *
51420 ATA ATA ATA TTTA TTA ATA GTA A-A ATA ATA ATA ATA AAA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
51465 ATA ATT ATA ATA ATA ATG ATA AT- ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
51498 TTTAAATGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
2 4 0.07
3 53 0.87
4 4 0.07
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:52179 original size:20 final size:20
Alignment explanation
Indices: 52150--52201 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
52140 ACCTGACGGA
*
52150 TGCATAGATGCATTGCATTG
1 TGCATCGATGCATTGCATTG
52170 TGCATCGATGCATTGCATTG
1 TGCATCGATGCATTGCATTG
52190 TGCATCGATGCA
1 TGCATCGATGCA
52202 CATTCAAGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (20 bp):
TGCATCGATGCATTGCATTG
Found at i:57598 original size:65 final size:65
Alignment explanation
Indices: 57523--57659 Score: 181
Period size: 65 Copynumber: 2.1 Consensus size: 65
57513 CGATGCACTC
* * * *
57523 TCGATG-TTTCA-AAATAGCCTGAGTGCATCGATGCATTGCTTGTGCATCGATGCATCAAA-TGC
1 TCGATGTTTTCATAAA-ACCCTGAGTGCATCGATGCATGGATAGTGCATCGATGCAT-AAACTGC
57585 AT
64 AT
* *
57587 TCGATGTTTTCATAAAACCCTGAGTGCATTGATGCATGGATAGTGCATCGGTGCATAAACTGCAT
1 TCGATGTTTTCATAAAACCCTGAGTGCATCGATGCATGGATAGTGCATCGATGCATAAACTGCAT
57652 TCGATGTT
1 TCGATGTT
57660 CAATTTATTC
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
64 9 0.14
65 52 0.81
66 3 0.05
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (65 bp):
TCGATGTTTTCATAAAACCCTGAGTGCATCGATGCATGGATAGTGCATCGATGCATAAACTGCAT
Found at i:57695 original size:20 final size:20
Alignment explanation
Indices: 57670--57707 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57660 CAATTTATTC
*
57670 ATTGGTGTATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
57690 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
57708 CCCTTTGAAA
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:0.18, C:0.13, G:0.34, T:0.34
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:60898 original size:892 final size:892
Alignment explanation
Indices: 59175--60960 Score: 3536
Period size: 892 Copynumber: 2.0 Consensus size: 892
59165 AAATAAGCAC
*
59175 AAGGTATGCATTAAGTCTGTTGTGTCCAAGGCACATGATGAATGAATCAAATCTCTTATGCCAAT
1 AAGGTATGCATTAAGTCTGTTGTATCCAAGGCACATGATGAATGAATCAAATCTCTTATGCCAAT
59240 ACCTCGGCGCCTACTTTAGACCGTACAGAGATTTGTTCAACCTACAAACCAAGTTCTTCTTTTCT
66 ACCTCGGCGCCTACTTTAGACCGTACAGAGATTTGTTCAACCTACAAACCAAGTTCTTCTTTTCT
59305 TCTTCTTCTTCAAAACCTTCAGGCTGGAGCATGTAAATCTATTCTTCAAGATTTCCATGAAGAAA
131 TCTTCTTCTTCAAAACCTTCAGGCTGGAGCATGTAAATCTATTCTTCAAGATTTCCATGAAGAAA
59370 AGTTGTTTTAACATCTAGCAGCTCTAGATGTAAGTTCAATGTAGTTCAATGTAGCACACATTTCT
196 AGTTGTTTTAACATCTAGCAGCTCTAGATGTAAGTTCAATGTAGTTCAATGTAGCACACATTTCT
59435 AAGACTACTCGAACTATTATTAGTCAAACTATAGGAGAAAAGATTTCATTGAAATCAATACATTC
261 AAGACTACTCGAACTATTATTAGTCAAACTATAGGAGAAAAGATTTCATTGAAATCAATACATTC
59500 TTTTTGAGCATATCCTTTGACCACCAGTCTTGCACGATACCTCTCAACTTGGTCGTTACTATTTC
326 TTTTTGAGCATATCCTTTGACCACCAGTCTTGCACGATACCTCTCAACTTGGTCGTTACTATTTC
59565 GCTTAATTTTAAAGACCCATTTGTTACCAATTTGATTCCTTCCTTGTGGTAGTGGCACAAGGTCC
391 GCTTAATTTTAAAGACCCATTTGTTACCAATTTGATTCCTTCCTTGTGGTAGTGGCACAAGGTCC
59630 CATGTATTATTTTTATGAAGGGCTTCAATTTCTTCTTGCATCGCCATCATCCACAGTGAAACATA
456 CATGTATTATTTTTATGAAGGGCTTCAATTTCTTCTTGCATCGCCATCATCCACAGTGAAACATA
59695 TGAGCTGTTTATTGCCTCATGGTATGTTGATGGCTCACCGTCTTTTGTTAAAAGGCAGTATGCAA
521 TGAGCTGTTTATTGCCTCATGGTATGTTGATGGCTCACCGTCTTTTGTTAAAAGGCAGTATGCAA
59760 TATTACCTTCTATAACATAATTTGAGTGCCAATTAAGACGTCTTCTCACATGATCTGATTGACGA
586 TATTACCTTCTATAACATAATTTGAGTGCCAATTAAGACGTCTTCTCACATGATCTGATTGACGA
59825 GTTGTGGAGCTTCAGAACTCTTTGGTTCTTCTTCATCATGTACTGGTTCTGCTTCAGAAAACTCT
651 GTTGTGGAGCTTCAGAACTCTTTGGTTCTTCTTCATCATGTACTGGTTCTGCTTCAGAAAACTCT
*
59890 CCTTGTTCAAACTTCTTTTCCATATGTATCTGTGTAGTCTCTGACTTTTCAGTGCTACCATGTTC
716 CCTTGTTCAAACTTCTTTTCCACATGTATCTGTGTAGTCTCTGACTTTTCAGTGCTACCATGTTC
59955 TTCTTTTCTTTGTAGCTTATCTTCTACAAAGATAACATCCCTGCTGATGATCACTTTACGGGCAG
781 TTCTTTTCTTTGTAGCTTATCTTCTACAAAGATAACATCCCTGCTGATGATCACTTTACGGGCAG
60020 TGGGATCCCACAAGTGATACCTCTTTACACCATCATCATACCCCAAG
846 TGGGATCCCACAAGTGATACCTCTTTACACCATCATCATACCCCAAG
60067 AAGGTATGCATTAAGTCTGTTGTATCCAAGGCACATGATGAATGAATCAAATCTCTTATGCCAAT
1 AAGGTATGCATTAAGTCTGTTGTATCCAAGGCACATGATGAATGAATCAAATCTCTTATGCCAAT
60132 ACCTCGGCGCCTACTTTAGACCGTACAGAGATTTGTTCAACCTACAAACCAAGTTCTTCTTTTCT
66 ACCTCGGCGCCTACTTTAGACCGTACAGAGATTTGTTCAACCTACAAACCAAGTTCTTCTTTTCT
*
60197 TCTTCTTCTTCAAAACCTTCAGGCTGGAGTATGTAAATCTATTCTTCAAGATTTCCATGAAGAAA
131 TCTTCTTCTTCAAAACCTTCAGGCTGGAGCATGTAAATCTATTCTTCAAGATTTCCATGAAGAAA
60262 AGTTGTTTTAACATCTAGCAGCTCTAGATGTAAGTTCAATGTAGTTCAATGTAGCACACATTTCT
196 AGTTGTTTTAACATCTAGCAGCTCTAGATGTAAGTTCAATGTAGTTCAATGTAGCACACATTTCT
60327 AAGACTACTCGAACTATTATTAGTCAAACTATAGGAGAAAAGATTTCATTGAAATCAATACATTC
261 AAGACTACTCGAACTATTATTAGTCAAACTATAGGAGAAAAGATTTCATTGAAATCAATACATTC
60392 TTTTTGAGCATATCCTTTGACCACCAGTCTTGCACGATACCTCTCAACTTGGTCGTTACTATTTC
326 TTTTTGAGCATATCCTTTGACCACCAGTCTTGCACGATACCTCTCAACTTGGTCGTTACTATTTC
*
60457 GCTTAATTTTGAAGACCCATTTGTTACCAATTTGATTCCTTCCTTGTGGTAGTGGCACAAGGTCC
391 GCTTAATTTTAAAGACCCATTTGTTACCAATTTGATTCCTTCCTTGTGGTAGTGGCACAAGGTCC
60522 CATGTATTATTTTTATGAAGGGCTTCAATTTCTTCTTGCATCGCCATCATCCACAGTGAAACATA
456 CATGTATTATTTTTATGAAGGGCTTCAATTTCTTCTTGCATCGCCATCATCCACAGTGAAACATA
60587 TGAGCTGTTTATTGCCTCATGGTATGTTGATGGCTCACCGTCTTTTGTTAAAAGGCAGTATGCAA
521 TGAGCTGTTTATTGCCTCATGGTATGTTGATGGCTCACCGTCTTTTGTTAAAAGGCAGTATGCAA
60652 TATTACCTTCTATAACATAATTTGAGTGCCAATTAAGACGTCTTCTCACATGATCTGATTGACGA
586 TATTACCTTCTATAACATAATTTGAGTGCCAATTAAGACGTCTTCTCACATGATCTGATTGACGA
60717 GTTGTGGAGCTTCAGAACTCTTTGGTTCTTCTTCATCATGTACTGGTTCTGCTTCAGAAAACTCT
651 GTTGTGGAGCTTCAGAACTCTTTGGTTCTTCTTCATCATGTACTGGTTCTGCTTCAGAAAACTCT
60782 CCTTGTTCAAACTTCTTTTCCACATGTATCTGTGTAGTCTCTGACTTTTCAGTGCTACCATGTTC
716 CCTTGTTCAAACTTCTTTTCCACATGTATCTGTGTAGTCTCTGACTTTTCAGTGCTACCATGTTC
60847 TTCTTTTCTTTGTAGCTTATCTTCTACAAAGATAACATCCCTGCTGATGATCACTTTACGGGCAG
781 TTCTTTTCTTTGTAGCTTATCTTCTACAAAGATAACATCCCTGCTGATGATCACTTTACGGGCAG
60912 TGGGATCCCACAAGTGATACCTCTTTACACCATCATCATACCCCAAG
846 TGGGATCCCACAAGTGATACCTCTTTACACCATCATCATACCCCAAG
60959 AA
1 AA
60961 TTTGTATTTC
Statistics
Matches: 890, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
892 890 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (892 bp):
AAGGTATGCATTAAGTCTGTTGTATCCAAGGCACATGATGAATGAATCAAATCTCTTATGCCAAT
ACCTCGGCGCCTACTTTAGACCGTACAGAGATTTGTTCAACCTACAAACCAAGTTCTTCTTTTCT
TCTTCTTCTTCAAAACCTTCAGGCTGGAGCATGTAAATCTATTCTTCAAGATTTCCATGAAGAAA
AGTTGTTTTAACATCTAGCAGCTCTAGATGTAAGTTCAATGTAGTTCAATGTAGCACACATTTCT
AAGACTACTCGAACTATTATTAGTCAAACTATAGGAGAAAAGATTTCATTGAAATCAATACATTC
TTTTTGAGCATATCCTTTGACCACCAGTCTTGCACGATACCTCTCAACTTGGTCGTTACTATTTC
GCTTAATTTTAAAGACCCATTTGTTACCAATTTGATTCCTTCCTTGTGGTAGTGGCACAAGGTCC
CATGTATTATTTTTATGAAGGGCTTCAATTTCTTCTTGCATCGCCATCATCCACAGTGAAACATA
TGAGCTGTTTATTGCCTCATGGTATGTTGATGGCTCACCGTCTTTTGTTAAAAGGCAGTATGCAA
TATTACCTTCTATAACATAATTTGAGTGCCAATTAAGACGTCTTCTCACATGATCTGATTGACGA
GTTGTGGAGCTTCAGAACTCTTTGGTTCTTCTTCATCATGTACTGGTTCTGCTTCAGAAAACTCT
CCTTGTTCAAACTTCTTTTCCACATGTATCTGTGTAGTCTCTGACTTTTCAGTGCTACCATGTTC
TTCTTTTCTTTGTAGCTTATCTTCTACAAAGATAACATCCCTGCTGATGATCACTTTACGGGCAG
TGGGATCCCACAAGTGATACCTCTTTACACCATCATCATACCCCAAG
Found at i:76429 original size:20 final size:21
Alignment explanation
Indices: 76404--76455 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
76394 TTTTCCCAAT
*
76404 TCGCAATGCGAATAAG-TAAA
1 TCGCAATGCGAATAAGAAAAA
* **
76424 TCGCAACGCGAATTGGAAAAA
1 TCGCAATGCGAATAAGAAAAA
76445 TCGCAATGCGA
1 TCGCAATGCGA
76456 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATAAGAAAAA
Found at i:76469 original size:20 final size:20
Alignment explanation
Indices: 76444--76557 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
76434 AATTGGAAAA
*
76444 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
76464 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
76484 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
76505 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
76525 TTTGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
76545 TTCGCAACGCGAT
1 ATCGCAACGCGAT
76558 TTACATAGCG
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
19 2 0.03
20 63 0.79
21 13 0.16
22 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:76488 original size:61 final size:61
Alignment explanation
Indices: 76441--76557 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
76431 GCGAATTGGA
* * * *
76441 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * *
76502 AAAATCGCAACGAGATACTGACTTTTGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
76558 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:77178 original size:19 final size:19
Alignment explanation
Indices: 77151--77295 Score: 139
Period size: 19 Copynumber: 8.1 Consensus size: 19
77141 AAAACCAAAA
*
77151 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
77170 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
77184 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
77203 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
77222 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
77236 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
77255 TCGCGTTGCAATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
77274 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
77294 TC
1 TC
77296 AACCAAAAGA
Statistics
Matches: 103, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
14 20 0.19
16 5 0.05
17 6 0.06
19 56 0.54
20 16 0.16
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:77234 original size:52 final size:52
Alignment explanation
Indices: 77151--77287 Score: 211
Period size: 52 Copynumber: 2.6 Consensus size: 52
77141 AAAACCAAAA
* **
77151 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
77203 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
* * *
77255 TCGCGTTGCAATTCTCATTATCTCGTTGCGATT
1 TCGCGTTGCGATTTTCATT-TCGCGTTGCGATT
77288 TTCATTTCAA
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
52 66 0.85
53 12 0.15
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.44
Consensus pattern (52 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
Found at i:77243 original size:33 final size:33
Alignment explanation
Indices: 77206--77270 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
77196 TTTCATTTCG
** *
77206 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCAATTCTCT
77239 CGTTGCGATAGTCATTTCGCGTTGCAATTCTC
1 CGTTGCGATAGTCATTTCGCGTTGCAATTCTC
77271 ATTATCTCGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.42
Consensus pattern (33 bp):
CGTTGCGATAGTCATTTCGCGTTGCAATTCTCT
Found at i:78956 original size:63 final size:63
Alignment explanation
Indices: 78734--78925 Score: 375
Period size: 63 Copynumber: 3.0 Consensus size: 63
78724 TTACGTGATG
*
78734 GGTCAATGCCTTGTGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTGGA
1 GGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTGGA
78797 GGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTGGA
1 GGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTGGA
78860 GGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTGGA
1 GGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTGGA
78923 GGT
1 GGT
78926 GTCTACTTTA
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 128 1.00
ACGTcount: A:0.20, C:0.18, G:0.37, T:0.24
Consensus pattern (63 bp):
GGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTGGA
Found at i:79563 original size:42 final size:42
Alignment explanation
Indices: 79487--79575 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
79477 GACTCGCCTG
* * *
79487 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
* * * * *
79529 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
79571 TCATC
1 TCATC
79576 GTTGAAGAGG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.21, C:0.38, G:0.17, T:0.24
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
Done.