Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003521.1 Hibiscus syriacus cultivar Beakdansim tig00007442_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: 180572
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:1156 original size:11 final size:11
Alignment explanation
Indices: 1140--1186 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
1130 CCTAAATGTT
1140 TTTTCTTTTTC
1 TTTTCTTTTTC
1151 TTTTCTTTTCTC
1 TTTTCTTTT-TC
1163 TTTT-TTCTTTC
1 TTTTCTT-TTTC
*
1174 TTTTTTTTTTC
1 TTTTCTTTTTC
1185 TT
1 TT
1187 CGACTTAGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
11 23 0.70
12 10 0.30
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:1164 original size:7 final size:6
Alignment explanation
Indices: 1139--1186 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
1129 CCCTAAATGT
*
1139 TTTTTC TTTTTC -TTTTC TTTTCTC TTTTT- TCTTTC TTTTT- TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTT-TC TTTTTC TTTTTC TTTTTC TTTTTC
1185 TT
1 TT
1187 CGACTTAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
5 14 0.39
6 16 0.44
7 6 0.17
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:1164 original size:18 final size:17
Alignment explanation
Indices: 1139--1186 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
1129 CCCTAAATGT
1139 TTTTTCTTTTTCTTTTC
1 TTTTTCTTTTTCTTTTC
1156 TTTTCTCTTTTT-TCTTTC
1 TTTT-TCTTTTTCT-TTTC
1174 TTTTT-TTTTTCTT
1 TTTTTCTTTTTCTT
1187 CGACTTAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 6 0.21
17 7 0.25
18 15 0.54
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTTTCTTTTC
Found at i:11531 original size:10 final size:9
Alignment explanation
Indices: 11515--11733 Score: 69
Period size: 10 Copynumber: 23.4 Consensus size: 9
11505 AATGGTGATG
11515 AAAATAAAT
1 AAAATAAAT
11524 ACAAATAAAT
1 A-AAATAAAT
11534 AAAATAAAAT
1 AAAAT-AAAT
11544 AAAGA-AGAA-
1 AAA-ATA-AAT
*
11553 AAAATAGAT
1 AAAATAAAT
*
11562 GAAATAAAT
1 AAAATAAAT
*
11571 AATAAAAAGAT
1 AA-AATAA-AT
* *
11582 AAAGTAAGT
1 AAAATAAAT
11591 AAAAAGTAAAT
1 -AAAA-TAAAT
** *
11602 AGCATAATT
1 AAAATAAAT
11611 AAAATAATGAT
1 AAAATAA--AT
*
11622 ATAGA-AAAT
1 A-AAATAAAT
* *
11631 GAAAGAAAT
1 AAAATAAAT
*
11640 AAAATAAAG
1 AAAATAAAT
11649 ACAAAT--AT
1 A-AAATAAAT
*
11657 -ACATAAAT
1 AAAATAAAT
*
11665 AAAACAAGAT
1 AAAATAA-AT
*
11675 AAAATAAAG
1 AAAATAAAT
*
11684 ATAAAGAAA-
1 A-AAATAAAT
11693 AAAATAAAT
1 AAAATAAAT
11702 GAATGAATAAA-
1 -AA--AATAAAT
11713 AAAATAAAT
1 AAAATAAAT
*
11722 GAAA-AAAT
1 AAAATAAAT
11730 AAAA
1 AAAA
11734 AAGAGATAAA
Statistics
Matches: 153, Mismatches: 32, Indels: 51
0.65 0.14 0.22
Matches are distributed among these distances:
6 3 0.02
8 26 0.17
9 51 0.33
10 52 0.34
11 13 0.08
12 8 0.05
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:11535 original size:14 final size:14
Alignment explanation
Indices: 11516--11767 Score: 52
Period size: 15 Copynumber: 17.9 Consensus size: 14
11506 ATGGTGATGA
11516 AAAT-AAATACAAAT
1 AAATAAAATA-AAAT
11530 AAATAAAATAAAAT
1 AAATAAAATAAAAT
*
11544 AAAGAAGAA-AAAAT
1 AAATAA-AATAAAAT
* *
11558 AGATGAAATAAATAAT
1 AAATAAAAT-AA-AAT
* *
11574 AAA-AAGATAAAGT
1 AAATAAAATAAAAT
*
11587 AAGTAAAA-AGTAAAT
1 AAATAAAATA--AAAT
* *
11602 AGCAT-AATTAAAAT
1 A-AATAAAATAAAAT
* *
11616 -AATGATATAGAAAAT
1 AAAT-A-AAATAAAAT
*
11631 GAAA-GAAATAAAAT
1 -AAATAAAATAAAAT
* *
11645 AAAGACAAATATACAT
1 AAATA-AAATA-AAAT
* *
11661 AAATAAAACAAGAT
1 AAATAAAATAAAAT
*
11675 AAAATAAAGAT-AAAG
1 -AAATAAA-ATAAAAT
11690 AAA-AAAAT-AAAT
1 AAATAAAATAAAAT
* *
11702 GAAT-GAATAAAA-
1 AAATAAAATAAAAT
*
11714 AAAT-AAATGAAA-
1 AAATAAAATAAAAT
11726 AAATAAAA-AAGAGAT
1 AAATAAAATAA-A-AT
11741 AAATAAAGAATAAAAT
1 AAAT-AA-AATAAAAT
11757 -AA-AAAATAAAA
1 AAATAAAATAAAA
11768 CGAAAAAATA
Statistics
Matches: 173, Mismatches: 36, Indels: 60
0.64 0.13 0.22
Matches are distributed among these distances:
12 33 0.19
13 22 0.13
14 44 0.25
15 48 0.28
16 19 0.11
17 5 0.03
18 2 0.01
ACGTcount: A:0.71, C:0.02, G:0.09, T:0.18
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:11767 original size:12 final size:12
Alignment explanation
Indices: 11675--11787 Score: 65
Period size: 12 Copynumber: 9.2 Consensus size: 12
11665 AAAACAAGAT
11675 AAAATAAAGATAA
1 AAAATAAA-ATAA
11688 AGAAA-AAAATAA
1 A-AAATAAAATAA
* *
11700 ATGAAT-GAATAA
1 A-AAATAAAATAA
11712 AAAA-ATAAATGAA
1 AAAATA-AAAT-AA
11725 AAAATAAAA-AA
1 AAAATAAAATAA
* *
11736 GAGAT-AAATAA
1 AAAATAAAATAA
*
11747 AGAATAAAATAA
1 AAAATAAAATAA
*
11759 AAAATAAAACGAA
1 AAAATAAAA-TAA
*
11772 AAAATATAAACAA
1 AAAATA-AAATAA
11785 AAA
1 AAA
11788 GAAATAAAGA
Statistics
Matches: 77, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
10 3 0.04
11 11 0.14
12 30 0.39
13 26 0.34
14 7 0.09
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.14
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:11846 original size:3 final size:3
Alignment explanation
Indices: 11838--11962 Score: 83
Period size: 3 Copynumber: 38.7 Consensus size: 3
11828 ATATTTGAAA
11838 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT AAT
* * * * * *
11885 ATAT ATAT AAAT AA- AAT ATT AGAA AAT ATAT AGT AAG AAG AAA AAT
1 A-AT A-AT -AAT AAT AAT AAT A-AT AAT A-AT AAT AAT AAT AAT AAT
11931 AAGGT AA- AAT AAAT AAT AAAT AAT AAT AAT AA
1 AA--T AAT AAT -AAT AAT -AAT AAT AAT AAT AA
11963 AACAAAAAAA
Statistics
Matches: 101, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
2 4 0.04
3 69 0.68
4 24 0.24
5 4 0.04
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:13030 original size:15 final size:17
Alignment explanation
Indices: 13010--13044 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
13000 ATAAAATGTA
13010 AATTTAT-ATAT-ATAT
1 AATTTATAATATCATAT
13025 AATTTATAATATCATAT
1 AATTTATAATATCATAT
13042 AAT
1 AAT
13045 AATATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 4 0.22
17 7 0.39
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTTATAATATCATAT
Found at i:16835 original size:2 final size:2
Alignment explanation
Indices: 16828--16873 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
16818 GAAGATTGAA
16828 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16870 AT AT
1 AT AT
16874 GATAAAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17109 original size:16 final size:16
Alignment explanation
Indices: 17088--17129 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
17078 TAAATAAACG
17088 AACATAAACGAACACA
1 AACATAAACGAACACA
*
17104 AACATAAACGAACACG
1 AACATAAACGAACACA
17120 AACATAAACG
1 AACATAAACG
17130 TTGGAGACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.60, C:0.24, G:0.10, T:0.07
Consensus pattern (16 bp):
AACATAAACGAACACA
Found at i:18222 original size:14 final size:14
Alignment explanation
Indices: 18205--18243 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
18195 GATTGGGTTA
*
18205 AACATAAATGAACC
1 AACATAAACGAACC
* *
18219 AACATAACCGAACG
1 AACATAAACGAACC
18233 AACATAAACGA
1 AACATAAACGA
18244 GCATAATCGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.56, C:0.23, G:0.10, T:0.10
Consensus pattern (14 bp):
AACATAAACGAACC
Found at i:18642 original size:2 final size:2
Alignment explanation
Indices: 18635--18683 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
18625 GTAACATAAA
18635 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
18677 AT TT AT A
1 AT AT AT A
18684 CATTTATTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:22665 original size:16 final size:16
Alignment explanation
Indices: 22641--22671 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22631 CTTTATTCTT
*
22641 TGGGGTTTGCCTCCTA
1 TGGGATTTGCCTCCTA
22657 TGGGATTTGCCTCCT
1 TGGGATTTGCCTCCT
22672 TTAATCTCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.26, G:0.29, T:0.39
Consensus pattern (16 bp):
TGGGATTTGCCTCCTA
Found at i:26569 original size:2 final size:2
Alignment explanation
Indices: 26562--26728 Score: 96
Period size: 2 Copynumber: 89.0 Consensus size: 2
26552 CGCTATAACA
* * *
26562 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AA AT ACT AT A- AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
*
26604 AT AT -T TT A- AT AT -T AT AT AT AT AT AT A- AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
26641 AT AT -T TT CA- AGT GT A- AT AT AC A- AT AT A- AT AT -T AT AT AT
1 AT AT AT AT -AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
26679 AT AT AT A- AT AT AT -T AT CAA AT AT AT A- AT AT AT ACT TT AT AT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT A-T AT AT AT
26720 AT AT -T AT AT
1 AT AT AT AT AT
26729 CATAAAAAAA
Statistics
Matches: 130, Mismatches: 14, Indels: 42
0.70 0.08 0.23
Matches are distributed among these distances:
1 16 0.12
2 110 0.85
3 4 0.03
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:26576 original size:18 final size:17
Alignment explanation
Indices: 26555--26722 Score: 61
Period size: 19 Copynumber: 9.2 Consensus size: 17
26545 CACATATCGC
26555 TATAACAATATATATATA
1 TATAA-AATATATATATA
*
26573 TAT-ATATATATATATA
1 TATAAAATATATATATA
* *
26589 T-TTAAATACTATAACATA
1 TATAAAATA-TAT-ATATA
* *
26607 TTTTAATATTATATATATA
1 -TATAA-AATATATATATA
*
26626 TATAATATATAATATATA
1 TATAAAATAT-ATATATA
* * * * *
26644 TTTTCAAGTGTAATATACAA
1 -TATAAAATAT-ATATA-TA
*
26664 TATAATATTATATATATA
1 TATAA-AATATATATATA
* *
26682 TATAATATATTATCAAATA
1 TATAAAATA-TAT-ATATA
* *
26701 TATAATATATACTTTATA
1 TATAAAATATA-TATATA
26719 TATA
1 TATA
26723 TTATATCATA
Statistics
Matches: 112, Mismatches: 25, Indels: 26
0.69 0.15 0.16
Matches are distributed among these distances:
15 1 0.01
16 16 0.14
17 9 0.08
18 36 0.32
19 38 0.34
20 9 0.08
21 3 0.03
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (17 bp):
TATAAAATATATATATA
Found at i:26707 original size:49 final size:48
Alignment explanation
Indices: 26616--26709 Score: 97
Period size: 49 Copynumber: 1.9 Consensus size: 48
26606 ATTTTAATAT
* *
26616 TATATA-TATATATAATATATAATATATATTTTC-AA-GTGTAATATACAA
1 TATATATTATATAT-ATATAT-ATATATA-TTTCAAATATATAATATACAA
26664 TATAATATTATATATATATATA-ATATATTATCAAATATATAATATA
1 TAT-ATATTATATATATATATATATATATT-TCAAATATATAATATA
26710 TACTTTATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
46 2 0.05
47 7 0.18
48 6 0.15
49 17 0.44
50 7 0.18
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (48 bp):
TATATATTATATATATATATATATATATTTCAAATATATAATATACAA
Found at i:34462 original size:9 final size:8
Alignment explanation
Indices: 34419--34487 Score: 54
Period size: 8 Copynumber: 8.8 Consensus size: 8
34409 GATAACACAT
*
34419 AGAAAAGA
1 AGAAAAAA
34427 AG-AAAAA
1 AGAAAAAA
*
34434 AGGAAAAA
1 AGAAAAAA
*
34442 AGATAAAA
1 AGAAAAAA
*
34450 A-AAAAAC
1 AGAAAAAA
34457 AGAAAAAA
1 AGAAAAAA
34465 AGAAACAGAA
1 AGAAA-A-AA
*
34475 A-AAGAAA
1 AGAAAAAA
34482 AGAAAA
1 AGAAAA
34488 GAGAGACAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
7 14 0.29
8 28 0.58
9 3 0.06
10 3 0.06
ACGTcount: A:0.80, C:0.03, G:0.16, T:0.01
Consensus pattern (8 bp):
AGAAAAAA
Found at i:34463 original size:14 final size:14
Alignment explanation
Indices: 34427--34482 Score: 60
Period size: 14 Copynumber: 3.8 Consensus size: 14
34417 ATAGAAAAGA
34427 AGAAAAAAGGAAAAA-
1 AGAAAAAA--AAAAAC
34442 AGATAAAAAAAAAAC
1 AGA-AAAAAAAAAAC
*
34457 AGAAAAAAAGAAAC
1 AGAAAAAAAAAAAC
34471 AGAAAAAGAAAA
1 AGAAAAA-AAAA
34483 GAAAAGAGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
14 22 0.61
15 9 0.25
16 5 0.14
ACGTcount: A:0.80, C:0.04, G:0.14, T:0.02
Consensus pattern (14 bp):
AGAAAAAAAAAAAC
Found at i:34514 original size:16 final size:16
Alignment explanation
Indices: 34419--34514 Score: 67
Period size: 16 Copynumber: 6.1 Consensus size: 16
34409 GATAACACAT
34419 AGAAAAGAAGAAA-AAA
1 AGAAAAG-AGAAAGAAA
* *
34435 GGAAAAAAGATAA-AAA
1 AGAAAAGAGA-AAGAAA
*
34451 A-AAAACAGAAA-AAA
1 AGAAAAGAGAAAGAAA
*
34465 AGAAACAGAAAAAGAAA
1 AGAAA-AGAGAAAGAAA
* *
34482 AGAAAAGAGAGACAAA
1 AGAAAAGAGAAAGAAA
34498 AGAAATA-AGAAAGAAA
1 AGAAA-AGAGAAAGAAA
34514 A
1 A
34515 TAGATCCAGT
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
14 6 0.09
15 13 0.20
16 36 0.56
17 9 0.14
ACGTcount: A:0.77, C:0.03, G:0.18, T:0.02
Consensus pattern (16 bp):
AGAAAAGAGAAAGAAA
Found at i:36550 original size:90 final size:90
Alignment explanation
Indices: 36439--36805 Score: 509
Period size: 90 Copynumber: 4.2 Consensus size: 90
36429 TCAAAAGATT
*
36439 TTTTAAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTTGGGCCATCCATAAGACCT
1 TTTT-AGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCT
*
36504 TCAGTGCAGGATGTTTTTAAATGAGA
65 TCAGTGCAGGATGTTTTCAAATGAGA
*
36530 TTTTAGAAACTAAGCCTTCGGGAGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
**
36595 CAGTGTTGGATGTTTTC--A--A-A
66 CAGTGCAGGATGTTTTCAAATGAGA
* ** * * * *
36615 ---T-GAAACTAAGTCTTCGAAGGTTTCTTGATTTATAGGTCCTTCGAGCCATCCATAATACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
**
36676 CAGTGTTGGATGTTTTCAAATGAGA
66 CAGTGCAGGATGTTTTCAAATGAGA
* *
36701 TTTTAGAAACTGAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGTCCATCCATAAGACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
*
36766 CAGTGCAGGATGTTTTCAAATGAGT
66 CAGTGCAGGATGTTTTCAAATGAGA
36791 TTTTAGAAACTAAGC
1 TTTTAGAAACTAAGC
36806 ATGATTTTCA
Statistics
Matches: 241, Mismatches: 26, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
81 69 0.29
82 1 0.00
83 1 0.00
85 2 0.01
86 2 0.01
88 1 0.00
89 1 0.00
90 160 0.66
91 4 0.02
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.36
Consensus pattern (90 bp):
TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
CAGTGCAGGATGTTTTCAAATGAGA
Found at i:36675 original size:81 final size:79
Alignment explanation
Indices: 36535--36788 Score: 301
Period size: 81 Copynumber: 3.0 Consensus size: 79
36525 TGAGATTTTA
36535 GAAACTAAGCCTTCGGGAGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTG
1 GAAACTAAGCCTTCGGG-GTTTCTTGATTTGTAAGTCCTTC-GGCCATCCATAAGACCTTCAGTG
36600 TTGGATGTTTTCAAAT
64 TTGGATGTTTTCAAAT
* * * * *
36616 GAAACTAAGTCTTCGAAGGTTTCTTGATTTATAGGTCCTTCGAGCCATCCATAATACCTTCAGTG
1 GAAACTAAGCCTTCG-GGGTTTCTTGATTTGTAAGTCCTTCG-GCCATCCATAAGACCTTCAGTG
36681 TTGGATGTTTTCAAATGAGATTTT
64 TTGGATGTTTTC--A--A-A---T
*
36705 AGAAACTGAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGTCCATCCATAAGACCTTCAGT
1 -GAAACTAAGCCTTC-GGGGTTTCTTGATTTGTAAGTCCTTCGG-CCATCCATAAGACCTTCAGT
**
36770 GCAGGATGTTTTCAAAT
63 GTTGGATGTTTTCAAAT
36787 GA
1 GA
36789 GTTTTTAGAA
Statistics
Matches: 147, Mismatches: 13, Indels: 26
0.79 0.07 0.14
Matches are distributed among these distances:
80 1 0.01
81 70 0.48
82 2 0.01
83 1 0.01
85 2 0.01
86 2 0.01
88 1 0.01
89 2 0.01
90 65 0.44
91 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (79 bp):
GAAACTAAGCCTTCGGGGTTTCTTGATTTGTAAGTCCTTCGGCCATCCATAAGACCTTCAGTGTT
GGATGTTTTCAAAT
Found at i:36730 original size:171 final size:171
Alignment explanation
Indices: 36445--36788 Score: 544
Period size: 171 Copynumber: 2.0 Consensus size: 171
36435 GATTTTTTAA
** * * *
36445 GAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTTGGGCCATCCATAAGACCTTCAGTG
1 GAAACTAAGCCTTCGAAGGTTTCTTGATTTATAAGTCCTTCGAGCCATCCATAAGACCTTCAGTG
*
36510 CAGGATGTTTTTAAATGAGATTTTAGAAACTAAGCCTTCGGGAGTTTCTTGATTTGTAAGTCCTT
66 CAGGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGAGTTTCTTGATTTGTAAGTCCTT
**
36575 CGGGCCATCCATAAGACCTTCAGTGTTGGATGTTTTCAAAT
131 CGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAAT
* * *
36616 GAAACTAAGTCTTCGAAGGTTTCTTGATTTATAGGTCCTTCGAGCCATCCATAATACCTTCAGTG
1 GAAACTAAGCCTTCGAAGGTTTCTTGATTTATAAGTCCTTCGAGCCATCCATAAGACCTTCAGTG
** * *
36681 TTGGATGTTTTCAAATGAGATTTTAGAAACTGAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTT
66 CAGGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGAGTTTCTTGATTTGTAAGTCCTT
*
36746 CGGTCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAAT
131 CGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAAT
36787 GA
1 GA
36789 GTTTTTAGAA
Statistics
Matches: 157, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
171 157 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (171 bp):
GAAACTAAGCCTTCGAAGGTTTCTTGATTTATAAGTCCTTCGAGCCATCCATAAGACCTTCAGTG
CAGGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGAGTTTCTTGATTTGTAAGTCCTT
CGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAAT
Found at i:36891 original size:37 final size:36
Alignment explanation
Indices: 36850--36921 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 36
36840 AAAAAATAAA
* *
36850 TTTTGTCTCACTTGATATAATTTTTACTCAAAACAAG
1 TTTTGTCTCACTTGAGACAATTTTT-CTCAAAACAAG
** *
36887 TTTTGTCTCTTTTGAGACAGTTTTTCTCAAAACAA
1 TTTTGTCTCACTTGAGACAATTTTTCTCAAAACAA
36922 AAGTTTGAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 10 0.33
37 20 0.67
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (36 bp):
TTTTGTCTCACTTGAGACAATTTTTCTCAAAACAAG
Found at i:37004 original size:31 final size:31
Alignment explanation
Indices: 36962--37082 Score: 102
Period size: 31 Copynumber: 3.7 Consensus size: 31
36952 TTTGTGTCTC
36962 TTGAGATAGTTTCTCTTGAAACACAAAATTT
1 TTGAGATAGTTTCTCTTGAAACACAAAATTT
* ***
36993 TTGCGATAGTTTC-CTTTGAAA-ACATTTTTGCCTCT
1 TTGAGATAGTTTCTC-TTGAAACACA-AAAT---T-T
*
37028 CTTGAGATAGTTTCTCTTGAAACACAAAATCT
1 -TTGAGATAGTTTCTCTTGAAACACAAAATTT
* *
37060 TTGTGATAGTTTCCCTTGAAACA
1 TTGAGATAGTTTCTCTTGAAACA
37083 TGTTTTGTCT
Statistics
Matches: 70, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
30 4 0.06
31 40 0.57
32 1 0.01
34 1 0.01
35 1 0.01
36 19 0.27
37 4 0.06
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (31 bp):
TTGAGATAGTTTCTCTTGAAACACAAAATTT
Found at i:37029 original size:67 final size:66
Alignment explanation
Indices: 36935--37114 Score: 240
Period size: 67 Copynumber: 2.7 Consensus size: 66
36925 TTTGAGACAA
* *
36935 TTTCCTTTGAAACAAATTTTGTG-TCTCTTGAGATAGTTTCTCTTGAAACACAAAATTTTTGCGA
1 TTTCCTTTGAAA-ACATTTT-TGCTCTCTTGAGATAGTTTCTCTTGAAACACAAAATCTTTGCGA
36999 TAG
64 TAG
*
37002 TTTCCTTTGAAAACATTTTTGCCTCTCTTGAGATAGTTTCTCTTGAAACACAAAATCTTTGTGAT
1 TTTCCTTTGAAAACATTTTTG-CTCTCTTGAGATAGTTTCTCTTGAAACACAAAATCTTTGCGAT
37067 AG
65 AG
* * *
37069 TTTCCCTTG-AAACATGTTTTGTCTCTCCTGAGACAG-TTCTCTTGAA
1 TTTCCTTTGAAAACAT-TTTTG-CTCTCTTGAGATAGTTTCTCTTGAA
37115 GCACCAACCT
Statistics
Matches: 103, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
65 2 0.02
66 22 0.21
67 79 0.77
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (66 bp):
TTTCCTTTGAAAACATTTTTGCTCTCTTGAGATAGTTTCTCTTGAAACACAAAATCTTTGCGATA
G
Found at i:37142 original size:65 final size:66
Alignment explanation
Indices: 36935--37147 Score: 214
Period size: 67 Copynumber: 3.2 Consensus size: 66
36925 TTTGAGACAA
* * ** * * ** *
36935 TTTCCTTTGAAACAAATTTTGTGTCTCTTGAGATAGTTTCTCTTGAAACACAAAATTTTTGCGAT
1 TTTCCCTTGAAAC-ATTTTTGCCTCTCCTGAGACAGTTTCTCTTGAAACACAAAACCTTTGTGAT
37000 AG
65 AG
* * * *
37002 TTTCCTTTGAAAACATTTTTGCCTCTCTTGAGATAGTTTCTCTTGAAACACAAAATCTTTGTGAT
1 TTTCCCTTG-AAACATTTTTGCCTCTCCTGAGACAGTTTCTCTTGAAACACAAAACCTTTGTGAT
37067 AG
65 AG
* * * *
37069 TTTCCCTTGAAACATGTTTTGTCTCTCCTGAGACAG-TTCTCTTGAAGCAC-CAACCTTTGTTAT
1 TTTCCCTTGAAACAT-TTTTGCCTCTCCTGAGACAGTTTCTCTTGAAACACAAAACCTTTGTGAT
*
37132 TG
65 AG
*
37134 TTTCCCTTGGAACA
1 TTTCCCTTGAAACA
37148 AATTTCATCT
Statistics
Matches: 129, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
65 24 0.19
66 19 0.15
67 82 0.64
68 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.41
Consensus pattern (66 bp):
TTTCCCTTGAAACATTTTTGCCTCTCCTGAGACAGTTTCTCTTGAAACACAAAACCTTTGTGATA
G
Found at i:37166 original size:65 final size:66
Alignment explanation
Indices: 36935--37171 Score: 183
Period size: 67 Copynumber: 3.6 Consensus size: 66
36925 TTTGAGACAA
* ** * * * ** *
36935 TTTCCTTTGAAACAAATTTTGTGTCTCTTGAGATAGTTTCTCTTGAAACACAAAATTTTTGCGAT
1 TTTCCCTTGAAACAAATTTCATCTCGCTTGAGACAG-TTCTCTTGAAACACAAAACCTTTGTGAT
37000 AG
65 AG
* * * * * *
37002 TTTCCTTTGAAA-ACATTT-TTGCCTCTCTTGAGATAGTTTCTCTTGAAACACAAAATCTTTGTG
1 TTTCCCTTGAAACAAATTTCAT--CTCGCTTGAGACAG-TTCTCTTGAAACACAAAACCTTTGTG
37065 ATAG
63 ATAG
** ** * * * * * *
37069 TTTCCCTTGAAACATGTTTTGTCTCTCCTGAGACAGTTCTCTTGAAGCAC-CAACCTTTGTTATT
1 TTTCCCTTGAAACAAATTTCATCTCGCTTGAGACAGTTCTCTTGAAACACAAAACCTTTGTGATA
37133 G
66 G
*
37134 TTTCCCTTGGAACAAATTTCATCTCGCTTGAGACAGTT
1 TTTCCCTTGAAACAAATTTCATCTCGCTTGAGACAGTT
37172 TTCCCCTGAA
Statistics
Matches: 143, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
65 43 0.30
66 18 0.13
67 77 0.54
68 4 0.03
69 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.41
Consensus pattern (66 bp):
TTTCCCTTGAAACAAATTTCATCTCGCTTGAGACAGTTCTCTTGAAACACAAAACCTTTGTGATA
G
Found at i:37591 original size:44 final size:44
Alignment explanation
Indices: 37528--38780 Score: 549
Period size: 44 Copynumber: 28.7 Consensus size: 44
37518 TCAAATGTTT
* * *
37528 GCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
* * **
37572 GTTTGATTCCATCACAGAAGGAGGTGGATC-G-AT--ATTTGTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACAT-TTC
* * ** * * *
37613 GCTCAAATCCATCGTAGAAGGAGTTGGATCAG-AGTCAACTTTTA
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCA-TCAACATTTC
* * * *
37657 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
* * * * **
37701 GTTTGATTCCATCATAGAAGGAGGTGAATC-G-A-C-ATTTGTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACAT-TTC
* * * * * * * * *
37742 ACTCAAATACATCGCAGAAGGAGTTGGATCAACATCAACTTTTT
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
* * * *
37786 GCTCGTTTCTATCAGAG-A-GAGGTAGATCAGCATCAACATTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
* * ****
37828 GCTCAATTCCATCATAGAAGGAGGTGGATC-GACATTTTTATTTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAG-CATCAACA-TTTC
* * * * * *
37873 GCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTTTTA
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
* * * * * *
37917 GCTTGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
* * * ****
37961 GTTTGATTCCATCACAGAAGGAGATGGATCCA-CATTTTTATTTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGAT-CAGCATCAACA-TTTC
* * * * * * * * *
38006 GCTCAAATCGATCGCAGAAGGAGTTGGATTAGCGTCAACTTTTA
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
* * * * *
38050 GCTCGATTCTATCACAGAAGGAGGTAGATCAGTACCAATATTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
* * * **
38094 GTTTGATTCCATCATAGAAGGAGGTGGATC-G-A-C-ATTTGTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACAT-TTC
* * ** ** * ** *
38135 GCTCAAATCCATCGTAGAAGGATTTGGATCAGCATAAATTTTTT
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
* * * * * *
38179 GCTCGTTTCTATCACAGAAGGAGGTAGATCAACACCAACATTTT
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
* * **** *
38223 GCTCGATTTCATCACAGAAGGAGGTGGATC-GATATTTTTATTTTT
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAG-CATCAACA-TTTC
* * * * * * *
38268 GCTCAAATT-CATCGCATAAGGAGTTGGATTAGCATCAACTTTTA
1 GCTC-GATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
* * * * * * * * * *
38312 GCTTGATTCTATCACACAATGAGGTAGATTAACATCGACGTATC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
* * * ****
38356 GTTCGATTCCATCACAGAAGGAGATGGATC-GACTTTTTTATTCTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAG-CATCAACATT-TC
* * * * * * * *
38401 GCTCAAATCCATCGCAGGAGGAGTTGGATCAGCGTCAACTTTTA
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
* * * * *
38445 GCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACATATC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
* ** *
38489 GTTCGATTCCATCACAGAAGGAGGTGGATC-G-A-C-ATTTGTTT
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACAT-TTC
* * ** * * * * *
38530 GCTCAAATCCATCGTAGAAGGAGTTGGATTAGCGTCAACTTTTT
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
* * * * * * *
38574 GCTCGATTCTATCATAGAATGAGGTAGTTCAACACCAACATTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
* ****
38618 GTTCGATTCCATCACAGAAGGAGGTGGATCCA-CATTTTTATTTTC
1 GCTCGATTCCATCACAGAAGGAGGTGGAT-CAGCATCAACA-TTTC
* * * * * * *
38663 GCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTA
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
* * * * * *
38707 GCTCGATTCTATCACAGAAGGAGGTAGATCAGTACCGACATCTC
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
* * *
38751 GTTCGATTCCATCACAGAATGAGGGGGATC
1 GCTCGATTCCATCACAGAAGGAGGTGGATC
38781 GACGTTTTCA
Statistics
Matches: 861, Mismatches: 308, Indels: 80
0.69 0.25 0.06
Matches are distributed among these distances:
40 9 0.01
41 102 0.12
42 40 0.05
43 12 0.01
44 527 0.61
45 165 0.19
46 6 0.01
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (44 bp):
GCTCGATTCCATCACAGAAGGAGGTGGATCAGCATCAACATTTC
Found at i:38005 original size:133 final size:133
Alignment explanation
Indices: 37528--38829 Score: 1642
Period size: 133 Copynumber: 9.9 Consensus size: 133
37518 TCAAATGTTT
* *
37528 GCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCGTTTGATTCCATCACAGAAGG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCCATCACAGAAGG
* * *
37593 AGGTGGATCG--A-TATT-TGTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCAG-AGTCAACT
66 AGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCA-TCAACT
37653 TTTA
130 TTTA
* *
37657 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTTGATTCCATCATAGAAGG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCCATCACAGAAGG
* * * * *
37722 AGGTGAATCGACA---TT-TGTTCACTCAAATACATCGCAGAAGGAGTTGGATCAACATCAACTT
66 AGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTT
*
37783 TTT
131 TTA
* * * * * * *
37786 GCTCGTTTCTATCAGAG-A-GAGGTAGATCAGCATCAACATTTCGCTCAATTCCATCATAGAAGG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCCATCACAGAAGG
37849 AGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTT
66 AGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTT
37914 TTA
131 TTA
* * * * *
37917 GCTTGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCGTTTGATTCCATCACAGAAGG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCCATCACAGAAGG
* * * * *
37982 AGATGGATCCACATTTTTATTTTCGCTCAAATCGATCGCAGAAGGAGTTGGATTAGCGTCAACTT
66 AGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTT
38047 TTA
131 TTA
** * * *
38050 GCTCGATTCTATCACAGAAGGAGGTAGATCAGTACCAATATTTCGTTTGATTCCATCATAGAAGG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCCATCACAGAAGG
* * * * *
38115 AGGTGGATCGACA---TT-TGTTCGCTCAAATCCATCGTAGAAGGATTTGGATCAGCATAAATTT
66 AGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTT
*
38176 TTT
131 TTA
* * * *
38179 GCTCGTTTCTATCACAGAAGGAGGTAGATCAACACCAACATTTTGCTCGATTTCATCACAGAAGG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCCATCACAGAAGG
* * * * *
38244 AGGTGGATCGATATTTTTATTTTTGCTCAAATTCATCGCATAAGGAGTTGGATTAGCATCAACTT
66 AGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTT
38309 TTA
131 TTA
* * * * * * * *
38312 GCTTGATTCTATCACACAATGAGGTAGATTAACATCGACGTATCGTTCGATTCCATCACAGAAGG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCCATCACAGAAGG
* * * * *
38377 AGATGGATCGACTTTTTTATTCTCGCTCAAATCCATCGCAGGAGGAGTTGGATCAGCGTCAACTT
66 AGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTT
38442 TTA
131 TTA
* * *
38445 GCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACATATCGTTCGATTCCATCACAGAAGG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCCATCACAGAAGG
* * * *
38510 AGGTGGATCGACA--TTT-GTTT-GCTCAAATCCATCGTAGAAGGAGTTGGATTAGCGTCAACTT
66 AGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTT
*
38571 TTT
131 TTA
* * *
38574 GCTCGATTCTATCATAGAATGAGGTAGTTCAACACCAACATTTCGTTCGATTCCATCACAGAAGG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCCATCACAGAAGG
* *
38639 AGGTGGATCCACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTT
66 AGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTT
38704 TTA
131 TTA
** * * *
38707 GCTCGATTCTATCACAGAAGGAGGTAGATCAGTACCGACATCTCGTTCGATTCCATCACAGAATG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCCATCACAGAAGG
* * * * * *
38772 AGGGGGATCGACGTTTTCA-TTTCACTC--ATCCATCACATATA-GAGTTGGATCAGCATCA
66 AGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGA-AGGAGTTGGATCAGCATCA
38830 TCAATATATT
Statistics
Matches: 1016, Mismatches: 139, Indels: 35
0.85 0.12 0.03
Matches are distributed among these distances:
127 52 0.05
128 1 0.00
129 350 0.34
130 33 0.03
131 66 0.06
132 13 0.01
133 501 0.49
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (133 bp):
GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCCATCACAGAAGG
AGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTT
TTA
Found at i:38202 original size:262 final size:258
Alignment explanation
Indices: 37528--38788 Score: 1605
Period size: 262 Copynumber: 4.8 Consensus size: 258
37518 TCAAATGTTT
*
37528 GCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCGTTTGATTCCATCACAGAAGG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCGTTCGATTCCATCACAGAAGG
* * *
37593 AGGTGGATCGATATTTGTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCAG-AGTCAACTTTTA
66 AGGTGGATCGACATTTTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCA-TCAACTTTTA
* * * *
37657 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTTGATTCCATCATAGAAGG
130 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTCCATCACAGAAGG
* * * * * *
37722 AGGTGAATCGACA-TTTGTTCACTCAAATACATCGCAGAAGGAGTTGGATCAACATCAACTTTTT
195 AGGTGGATCGACATTTTTTTCGCTCAAAT-CATCGCAGAAGGAGTTGGATTAGCATCAACTTTTA
* * * * * *
37786 GCTCGTTTCTATCAGAG-A-GAGGTAGATCAGCATCAACATTTCGCTCAATTCCATCATAGAAGG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCGTTCGATTCCATCACAGAAGG
37849 AGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTT
66 AGGTGGATCGACA---TT-TTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTT
* * *
37914 TTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCGTTTGATTCCATCACAGA
127 TTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTCCATCACAGA
* * *
37979 AGGAGATGGATCCACATTTTTATTTTCGCTCAAATCGATCGCAGAAGGAGTTGGATTAGCGTCAA
192 AGGAGGTGGATCGACA--TTT-TTTTCGCTCAAATC-ATCGCAGAAGGAGTTGGATTAGCATCAA
38044 CTTTTA
253 CTTTTA
* * * *
38050 GCTCGATTCTATCACAGAAGGAGGTAGATCAGTACCAATATTTCGTTTGATTCCATCATAGAAGG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCGTTCGATTCCATCACAGAAGG
* * * * * *
38115 AGGTGGATCGACATTTGTTCGCTCAAATCCATCGTAGAAGGATTTGGATCAGCATAAATTTTTTG
66 AGGTGGATCGACATTTTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTTTTAG
* * * * * *
38180 CTCGTTTCTATCACAGAAGGAGGTAGATCAACACCAACATTTTGCTCGATTTCATCACAGAAGGA
131 CTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTCCATCACAGAAGGA
* * *
38245 GGTGGATCGATATTTTTATTTTTGCTCAAATTCATCGCATAAGGAGTTGGATTAGCATCAACTTT
196 GGTGGATCGACA--TTT-TTTTCGCTCAAA-TCATCGCAGAAGGAGTTGGATTAGCATCAACTTT
38310 TA
257 TA
* * * * * * * * *
38312 GCTTGATTCTATCACACAATGAGGTAGATTAACATCGACGTATCGTTCGATTCCATCACAGAAGG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCGTTCGATTCCATCACAGAAGG
* * * *
38377 AGATGGATCGACTTTTTTATTCTCGCTCAAATCCATCGCAGGAGGAGTTGGATCAGCGTCAACTT
66 AGGTGGATCGAC--ATTT-TT-TCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTT
*
38442 TTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACATATCGTTCGATTCCATCACAGA
127 TTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTCCATCACAGA
* * *
38507 AGGAGGTGGATCGACATTTGTTT-GCTCAAATCCATCGTAGAAGGAGTTGGATTAGCGTCAACTT
192 AGGAGGTGGATCGACATTTTTTTCGCTCAAAT-CATCGCAGAAGGAGTTGGATTAGCATCAACTT
*
38571 TTT
256 TTA
* * * *
38574 GCTCGATTCTATCATAGAATGAGGTAGTTCAACACCAACATTTCGTTCGATTCCATCACAGAAGG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCGTTCGATTCCATCACAGAAGG
* *
38639 AGGTGGATCCACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTT
66 AGGTGGATCGACA---TT-TTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTT
** *
38704 TTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGTACCGACATCTCGTTCGATTCCATCACAGA
127 TTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTCCATCACAGA
* * *
38769 ATGAGGGGGATCGACGTTTT
192 AGGAGGTGGATCGACATTTT
38789 CATTTCACTC
Statistics
Matches: 873, Mismatches: 108, Indels: 40
0.86 0.11 0.04
Matches are distributed among these distances:
256 52 0.06
257 1 0.00
258 15 0.02
259 2 0.00
260 115 0.13
261 2 0.00
262 446 0.51
263 14 0.02
264 63 0.07
265 2 0.00
266 161 0.18
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (258 bp):
GCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCGTTCGATTCCATCACAGAAGG
AGGTGGATCGACATTTTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTTTTAG
CTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTCCATCACAGAAGGA
GGTGGATCGACATTTTTTTCGCTCAAATCATCGCAGAAGGAGTTGGATTAGCATCAACTTTTA
Found at i:38782 original size:395 final size:392
Alignment explanation
Indices: 37528--38825 Score: 1870
Period size: 395 Copynumber: 3.3 Consensus size: 392
37518 TCAAATGTTT
* * * *
37528 GCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCGTTTGATTCCATCACAGAAGG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTCCATCACAGAAGG
* * * * *
37593 AGGTGGATCGA-TATTT-GTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCAGAGTCAACTTTT
66 AGATGGATCGACTTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTT
*
37656 AGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTTGATTCCATCATAGAAG
131 AGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCGTTTGATTCCATCATAGAAG
* * * * *
37721 GAGGTGAATCGACATTTGTTCACTCAAATACATCGCAGAAGGAGTTGGATCAACATCAACTTTTT
196 GAGGTGGATCGACATTTGTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCAGCATCAACTTTTT
* * * * *
37786 GCTCGTTTCTATCAGAG-AGAGGTAGATCAGCATCAACATTTCGCTCAATTCCATCATAGAAGGA
261 GCTCGTTTCTATCACAGAAGAGGTAGATCAACACCAACATTTCGCTCGATTCCATCACAGAAGGA
37850 GGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTTT
326 GGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTTT
37915 TA
391 TA
* * *
37917 GCTTGATTCTATCACAGAAGGAGGTAGATCAACATCGACATATCGTTTGATTCCATCACAGAAGG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTCCATCACAGAAGG
* * *
37982 AGATGGATCCACATTTTTATTTTCGCTCAAATCGATCGCAGAAGGAGTTGGATTAGCGTCAACTT
66 AGATGGATCGAC-TTTTTA-TTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTT
* *
38047 TTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGTACCAATATTTCGTTTGATTCCATCATAGA
129 TTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCGTTTGATTCCATCATAGA
* * *
38112 AGGAGGTGGATCGACATTTGTTCGCTCAAATCCATCGTAGAAGGATTTGGATCAGCATAAATTTT
194 AGGAGGTGGATCGACATTTGTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCAGCATCAACTTT
* *
38177 TTGCTCGTTTCTATCACAGAAGGAGGTAGATCAACACCAACATTTTGCTCGATTTCATCACAGAA
259 TTGCTCGTTTCTATCACAGAA-GAGGTAGATCAACACCAACATTTCGCTCGATTCCATCACAGAA
* * * * *
38242 GGAGGTGGATCGATATTTTTATTTTTGCTCAAATTCATCGCATAAGGAGTTGGATTAGCATCAAC
323 GGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAAC
38307 TTTTA
388 TTTTA
* * * * * *
38312 GCTTGATTCTATCACACAATGAGGTAGATTAACATCGACGTATCGTTCGATTCCATCACAGAAGG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTCCATCACAGAAGG
*
38377 AGATGGATCGACTTTTTTATTCTCGCTCAAATCCATCGCAGGAGGAGTTGGATCAGCGTCAACTT
66 AGATGGATCGAC-TTTTTATT-TCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTT
* * * *
38442 TTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACATATCGTTCGATTCCATCACAGA
129 TTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCGTTTGATTCCATCATAGA
* * *
38507 AGGAGGTGGATCGACATTTGTTTGCTCAAATCCATCGTAGAAGGAGTTGGATTAGCGTCAACTTT
194 AGGAGGTGGATCGACATTTGTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCAGCATCAACTTT
* * * *
38572 TTGCTCGATTCTATCATAGAATGAGGTAGTTCAACACCAACATTTCGTTCGATTCCATCACAGAA
259 TTGCTCGTTTCTATCACAGAA-GAGGTAGATCAACACCAACATTTCGCTCGATTCCATCACAGAA
* *
38637 GGAGGTGGATCCACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAAC
323 GGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAAC
38702 TTTTA
388 TTTTA
** * *
38707 GCTCGATTCTATCACAGAAGGAGGTAGATCAGTACCGACATCTCGTTCGATTCCATCACAGAATG
1 GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTCCATCACAGAAGG
** * * * *
38772 AGGGGGATCGACGTTTTCATTTCACTC--ATCCATCACATATA-GAGTTGGATCAGC
66 AGATGGATCGAC-TTTTTATTTCGCTCAAATCCATCGCAGA-AGGAGTTGGATCAGC
38826 ATCATCAATA
Statistics
Matches: 811, Mismatches: 90, Indels: 13
0.89 0.10 0.01
Matches are distributed among these distances:
389 69 0.09
391 4 0.00
392 22 0.03
393 178 0.22
394 8 0.01
395 530 0.65
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (392 bp):
GCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTCCATCACAGAAGG
AGATGGATCGACTTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTT
AGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCGTTTGATTCCATCATAGAAG
GAGGTGGATCGACATTTGTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCAGCATCAACTTTTT
GCTCGTTTCTATCACAGAAGAGGTAGATCAACACCAACATTTCGCTCGATTCCATCACAGAAGGA
GGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCATCAACTTT
TA
Found at i:40100 original size:20 final size:20
Alignment explanation
Indices: 40048--40100 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
40038 TGATATTGTT
*
40048 TTATTTTAATTTAGTCACTG
1 TTATTTTAATTTAGTCACTA
* *
40068 TAATTTTTGATTTAGAT-ACTA
1 TTA-TTTTAATTTAG-TCACTA
40089 TTATTTTAATTT
1 TTATTTTAATTT
40101 TTTCATTTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
20 10 0.38
21 15 0.58
22 1 0.04
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (20 bp):
TTATTTTAATTTAGTCACTA
Found at i:44421 original size:21 final size:20
Alignment explanation
Indices: 44390--44431 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
44380 TTTAACAGAA
*
44390 CCCTAGGGGGGTATCGATTC
1 CCCTAGGGGGGAATCGATTC
*
44410 CCCTATGGGGGGAATCGGTTC
1 CCCTA-GGGGGGAATCGATTC
44431 C
1 C
44432 TCTTCAAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.14, C:0.26, G:0.36, T:0.24
Consensus pattern (20 bp):
CCCTAGGGGGGAATCGATTC
Found at i:44469 original size:20 final size:22
Alignment explanation
Indices: 44395--44477 Score: 66
Period size: 21 Copynumber: 3.9 Consensus size: 22
44385 CAGAACCCTA
* *
44395 GGGGGGTATCGATTCCC-CTAT
1 GGGGGGAATCGATTCCCTCAAT
*
44416 GGGGGGAATCGGTTCCTCTTCAA-
1 GGGGGGAATCGATTCC-C-TCAAT
* * *
44439 AGGGGAAATCGGTTCCCTC-AT
1 GGGGGGAATCGATTCCCTCAAT
44460 GGGGGG-ATCGATTCCCTC
1 GGGGGGAATCGATTCCCTC
44478 TGCACCAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 12 0.24
21 20 0.40
22 2 0.04
23 14 0.28
24 2 0.04
ACGTcount: A:0.17, C:0.24, G:0.34, T:0.25
Consensus pattern (22 bp):
GGGGGGAATCGATTCCCTCAAT
Found at i:55579 original size:18 final size:17
Alignment explanation
Indices: 55556--55601 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 17
55546 TGTTTATGAG
55556 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGT-AA
*
55574 GGAATTGGAATCTGTCA
1 GGAATTGGAATCTGTAA
55591 GGAATTGGAAT
1 GGAATTGGAAT
55602 TCAATTCCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (17 bp):
GGAATTGGAATCTGTAA
Found at i:56272 original size:256 final size:250
Alignment explanation
Indices: 55965--56574 Score: 752
Period size: 250 Copynumber: 2.4 Consensus size: 250
55955 CTCCATCCGA
*
55965 GACCCGACCTGACCAAAATAAAGTTTCA--C-CCGACCCGAATATATGAATTAGAAACCCGACTT
1 GACCCGACCCGACCAAAATAAAGTTTCACCCACCGACCCGAATATATGAATTAGAAACCCGAC-T
56027 GACCCAAAATAATAAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAATTAT
65 GACCCAAAATAAT-AAAAAAATATTTTTATTCAATAAAAAC---GACTTAATTGAAAAAAATTAT
56092 ATATAGAGGGGTATTATTGTAATTATTCATAAATATATAAGGTAAAA-T-TATATA-TTT-T-TT
126 ATATAGAGGGGTATTATTGTAATTATTCATAAATATATAAGGTAAAATTATATATATTTTGTGTT
*
56152 GGGTCGGGTATTTTTCACCCTAAACCCGAACCCGACCTGACCCGAATATCATACTT-AAAAAACC
191 GGGTCGGGTATTTTTCACCCTAAACCCGAACCC-A----ACCCGAATATCACACTTAAAAAAACC
56216 GACCCGACCCGACCAAAATAAAGTTTCACCCTACCTGACCCGAATATATGAATTAGAAACCCGAC
1 GACCCGACCCGACCAAAATAAAGTTTCACCC-ACC-GACCCGAATATATGAATTAGAAACCCGAC
*
56281 TCGACCCGAACCGA-AATAAAAAAA-A---TTATTCAATAAAAACGACTTAATTGAAAAAAATTA
64 T-GACCC-AA--AATAATAAAAAAATATTTTTATTCAATAAAAACGACTTAATTGAAAAAAATTA
*
56341 TATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGG
125 TATATAGAGGGGTATTATTGTAATTATTCATAAATATATAAGGTAAAATTATATATATTTT---G
*
56406 TCGGATTGGGTCGGGTATTTTTCACCCTAAACCCGAACTCAACCCGAATATCACACTTAAAAAAA
187 T--G-TTGGGTCGGGTATTTTTCACCCTAAACCCGAACCCAACCCGAATATCACACTTAAAAAAA
56471 CC
249 CC
* *
56473 TACCCGACCCGACTAAAATAAAGTTTCACCCGACCCGACCCGACCCGAATATATGAATTAGAAA-
1 GACCCGACCCGACCAAAATAAAGTTT----C-ACCC-A-CCGACCCGAATATATGAATTAGAAAC
**
56537 CC--C-GACCCGGAATAATAAAAAAATATTTTTATTCAATA
59 CCGACTGACCCAAAATAATAAAAAAATATTTTTATTCAATA
56575 TATGAATAAG
Statistics
Matches: 316, Mismatches: 11, Indels: 56
0.83 0.03 0.15
Matches are distributed among these distances:
250 67 0.21
251 28 0.09
252 6 0.02
253 19 0.06
254 1 0.00
255 13 0.04
256 52 0.16
257 47 0.15
258 3 0.01
259 12 0.04
260 1 0.00
261 37 0.12
262 28 0.09
263 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.26
Consensus pattern (250 bp):
GACCCGACCCGACCAAAATAAAGTTTCACCCACCGACCCGAATATATGAATTAGAAACCCGACTG
ACCCAAAATAATAAAAAAATATTTTTATTCAATAAAAACGACTTAATTGAAAAAAATTATATATA
GAGGGGTATTATTGTAATTATTCATAAATATATAAGGTAAAATTATATATATTTTGTGTTGGGTC
GGGTATTTTTCACCCTAAACCCGAACCCAACCCGAATATCACACTTAAAAAAACC
Found at i:56286 original size:62 final size:63
Alignment explanation
Indices: 56181--56300 Score: 163
Period size: 62 Copynumber: 1.9 Consensus size: 63
56171 CTAAACCCGA
*
56181 ACCCGACCTGACCCGAATATCATACTTAAAAAACCGACCCGACCCG-ACCAAAATAAAGTTTC
1 ACCCGACCTGACCCGAATATCATAATTAAAAAACCGACCCGACCCGAACCAAAATAAAGTTTC
* * * * *
56243 ACCCTACCTGACCCGAATAT-ATGAATTAGAAACCCGACTCGACCCGAACCGAAATAAA
1 ACCCGACCTGACCCGAATATCAT-AATTAAAAAACCGACCCGACCCGAACCAAAATAAA
56301 AAAAATTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
61 2 0.04
62 38 0.76
63 10 0.20
ACGTcount: A:0.39, C:0.33, G:0.12, T:0.16
Consensus pattern (63 bp):
ACCCGACCTGACCCGAATATCATAATTAAAAAACCGACCCGACCCGAACCAAAATAAAGTTTC
Found at i:59012 original size:2 final size:2
Alignment explanation
Indices: 59005--59030 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
58995 TCATTTAGTA
59005 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
59031 GAAAAAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60767 original size:155 final size:159
Alignment explanation
Indices: 60466--60785 Score: 594
Period size: 155 Copynumber: 2.0 Consensus size: 159
60456 ATTATATCGG
60466 AATTTTCGTGGGTCAAAGATTGGAATTTTTACTGTAATATATTTTTGAAAATCTTTCAATTAAGA
1 AATTTTCGTGGGTCAAAGATTGGAATTTTTACTGTAATATATTTTTGAAAATCTTTCAATT-A-A
60531 AGTAAATTTCTATCATCATATCCAGATTAATCGTTTTCTGTTTGAACTCACATAAAATATTGATT
64 AGTAAATTTCTATCATCATATCCAGATTAATCGTTTTCTGTTTGAACTCACATAAAATATTGATT
60596 TCTATTAAATGTTTATTTAAATATCAA-TAA
129 TCTATTAAATGTTTATTTAAATATCAATTAA
60626 AATTTTCGTGGGTC-AAGATTGGAATTTTTACTGTAATATATTTTTGAAAATCTTTCAATT-AA-
1 AATTTTCGTGGGTCAAAGATTGGAATTTTTACTGTAATATATTTTTGAAAATCTTTCAATTAAAG
60688 TAAATTTCTATCATCATATCCAGATTAATCGTTTTCTGTTTGAACTCACATAAAATATTGATTTC
66 TAAATTTCTATCATCATATCCAGATTAATCGTTTTCTGTTTGAACTCACATAAAATATTGATTTC
60753 TATTAAATGTTTATTTAAATATCAATTAA
131 TATTAAATGTTTATTTAAATATCAATTAA
60782 AATT
1 AATT
60786 ATTTGTAGAC
Statistics
Matches: 159, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
155 90 0.57
156 9 0.06
159 46 0.29
160 14 0.09
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (159 bp):
AATTTTCGTGGGTCAAAGATTGGAATTTTTACTGTAATATATTTTTGAAAATCTTTCAATTAAAG
TAAATTTCTATCATCATATCCAGATTAATCGTTTTCTGTTTGAACTCACATAAAATATTGATTTC
TATTAAATGTTTATTTAAATATCAATTAA
Found at i:61188 original size:23 final size:23
Alignment explanation
Indices: 61162--61214 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
61152 TTATAAAGAT
61162 TTAAAATTTTAAAAGA-AAATTAG
1 TTAAAATTTT-AAAGATAAATTAG
* *
61185 TTAAAAATTTAAAGATAAATTAT
1 TTAAAATTTTAAAGATAAATTAG
61208 TTAAAAT
1 TTAAAAT
61215 AAAGGGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.38
Consensus pattern (23 bp):
TTAAAATTTTAAAGATAAATTAG
Found at i:61213 original size:22 final size:22
Alignment explanation
Indices: 61160--61214 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 22
61150 ATTTATAAAG
61160 ATTTAAAATTTTAAAAGAAAATT
1 ATTTAAAA-TTTAAAAGAAAATT
*
61183 AGTTAAAAATTT-AAAGATAAATT
1 A-TTTAAAATTTAAAAGA-AAATT
61206 ATTTAAAAT
1 ATTTAAAAT
61215 AAAGGGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 12 0.43
23 10 0.36
24 6 0.21
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (22 bp):
ATTTAAAATTTAAAAGAAAATT
Found at i:62307 original size:14 final size:14
Alignment explanation
Indices: 62288--62343 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
62278 CGTTCGTGAA
62288 CGTTCGATTATGTT
1 CGTTCGATTATGTT
*
62302 CGTTCGGTTATG-T
1 CGTTCGATTATGTT
*
62315 --TT-GTTTATGTT
1 CGTTCGATTATGTT
62326 CGTTCGATTATGTT
1 CGTTCGATTATGTT
62340 CGTT
1 CGTT
62344 TATGTTCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 6 0.17
11 3 0.09
13 3 0.09
14 23 0.66
ACGTcount: A:0.11, C:0.12, G:0.23, T:0.54
Consensus pattern (14 bp):
CGTTCGATTATGTT
Found at i:62322 original size:24 final size:24
Alignment explanation
Indices: 62295--62364 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
62285 GAACGTTCGA
*
62295 TTATGTTCGTTCGGTTATGTTTGT
1 TTATGTTCGTTCGATTATGTTTGT
*
62319 TTATGTTCGTTCGATTATGTTCGT
1 TTATGTTCGTTCGATTATGTTTGT
*
62343 TTATGTTCATTC-ATTTATGTTT
1 TTATGTTCGTTCGA-TTATGTTT
62365 AACTCAATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.02
24 40 0.98
ACGTcount: A:0.13, C:0.10, G:0.19, T:0.59
Consensus pattern (24 bp):
TTATGTTCGTTCGATTATGTTTGT
Found at i:63103 original size:10 final size:10
Alignment explanation
Indices: 63088--63162 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
63078 GGGTCTCCAA
63088 CGTTTATGTT
1 CGTTTATGTT
63098 CGTTTATGTT
1 CGTTTATGTT
63108 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
63119 ATGTTCGTGTT
1 -CGTTTATGTT
*
63130 CGTTTATATT
1 CGTTTATGTT
63140 CG----TGTT
1 CGTTTATGTT
63146 CGTTTATGTT
1 CGTTTATGTT
63156 CGTTTAT
1 CGTTTAT
63163 TTATTAAATG
Statistics
Matches: 49, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
6 5 0.10
10 33 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.11, C:0.12, G:0.20, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:63119 original size:16 final size:16
Alignment explanation
Indices: 63094--63158 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
63084 CCAACGTTTA
63094 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
63110 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
*
63126 TGTTCGTTTATATTCG
1 TGTTCGTTTATGTTCG
63142 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
63158 T
1 T
63159 TTATTTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.09, C:0.12, G:0.22, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:65008 original size:21 final size:21
Alignment explanation
Indices: 64977--65031 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
64967 AAAAATCCGG
64977 TCAT-CCA-ATTTTTTAAACC
1 TCATACCAGATTTTTTAAACC
64996 TCATACCAGA-TTTTTAAACC
1 TCATACCAGATTTTTTAAACC
* * *
65016 CCAAACCGGATTTTTT
1 TCATACCAGATTTTTT
65032 TCCAGATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 4 0.13
20 20 0.67
21 6 0.20
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.38
Consensus pattern (21 bp):
TCATACCAGATTTTTTAAACC
Found at i:65011 original size:20 final size:20
Alignment explanation
Indices: 64986--65030 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
64976 GTCATCCAAT
* *
64986 TTTTTAAACCTCATACCAGA
1 TTTTTAAACCCCAAACCAGA
*
65006 TTTTTAAACCCCAAACCGGA
1 TTTTTAAACCCCAAACCAGA
65026 TTTTT
1 TTTTT
65031 TTCCAGATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (20 bp):
TTTTTAAACCCCAAACCAGA
Found at i:66290 original size:31 final size:30
Alignment explanation
Indices: 66232--66302 Score: 133
Period size: 30 Copynumber: 2.4 Consensus size: 30
66222 ATCACATTAA
66232 AAAAAATACAAAAATCATATTAATTTTTTT
1 AAAAAATACAAAAATCATATTAATTTTTTT
66262 AAAAAATACAAAAATCATATTAATTTTTTT
1 AAAAAATACAAAAATCATATTAATTTTTTT
*
66292 TAAAAATACAA
1 AAAAAATACAA
66303 GCACCGCTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (30 bp):
AAAAAATACAAAAATCATATTAATTTTTTT
Found at i:70268 original size:31 final size:31
Alignment explanation
Indices: 70233--70295 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
70223 CTTTGACTTA
70233 TGGAAGATGATAAAGTTGAGGTGTCTTGGTT
1 TGGAAGATGATAAAGTTGAGGTGTCTTGGTT
*
70264 TGGAAGATGATAAGGTTGAGGTGTCTTGGTT
1 TGGAAGATGATAAAGTTGAGGTGTCTTGGTT
70295 T
1 T
70296 AATGGTGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.03, G:0.37, T:0.37
Consensus pattern (31 bp):
TGGAAGATGATAAAGTTGAGGTGTCTTGGTT
Found at i:74039 original size:23 final size:23
Alignment explanation
Indices: 74012--74057 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
74002 AAATTGACAT
74012 TGTCAATAATCAAAATATAAAAA
1 TGTCAATAATCAAAATATAAAAA
74035 TGTCAATAATCAAAATATAAAAA
1 TGTCAATAATCAAAATATAAAAA
74058 ACAATTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (23 bp):
TGTCAATAATCAAAATATAAAAA
Found at i:77347 original size:15 final size:15
Alignment explanation
Indices: 77327--77365 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
77317 AACACCCAAA
77327 TCAATACTTCAACTT
1 TCAATACTTCAACTT
77342 TCAATACTTCAACTT
1 TCAATACTTCAACTT
*
77357 TCAAAACTT
1 TCAATACTT
77366 TATAAATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (15 bp):
TCAATACTTCAACTT
Found at i:83497 original size:21 final size:21
Alignment explanation
Indices: 83430--83503 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
83420 TTGTGTGGGG
* * **
83430 TATCGATACCTGTATGAACAA
1 TATCGATACCTATGTGAAGGA
83451 TATCGATACCATATG-GAAGAGA
1 TATCGATACC-TATGTGAAG-GA
*
83473 TATCGATACCTATGTGAAGGG
1 TATCGATACCTATGTGAAGGA
83494 TATCGATACC
1 TATCGATACC
83504 CGAGAACATC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 28 0.62
22 17 0.38
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (21 bp):
TATCGATACCTATGTGAAGGA
Found at i:87090 original size:22 final size:21
Alignment explanation
Indices: 87037--87113 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
87027 TTGTTGTATG
* * *
87037 GGGTATGGATACCTGTATGAA
1 GGGTATCGATACCTATGTGAA
**
87058 CAGTATCGATACCATATG-GAA
1 GGGTATCGATACC-TATGTGAA
* *
87079 GAGGTATTGATACCTATGTGGA
1 G-GGTATCGATACCTATGTGAA
87101 GGGTATCGATACC
1 GGGTATCGATACC
87114 CGGGAACATC
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
21 28 0.65
22 15 0.35
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (21 bp):
GGGTATCGATACCTATGTGAA
Found at i:90709 original size:22 final size:21
Alignment explanation
Indices: 90679--90732 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
90669 TGTATGAACA
90679 GTATCGATACCATATG-GAAGAG
1 GTATCGATACC-TATGTGAAG-G
* *
90701 GTATTGATACCTATGTGGAGG
1 GTATCGATACCTATGTGAAGG
90722 GTATCGATACC
1 GTATCGATACC
90733 CGGGAACATC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (21 bp):
GTATCGATACCTATGTGAAGG
Found at i:94323 original size:22 final size:21
Alignment explanation
Indices: 94270--94346 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
94260 TTGTTGTATG
* * *
94270 GGGTATGGATACCTGTATGAA
1 GGGTATCGATACCTATGTGAA
**
94291 CAGTATCGATACCATATG-GAA
1 GGGTATCGATACC-TATGTGAA
* *
94312 GAGGTATTGATACCTATGTGGA
1 G-GGTATCGATACCTATGTGAA
94334 GGGTATCGATACC
1 GGGTATCGATACC
94347 CGGGAACATC
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
21 28 0.65
22 15 0.35
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (21 bp):
GGGTATCGATACCTATGTGAA
Found at i:105560 original size:188 final size:189
Alignment explanation
Indices: 105243--105620 Score: 749
Period size: 188 Copynumber: 2.0 Consensus size: 189
105233 CAAGGGGGTA
105243 TCGATTCCCCCTATTTAACGGTCAAAATATTTGAATTTTACACTTAGGGAACCGATTCCTCATGA
1 TCGATTCCCCCTATTTAACGGTCAAAATATTTGAATTTTACACTTAGGGAACCGATTCCTCATGA
105308 GAGGGTATCGATTCCCCCCACGCTCCAAGCAGAAATATTAATTATTTTCACACTTAAACGGCTCC
66 GAGGGTATCGATTCCCCCCACGCTCCAAGCAGAAATATTAATTATTTTCACACTTAAACGGCTCC
105373 AATAACTTCATTAATGATCCCCAGCGTTCA-AAGTGATTCATGGTGTATTTAAACAAGC
131 AATAACTTCATTAATGATCCCCAGCGTTCAGAAGTGATTCATGGTGTATTTAAACAAGC
105431 TCGATTCCCCCTATTTAACGGTCAAAATATTTGAATTTTACACTTAGGGAACCGATTCCTCATGA
1 TCGATTCCCCCTATTTAACGGTCAAAATATTTGAATTTTACACTTAGGGAACCGATTCCTCATGA
105496 GAGGGTATCGATTCCCCCCACGCTCCAAGCAGAAATATTAATTATTTTCACACTTAAACGGCTCC
66 GAGGGTATCGATTCCCCCCACGCTCCAAGCAGAAATATTAATTATTTTCACACTTAAACGGCTCC
105561 AATAACTTCATTAATGATCCCCAGCGTTCAGAAGTGATTCATGGTGTATTTAAACAAGC
131 AATAACTTCATTAATGATCCCCAGCGTTCAGAAGTGATTCATGGTGTATTTAAACAAGC
105620 T
1 T
105621 TAGAAGCCAT
Statistics
Matches: 189, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
188 160 0.85
189 29 0.15
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (189 bp):
TCGATTCCCCCTATTTAACGGTCAAAATATTTGAATTTTACACTTAGGGAACCGATTCCTCATGA
GAGGGTATCGATTCCCCCCACGCTCCAAGCAGAAATATTAATTATTTTCACACTTAAACGGCTCC
AATAACTTCATTAATGATCCCCAGCGTTCAGAAGTGATTCATGGTGTATTTAAACAAGC
Found at i:111248 original size:21 final size:21
Alignment explanation
Indices: 111212--111292 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 21
111202 TTAGAGCAGA
*
111212 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGAT-TCCCCTTGAAG
*
111234 GGGAATTGATTCCCCCTTTGAAG
1 GGGAATCGATT-CCCC-TTGAAG
* * * *
111257 GAGAACCGATTCCCCCTGTAG
1 GGGAATCGATTCCCCTTGAAG
*
111278 GGGAATCGATACCCC
1 GGGAATCGATTCCCC
111293 CTGGGGTTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
21 16 0.34
22 17 0.36
23 14 0.30
ACGTcount: A:0.25, C:0.28, G:0.26, T:0.21
Consensus pattern (21 bp):
GGGAATCGATTCCCCTTGAAG
Found at i:111295 original size:21 final size:22
Alignment explanation
Indices: 111212--111294 Score: 96
Period size: 23 Copynumber: 3.8 Consensus size: 22
111202 TTAGAGCAGA
111212 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATACCCCCTTGAAG
* *
111234 GGGAATTGATTCCCCCTTTGAAG
1 GGGAATCGATACCCCC-TTGAAG
* * * *
111257 GAGAACCGATTCCCCC-TGTAG
1 GGGAATCGATACCCCCTTGAAG
111278 GGGAATCGATACCCCCT
1 GGGAATCGATACCCCCT
111295 GGGGTTTTGG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
21 17 0.34
22 14 0.28
23 19 0.38
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (22 bp):
GGGAATCGATACCCCCTTGAAG
Found at i:112904 original size:18 final size:17
Alignment explanation
Indices: 112878--112923 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 17
112868 GAACCAGAAT
112878 AGCACGAGGAACAAGCAC
1 AGCA-GAGGAACAAGCAC
112896 GAGCAGAGGAACAAGCAC
1 -AGCAGAGGAACAAGCAC
112914 AGCCAGAGGA
1 AG-CAGAGGA
112924 TCAAATGCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.08
18 20 0.77
19 4 0.15
ACGTcount: A:0.43, C:0.24, G:0.33, T:0.00
Consensus pattern (17 bp):
AGCAGAGGAACAAGCAC
Found at i:115721 original size:13 final size:13
Alignment explanation
Indices: 115696--115736 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
115686 TGAAAACTAC
115696 ACATTGATTTTCAA
1 ACATTG-TTTTCAA
115710 ACATTGTTTTCAA
1 ACATTGTTTTCAA
* *
115723 AAATAGTTTTCAA
1 ACATTGTTTTCAA
115736 A
1 A
115737 TTTTCCCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (13 bp):
ACATTGTTTTCAA
Found at i:122731 original size:69 final size:69
Alignment explanation
Indices: 122641--122888 Score: 320
Period size: 69 Copynumber: 3.6 Consensus size: 69
122631 GGTTGAGAAA
* * * *
122641 GAGATGGGTGAGATGAGAAATGATCTTGTTTTAGTGTTGAATGAATGGATGTGGATGCTGGTAGT
1 GAGATGGATGAGATGAGAAATGATCTTGTTGTAGTGGTGAATGAATGGATGTGGATGTTGGTAGT
122706 AATG
66 AATG
* * * * * *
122710 GAGATAGATGAGGTGATAAATGATCTTGTTGCAGTGGTGAATGAGTGGATGTGGATGTTGGTATT
1 GAGATGGATGAGATGAGAAATGATCTTGTTGTAGTGGTGAATGAATGGATGTGGATGTTGGTAGT
*
122775 CATG
66 AATG
* *
122779 GAGATGGATGAGATGA-AAGATGATCATGTTGTAGTGGTGAAT-AAGTGTATGTGGATGTTGGTA
1 GAGATGGATGAGATGAGAA-ATGATCTTGTTGTAGTGGTGAATGAA-TGGATGTGGATGTTGGTA
*
122842 GTAATA
64 GTAATG
* *
122848 GAGATGGATGAGATGAGATATTATCTTGTTGTAGTGGTGAA
1 GAGATGGATGAGATGAGAAATGATCTTGTTGTAGTGGTGAA
122889 AGAGTATATG
Statistics
Matches: 153, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
68 3 0.02
69 149 0.97
70 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.35, T:0.33
Consensus pattern (69 bp):
GAGATGGATGAGATGAGAAATGATCTTGTTGTAGTGGTGAATGAATGGATGTGGATGTTGGTAGT
AATG
Found at i:122911 original size:63 final size:64
Alignment explanation
Indices: 122779--122919 Score: 144
Period size: 69 Copynumber: 2.1 Consensus size: 64
122769 GGTATTCATG
* *
122779 GAGATGGATGAGATGAAAGATGATCATGTTGTAGTGGTGAATAAGTGTATGTGGATGTTGGTAGT
1 GAGATGGATGAGATGAAAGATGATCATGTTGTAGTGGTGAATAAGTATATGTGGA-----GTACT
122844 AATA
61 AATA
* * * *
122848 GAGATGGATGAGATGAGATATTATCTTGTTGTAGTGGTGAA-AGAGTATATGTGGA-TACTAATA
1 GAGATGGATGAGATGAAAGATGATCATGTTGTAGTGGTGAATA-AGTATATGTGGAGTACTAATA
122911 GTAGA-GGAT
1 G-AGATGGAT
122920 ATGAATGAGA
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
63 12 0.19
64 3 0.05
68 1 0.02
69 48 0.75
ACGTcount: A:0.33, C:0.02, G:0.33, T:0.32
Consensus pattern (64 bp):
GAGATGGATGAGATGAAAGATGATCATGTTGTAGTGGTGAATAAGTATATGTGGAGTACTAATA
Found at i:122928 original size:138 final size:138
Alignment explanation
Indices: 122649--122930 Score: 309
Period size: 138 Copynumber: 2.0 Consensus size: 138
122639 AAGAGATGGG
* * * *
122649 TGAGATGAGAAATGATCTTGTTTTAGTGTTGAATGAATGGATGTGGATGCTGGTAGTAATGGAGA
1 TGAGATGAGAAATGATCATGTTGTAGTGGTGAATGAATGGATGTGGATGCTGGTAGTAATAGAGA
* * * * ** ** * *
122714 TAGATGAGGTGATAAATGATCTTGTTGCAGTGGTGAATGAGTGGATGTGGATGTTGGTATTCATG
66 TAGATGAGATGAGAAATGATCTTGTTGCAGTGGTGAAAGAGTAGATGTGGATACTAATAGTCAAG
*
122779 GAGATGGA
131 GAGATGAA
* *
122787 TGAGATGA-AAGATGATCATGTTGTAGTGGTGAAT-AAGTGTATGTGGATGTTGGTAGTAATAGA
1 TGAGATGAGAA-ATGATCATGTTGTAGTGGTGAATGAA-TGGATGTGGATGCTGGTAGTAATAGA
* * * * *
122850 GATGGATGAGATGAGATATTATCTTGTTGTAGTGGTGAAAGAGTATATGTGGATACTAATAGT-A
64 GATAGATGAGATGAGAAATGATCTTGTTGCAGTGGTGAAAGAGTAGATGTGGATACTAATAGTCA
*
122914 GAGGATATGAA
129 -AGGAGATGAA
122925 TGAGAT
1 TGAGAT
122931 TGATACTACA
Statistics
Matches: 118, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
137 5 0.04
138 113 0.96
ACGTcount: A:0.30, C:0.03, G:0.34, T:0.33
Consensus pattern (138 bp):
TGAGATGAGAAATGATCATGTTGTAGTGGTGAATGAATGGATGTGGATGCTGGTAGTAATAGAGA
TAGATGAGATGAGAAATGATCTTGTTGCAGTGGTGAAAGAGTAGATGTGGATACTAATAGTCAAG
GAGATGAA
Found at i:129057 original size:130 final size:130
Alignment explanation
Indices: 128856--129216 Score: 634
Period size: 130 Copynumber: 2.8 Consensus size: 130
128846 AACCCGAACT
* * * * *
128856 AAAAGTAAGAATCTTATTGTAAAATTGAAAATAATAACAGATAAAGTTTACTTATCTTACTTGTA
1 AAAA-TAAGAATCTTTTTGTAAGATTGAAAACAATAACAAATAAAATTTACTTATCTTACTTGTA
*
128921 ATAAAAATATTAGATTTATAATAAAAAATAATAGAAAGTTTACTTATGTTATATAAGAGGAATAT
65 ATAAAAATATTAGATTTATAATAAAAAATAATAGAAAGTTTACTTATGTTATATAAGAAGAATAT
128986 G
130 G
*
128987 AAAATAATAATCTTTTTGTAAGATTGAAAACAATAACAAATAAAATTTACTTATCTTACTTGTAA
1 AAAATAAGAATCTTTTTGTAAGATTGAAAACAATAACAAATAAAATTTACTTATCTTACTTGTAA
129052 TAAAAATATTAGATTTATAATAAAAAATAATAGAAAGTTTACTTATGTTATATAAGAAGAATATG
66 TAAAAATATTAGATTTATAATAAAAAATAATAGAAAGTTTACTTATGTTATATAAGAAGAATATG
129117 AAAATAAGAATCTTTTTGTAAGATTGAAAACAATAACAAATAAAATTTACTTATCTTACTTGTAA
1 AAAATAAGAATCTTTTTGTAAGATTGAAAACAATAACAAATAAAATTTACTTATCTTACTTGTAA
*
129182 TAAAAATATTAGTTTTATAAT-AAAAATAATAGAAA
66 TAAAAATATTAGATTTATAATAAAAAATAATAGAAA
129217 ACAACTAAAA
Statistics
Matches: 221, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
129 14 0.06
130 203 0.92
131 4 0.02
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.35
Consensus pattern (130 bp):
AAAATAAGAATCTTTTTGTAAGATTGAAAACAATAACAAATAAAATTTACTTATCTTACTTGTAA
TAAAAATATTAGATTTATAATAAAAAATAATAGAAAGTTTACTTATGTTATATAAGAAGAATATG
Found at i:129837 original size:2 final size:2
Alignment explanation
Indices: 129830--129859 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
129820 TTTGGAAAAC
129830 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
129860 TAGATTTGAT
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):
AT
Found at i:135753 original size:64 final size:65
Alignment explanation
Indices: 135599--135758 Score: 223
Period size: 65 Copynumber: 2.5 Consensus size: 65
135589 GATTTAATTG
* * * * * *
135599 AACATCGAATGCATTTGATGCATCAATGCATATACCATGCATTGATGCACTCAGGGTTTTATGAA
1 AACATCGAATGCATTTGATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTTTATCAA
* * *
135664 AACATCGAATACATTTGATGTATCGATGCACAGACCATTCATCGATGCACTCAGGCTTTT-TCAA
1 AACATCGAATGCATTTGATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTTTATCAA
*
135728 AACATCGAATGCATTTTATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
135759 TCTTAGTGCA
Statistics
Matches: 83, Mismatches: 12, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
64 31 0.37
65 52 0.63
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTTTATCAA
Found at i:144418 original size:65 final size:65
Alignment explanation
Indices: 144301--144508 Score: 280
Period size: 65 Copynumber: 3.2 Consensus size: 65
144291 ATTCAAAGGC
* * *
144301 ATGCATCGATGCATCAAACTATGCATCGATGCAC-CGATGATTTAATTG--AACATCGAATGCAT
1 ATGCATCGATGCA-CAAACCATGCATCGATGCACTC-AGGATTTTA-TGAAAACATCGAATGCAT
144363 TTG
63 TTG
* *
144366 ATGCATCGATGCACATACCATGCATTGATGCACTCAGGATTTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCACAAACCATGCATCGATGCACTCAGGATTTTATGAAAACATCGAATGCATTTG
* * * *
144431 ATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTTT-TCAAAACATCGAATGCATTTT
1 ATGCATCGATGCACAAACCATGCATCGATGCACTCAGGATTTTATGAAAACATCGAATGCATTTG
144495 ATGCATCGATGCAC
1 ATGCATCGATGCAC
144509 TCTTAGTGCA
Statistics
Matches: 130, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
63 2 0.02
64 57 0.44
65 71 0.55
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (65 bp):
ATGCATCGATGCACAAACCATGCATCGATGCACTCAGGATTTTATGAAAACATCGAATGCATTTG
Found at i:149213 original size:13 final size:13
Alignment explanation
Indices: 149195--149219 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
149185 CTCTAACCCA
149195 GAGTTGTAATAAG
1 GAGTTGTAATAAG
149208 GAGTTGTAATAA
1 GAGTTGTAATAA
149220 TAAATCCTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (13 bp):
GAGTTGTAATAAG
Found at i:150546 original size:2 final size:2
Alignment explanation
Indices: 150539--150568 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
150529 TATTTAACAT
150539 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
150569 AGATGTGGTT
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:152829 original size:4 final size:4
Alignment explanation
Indices: 152820--152848 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
152810 TCTTCAATAT
152820 AAGA AAGA AAGA AAGA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA A
152849 TCAATCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:153066 original size:5 final size:5
Alignment explanation
Indices: 153056--153088 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
153046 GGATCAAATA
153056 GACTC GACTC GACTC GACTC GAGCTC GACTC GA
1 GACTC GACTC GACTC GACTC GA-CTC GACTC GA
153089 GTTCGTAACG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.21, C:0.36, G:0.24, T:0.18
Consensus pattern (5 bp):
GACTC
Found at i:153084 original size:11 final size:11
Alignment explanation
Indices: 153058--153089 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
153048 ATCAAATAGA
153058 CTCGACTCGA-
1 CTCGACTCGAG
153068 CTCGACTCGAG
1 CTCGACTCGAG
153079 CTCGACTCGAG
1 CTCGACTCGAG
153090 TTCGTAACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.19, C:0.38, G:0.25, T:0.19
Consensus pattern (11 bp):
CTCGACTCGAG
Found at i:153359 original size:32 final size:32
Alignment explanation
Indices: 153318--153385 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
153308 CCAATTGTTA
*
153318 CATTGTATATTACTAAAAGAAAAATAAAATAC
1 CATTGTATATTACTAAAAGAAAAATAAAAGAC
153350 CATTGTATATTACTAAAAGAAAAATAAAAGAC
1 CATTGTATATTACTAAAAGAAAAATAAAAGAC
153382 CATT
1 CATT
153386 TAATTAAGCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.28
Consensus pattern (32 bp):
CATTGTATATTACTAAAAGAAAAATAAAAGAC
Found at i:153421 original size:7 final size:7
Alignment explanation
Indices: 153409--153482 Score: 78
Period size: 7 Copynumber: 10.7 Consensus size: 7
153399 GTTAGATTAC
153409 ACCCTAA
1 ACCCTAA
*
153416 ACCCTAG
1 ACCCTAA
153423 ACCCTAA
1 ACCCTAA
153430 ACCCTAA
1 ACCCTAA
*
153437 A-CTTAA
1 ACCCTAA
*
153443 ACACTAA
1 ACCCTAA
* *
153450 ATCTTAA
1 ACCCTAA
153457 ACCCTAA
1 ACCCTAA
*
153464 GCCCTAA
1 ACCCTAA
*
153471 ACCATAA
1 ACCCTAA
153478 ACCCT
1 ACCCT
153483 TAATCAGATT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
6 5 0.10
7 47 0.90
ACGTcount: A:0.42, C:0.36, G:0.03, T:0.19
Consensus pattern (7 bp):
ACCCTAA
Found at i:153855 original size:156 final size:156
Alignment explanation
Indices: 153571--153883 Score: 608
Period size: 156 Copynumber: 2.0 Consensus size: 156
153561 TAACAAGGGT
153571 TTATATGTAAATAAACTAATAAATCACACTTGGTCAAATCAATCAATAGGTCCATTATCAAAACA
1 TTATATGTAAATAAACTAATAAATCACACTTGGTCAAATCAATCAATAGGTCCATTATCAAAACA
153636 AATGGTGATCAAAACATAAAATAAAAATAAATTAATAACCCGAATATAAAAACGTAAACCTTGAT
66 AATGGTGATCAAAACATAAAATAAAAATAAATTAATAACCCGAATATAAAAACGTAAACCTTGAT
153701 TAATGACGAAATCAAAAGATTACAAA
131 TAATGACGAAATCAAAAGATTACAAA
*
153727 TTATATGTAAATAAACTAATAAATCACACTTGGTCAAATCAATTAATAGGTCCATTATCAAAACA
1 TTATATGTAAATAAACTAATAAATCACACTTGGTCAAATCAATCAATAGGTCCATTATCAAAACA
153792 AATGGTGATCAAAACATAAAATAAAAATAAATTAATAACCCGAATATAAAAACGTAAACCTTGAT
66 AATGGTGATCAAAACATAAAATAAAAATAAATTAATAACCCGAATATAAAAACGTAAACCTTGAT
*
153857 TAATGACGAAATCAGAAGATTACAAA
131 TAATGACGAAATCAAAAGATTACAAA
153883 T
1 T
153884 ATAACAGGTC
Statistics
Matches: 155, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
156 155 1.00
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (156 bp):
TTATATGTAAATAAACTAATAAATCACACTTGGTCAAATCAATCAATAGGTCCATTATCAAAACA
AATGGTGATCAAAACATAAAATAAAAATAAATTAATAACCCGAATATAAAAACGTAAACCTTGAT
TAATGACGAAATCAAAAGATTACAAA
Found at i:156381 original size:13 final size:12
Alignment explanation
Indices: 156350--156383 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
156340 TAGGTTCAAA
*
156350 TTCGAGTTTGAG
1 TTCGAGCTTGAG
156362 TTCGAGCTTGAG
1 TTCGAGCTTGAG
156374 TCTCGAGCTT
1 T-TCGAGCTT
156384 CAATCGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.15, C:0.18, G:0.29, T:0.38
Consensus pattern (12 bp):
TTCGAGCTTGAG
Found at i:157322 original size:16 final size:16
Alignment explanation
Indices: 157301--157333 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
157291 TAATAAATAA
157301 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
157317 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
157333 A
1 A
157334 AAATGTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.21, G:0.12, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:157414 original size:10 final size:10
Alignment explanation
Indices: 157399--157472 Score: 68
Period size: 10 Copynumber: 7.6 Consensus size: 10
157389 CATTTAATAA
157399 ATAAACGAAC
1 ATAAACGAAC
157409 ATAAACGAAC
1 ATAAACGAAC
157419 --AAA--AAC
1 ATAAACGAAC
157425 ATAAACGAAC
1 ATAAACGAAC
* *
157435 ACAAAC-ATAA
1 ATAAACGA-AC
157445 ATGAACACGAAC
1 AT-AA-ACGAAC
157457 ATAAACGAAC
1 ATAAACGAAC
157467 ATAAAC
1 ATAAAC
157473 ATTGGAGACC
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
6 3 0.06
8 6 0.12
9 1 0.02
10 32 0.62
11 4 0.08
12 5 0.10
13 1 0.02
ACGTcount: A:0.62, C:0.20, G:0.08, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:157427 original size:16 final size:16
Alignment explanation
Indices: 157406--157474 Score: 102
Period size: 16 Copynumber: 4.3 Consensus size: 16
157396 TAAATAAACG
*
157406 AACATAAACGAACAAA
1 AACATAAACGAACACA
157422 AACATAAACGAACACA
1 AACATAAACGAACACA
* *
157438 AACATAAATGAACACG
1 AACATAAACGAACACA
*
157454 AACATAAACGAACATA
1 AACATAAACGAACACA
157470 AACAT
1 AACAT
157475 TGGAGACCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.62, C:0.20, G:0.07, T:0.10
Consensus pattern (16 bp):
AACATAAACGAACACA
Found at i:158194 original size:14 final size:14
Alignment explanation
Indices: 158148--158203 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
158138 AATGAACATA
*
158148 AACGAACATAACCG
1 AACGAACATAACTG
*
158162 AACAAACAT-A---
1 AACGAACATAACTG
158172 AACGAACATAACTG
1 AACGAACATAACTG
158186 AACGAACATAACTG
1 AACGAACATAACTG
158200 AACG
1 AACG
158204 TTCACGAACG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
10 8 0.22
11 1 0.03
13 1 0.03
14 26 0.72
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.11
Consensus pattern (14 bp):
AACGAACATAACTG
Found at i:158202 original size:24 final size:24
Alignment explanation
Indices: 158128--158196 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
158118 GATTGGCTTA
* *
158128 AACATAAATGAATGAACATAAACG
1 AACATAACTGAACGAACATAAACG
* *
158152 AACATAACCGAACAAACATAAACG
1 AACATAACTGAACGAACATAAACG
158176 AACATAACTGAACGAACATAA
1 AACATAACTGAACGAACATAA
158197 CTGAACGTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.58, C:0.19, G:0.10, T:0.13
Consensus pattern (24 bp):
AACATAACTGAACGAACATAAACG
Found at i:164041 original size:28 final size:28
Alignment explanation
Indices: 164010--164074 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
164000 TTAATATTAT
*
164010 ATATATTTATTAAT-ATAATACGAATATA
1 ATAT-TTTATTAATAAAAATACGAATATA
*
164038 ATATTTTA-TAATAAAAAATATGAATATA
1 ATATTTTATTAAT-AAAAATACGAATATA
164066 ATATTTTAT
1 ATATTTTAT
164075 ATATCTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 4 0.12
27 4 0.12
28 24 0.75
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.45
Consensus pattern (28 bp):
ATATTTTATTAATAAAAATACGAATATA
Found at i:164143 original size:30 final size:30
Alignment explanation
Indices: 164108--164260 Score: 141
Period size: 30 Copynumber: 5.1 Consensus size: 30
164098 ATTTTAATTT
164108 TTTTATTTTTATCTTAACTTATTAAATATA
1 TTTTATTTTTATCTTAACTTATTAAATATA
*
164138 TTTTATTTTT-TCCTTAACCTATTAAATATA
1 TTTTATTTTTAT-CTTAACTTATTAAATATA
* * *
164168 TTTTATTTTTATTTTAA-TGTAAATATATATA
1 TTTTATTTTTATCTTAACT-T-ATTAAATATA
* * ** ** *
164199 TTTTATCTCTATCTTCTCTTAAAAAATATT
1 TTTTATTTTTATCTTAACTTATTAAATATA
*
164229 TTTTATTTTTATCTTAA-TTTTTAAAATATA
1 TTTTATTTTTATCTTAACTTATT-AAATATA
164259 TT
1 TT
164261 AACTTAAAAT
Statistics
Matches: 96, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
29 3 0.03
30 70 0.73
31 22 0.23
32 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.59
Consensus pattern (30 bp):
TTTTATTTTTATCTTAACTTATTAAATATA
Found at i:164376 original size:20 final size:20
Alignment explanation
Indices: 164353--164420 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
164343 TCTATTAAAT
164353 TATAATTTATTATATATATA
1 TATAATTTATTATATATATA
* *
164373 TATAA-CTATTAATATATCTA
1 TATAATTTATT-ATATATATA
* *
164393 TATAACTATTAATATATCTATA
1 TATAA-T-TTATTATATATATA
164415 TATAAT
1 TATAAT
164421 ATAAAATTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
19 4 0.11
20 18 0.47
21 1 0.03
22 12 0.32
23 3 0.08
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (20 bp):
TATAATTTATTATATATATA
Found at i:166493 original size:27 final size:27
Alignment explanation
Indices: 166454--166505 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
166444 TTAACAGAAG
* *
166454 CTCAACCGCTTCCTAACTGCCTAACCT
1 CTCAACAGCTTCCTAACCGCCTAACCT
*
166481 CTCAACAGTTTCCTAACCGCCTAAC
1 CTCAACAGCTTCCTAACCGCCTAAC
166506 TTCCTCTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.42, G:0.08, T:0.25
Consensus pattern (27 bp):
CTCAACAGCTTCCTAACCGCCTAACCT
Found at i:171079 original size:27 final size:27
Alignment explanation
Indices: 171040--171091 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
171030 TTAACAGAAG
* *
171040 CTCAACCGCTTCCTAACTGCCTAACCT
1 CTCAACAGCTTCCTAACCGCCTAACCT
*
171067 CTCAACAGTTTCCTAACCGCCTAAC
1 CTCAACAGCTTCCTAACCGCCTAAC
171092 TTCCTCTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.42, G:0.08, T:0.25
Consensus pattern (27 bp):
CTCAACAGCTTCCTAACCGCCTAACCT
Done.