Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_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: 6772376
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 32
Found at i:4921314 original size:14 final size:14
Alignment explanation
Indices: 4921275--4921345 Score: 58
Period size: 14 Copynumber: 4.9 Consensus size: 14
4921265 GTCAAAAAAG
4921275 AATAAAGTAAAGATA
1 AATAAAGTAAA-ATA
4921290 AACTAGTAAGTAAAATA
1 AA-TA--AAGTAAAATA
4921307 AATAAAGTAAAGA-A
1 AATAAAGTAAA-ATA
*
4921321 AATAAA-TATAAAAA
1 AATAAAGTA-AAATA
4921335 AATAAAG-AAAA
1 AATAAAGTAAAA
4921346 AGAAAATCAG
Statistics
Matches: 49, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
13 6 0.12
14 24 0.49
15 3 0.06
16 4 0.08
17 5 0.10
18 7 0.14
ACGTcount: A:0.70, C:0.01, G:0.10, T:0.18
Consensus pattern (14 bp):
AATAAAGTAAAATA
Found at i:4921326 original size:23 final size:23
Alignment explanation
Indices: 4921300--4921345 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
4921290 AACTAGTAAG
*
4921300 TAAA-ATAAATAAAGTAAAGAAAA
1 TAAATATAAA-AAAATAAAGAAAA
4921323 TAAATATAAAAAAATAAAGAAAA
1 TAAATATAAAAAAATAAAGAAAA
4921346 AGAAAATCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (23 bp):
TAAATATAAAAAAATAAAGAAAA
Found at i:4921736 original size:16 final size:14
Alignment explanation
Indices: 4921715--4921773 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 14
4921705 AAAAAAAAAG
4921715 AAAATAAATAATAA
1 AAAATAAATAATAA
4921729 AAGTAATAAATAATAA
1 AA--AATAAATAATAA
*
4921745 GAAAAAAAATAATAA
1 -AAAATAAATAATAA
*
4921760 AACAAGAAATAATA
1 AA-AATAAATAATA
4921774 TCAAGATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
14 4 0.10
15 21 0.54
16 12 0.31
17 2 0.05
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (14 bp):
AAAATAAATAATAA
Found at i:4921747 original size:31 final size:31
Alignment explanation
Indices: 4921712--4921791 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
4921702 ACAAAAAAAA
* *
4921712 AAGAAAATAAATAATAAAAGTAATAAATAAT
1 AAGAAAATAAATAATAAAAGCAAGAAATAAT
*
4921743 AAGAAAAAAAATAATAAAA-CAAGAAATAAT
1 AAGAAAATAAATAATAAAAGCAAGAAATAAT
** *
4921773 ATCAAGATAAA-AATAAAAG
1 AAGAAAATAAATAATAAAAG
4921792 GACTAAATTG
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 7 0.17
30 16 0.39
31 18 0.44
ACGTcount: A:0.72, C:0.03, G:0.07, T:0.17
Consensus pattern (31 bp):
AAGAAAATAAATAATAAAAGCAAGAAATAAT
Found at i:4922852 original size:30 final size:29
Alignment explanation
Indices: 4922802--4922859 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
4922792 TGTGTGTAAC
*
4922802 ATATATAATAAAATATATTATATAATATG
1 ATATATAATAAAACATATTATATAATATG
*
4922831 ATATATAATGTAAACATATTATATAATAT
1 ATATATAAT-AAAACATATTATATAATAT
4922860 TAAAGGACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (29 bp):
ATATATAATAAAACATATTATATAATATG
Found at i:4926037 original size:5 final size:5
Alignment explanation
Indices: 4926029--4926059 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
4926019 TAAATAATTC
4926029 ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
4926060 AATAAAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:4926039 original size:19 final size:16
Alignment explanation
Indices: 4926005--4926035 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4925995 TACAAAATCT
4926005 AATAATTCATAATATA
1 AATAATTCATAATATA
*
4926021 AATAATTCATTATAT
1 AATAATTCATAATAT
4926036 TATATTATAT
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:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
AATAATTCATAATATA
Found at i:4926652 original size:30 final size:30
Alignment explanation
Indices: 4926613--4926730 Score: 200
Period size: 30 Copynumber: 3.9 Consensus size: 30
4926603 GCTAAGCTAG
4926613 TGACCATTTTAGAATAGTTTGATAAATTGA
1 TGACCATTTTAGAATAGTTTGATAAATTGA
* *
4926643 TGCCCATTTTAGAATAGTTTGATATATTGA
1 TGACCATTTTAGAATAGTTTGATAAATTGA
4926673 TGACCATTTTAGAATAGTTTGATAAATTGA
1 TGACCATTTTAGAATAGTTTGATAAATTGA
* *
4926703 TGACCATTTTAGAATATTTTGAAAAATT
1 TGACCATTTTAGAATAGTTTGATAAATT
4926731 TAATGACTAA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.42
Consensus pattern (30 bp):
TGACCATTTTAGAATAGTTTGATAAATTGA
Found at i:4927435 original size:12 final size:12
Alignment explanation
Indices: 4927418--4927454 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
4927408 AAAAATTGTT
4927418 TTATAATAATAA
1 TTATAATAATAA
4927430 TTATAATAATAA
1 TTATAATAATAA
* *
4927442 TGATTATAATAA
1 TTATAATAATAA
4927454 T
1 T
4927455 ATATGAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (12 bp):
TTATAATAATAA
Found at i:4927440 original size:15 final size:15
Alignment explanation
Indices: 4927420--4927455 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
4927410 AAATTGTTTT
4927420 ATAATAATAATTATA
1 ATAATAATAATTATA
*
4927435 ATAATAATGATTATA
1 ATAATAATAATTATA
4927450 ATAATA
1 ATAATA
4927456 TATGAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAATAATAATTATA
Found at i:4928955 original size:16 final size:16
Alignment explanation
Indices: 4928922--4928954 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
4928912 ATAATAATAT
4928922 ATAAATTATATTAAAA
1 ATAAATTATATTAAAA
4928938 ATAAAGTTATATTAAAA
1 ATAAA-TTATATTAAAA
4928955 TTATTTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
ATAAATTATATTAAAA
Found at i:4930483 original size:16 final size:15
Alignment explanation
Indices: 4930462--4930491 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4930452 TCTTAATTTA
4930462 TTCTTCTTCATTTCCC
1 TTCTTCTTC-TTTCCC
4930478 TTCTTCTTCTTTCC
1 TTCTTCTTCTTTCC
4930492 TCCAAGTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.60
Consensus pattern (15 bp):
TTCTTCTTCTTTCCC
Found at i:4934190 original size:20 final size:20
Alignment explanation
Indices: 4934167--4934218 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
4934157 AACGCGATCC
4934167 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
4934187 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
4934207 CCAAAATCGCAA
1 CCAGAATCGCAA
4934219 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:4934299 original size:20 final size:20
Alignment explanation
Indices: 4934274--4934467 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
4934264 GATTTTCCAT
* *
4934274 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
4934294 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
4934314 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
4934334 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
4934354 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
4934374 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
4934394 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
4934414 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
4934435 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
4934455 AATCGCAACGCGA
1 AATCGCAACGCGA
4934468 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:4934319 original size:40 final size:39
Alignment explanation
Indices: 4934270--4934467 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
4934260 TTGCGATTTT
* ** *
4934270 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
4934308 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
4934349 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
4934389 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
4934428 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
4934468 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:4934357 original size:60 final size:60
Alignment explanation
Indices: 4934274--4934466 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
4934264 GATTTTCCAT
* ** * *
4934274 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
4934334 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
4934394 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
4934455 AATCGCAACGCG
1 AATCGCAACGCG
4934467 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:4934889 original size:32 final size:33
Alignment explanation
Indices: 4934847--4934916 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 33
4934837 TTCACTTAGA
*
4934847 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
4934880 TTTCA-TTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
4934912 TTTCA
1 TTTCA
4934917 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 29 0.85
33 5 0.15
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:4935055 original size:14 final size:14
Alignment explanation
Indices: 4935036--4935090 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
4935026 AGAATGACTG
4935036 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
4935050 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
4935069 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
4935083 TCGCAACG
1 TCGCAACG
4935091 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:4935073 original size:33 final size:33
Alignment explanation
Indices: 4935036--4935106 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
4935026 AGAATGACTG
**
4935036 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
4935069 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
4935102 TCGCA
1 TCGCA
4935107 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:4935124 original size:19 final size:19
Alignment explanation
Indices: 4935102--4935199 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
4935092 GAAACCAAAA
*
4935102 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
4935121 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
4935135 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
4935154 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
4935168 TCTCGTTGCGATTATCATC
1 TCGCGTTGCGATTTTCATT
4935187 TCGCGTTGCGATT
1 TCGCGTTGCGATT
4935200 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:0.11, C:0.24, G:0.21, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:4935143 original size:14 final size:14
Alignment explanation
Indices: 4935124--4935213 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
4935114 TTTCATTTCG
4935124 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4935138 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
4935157 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
4935171 CGTTGCGATTATCATCT
1 CGTTGCGA-T-TC-TCT
4935188 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
4935204 CGTTGCGATT
1 CGTTGCGATT
4935214 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:0.10, C:0.26, G:0.22, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4935149 original size:33 final size:33
Alignment explanation
Indices: 4935107--4935221 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
4935097 CAAAATCGCA
4935107 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
4935140 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
4935173 TTGCGATTATCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
4935206 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
4935222 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:0.20, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:4937232 original size:93 final size:93
Alignment explanation
Indices: 4936917--4937658 Score: 1440
Period size: 93 Copynumber: 8.0 Consensus size: 93
4936907 TAGATTGCTT
*
4936917 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4936982 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4937010 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-T-
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4937073 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4937101 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4937166 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4937194 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4937259 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4937287 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AA-A-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4937349 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4937377 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4937442 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4937470 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4937535 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4937563 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4937628 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4937656 AGT
1 AGT
4937659 TTCAATTGCA
Statistics
Matches: 643, Mismatches: 1, Indels: 10
0.98 0.00 0.02
Matches are distributed among these distances:
90 87 0.14
91 93 0.14
92 5 0.01
93 458 0.71
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:4937496 original size:276 final size:276
Alignment explanation
Indices: 4936917--4937658 Score: 1439
Period size: 276 Copynumber: 2.7 Consensus size: 276
4936907 TAGATTGCTT
*
4936917 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4936982 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
4937047 GTGTATTCTTTAACACTGTGAAATATTTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGT
131 GTGTATTCTTTAACACTGTGAAATA-TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGT
4937112 TCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGT
195 TCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGT
4937177 TTTGTCTTTTGGTTGAA
260 TTTGTCTTTTGGTTGAA
4937194 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4937259 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
4937324 GTGTATTCTTTAACACTGTGAAATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTT
131 GTGTATTCTTTAACACTGTGAAATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTT
4937389 CGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTT
196 CGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTT
4937454 TTGTCTTTTGGTTGAA
261 TTGTCTTTTGGTTGAA
4937470 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4937535 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
4937600 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGT
131 GTGTATTCTTTAACACTGTG-AA-A-TATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGT
4937659 TTCAATTGCA
Statistics
Matches: 461, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
276 271 0.59
277 156 0.34
278 1 0.00
279 33 0.07
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (276 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTT
CGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTT
TTGTCTTTTGGTTGAA
Found at i:4937526 original size:369 final size:370
Alignment explanation
Indices: 4936917--4937658 Score: 1436
Period size: 369 Copynumber: 2.0 Consensus size: 370
4936907 TAGATTGCTT
4936917 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4936982 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
4937047 GTGTATTCTTTAACACTGTGAAATATTTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGT
131 GTGTATTCTTTAACACTGTGAAATATTTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGT
4937112 TCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGT
196 TCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGT
4937177 TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
261 TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
4937242 AACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
326 AACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
4937287 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AA-A-TA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4937349 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
4937414 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
131 GTGTATTCTTTAACACTGTGAAATA-T-TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
4937479 GTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTT
194 GTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTT
4937544 GTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCT
259 GTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCT
4937609 TTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
324 TTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
4937656 AGT
1 AGT
4937659 TTCAATTGCA
Statistics
Matches: 369, Mismatches: 1, Indels: 5
0.98 0.00 0.01
Matches are distributed among these distances:
367 92 0.25
368 2 0.01
369 219 0.59
370 56 0.15
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (370 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATATTTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGT
TCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGT
TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
AACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:4937729 original size:19 final size:19
Alignment explanation
Indices: 4937689--4937817 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
4937679 TAGTTTACTT
* *
4937689 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
4937709 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
4937728 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
4937747 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
4937761 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
4937780 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
4937794 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
4937813 TCGCA
1 TCGCA
4937818 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:4937768 original size:33 final size:32
Alignment explanation
Indices: 4937725--4937817 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
4937715 CGCGAAACCA
**
4937725 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
4937757 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
4937790 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
4937818 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:4937815 original size:52 final size:52
Alignment explanation
Indices: 4937689--4937817 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
4937679 TAGTTTACTT
**
4937689 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
4937741 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
4937794 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
4937818 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:4937835 original size:19 final size:19
Alignment explanation
Indices: 4937813--4937947 Score: 110
Period size: 19 Copynumber: 7.6 Consensus size: 19
4937803 GAAACCAAAA
*
4937813 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
4937832 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
*
4937848 T--CGTTGTGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
4937865 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
*
4937881 T--CGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
**
4937898 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
4937917 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
4937937 TCGTGTTGCGA
1 TCGCGTTGCGA
4937948 AAGTAAACTA
Statistics
Matches: 92, Mismatches: 13, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
14 14 0.15
16 10 0.11
17 11 0.12
19 45 0.49
20 12 0.13
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:4937864 original size:33 final size:33
Alignment explanation
Indices: 4937818--4937910 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
4937808 CAAAATCGCA
*
4937818 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
* *
4937851 TTGTGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
4937884 TTGCGATTTTAATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
4937911 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:4938459 original size:21 final size:21
Alignment explanation
Indices: 4938403--4938465 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
4938393 TTCCTCGAGA
*
4938403 GTCCCTCCCACCGTTCAAGAG
1 GTCCCTCCCACCATTCAAGAG
** * *
4938424 G-CCACTGTCATCATTGAAGAG
1 GTCC-CTCCCACCATTCAAGAG
4938445 GTCCCTCCCACCATTCAAGAG
1 GTCCCTCCCACCATTCAAGAG
4938466 CCCGATTCAC
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.24, C:0.37, G:0.19, T:0.21
Consensus pattern (21 bp):
GTCCCTCCCACCATTCAAGAG
Found at i:4939890 original size:14 final size:14
Alignment explanation
Indices: 4939871--4939906 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
4939861 ATTGTTTAAT
4939871 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
4939885 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
4939899 TGATTTGT
1 TGATTTGT
4939907 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:4940029 original size:19 final size:19
Alignment explanation
Indices: 4940013--4940094 Score: 120
Period size: 19 Copynumber: 4.6 Consensus size: 19
4940003 AAAAATGACT
4940013 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4940032 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4940051 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
4940065 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4940084 ATCGCAATGCG
1 ATCGCAATGCG
4940095 TTTATAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 40 0.71
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4940141 original size:52 final size:52
Alignment explanation
Indices: 4940085--4940357 Score: 183
Period size: 52 Copynumber: 5.2 Consensus size: 52
4940075 GAAATGAAAA
*
4940085 TCGCAATGCG-TTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTT-TAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
* * *
4940137 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
* * *
4940189 TCGCATTGCGA--TT-CTTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTAATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTCATT
** * * * *
4940241 TCGCATTGCGATTCTGTCGTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATT
1 TCGCATTGCGATT-T-TAATTTCGCA-TTGCGATTATCTCGTTGCGATTTTCATT
** * * * *
4940293 TCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATT
1 TCGCATTGCGATT-T-TAATTTCGCA-TTGCGATTATCTCGTTGCGATTTTCATT
4940345 TCGCATTGCGATT
1 TCGCATTGCGATT
4940358 CTCTCGTTGC
Statistics
Matches: 193, Mismatches: 15, Indels: 26
0.82 0.06 0.11
Matches are distributed among these distances:
47 6 0.03
49 7 0.04
50 7 0.04
52 156 0.81
53 3 0.02
54 2 0.01
55 1 0.01
56 3 0.02
57 4 0.02
58 1 0.01
59 3 0.02
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (52 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
Found at i:4940143 original size:33 final size:33
Alignment explanation
Indices: 4940101--4940424 Score: 181
Period size: 33 Copynumber: 9.5 Consensus size: 33
4940091 TGCGTTTATA
4940101 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
*
4940134 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
*
4940170 -TTTCG--TTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
* *
4940203 -TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTA
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
* *
4940238 ATTTCGCATTGCGATTCTGTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
*
4940271 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATT-T-TC
* * * * *
4940311 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTATCTCGTTGCGATTTTC
*
4940342 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
* *
4940375 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTATC-TCGTTGCGATTTTC
*
4940409 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
4940425 GTATTTTCCG
Statistics
Matches: 247, Mismatches: 21, Indels: 46
0.79 0.07 0.15
Matches are distributed among these distances:
31 9 0.04
32 5 0.02
33 133 0.54
34 29 0.12
35 18 0.07
36 19 0.08
37 2 0.01
38 20 0.08
39 3 0.01
40 9 0.04
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (33 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
Found at i:4940195 original size:85 final size:83
Alignment explanation
Indices: 4940101--4940338 Score: 343
Period size: 85 Copynumber: 2.8 Consensus size: 83
4940091 TGCGTTTATA
4940101 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATT-T-TCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
*
4940166 ATTCTTTCGTTGCGATTTTC
64 ATTCTGTCGTTGCGATTTTC
*
4940186 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCG
1 ATTTCGCATTGCGA-T-TTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
4940251 ATTCTGTCGTTGCGATTTTC
64 ATTCTGTCGTTGCGATTTTC
* * * * *
4940271 ATTTCGCATTGCGATTTTCATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 ATTTCGCATTGCGATTTTCGTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGC
4940335 GATT
63 GATT
4940339 TTCATTTCGC
Statistics
Matches: 140, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
83 11 0.08
84 5 0.04
85 121 0.86
86 2 0.01
87 1 0.01
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (83 bp):
ATTTCGCATTGCGATTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
TCTGTCGTTGCGATTTTC
Found at i:4940358 original size:52 final size:52
Alignment explanation
Indices: 4940123--4940396 Score: 423
Period size: 52 Copynumber: 5.2 Consensus size: 52
4940113 GATTATCTCG
*
4940123 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
*
4940175 TTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
* *
4940227 TTGCGATTTTAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
4940279 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
4940331 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
4940384 TTGCGATTTTCAT
1 TTGCGATTTTCAT
4940397 GTTGGGATTT
Statistics
Matches: 212, Mismatches: 4, Indels: 11
0.93 0.02 0.05
Matches are distributed among these distances:
47 6 0.03
49 8 0.04
50 8 0.04
52 173 0.82
53 17 0.08
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:4942722 original size:12 final size:12
Alignment explanation
Indices: 4942705--4942729 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4942695 TCTTCGGGGA
4942705 CTTTTTCTTCTT
1 CTTTTTCTTCTT
4942717 CTTTTTCTTCTT
1 CTTTTTCTTCTT
4942729 C
1 C
4942730 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:4942938 original size:24 final size:24
Alignment explanation
Indices: 4942904--4942950 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4942894 CTGAAACATC
4942904 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
4942928 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
4942951 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:4943661 original size:20 final size:20
Alignment explanation
Indices: 4943633--4944001 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
4943623 AAATTTCAGT
* * * *
4943633 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
4943653 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
4943673 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
4943693 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
4943713 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
4943733 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
4943753 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
4943773 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
4943793 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
4943813 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
4943833 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
4943853 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
4943873 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
4943893 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
4943913 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
4943933 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
4943953 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
4943973 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
4943993 GTTGCGATT
1 GTTGCGATT
4944002 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:4945394 original size:20 final size:20
Alignment explanation
Indices: 4945369--4945411 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
4945359 CCAAATTCGT
4945369 AACGCGAATCTGTAAATCGC
1 AACGCGAATCTGTAAATCGC
*
4945389 AACGCGAATCTGTAATTCGC
1 AACGCGAATCTGTAAATCGC
4945409 AAC
1 AAC
4945412 ATAGAAGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
AACGCGAATCTGTAAATCGC
Found at i:4947666 original size:21 final size:21
Alignment explanation
Indices: 4947618--4947667 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
4947608 GTTAGGAGAG
* * *
4947618 TTACGTAATGAGGTCAGTGCT
1 TTACGTGAGGAGGTCAGTACT
*
4947639 TTACGTGAGGAGGTCGGTACT
1 TTACGTGAGGAGGTCAGTACT
4947660 TTACGTGA
1 TTACGTGA
4947668 CGACAATGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.14, G:0.32, T:0.32
Consensus pattern (21 bp):
TTACGTGAGGAGGTCAGTACT
Found at i:4947715 original size:21 final size:20
Alignment explanation
Indices: 4947691--4947759 Score: 50
Period size: 21 Copynumber: 3.3 Consensus size: 20
4947681 TGGCGTGATA
4947691 AGGTATGGTCTTTACGTGGTG
1 AGGTATGGT-TTTACGTGGTG
* * *
4947712 AGGTAGAGGTTTTACGCGATG
1 AGGTA-TGGTTTTACGTGGTG
**
4947733 A-CAATGGTGTTTTACGTGGTG
1 AGGTAT-G-GTTTTACGTGGTG
4947754 AGGTAT
1 AGGTAT
4947760 CTACTTTACG
Statistics
Matches: 34, Mismatches: 10, Indels: 7
0.67 0.20 0.14
Matches are distributed among these distances:
20 2 0.06
21 27 0.79
22 5 0.15
ACGTcount: A:0.20, C:0.09, G:0.36, T:0.35
Consensus pattern (20 bp):
AGGTATGGTTTTACGTGGTG
Found at i:4948105 original size:21 final size:21
Alignment explanation
Indices: 4948079--4948151 Score: 119
Period size: 21 Copynumber: 3.5 Consensus size: 21
4948069 CACTTGTCAT
4948079 CGTTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
* *
4948100 CGTTCAAGAGGCCCCTCTCAT
1 CGTTCAAGAGGCCCCTCCCAC
*
4948121 CGTTTAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
4948142 CGTTCAAGAG
1 CGTTCAAGAG
4948152 CCTGATTCAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.21, C:0.40, G:0.21, T:0.19
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTCCCAC
Found at i:4952357 original size:24 final size:24
Alignment explanation
Indices: 4952320--4952373 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
4952310 CTGAAACATC
*
4952320 ATCAAAATCTGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
*
4952344 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
4952368 ATCAAA
1 ATCAAA
4952374 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:4952387 original size:24 final size:24
Alignment explanation
Indices: 4952336--4952387 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
4952326 ATCTGGGTAT
** *
4952336 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
4952360 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
4952384 TGAC
1 TGAC
4952388 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:4953336 original size:20 final size:18
Alignment explanation
Indices: 4953292--4953339 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
4953282 CAAAACATTT
4953292 GTGTTGCGAAAATAAAAC
1 GTGTTGCGAAAATAAAAC
* *
4953310 CTGTTGCGAAATTAAAATTC
1 GTGTTGCGAAAATAAAA--C
4953330 GTGTTGCGAA
1 GTGTTGCGAA
4953340 TTCAGAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.60
20 10 0.40
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.29
Consensus pattern (18 bp):
GTGTTGCGAAAATAAAAC
Found at i:4953412 original size:21 final size:21
Alignment explanation
Indices: 4953394--4953469 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 21
4953384 AGATTCGCGT
4953394 TGCGAATTTAGAAAATCGCAA
1 TGCGAATTTAGAAAATCGCAA
* **
4953415 CGCGAATTCGGAAAATCGCAA
1 TGCGAATTTAGAAAATCGCAA
* * * **
4953436 TGCG-ATTTACATATTCGCGT
1 TGCGAATTTAGAAAATCGCAA
4953456 TGCGAATTTAGAAA
1 TGCGAATTTAGAAA
4953470 CTGAGTTGTG
Statistics
Matches: 41, Mismatches: 13, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
20 13 0.32
21 28 0.68
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (21 bp):
TGCGAATTTAGAAAATCGCAA
Found at i:4957094 original size:183 final size:183
Alignment explanation
Indices: 4956785--4957149 Score: 703
Period size: 183 Copynumber: 2.0 Consensus size: 183
4956775 TATTTTTTTA
*
4956785 TAATTTCACCATTTACACATAATAATATCTTGTAATAGCATTTATCAAAATTATATCTTGATAGT
1 TAATTTCACCATTTACACATAATAATATCTTGTAATAGCATTTATCAAAATAATATCTTGATAGT
4956850 AAAGATTGATTGAAGTGGTAAGTAATTTAATATTCTTAAACAATATTTTACATTAGAATCCTTAT
66 AAAGATTGATTGAAGTGGTAAGTAATTTAATATTCTTAAACAATATTTTACATTAGAATCCTTAT
4956915 ATATGCTGAAAATTCTTATCGAAAAACTCACCCAACAAAGTATTGGAACGGAT
131 ATATGCTGAAAATTCTTATCGAAAAACTCACCCAACAAAGTATTGGAACGGAT
*
4956968 TAATTTCACCATTTACACATAATAATATCTTGTAATATCATTTATCAAAATAATATCTTGATAGT
1 TAATTTCACCATTTACACATAATAATATCTTGTAATAGCATTTATCAAAATAATATCTTGATAGT
*
4957033 AAAGATTGATTGAAGTGGTAAGTAATTTAATATTCTTAAACAATATTTTACATTCGAATCCTTAT
66 AAAGATTGATTGAAGTGGTAAGTAATTTAATATTCTTAAACAATATTTTACATTAGAATCCTTAT
4957098 ATATGCTGAAAATTCTTATCGAAAAACTCACCCAACAAAGTATTGGAACGGA
131 ATATGCTGAAAATTCTTATCGAAAAACTCACCCAACAAAGTATTGGAACGGA
4957150 CAACAAAAAA
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 179 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (183 bp):
TAATTTCACCATTTACACATAATAATATCTTGTAATAGCATTTATCAAAATAATATCTTGATAGT
AAAGATTGATTGAAGTGGTAAGTAATTTAATATTCTTAAACAATATTTTACATTAGAATCCTTAT
ATATGCTGAAAATTCTTATCGAAAAACTCACCCAACAAAGTATTGGAACGGAT
Found at i:4961640 original size:2 final size:2
Alignment explanation
Indices: 4961633--4961663 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4961623 TGAGTTTAAT
4961633 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4961664 TTAATGAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4963502 original size:3 final size:3
Alignment explanation
Indices: 4963494--4963527 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4963484 AATTCAGCCA
4963494 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4963528 TGAAATAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4965615 original size:3 final size:3
Alignment explanation
Indices: 4965607--4965637 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4965597 TTCAGCCATA
4965607 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4965638 TGAAATAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4966520 original size:27 final size:26
Alignment explanation
Indices: 4966466--4966534 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 26
4966456 TTTCTTCTAT
4966466 TATATTTAAAATATTCTTTTTATTAA
1 TATATTTAAAATATTCTTTTTATTAA
* *
4966492 TATATTTAAATTATTATTTTTTATTAA
1 TATATTTAAAATATT-CTTTTTATTAA
4966519 TATATTTAAAATATTC
1 TATATTTAAAATATTC
4966535 AGAACAAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 14 0.37
27 24 0.63
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (26 bp):
TATATTTAAAATATTCTTTTTATTAA
Found at i:4969360 original size:15 final size:16
Alignment explanation
Indices: 4969337--4969370 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4969327 AATCTATGTT
*
4969337 ATATTCAATTAC-TTG
1 ATATGCAATTACGTTG
4969352 ATATGCAATTACGTTG
1 ATATGCAATTACGTTG
4969368 ATA
1 ATA
4969371 CTTCATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (16 bp):
ATATGCAATTACGTTG
Found at i:4973500 original size:2 final size:2
Alignment explanation
Indices: 4973495--4973520 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4973485 TGAAATATGC
4973495 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
4973521 TTATGGGACT
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:4975913 original size:13 final size:13
Alignment explanation
Indices: 4975895--4975919 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4975885 AGACAATATC
4975895 TAATGGACGATTT
1 TAATGGACGATTT
4975908 TAATGGACGATT
1 TAATGGACGATT
4975920 AGATTTGTTA
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:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (13 bp):
TAATGGACGATTT
Found at i:4977474 original size:29 final size:28
Alignment explanation
Indices: 4977441--4977573 Score: 185
Period size: 29 Copynumber: 4.6 Consensus size: 28
4977431 GACAACCAGC
*
4977441 ATAGGTCGCCATGCATGCCCGACGTCCTT
1 ATAGGTCGCCATGCACGCCCGACGTCC-T
** *
4977470 ATAGGTTACCATGCACGCCCGGCGTCCTT
1 ATAGGTCGCCATGCACGCCCGACGTCC-T
*
4977499 ATAGGTCGCCATGCACGCCCGGCGTCCT
1 ATAGGTCGCCATGCACGCCCGACGTCCT
4977527 ATAAGGTCGCCATGCACGCCCGACGTCCT
1 AT-AGGTCGCCATGCACGCCCGACGTCCT
4977556 ATAAGGTCGCCATGCACG
1 AT-AGGTCGCCATGCACG
4977574 TGCATAAACC
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
28 3 0.03
29 93 0.97
ACGTcount: A:0.19, C:0.35, G:0.26, T:0.20
Consensus pattern (28 bp):
ATAGGTCGCCATGCACGCCCGACGTCCT
Found at i:4977644 original size:29 final size:28
Alignment explanation
Indices: 4977618--4977689 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
4977608 CATGCATGAA
4977618 CCGA-TCCTTGGTCGCCCCTAGTGCATG
1 CCGACTCCTTGGTCGCCCCTAGTGCATG
*
4977645 GCGACCTCCTTGGTCGCCCCTAGTGCATG
1 CCGA-CTCCTTGGTCGCCCCTAGTGCATG
*
4977674 GCGACCTCCTTGGTCG
1 CCGA-CTCCTTGGTCG
4977690 TTGGGCGTGC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
27 3 0.07
29 39 0.93
ACGTcount: A:0.10, C:0.38, G:0.28, T:0.25
Consensus pattern (28 bp):
CCGACTCCTTGGTCGCCCCTAGTGCATG
Found at i:4977699 original size:29 final size:29
Alignment explanation
Indices: 4977638--4977746 Score: 137
Period size: 29 Copynumber: 3.8 Consensus size: 29
4977628 GTCGCCCCTA
******
4977638 GTGCATGGCGACCTCCTTGGTCGCCCCTA
1 GTGCATGGCGACCTCCTTGGTCGTTAGGC
*
4977667 GTGCATGGCGACCTCCTTGGTCGTTGGGC
1 GTGCATGGCGACCTCCTTGGTCGTTAGGC
*
4977696 GTGCATGGCGACCTCTTTGGTCGTTAGGC
1 GTGCATGGCGACCTCCTTGGTCGTTAGGC
*
4977725 GTGCATGGCGACCTCTTTGGTC
1 GTGCATGGCGACCTCCTTGGTC
4977747 ACTGTACAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.09, C:0.29, G:0.33, T:0.28
Consensus pattern (29 bp):
GTGCATGGCGACCTCCTTGGTCGTTAGGC
Found at i:4984778 original size:97 final size:95
Alignment explanation
Indices: 4984602--4984788 Score: 218
Period size: 97 Copynumber: 1.9 Consensus size: 95
4984592 ATATTTATTT
* *
4984602 ATTTAAAAATATCAGAAAAGAACTTCTAGGTGTCTTAAGACAGCTCTTTTCTTTGATATTGATAA
1 ATTTAAAAATATCAGAAAAGAACATCCAGGTGTCTTAAGACAGCTCTTTTCTTTGATATTGATAA
*
4984667 ATATTAATTTAAATAATATTGTTTAATTTTTA
66 ATA-TAATTTAAATAAT-TTATTTAATTTTTA
* * * * * *
4984699 ATTTTAAAATATCAGAATAGGACATCCAGTTGTTTTAAGACTG-TCCTTTTCTTTGATATTGA-A
1 ATTTAAAAATATCAGAAAAGAACATCCAGGTGTCTTAAGACAGCT-CTTTTCTTTGATATTGATA
4984762 AACTA-AATATTAAAATAATTTATTTAA
65 AA-TATAAT-TT-AAATAATTTATTTAA
4984789 AATAAATATT
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
95 3 0.04
96 13 0.17
97 61 0.79
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (95 bp):
ATTTAAAAATATCAGAAAAGAACATCCAGGTGTCTTAAGACAGCTCTTTTCTTTGATATTGATAA
ATATAATTTAAATAATTTATTTAATTTTTA
Found at i:4984798 original size:13 final size:13
Alignment explanation
Indices: 4984754--4984800 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
4984744 CTTTTCTTTG
*
4984754 ATATTGAAAACTAA
1 ATATTTAAAA-TAA
4984768 ATA-TTAAAATAA
1 ATATTTAAAATAA
*
4984780 TTTATTTAAAATAA
1 -ATATTTAAAATAA
4984794 ATATTTA
1 ATATTTA
4984801 TTTATTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATTTAAAATAA
Found at i:4986251 original size:3 final size:3
Alignment explanation
Indices: 4986243--4986295 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
4986233 AATATATATT
*
4986243 TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4986291 TAA TA
1 TAA TA
4986296 TGGGTAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4986885 original size:113 final size:113
Alignment explanation
Indices: 4986612--4987384 Score: 1348
Period size: 113 Copynumber: 6.8 Consensus size: 113
4986602 GATAGAATTA
* *
4986612 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * *
4986677 CTTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGCAAAAGG
66 CTTTCTCTGGAAATGATGATCCATCAA-ATAATGAATTCAGGTAAAAGG
*
4986726 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * *
4986791 CTTTCTCTGGAAAAGCTGATCCATCAAGTAATGAATTCAGGTAAAAGG
66 CTTTCTCTGGAAATGATGATCCATCAAATAATGAATTCAGGTAAAAGG
4986839 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
4986904 CTTTCTCTGAAAATGATGATCCATCAAATAATGAATTCAGGTAAAAGG
66 CTTTCTCTGGAAATGATGATCCATCAAATAATGAATTCAGGTAAAAGG
4986952 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * *
4987017 CTTTCTCTGGAAATGATGATCCATCAAATGATGGATTCAAGTAAAAGG
66 CTTTCTCTGGAAATGATGATCCATCAAATAATGAATTCAGGTAAAAGG
* *
4987065 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTTTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * *
4987130 CTTTCTCTGGAAATGATGATCCATCAAATGATGGATTCAAGTAAAAGG
66 CTTTCTCTGGAAATGATGATCCATCAAATAATGAATTCAGGTAAAAGG
4987178 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
4987243 CTTTCTCTGGAAATGATGATCCATCAAATAATGAATTCAGGTAAAAGG
66 CTTTCTCTGGAAATGATGATCCATCAAATAATGAATTCAGGTAAAAGG
*
4987291 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
4987356 CTTTCTCTGGAAATGATGATCCATCAAAT
66 CTTTCTCTGGAAATGATGATCCATCAAAT
4987385 GATAGATTTG
Statistics
Matches: 634, Mismatches: 25, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
113 547 0.86
114 87 0.14
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (113 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CTTTCTCTGGAAATGATGATCCATCAAATAATGAATTCAGGTAAAAGG
Found at i:4988320 original size:83 final size:83
Alignment explanation
Indices: 4988181--4988534 Score: 672
Period size: 83 Copynumber: 4.3 Consensus size: 83
4988171 CTTATTTCTA
* *
4988181 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAA
4988246 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
4988264 CTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAA
4988329 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
4988347 CTATGAGCATATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAA
4988412 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
4988430 CTATGAGCACATTCATCTTCTAAATTAAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAA
4988495 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
4988513 CTATGAGCACATTCATCTTCTA
1 CTATGAGCACATTCATCTTCTA
4988535 GTTAATGTTT
Statistics
Matches: 266, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 266 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.29
Consensus pattern (83 bp):
CTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:4989675 original size:1 final size:1
Alignment explanation
Indices: 4989671--4989730 Score: 57
Period size: 1 Copynumber: 60.0 Consensus size: 1
4989661 TGACCCCCCC
* * * * * * *
4989671 TTTTTTTTTCTTTTTTTTTTTTTTCTTTTTCTCTTTTCTTTTTTTTTTCTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4989731 CTTCAAGCAT
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:4989691 original size:15 final size:15
Alignment explanation
Indices: 4989671--4989730 Score: 79
Period size: 15 Copynumber: 4.1 Consensus size: 15
4989661 TGACCCCCCC
4989671 TTTTTTTTTCTTTTT
1 TTTTTTTTTCTTTTT
4989686 TTTTTTTTTC--TTT
1 TTTTTTTTTCTTTTT
* *
4989699 TTCTCTTTTCTTTTT
1 TTTTTTTTTCTTTTT
*
4989714 TTTTTCTTTCTTTTT
1 TTTTTTTTTCTTTTT
4989729 TT
1 TT
4989731 CTTCAAGCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
13 11 0.29
15 27 0.71
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTCTTTTT
Found at i:4989711 original size:28 final size:28
Alignment explanation
Indices: 4989676--4989733 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
4989666 CCCCCTTTTT
*
4989676 TTTTCTTTTTTTTTTTTTTCTTTTTCTC
1 TTTTCTTTTTTTTTTCTTTCTTTTTCTC
*
4989704 TTTTCTTTTTTTTTTCTTTCTTTTTTTC
1 TTTTCTTTTTTTTTTCTTTCTTTTTCTC
4989732 TT
1 TT
4989734 CAAGCATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (28 bp):
TTTTCTTTTTTTTTTCTTTCTTTTTCTC
Found at i:5000399 original size:17 final size:17
Alignment explanation
Indices: 5000377--5000411 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5000367 AAAATAAAAC
*
5000377 ATATAAATATTATGAAA
1 ATATAAAAATTATGAAA
*
5000394 ATATAAAAATTTTGAAA
1 ATATAAAAATTATGAAA
5000411 A
1 A
5000412 GAAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (17 bp):
ATATAAAAATTATGAAA
Found at i:5001071 original size:13 final size:13
Alignment explanation
Indices: 5001027--5001073 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
5001017 CTTTTCTTTG
*
5001027 ATATTGAAAACTAA
1 ATATTTAAAA-TAA
5001041 ATA-TTAAAATAA
1 ATATTTAAAATAA
*
5001053 TTTATTTAAAATAA
1 -ATATTTAAAATAA
5001067 ATATTTA
1 ATATTTA
5001074 TTTATTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATTTAAAATAA
Found at i:5002519 original size:3 final size:3
Alignment explanation
Indices: 5002511--5002566 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
5002501 AATATATATT
*
5002511 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5002559 TAA TAA TA
1 TAA TAA TA
5002567 TGGGTAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5009054 original size:17 final size:17
Alignment explanation
Indices: 5009029--5009088 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
5009019 AAAATATGTA
5009029 AAAAT-ATAATATTAAT
1 AAAATAATAATATTAAT
*
5009045 AAAATAATAATATAAAT
1 AAAATAATAATATTAAT
5009062 ATAAA-AATAATAATTAAT
1 A-AAATAATAAT-ATTAAT
5009080 AATAATAAT
1 AA-AATAAT
5009089 TTAAAAAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
16 5 0.14
17 18 0.49
18 11 0.30
19 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATAATAATATTAAT
Found at i:5009055 original size:3 final size:3
Alignment explanation
Indices: 5009034--5009088 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
5009024 ATGTAAAAAT
* *
5009034 ATA ATA TTA ATA A-A ATA ATA AT- ATA A-A TATA AAA ATA ATA ATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA A-TA
5009078 ATA ATA ATA AT
1 ATA ATA ATA AT
5009089 TTAAAAAAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
2 5 0.12
3 34 0.79
4 4 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:5009087 original size:28 final size:28
Alignment explanation
Indices: 5009030--5009086 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
5009020 AAATATGTAA
* *
5009030 AAATATAATATTAATAAAATAATAATAT
1 AAATATAAAAATAATAAAATAATAATAT
5009058 AAATATAAAAATAATAATTAATAATAATA
1 AAATATAAAAATAATAA--AATAATAATA
5009087 ATTTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 15 0.60
30 10 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
AAATATAAAAATAATAAAATAATAATAT
Found at i:5009433 original size:43 final size:43
Alignment explanation
Indices: 5009375--5009566 Score: 151
Period size: 43 Copynumber: 4.5 Consensus size: 43
5009365 GAAGGTGATA
*
5009375 ACACGGCTCATACGTGATGAAGAGTTCTGGTTATCAAAGGTTG
1 ACACGGCTCCTACGTGATGAAGAGTTCTGGTTATCAAAGGTTG
* * * * * *
5009418 ACACGGCTCCCACGTGATGAGGAGATCAGG---TC-GAGTGATG
1 ACACGGCTCCTACGTGATGAAGAGTTCTGGTTATCAAAG-GTTG
* * ** *
5009458 AGACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGATGAAGAGTTCTGGTTATC-AAAGGT--TG
* * * *
5009504 ACACGGTTCCTACGTGATGAGGACG-ACTGGTTATCTAAGGTTG
1 ACACGGCTCCTACGTGATGAAGA-GTTCTGGTTATCAAAGGTTG
*
5009547 ACAAGGCTCCTACGTGATGA
1 ACACGGCTCCTACGTGATGA
5009567 GAAGATCTGG
Statistics
Matches: 113, Mismatches: 27, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
39 2 0.02
40 29 0.26
43 46 0.41
44 1 0.01
45 7 0.06
46 27 0.24
47 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (43 bp):
ACACGGCTCCTACGTGATGAAGAGTTCTGGTTATCAAAGGTTG
Found at i:5009489 original size:133 final size:129
Alignment explanation
Indices: 5009242--5009590 Score: 409
Period size: 129 Copynumber: 2.7 Consensus size: 129
5009232 GTTGGGGACG
* * * *
5009242 ACACTGCTCATACGTGATGAAGAGTT-TGGGTCT-TCTAAGGGTGACTCGGTTCCTACGTGATGA
1 ACACGGCTCATACGTGATGAAGAGTTCT-GGT-TATCTAAGGTTGACACGGCTCCTACGTGATGA
* * *
5009305 GGAGATTTGGTCGGGGATGACACTACTCATACGTGATAAAGAGTTATTGGCCATCTTTACGAAGG
64 GGAGATCTGGTCGGGGATGACACGACTCATACGTGATAAAGAGTTACTGGCCATC--TA--AAGG
5009370 TGATA
125 TGATA
* *
5009375 ACACGGCTCATACGTGATGAAGAGTTCTGGTTATCAAAGGTTGACACGGCTCCCACGTGATGAGG
1 ACACGGCTCATACGTGATGAAGAGTTCTGGTTATCTAAGGTTGACACGGCTCCTACGTGATGAGG
* * * * *
5009440 AGATCAGGTCGAGTGATGAGACGGCTCATACGTGATGAAGAGTT-CTGGCCATCTAAAGGTGATA
66 AGATCTGGTCG-GGGATGACACGACTCATACGTGATAAAGAGTTACTGGCCATCTAAAGGTGATA
* * * * *
5009504 ACACGGTTCCTACGTGATGAGGACG-ACTGGTTATCTAAGGTTGACAAGGCTCCTACGTGATGAG
1 ACACGGCTCATACGTGATGAAGA-GTTCTGGTTATCTAAGGTTGACACGGCTCCTACGTGATGAG
*
5009568 AAGATCTGGTCAGGGGATGACAC
65 GAGATCTGGTC-GGGGATGACAC
5009591 AGTTCCTACG
Statistics
Matches: 186, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
129 81 0.44
130 2 0.01
131 2 0.01
132 1 0.01
133 72 0.39
134 28 0.15
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (129 bp):
ACACGGCTCATACGTGATGAAGAGTTCTGGTTATCTAAGGTTGACACGGCTCCTACGTGATGAGG
AGATCTGGTCGGGGATGACACGACTCATACGTGATAAAGAGTTACTGGCCATCTAAAGGTGATA
Found at i:5009946 original size:64 final size:64
Alignment explanation
Indices: 5009869--5009990 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 64
5009859 GAAACTATCT
** * *
5009869 CAAGAGAGACAAAA-TTTGTTTTTAAAGAAATATACTCAAAGATGATTTTCAAAAGAAATTGTCC
1 CAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGAT-ATTTTCAAAAGAAATTGTCC
* *
5009933 CAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAATATTTTTTCAAAAGAAA
1 CAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATATTTTCAAAAGAAA
5009991 CAACTTAAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
64 27 0.53
65 24 0.47
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.28
Consensus pattern (64 bp):
CAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATATTTTCAAAAGAAATTGTCC
Found at i:5009985 original size:26 final size:26
Alignment explanation
Indices: 5009952--5010007 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
5009942 CAAAATTTTG
* *
5009952 TTTCCAAAGAAACAGACTCAAATATTT
1 TTTCAAAAGAAACA-ACTCAAAGATTT
*
5009979 TTTCAAAAGAAACAACTTAAAGATTT
1 TTTCAAAAGAAACAACTCAAAGATTT
5010005 TTT
1 TTT
5010008 TCACGAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (26 bp):
TTTCAAAAGAAACAACTCAAAGATTT
Found at i:5010006 original size:27 final size:28
Alignment explanation
Indices: 5009942--5010010 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
5009932 CCAAGAGAGA
*
5009942 CAAA-ATTTTGTTTCCAAAGAAACAGACT
1 CAAAGATTTT-TTTCAAAAGAAACAGACT
*
5009970 CAAATA-TTTTTTCAAAAGAAACA-ACT
1 CAAAGATTTTTTTCAAAAGAAACAGACT
*
5009996 TAAAGATTTTTTTCA
1 CAAAGATTTTTTTCA
5010011 CGAAATTGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 7 0.19
27 21 0.58
28 7 0.19
29 1 0.03
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.35
Consensus pattern (28 bp):
CAAAGATTTTTTTCAAAAGAAACAGACT
Found at i:5010029 original size:153 final size:155
Alignment explanation
Indices: 5009816--5010165 Score: 406
Period size: 153 Copynumber: 2.2 Consensus size: 155
5009806 GTGAGACGAA
* * * * * * *
5009816 ATTTGTTTCAAAGGAAACAATCCCAAAGGTTATTTTTTCATTAGAAACTATCTCAAGAGAGACAA
1 ATTTGTTTCAAAAGAAACAA-CTCAAAGATT-TTTATTCA--CGAAATTGTCTCAAGAGAGACAA
* *
5009881 AATTTGTTTT-TAAAGAAATATACTCAAAGATGATTTTCAAAAGAAATTGTCCCAAGAGAGACAA
62 AATTT-TTTTCAAAAGAAATAGACTCAAAGAT--TTTTCAAAAGAAATTGTCCCAAGAGAGACAA
*
5009945 AATTTTGTTTCCAA-AGAAACAGACTC-AA-AT
124 AACTTTGTTT-CAACAGAAACAGACTCAAAGAT
* *
5009975 ATTT-TTTCAAAAGAAACAACTTAAAGATTTTT-TTCACGAAATTGTCTCAAGAGAGACAAACTT
1 ATTTGTTTCAAAAGAAACAACTCAAAGATTTTTATTCACGAAATTGTCTCAAGAGAGACAAAATT
* *** * *
5010038 TTTTTCAAAATAAATAGACTCAAAGATTTTTTTTACGAAATTGTCTCAAGAGAGACAAAACTTTG
66 TTTTTCAAAAGAAATAGACTCAAAGATTTTTCAAAAGAAATTGTCCCAAGAGAGACAAAACTTTG
* *
5010103 TTTTAACAGAAATAGACTCAAAGAT
131 TTTCAACAGAAACAGACTCAAAGAT
5010128 ATTTGTTTCAAAAGAAACAACTCAAAGATTTTTATTCA
1 ATTTGTTTCAAAAGAAACAACTCAAAGATTTTTATTCA
5010166 AAAGGAACAG
Statistics
Matches: 165, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
150 2 0.01
151 46 0.28
152 6 0.04
153 48 0.29
154 27 0.16
155 8 0.05
156 3 0.02
157 7 0.04
158 14 0.08
159 4 0.02
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.32
Consensus pattern (155 bp):
ATTTGTTTCAAAAGAAACAACTCAAAGATTTTTATTCACGAAATTGTCTCAAGAGAGACAAAATT
TTTTTCAAAAGAAATAGACTCAAAGATTTTTCAAAAGAAATTGTCCCAAGAGAGACAAAACTTTG
TTTCAACAGAAACAGACTCAAAGAT
Found at i:5010076 original size:62 final size:63
Alignment explanation
Indices: 5009976--5010137 Score: 231
Period size: 62 Copynumber: 2.6 Consensus size: 63
5009966 GACTCAAATA
* *
5009976 TTTTTTCAAAAGAAACA-ACTTAAAGATTTTTTTCACGAAATTGTCTCAAGAGAGAC-AAACT
1 TTTTTTCAAAAGAAATAGACTCAAAGATTTTTTTCACGAAATTGTCTCAAGAGAGACAAAACT
* *
5010037 TTTTTTCAAAATAAATAGACTCAAAGATTTTTTTTACGAAATTGTCTCAAGAGAGACAAAACT
1 TTTTTTCAAAAGAAATAGACTCAAAGATTTTTTTCACGAAATTGTCTCAAGAGAGACAAAACT
*
5010100 TTGTTTT-AACAGAAATAGACTCAAAGATATTTGTTTCA
1 TT-TTTTCAAAAGAAATAGACTCAAAGAT-TTT-TTTCA
5010138 AAAGAAACAA
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
61 15 0.17
62 37 0.42
63 26 0.29
64 7 0.08
65 4 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (63 bp):
TTTTTTCAAAAGAAATAGACTCAAAGATTTTTTTCACGAAATTGTCTCAAGAGAGACAAAACT
Found at i:5010179 original size:29 final size:29
Alignment explanation
Indices: 5010099--5010187 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 29
5010089 GAGACAAAAC
* * *
5010099 TTTGTTTTAACAGAAATAGACTCAAAGAT
1 TTTGTTTCAAAAGAAACAGACTCAAAGAT
5010128 ATTTGTTTCAAAAGAAACA-ACTCAAAGAT
1 -TTTGTTTCAAAAGAAACAGACTCAAAGAT
*
5010157 TTT-TATTCAAAAGGAACAGACTCAAAGAT
1 TTTGT-TTCAAAAGAAACAGACTCAAAGAT
5010186 TT
1 TT
5010188 ATCTCAAGAG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
27 1 0.02
28 15 0.28
29 22 0.42
30 15 0.28
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (29 bp):
TTTGTTTCAAAAGAAACAGACTCAAAGAT
Found at i:5010194 original size:28 final size:27
Alignment explanation
Indices: 5010110--5010201 Score: 87
Period size: 28 Copynumber: 3.2 Consensus size: 27
5010100 TTGTTTTAAC
* *
5010110 AGAAATAGACTCAAAGATATTTGTTTCAAA
1 AGAAACAGACTCAAAG--ATTT-ATTCAAA
5010140 AGAAACA-ACTCAAAGATTTTTATTCAAA
1 AGAAACAGACTCAAAGA--TTTATTCAAA
* *
5010168 AGGAACAGACTCAAAGATTTATCTCAAG
1 AGAAACAGACTCAAAGATTTAT-TCAAA
5010196 AGAAAC
1 AGAAAC
5010202 TGTCTCAAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
27 6 0.11
28 21 0.40
29 20 0.38
30 6 0.11
ACGTcount: A:0.48, C:0.14, G:0.13, T:0.25
Consensus pattern (27 bp):
AGAAACAGACTCAAAGATTTATTCAAA
Found at i:5010530 original size:105 final size:105
Alignment explanation
Indices: 5010339--5010637 Score: 377
Period size: 105 Copynumber: 2.8 Consensus size: 105
5010329 TTTTGAAAAA
* * *
5010339 CTCAAGTGATATTAATTTTGTTTCAAGT-ACAACAAATTT-AAATTTGTATCTCAGAGAAAAAAA
1 CTCAAGTGATATTAATTTTGTTTCATGTGA-AACAAATTTGAAATTTGTATCTCAAAG-GAAAAA
* * * *
5010402 TGTCTCAAGCGAAACAAAATTTGTTTCGAAATAAACAACAAT
64 TGTCTCAAGCGAGACGAAATTTGTTTCAAAAGAAACAACAAT
** * *
5010444 CTCAAGTGAGGTTAATTTTGTTTCATGTGAAGCAAATTTGAAATTTGTATCTCAAAGGAAAAATA
1 CTCAAGTGATATTAATTTTGTTTCATGTGAAACAAATTTGAAATTTGTATCTCAAAGGAAAAATG
* *
5010509 TCTCAAGCGAGACGAAGTTTGTTTTAAAAGAAACAACAAT
66 TCTCAAGCGAGACGAAATTTGTTTCAAAAGAAACAACAAT
* * * * * * * *
5010549 CTCAAGTGATATTAACTTTGCTTAATGTGAAACAAATTCGAAATTTGTATATCCAAGGGAAAAGG
1 CTCAAGTGATATTAATTTTGTTTCATGTGAAACAAATTTGAAATTTGTATCTCAAAGGAAAAATG
5010614 TCTCAAGCGAGACGAAATTTGTTT
66 TCTCAAGCGAGACGAAATTTGTTT
5010638 TTTTAAAGAA
Statistics
Matches: 166, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
105 149 0.90
106 17 0.10
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (105 bp):
CTCAAGTGATATTAATTTTGTTTCATGTGAAACAAATTTGAAATTTGTATCTCAAAGGAAAAATG
TCTCAAGCGAGACGAAATTTGTTTCAAAAGAAACAACAAT
Found at i:5010692 original size:36 final size:37
Alignment explanation
Indices: 5010613--5010712 Score: 148
Period size: 36 Copynumber: 2.7 Consensus size: 37
5010603 AAGGGAAAAG
* *
5010613 GTCTCAAGCGAGACGAAATTTGTTTTTTTAAAGAAATT
1 GTCTCAAGCGAGACAAAATTTG-TTTTTTAAAGAAACT
*
5010651 ATCTCAAGCGAGACAAAATTTGTTTTTTAAA-AAACT
1 GTCTCAAGCGAGACAAAATTTGTTTTTTAAAGAAACT
*
5010687 GTCTCAAGCGAGACAAAATTTATTTT
1 GTCTCAAGCGAGACAAAATTTGTTTT
5010713 ACAAAAGAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 28 0.49
37 9 0.16
38 20 0.35
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (37 bp):
GTCTCAAGCGAGACAAAATTTGTTTTTTAAAGAAACT
Found at i:5016702 original size:29 final size:29
Alignment explanation
Indices: 5016651--5016726 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
5016641 CCAAAATAAT
5016651 AAAAACAGAAACATAAAGAACTAAAAAGC
1 AAAAACAGAAACATAAAGAACTAAAAAGC
* ** * * * *
5016680 TAAAACAGAAAGTTAGAGGACTAAAATGG
1 AAAAACAGAAACATAAAGAACTAAAAAGC
*
5016709 AAAAACAGAAACTTAAAG
1 AAAAACAGAAACATAAAG
5016727 GGCCAAATAG
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.62, C:0.11, G:0.16, T:0.12
Consensus pattern (29 bp):
AAAAACAGAAACATAAAGAACTAAAAAGC
Found at i:5018165 original size:17 final size:17
Alignment explanation
Indices: 5018140--5018199 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
5018130 AAAATATGTA
5018140 AAAAT-ATAATATTAAT
1 AAAATAATAATATTAAT
*
5018156 AAAATAATAATATAAAT
1 AAAATAATAATATTAAT
5018173 ATAAA-AATAATAATTAAT
1 A-AAATAATAAT-ATTAAT
5018191 AATAATAAT
1 AA-AATAAT
5018200 TTAAAAAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
16 5 0.14
17 18 0.49
18 11 0.30
19 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATAATAATATTAAT
Found at i:5018166 original size:3 final size:3
Alignment explanation
Indices: 5018145--5018199 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
5018135 ATGTAAAAAT
* *
5018145 ATA ATA TTA ATA A-A ATA ATA AT- ATA A-A TATA AAA ATA ATA ATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA A-TA
5018189 ATA ATA ATA AT
1 ATA ATA ATA AT
5018200 TTAAAAAAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
2 5 0.12
3 34 0.79
4 4 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:5018198 original size:28 final size:28
Alignment explanation
Indices: 5018141--5018197 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
5018131 AAATATGTAA
* *
5018141 AAATATAATATTAATAAAATAATAATAT
1 AAATATAAAAATAATAAAATAATAATAT
5018169 AAATATAAAAATAATAATTAATAATAATA
1 AAATATAAAAATAATAA--AATAATAATA
5018198 ATTTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 15 0.60
30 10 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
AAATATAAAAATAATAAAATAATAATAT
Found at i:5019375 original size:11 final size:11
Alignment explanation
Indices: 5019341--5019376 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
5019331 CGTGAATTCA
5019341 GCTGCATTATT
1 GCTGCATTATT
*
5019352 GCAGCACTTATT
1 GCTGCA-TTATT
5019364 GCTGCATTATT
1 GCTGCATTATT
5019375 GC
1 GC
5019377 AGTCCTTCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.39
Consensus pattern (11 bp):
GCTGCATTATT
Found at i:5019627 original size:39 final size:39
Alignment explanation
Indices: 5019584--5019681 Score: 128
Period size: 39 Copynumber: 2.5 Consensus size: 39
5019574 TTATTATTTT
** *
5019584 AAATTATTAGTTTGTTAGTTTA-TGGCTTAAGGTAAAACA
1 AAATT-TTAGTTAATTAGTTTAGTAGCTTAAGGTAAAACA
*
5019623 AAATTTTAGTTAATTAG-TTAGTTAGTTTAAGGTAAAACA
1 AAATTTTAGTTAATTAGTTTAG-TAGCTTAAGGTAAAACA
5019662 AAATTTTAGTTAATTAGTTT
1 AAATTTTAGTTAATTAGTTT
5019682 GTTAGTTTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
37 3 0.06
38 10 0.19
39 37 0.71
40 2 0.04
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (39 bp):
AAATTTTAGTTAATTAGTTTAGTAGCTTAAGGTAAAACA
Found at i:5019686 original size:39 final size:39
Alignment explanation
Indices: 5019610--5019692 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 39
5019600 AGTTTATGGC
5019610 TTAAGGTAAAACAAAATTTTAGTTAATTAGTTAGTTAGT
1 TTAAGGTAAAACAAAATTTTAGTTAATTAGTTAGTTAGT
*
5019649 TTAAGGTAAAACAAAATTTTAGTTAATTAGTTTGTTAGT
1 TTAAGGTAAAACAAAATTTTAGTTAATTAGTTAGTTAGT
5019688 TTAAG
1 TTAAG
5019693 TTTTATTATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (39 bp):
TTAAGGTAAAACAAAATTTTAGTTAATTAGTTAGTTAGT
Found at i:5019814 original size:28 final size:27
Alignment explanation
Indices: 5019775--5019827 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
5019765 ATATTAAAAA
5019775 AATAATTAATTAGTGTGTTAGTTAGTCT
1 AATAATTAATTAGTGTG-TAGTTAGTCT
* *
5019803 AATATTTAATTAGTTTGTAGTTAGT
1 AATAATTAATTAGTGTGTAGTTAGT
5019828 TAAATAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (27 bp):
AATAATTAATTAGTGTGTAGTTAGTCT
Found at i:5019833 original size:27 final size:29
Alignment explanation
Indices: 5019774--5019838 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 29
5019764 TATATTAAAA
5019774 AAATAATTAATTAGTGTGTTAGTTAGTCT
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
* *
5019803 -AATATTTAATTAGTTTG-TAGTTAGT-T
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
*
5019829 AAATAGTTAA
1 AAATAATTAA
5019839 GTTATATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.03
27 16 0.50
28 15 0.47
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (29 bp):
AAATAATTAATTAGTGTGTTAGTTAGTCT
Found at i:5019990 original size:18 final size:18
Alignment explanation
Indices: 5019967--5020021 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
5019957 AATAATTATT
5019967 TAAATTAGTTTATTGTTA
1 TAAATTAGTTTATTGTTA
5019985 TAAATTA--TTA--G-T-
1 TAAATTAGTTTATTGTTA
*
5019997 T-AATTAGTTTATTATTA
1 TAAATTAGTTTATTGTTA
5020014 TAAATTAG
1 TAAATTAG
5020022 GGTAAAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 5 0.17
12 1 0.03
13 4 0.14
14 1 0.03
16 4 0.14
17 1 0.03
18 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
TAAATTAGTTTATTGTTA
Found at i:5020332 original size:22 final size:22
Alignment explanation
Indices: 5020307--5020387 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 22
5020297 AATCATTTAT
5020307 TAGTTTAAGTTATATTAAAGAA
1 TAGTTTAAGTTATATTAAAGAA
5020329 TAGTTTATTAGTTAAAGTTATATTAAAGAA
1 TAG-----T--TTA-AGTTATATTAAAGAA
* *
5020359 TAGTTAAAGTTATATTAAATAA
1 TAGTTTAAGTTATATTAAAGAA
5020381 TAGTTTA
1 TAGTTTA
5020388 TTAGTTGTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
22 23 0.48
23 2 0.04
25 1 0.02
27 1 0.02
29 3 0.06
30 18 0.38
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.43
Consensus pattern (22 bp):
TAGTTTAAGTTATATTAAAGAA
Found at i:5020336 original size:30 final size:30
Alignment explanation
Indices: 5020274--5020363 Score: 116
Period size: 30 Copynumber: 3.1 Consensus size: 30
5020264 TAATTACTTT
*
5020274 TTTAGTAG-TAAA-TTATAATTAAA-AATCA-
1 TTTATTAGTTAAAGTTAT-ATTAAAGAAT-AG
*
5020302 TTTATTAGTTTAAGTTATATTAAAGAATAG
1 TTTATTAGTTAAAGTTATATTAAAGAATAG
5020332 TTTATTAGTTAAAGTTATATTAAAGAATAG
1 TTTATTAGTTAAAGTTATATTAAAGAATAG
5020362 TT
1 TT
5020364 AAAGTTATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
28 7 0.13
29 10 0.18
30 38 0.69
ACGTcount: A:0.43, C:0.01, G:0.11, T:0.44
Consensus pattern (30 bp):
TTTATTAGTTAAAGTTATATTAAAGAATAG
Found at i:5020337 original size:15 final size:16
Alignment explanation
Indices: 5020314--5020364 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
5020304 TATTAGTTTA
5020314 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
***
5020330 AGTT-TATTAGTTAA-
1 AGTTATATTAAAGAAT
5020344 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
5020360 AGTTA
1 AGTTA
5020365 AAGTTATATT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 4 0.15
15 14 0.52
16 9 0.33
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (16 bp):
AGTTATATTAAAGAAT
Found at i:5020356 original size:11 final size:11
Alignment explanation
Indices: 5020340--5020377 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
5020330 AGTTTATTAG
5020340 TTAAAGTTATA
1 TTAAAGTTATA
*
5020351 TTAAAG-AATA
1 TTAAAGTTATA
5020361 GTTAAAGTTATA
1 -TTAAAGTTATA
5020373 TTAAA
1 TTAAA
5020378 TAATAGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 3 0.13
11 17 0.74
12 3 0.13
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (11 bp):
TTAAAGTTATA
Found at i:5021723 original size:23 final size:23
Alignment explanation
Indices: 5021695--5021739 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
5021685 TTTAATTATT
*
5021695 ATTTAAATTAACTATATTATTTG
1 ATTTAAATAAACTATATTATTTG
* *
5021718 ATTTAAATAAATTTTATTATTT
1 ATTTAAATAAACTATATTATTT
5021740 TTGTAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
ATTTAAATAAACTATATTATTTG
Found at i:5021739 original size:18 final size:20
Alignment explanation
Indices: 5021689--5021739 Score: 52
Period size: 23 Copynumber: 2.5 Consensus size: 20
5021679 GTTATTTTTA
5021689 ATTATTATTTAAATTAACTAT
1 ATTATTATTTAAATTAAC-AT
5021710 ATTATTTGATTTAAA-TAA-AT
1 ATTA-TT-ATTTAAATTAACAT
*
5021730 TTTATTATTT
1 ATTATTATTT
5021740 TTGTAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 4 0.15
19 2 0.07
20 5 0.19
21 4 0.15
22 5 0.19
23 7 0.26
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTATTATTTAAATTAACAT
Found at i:5022757 original size:21 final size:21
Alignment explanation
Indices: 5022713--5022781 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 21
5022703 TAATCATTAG
*
5022713 TAAATCATTAAT-ATCAAATAAT
1 TAAAT-ATTAATAAT-AAATCAT
5022735 TAAATATTAATAATAAATCAT
1 TAAATATTAATAATAAATCAT
* *
5022756 TATTAATAATAATTAGTAAATCAT
1 TA--AATATTAA-TAATAAATCAT
5022780 TA
1 TA
5022782 GTATCAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 14 0.35
22 7 0.17
23 7 0.17
24 12 0.30
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (21 bp):
TAAATATTAATAATAAATCAT
Found at i:5022760 original size:24 final size:24
Alignment explanation
Indices: 5022704--5022781 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 24
5022694 CATTACTAGT
*
5022704 AATCATTAGTAAATCATTAAT-ATCA
1 AATCATTATTAAAT-ATTAATAAT-A
5022729 AAT-A--ATTAAATATTAATAATA
1 AATCATTATTAAATATTAATAATA
* *
5022750 AATCATTATT-AATAATAATTAGTA
1 AATCATTATTAAATATTAA-TAATA
5022774 AATCATTA
1 AATCATTA
5022782 GTATCAAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
21 10 0.22
22 9 0.20
23 7 0.16
24 16 0.36
25 3 0.07
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (24 bp):
AATCATTATTAAATATTAATAATA
Found at i:5022950 original size:11 final size:11
Alignment explanation
Indices: 5022898--5023129 Score: 140
Period size: 11 Copynumber: 19.2 Consensus size: 11
5022888 ATTAGTAATA
5022898 ATTATTAAATC
1 ATTATTAAATC
*
5022909 ATTACTAAATC
1 ATTATTAAATC
5022920 ATTATTAAATC
1 ATTATTAAATC
5022931 ATTACTATTAAATC
1 A-T--TATTAAATC
*
5022945 ATTATTATAATGATT
1 ATTA-T-TAA--ATC
*
5022960 ATTATTAAATT
1 ATTATTAAATC
* *
5022971 ATTATTATCATT
1 ATTATTA-AATC
5022983 ATTATTAAATC
1 ATTATTAAATC
*
5022994 ATTATTATAATG
1 ATTATTA-AATC
5023006 ATTATTATAAAATC
1 ATTA-T-T-AAATC
*
5023020 ATTACTAAATC
1 ATTATTAAATC
* * * * *
5023031 ATCAAATCATTA
1 AT-TATTAAATC
*
5023043 AATATTAAAGTC
1 ATTATTAAA-TC
5023055 ATTATTAAATC
1 ATTATTAAATC
*
5023066 ATTATTATAATG
1 ATTATTA-AATC
5023078 ATTATTACTAAATC
1 ATTA-T--TAAATC
5023092 ATTATTAAATC
1 ATTATTAAATC
5023103 ATAATATTAAAATC
1 AT--TATT-AAATC
*
5023117 ATTACTAAATC
1 ATTATTAAATC
5023128 AT
1 AT
5023130 CAAATCATCA
Statistics
Matches: 176, Mismatches: 24, Indels: 42
0.73 0.10 0.17
Matches are distributed among these distances:
11 76 0.43
12 44 0.25
13 14 0.08
14 33 0.19
15 9 0.05
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (11 bp):
ATTATTAAATC
Found at i:5022963 original size:3 final size:3
Alignment explanation
Indices: 5022945--5023013 Score: 52
Period size: 3 Copynumber: 23.7 Consensus size: 3
5022935 CTATTAAATC
* * * * *
5022945 ATT ATT ATA ATG ATT ATT ATT A-A ATT ATT ATT ATC ATT ATT ATT A-A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
5022991 ATC ATT ATT ATA ATG ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
5023014 AAAATCATTA
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (3 bp):
ATT
Found at i:5022967 original size:26 final size:25
Alignment explanation
Indices: 5022885--5023129 Score: 201
Period size: 26 Copynumber: 10.1 Consensus size: 25
5022875 TTATTCCATA
* *
5022885 ATTATTAGT-AATAATTATTAAATC
1 ATTATTATTAAATCATTATTAAATC
*
5022909 ---ATTACTAAATCATTATTAAATC
1 ATTATTATTAAATCATTATTAAATC
* *
5022931 ATTACTATTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTA-AATC
*
5022957 ATTATTATTAAATTATTATT--ATC
1 ATTATTATTAAATCATTATTAAATC
*
5022980 ATTATTATTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTA-AATC
* *
5023006 ATTATTATAAAATCATTACTAAATC
1 ATTATTATTAAATCATTATTAAATC
* * *
5023031 ATCAAATCATTAAAT-ATTA--AAGTC
1 AT--TATTATTAAATCATTATTAAATC
*
5023055 ---ATTATTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTA-AATC
*
5023078 ATTATTACTAAATCATTATTAAATC
1 ATTATTATTAAATCATTATTAAATC
* *
5023103 A-TAATATTAAAATCATTACTAAATC
1 ATTATTATT-AAATCATTATTAAATC
5023128 AT
1 AT
5023130 CAAATCATCA
Statistics
Matches: 177, Mismatches: 25, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
19 9 0.05
20 4 0.02
21 5 0.03
22 15 0.08
23 23 0.13
24 9 0.05
25 41 0.23
26 63 0.36
27 8 0.05
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (25 bp):
ATTATTATTAAATCATTATTAAATC
Found at i:5022971 original size:23 final size:23
Alignment explanation
Indices: 5022945--5023096 Score: 96
Period size: 23 Copynumber: 6.3 Consensus size: 23
5022935 CTATTAAATC
5022945 ATTATTATAATGATTATTATTAA
1 ATTATTATAATGATTATTATTAA
* *
5022968 ATTATTATTATCATTATTATTAAA
1 ATTATTATAATGATTATTATT-AA
*
5022992 TCATTATTATAATGATTATTATAAA
1 --ATTATTATAATGATTATTATTAA
* * * *
5023017 ATCATTACTAAATCATCAAATCATTAA
1 ATTATTA-T-AATGAT--TATTATTAA
*
5023044 A-TATTA-AA-G-TCATTATTAAA
1 ATTATTATAATGATTATTATT-AA
*
5023064 TCATTATTATAATGATTATTACTAA
1 --ATTATTATAATGATTATTATTAA
*
5023089 ATCATTAT
1 ATTATTAT
5023097 TAAATCATAA
Statistics
Matches: 98, Mismatches: 17, Indels: 28
0.69 0.12 0.20
Matches are distributed among these distances:
19 5 0.05
20 2 0.02
21 1 0.01
22 1 0.01
23 39 0.40
24 5 0.05
25 10 0.10
26 28 0.29
27 7 0.07
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (23 bp):
ATTATTATAATGATTATTATTAA
Found at i:5023009 original size:20 final size:22
Alignment explanation
Indices: 5022914--5023009 Score: 54
Period size: 23 Copynumber: 4.1 Consensus size: 22
5022904 AAATCATTAC
5022914 TAAATCATTATTAAATCATTACT-AT
1 TAAATCATTATT--ATCA-TA-TGAT
* *
5022939 TAAATCATTATTATAATGATTATTAT
1 TAAATCATTA-T-T-ATCA-TATGAT
* *
5022965 TAAATTATTATTATCATTATTAT
1 TAAATCATTATTATCA-TATGAT
5022988 TAAATCATTATTAT-A-ATGAT
1 TAAATCATTATTATCATATGAT
5023008 TA
1 TA
5023010 TTATAAAATC
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
20 6 0.10
22 1 0.02
23 23 0.37
24 1 0.02
25 12 0.19
26 19 0.30
27 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (22 bp):
TAAATCATTATTATCATATGAT
Found at i:5023067 original size:72 final size:72
Alignment explanation
Indices: 5022900--5023258 Score: 254
Period size: 75 Copynumber: 5.1 Consensus size: 72
5022890 TAGTAATAAT
* * * * * * *
5022900 TATT-AAATCATTACTAAATCATTATTA-AATCATTACTATTAAATCATTATTATAATGAT--TA
1 TATTAAAATCATTATTAAATCATTATTATAATGATTATTATAAAATCATTACTA-AATCATCAAA
*
5022961 TTATTAAA
65 TCATTAAA
* *
5022969 TTATTATTATCATTATTATTAAATCATTATTATAATGATTATTATAAAATCATTACTAAATCATC
1 -TATTA--A-AATCATTATTAAATCATTATTATAATGATTATTATAAAATCATTACTAAATCATC
5023034 AAATCATTAAA
62 AAATCATTAAA
*
5023045 TATTAAAGTCATTATTAAATCATTATTATAATGATTATTACT-AAATCA-T--T--AT--T-AAA
1 TATTAAAATCATTATTAAATCATTATTATAATGATTATTA-TAAAATCATTACTAAATCATCAAA
5023101 TCA-T-AA
65 TCATTAAA
* * * * * * *
5023107 TATTAAAATCATTACTAAATCATCA-AATCATCAAATAATA-AAAATCATTACTAAATCATCAAA
1 TATTAAAATCATTATTAAATCATTATTATAAT-GATTATTATAAAATCATTACTAAATCATCAAA
5023170 TCATTAAA
65 TCATTAAA
* * * * *
5023178 TATTAAAATCAATATTAAATCATT-CT-T-ATGATTAATTATTAAATTATTATTAATCATTACTA
1 TATTAAAATCATTATTAAATCATTATTATAATGATT-ATTATAAAATCATTACTAA--A-T-C-A
5023240 TCAAATCATTAAA
60 TCAAATCATTAAA
5023253 TATTAA
1 TATTAA
5023259 TAATAATTTC
Statistics
Matches: 230, Mismatches: 31, Indels: 51
0.74 0.10 0.16
Matches are distributed among these distances:
61 10 0.04
62 30 0.13
63 1 0.00
64 7 0.03
65 1 0.00
66 2 0.01
67 2 0.01
68 3 0.01
69 12 0.05
70 17 0.07
71 24 0.10
72 38 0.17
73 4 0.02
74 25 0.11
75 46 0.20
76 8 0.03
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.42
Consensus pattern (72 bp):
TATTAAAATCATTATTAAATCATTATTATAATGATTATTATAAAATCATTACTAAATCATCAAAT
CATTAAA
Found at i:5023070 original size:98 final size:98
Alignment explanation
Indices: 5022968--5023165 Score: 283
Period size: 98 Copynumber: 2.0 Consensus size: 98
5022958 TTATTATTAA
* * * *
5022968 ATTATTATTATCATTATTATTAAATCATTATTATAATGATTAT-TATAAAATCATTACTAAATCA
1 ATTATTATAATCATTATTACTAAATCATTATTA-AATCATAATAT-TAAAATCATTACTAAATCA
* * * *
5023032 TCAAATCATTAAAT-ATTAAAGTCATTATTAAATC
64 TCAAATCATCAAATAATAAAAATCATTACTAAATC
*
5023066 ATTATTATAATGATTATTACTAAATCATTATTAAATCATAATATTAAAATCATTACTAAATCATC
1 ATTATTATAATCATTATTACTAAATCATTATTAAATCATAATATTAAAATCATTACTAAATCATC
5023131 AAATCATCAAATAATAAAAATCATTACTAAATC
66 AAATCATCAAATAATAAAAATCATTACTAAATC
5023164 AT
1 AT
5023166 CAAATCATTA
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
97 39 0.44
98 50 0.56
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (98 bp):
ATTATTATAATCATTATTACTAAATCATTATTAAATCATAATATTAAAATCATTACTAAATCATC
AAATCATCAAATAATAAAAATCATTACTAAATC
Found at i:5023131 original size:14 final size:14
Alignment explanation
Indices: 5022917--5023131 Score: 65
Period size: 12 Copynumber: 16.3 Consensus size: 14
5022907 TCATTACTAA
5022917 ATCATTATTAAATC
1 ATCATTATTAAATC
* *
5022931 ATTACTATTAAATC
1 ATCATTATTAAATC
* *
5022945 ATTATTA-T-AATG
1 ATCATTATTAAATC
*
5022957 ATTATTATTAAAT-
1 ATCATTATTAAATC
5022970 -T-ATTATT--ATC
1 ATCATTATTAAATC
*
5022980 ATTATTATTAAATC
1 ATCATTATTAAATC
* *
5022994 ATTATTA-T-AATG
1 ATCATTATTAAATC
*
5023006 ATTATTA-TAAA--
1 ATCATTATTAAATC
*
5023017 ATCATTACTAAATC
1 ATCATTATTAAATC
* *
5023031 ATCAAATCATTAAATATTAA
1 ATC--ATTATT-AA-A-T-C
5023051 AGTCATTATTAAATC
1 A-TCATTATTAAATC
* *
5023066 ATTATTA-T-AATG
1 ATCATTATTAAATC
* *
5023078 ATTATTACT-AA--
1 ATCATTATTAAATC
5023089 ATCATTATTAAATC
1 ATCATTATTAAATC
*
5023103 AT-AATATTAAA--
1 ATCATTATTAAATC
*
5023114 ATCATTACTAAATC
1 ATCATTATTAAATC
5023128 ATCA
1 ATCA
5023132 AATCATCAAA
Statistics
Matches: 158, Mismatches: 18, Indels: 50
0.70 0.08 0.22
Matches are distributed among these distances:
9 2 0.01
11 22 0.14
12 51 0.32
13 17 0.11
14 45 0.28
15 1 0.01
16 5 0.03
17 3 0.02
18 3 0.02
19 6 0.04
20 1 0.01
21 2 0.01
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (14 bp):
ATCATTATTAAATC
Found at i:5023136 original size:19 final size:19
Alignment explanation
Indices: 5023112--5023175 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
5023102 CATAATATTA
5023112 AAATCATTACTAAATCATC
1 AAATCATTACTAAATCATC
* *
5023131 AAATCA-T-C-AAATAATAA
1 AAATCATTACTAAATCAT-C
5023148 AAATCATTACTAAATCATC
1 AAATCATTACTAAATCATC
5023167 AAATCATTA
1 AAATCATTA
5023176 AATATTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 6 0.16
17 7 0.19
18 2 0.05
19 16 0.43
20 6 0.16
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (19 bp):
AAATCATTACTAAATCATC
Found at i:5023212 original size:36 final size:35
Alignment explanation
Indices: 5023098--5023258 Score: 148
Period size: 36 Copynumber: 4.5 Consensus size: 35
5023088 AATCATTATT
5023098 AAATCA-T-AATATTAAAATCATTACTAAATCATC
1 AAATCATTAAATATTAAAATCATTACTAAATCATC
* *
5023131 AAATCATCAAATAATAAAAATCATTACTAAATCATC
1 AAATCATTAAAT-ATTAAAATCATTACTAAATCATC
* *
5023167 AAATCATTAAATATTAAAATCAATATTAAATCATTC
1 AAATCATTAAATATTAAAATCATTACTAAATCA-TC
** * * * *
5023203 TTATGATTAATTATT-AAATTATTATTAATCATTACTATC
1 AAATCATTAAATATTAAAATCATTACTAA--A-T-C-ATC
5023242 AAATCATTAAATATTAA
1 AAATCATTAAATATTAA
5023259 TAATAATTTC
Statistics
Matches: 102, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
33 6 0.06
35 32 0.31
36 46 0.45
37 1 0.01
38 1 0.01
39 14 0.14
40 2 0.02
ACGTcount: A:0.50, C:0.12, G:0.01, T:0.37
Consensus pattern (35 bp):
AAATCATTAAATATTAAAATCATTACTAAATCATC
Found at i:5023281 original size:49 final size:49
Alignment explanation
Indices: 5023220--5023363 Score: 261
Period size: 49 Copynumber: 2.9 Consensus size: 49
5023210 TAATTATTAA
5023220 ATTATTATTAATCATTACTATCAAATCATTAAATATTAATAATAATTTC
1 ATTATTATTAATCATTACTATCAAATCATTAAATATTAATAATAATTTC
*
5023269 ATTATTATTAATCATTACTACCAAATCATTAAATATTAATAATAATTTC
1 ATTATTATTAATCATTACTATCAAATCATTAAATATTAATAATAATTTC
* *
5023318 ATTATTACTAATCATTACTATCAAATCATTAAATATTATTAATAAT
1 ATTATTATTAATCATTACTATCAAATCATTAAATATTAATAATAAT
5023364 AATTGCATTA
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 91 1.00
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.44
Consensus pattern (49 bp):
ATTATTATTAATCATTACTATCAAATCATTAAATATTAATAATAATTTC
Found at i:5023364 original size:52 final size:49
Alignment explanation
Indices: 5023220--5023380 Score: 259
Period size: 49 Copynumber: 3.2 Consensus size: 49
5023210 TAATTATTAA
*
5023220 ATTATTATTAATCATTACTATCAAATCATTAAATATTAATAATAATTTC
1 ATTATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTC
* *
5023269 ATTATTATTAATCATTACTACCAAATCATTAAATATTAATAATAATTTC
1 ATTATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTC
*
5023318 ATTATTACTAATCATTACTATCAAATCATTAAATATTATTAATAATAATTGC
1 ATTATTACTAATCATTACTATCAAATCATT-AA-A-TATTAATAATAATTTC
5023370 ATTATTACTAA
1 ATTATTACTAA
5023381 ATAATTATTA
Statistics
Matches: 105, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
49 76 0.72
50 2 0.02
51 1 0.01
52 26 0.25
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.43
Consensus pattern (49 bp):
ATTATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTC
Found at i:5025007 original size:15 final size:16
Alignment explanation
Indices: 5024982--5025011 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5024972 CGTATTTGTG
5024982 TCTTCTTCCTTTCTTT
1 TCTTCTTCCTTTCTTT
5024998 TCTT-TTCCTTTCTT
1 TCTTCTTCCTTTCTT
5025012 GTTTCTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TCTTCTTCCTTTCTTT
Found at i:5025388 original size:28 final size:30
Alignment explanation
Indices: 5025340--5025402 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
5025330 ATTTTTTATA
5025340 TAATATAATATATAACTTAAAATAACAAAC
1 TAATATAATATATAACTTAAAATAACAAAC
*
5025370 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAAATAACAAAC
5025398 TAATA
1 TAATA
5025403 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (30 bp):
TAATATAATATATAACTTAAAATAACAAAC
Found at i:5025409 original size:28 final size:28
Alignment explanation
Indices: 5025344--5025409 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
5025334 TTTATATAAT
5025344 ATAATATATAACTTAAAATAACAAACTA
1 ATAATATATAACTTAAAATAACAAACTA
*
5025372 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAAATAACAAACTA
*
5025400 ATAATTTATA
1 ATAATATATA
5025410 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATATATAACTTAAAATAACAAACTA
Found at i:5025412 original size:21 final size:21
Alignment explanation
Indices: 5025379--5025427 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
5025369 CTAATATAAT
*
5025379 ATAACTTAAACTAACAAACTA
1 ATAATTTAAACTAACAAACTA
*
5025400 ATAATTTATACTAACAAACTA
1 ATAATTTAAACTAACAAACTA
5025421 ATTAATT
1 A-TAATT
5025428 AAATTTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAATTTAAACTAACAAACTA
Found at i:5025867 original size:23 final size:23
Alignment explanation
Indices: 5025837--5025880 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
5025827 GCTTGGCTAC
*
5025837 AATCTCCCAGCTATGGATGCAGG
1 AATCTCCCAACTATGGATGCAGG
5025860 AATCTCCCAACTATGGATGCA
1 AATCTCCCAACTATGGATGCA
5025881 ACGCATGCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (23 bp):
AATCTCCCAACTATGGATGCAGG
Found at i:5026104 original size:29 final size:29
Alignment explanation
Indices: 5026062--5026167 Score: 176
Period size: 29 Copynumber: 3.7 Consensus size: 29
5026052 GATAGCTCGT
*
5026062 TGGGCGTGCATGGCGACCTACAAGGTCGC
1 TGGGAGTGCATGGCGACCTACAAGGTCGC
*
5026091 TGGGAGTGCATGGCGACCTACAAGGTCGT
1 TGGGAGTGCATGGCGACCTACAAGGTCGC
*
5026120 TGGGAGTGCATGGCGACCTACAATGTCGC
1 TGGGAGTGCATGGCGACCTACAAGGTCGC
*
5026149 TGGGAGTGCATGGTGACCT
1 TGGGAGTGCATGGCGACCT
5026168 GTGTTGGCCA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.19, C:0.23, G:0.38, T:0.21
Consensus pattern (29 bp):
TGGGAGTGCATGGCGACCTACAAGGTCGC
Done.