Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006663.1 Hibiscus syriacus cultivar Beakdansim tig00016500_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: 85028
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Found at i:3682 original size:15 final size:15
Alignment explanation
Indices: 3662--3692 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3652 TAGTTCTTTA
3662 CAGTGCAATGTACCT
1 CAGTGCAATGTACCT
3677 CAGTGCAATGTACCT
1 CAGTGCAATGTACCT
3692 C
1 C
3693 CTATCCTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (15 bp):
CAGTGCAATGTACCT
Found at i:12782 original size:30 final size:31
Alignment explanation
Indices: 12725--12792 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 31
12715 GTTCTACGGA
*
12725 ACATATGGACAGAATTACATATGTCTTTCGGG
1 ACATATGGACAGAATTACA-ATGTCTTTCAGG
* *
12757 ACATGTGGACAGAATTAC-CTGTCTTTCAGG
1 ACATATGGACAGAATTACAATGTCTTTCAGG
12787 ACATAT
1 ACATAT
12793 AGACCTTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 15 0.47
32 17 0.53
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (31 bp):
ACATATGGACAGAATTACAATGTCTTTCAGG
Found at i:12836 original size:31 final size:31
Alignment explanation
Indices: 12705--12843 Score: 88
Period size: 32 Copynumber: 4.5 Consensus size: 31
12695 AGAGTCGAGG
*
12705 GTTTACCTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTAAGGAACATATGGACA
* * ** * *
12736 GAATTACATATG-TCTTTCGGGACATGTGGACA
1 G-TTTACCTATGTTC-TAAGGAACATATGGACA
* * * * *
12768 GAATTACCTGTCTT-TCAGG-ACATATAGAC-
1 G-TTTACCTATGTTCTAAGGAACATATGGACA
*
12797 CTTATACCTATGTTCTAAGGAACATATGGACA
1 GTT-TACCTATGTTCTAAGGAACATATGGACA
*
12829 GTTTACCTAGGTTCT
1 GTTTACCTATGTTCT
12844 TCAGGACCTA
Statistics
Matches: 81, Mismatches: 20, Indels: 14
0.70 0.17 0.12
Matches are distributed among these distances:
28 1 0.01
29 8 0.10
30 12 0.15
31 26 0.32
32 33 0.41
33 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (31 bp):
GTTTACCTATGTTCTAAGGAACATATGGACA
Found at i:13594 original size:12 final size:12
Alignment explanation
Indices: 13577--13640 Score: 69
Period size: 12 Copynumber: 5.5 Consensus size: 12
13567 AATTTTTCAC
*
13577 TGTTCATGGTAT
1 TGTTCACGGTAT
13589 TGTTCACGGTAT
1 TGTTCACGGTAT
*
13601 TATTCACGGTAT
1 TGTTCACGGTAT
* *
13613 TGTTTA--TTAT
1 TGTTCACGGTAT
*
13623 TGTTCACGGTAC
1 TGTTCACGGTAT
13635 TGTTCA
1 TGTTCA
13641 TACCTTATAG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
10 8 0.19
12 34 0.81
ACGTcount: A:0.19, C:0.14, G:0.20, T:0.47
Consensus pattern (12 bp):
TGTTCACGGTAT
Found at i:14390 original size:125 final size:125
Alignment explanation
Indices: 14236--14486 Score: 484
Period size: 125 Copynumber: 2.0 Consensus size: 125
14226 GGAGAAGAGC
*
14236 GAAAACCTCAGAGAGTGTCTGTATAAGATTAGAGAATATTTTATGATGTGGAATAATATGTTGTT
1 GAAAACCTCAGAGAGTGCCTGTATAAGATTAGAGAATATTTTATGATGTGGAATAATATGTTGTT
14301 ATGTTTTCAATTTTATAATTCTATAACTCATAGAATGAATGTATCGAAATAGTTAAAAGA
66 ATGTTTTCAATTTTATAATTCTATAACTCATAGAATGAATGTATCGAAATAGTTAAAAGA
*
14361 GAAAACCTCAGAGAGTGCCTGTATAAGATTAGAGAATATTTTATGATGTGGAATAGTATGTTGTT
1 GAAAACCTCAGAGAGTGCCTGTATAAGATTAGAGAATATTTTATGATGTGGAATAATATGTTGTT
14426 ATGTTTTCAATTTTATAATTCTATAACTCATAGAATGAATGTATCGAAATAGTTAAAAGA
66 ATGTTTTCAATTTTATAATTCTATAACTCATAGAATGAATGTATCGAAATAGTTAAAAGA
14486 G
1 G
14487 TTAAAGAACA
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 124 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (125 bp):
GAAAACCTCAGAGAGTGCCTGTATAAGATTAGAGAATATTTTATGATGTGGAATAATATGTTGTT
ATGTTTTCAATTTTATAATTCTATAACTCATAGAATGAATGTATCGAAATAGTTAAAAGA
Found at i:16574 original size:158 final size:158
Alignment explanation
Indices: 16284--16600 Score: 616
Period size: 158 Copynumber: 2.0 Consensus size: 158
16274 ACTTGTGATA
16284 AGACTAGATTTAATACTTTGATATATGATTCATTTCATATTATGAAACATGATATGAGTTCATAC
1 AGACTAGATTTAATACTTTGATATATGATTCATTTCATATTATGAAACATGATATGAGTTCATAC
16349 CATATACATTATGTGACATGAATATGCAGGAAAAATTATACGAGCTATGTGATAAAGGTATGGAA
66 CATATACATTATGTGACATGAATATGCAGGAAAAATTATACGAGCTATGTGATAAAGGTATGGAA
16414 ATGATACGTCTATAAGATATAAAAGGTG
131 ATGATACGTCTATAAGATATAAAAGGTG
16442 AGACTAGATTTAATACTTTGATATATGATTCATTTCATATTATGAAACATGATATGAGTTCATAC
1 AGACTAGATTTAATACTTTGATATATGATTCATTTCATATTATGAAACATGATATGAGTTCATAC
*
16507 CATATACATTATGTGACATGAATATGCAGGAAAAATTATACGAGCTATGTGATAAAGGTATGTAA
66 CATATACATTATGTGACATGAATATGCAGGAAAAATTATACGAGCTATGTGATAAAGGTATGGAA
*
16572 ATGATATGTCTATAAGATATAAAAGGTG
131 ATGATACGTCTATAAGATATAAAAGGTG
16600 A
1 A
16601 TTCTTATGTG
Statistics
Matches: 157, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 157 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.33
Consensus pattern (158 bp):
AGACTAGATTTAATACTTTGATATATGATTCATTTCATATTATGAAACATGATATGAGTTCATAC
CATATACATTATGTGACATGAATATGCAGGAAAAATTATACGAGCTATGTGATAAAGGTATGGAA
ATGATACGTCTATAAGATATAAAAGGTG
Found at i:17903 original size:21 final size:21
Alignment explanation
Indices: 17877--17916 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
17867 TGCCGAAGTT
17877 ACTGTAGCAGTGCATCGATGC
1 ACTGTAGCAGTGCATCGATGC
17898 ACTGTAGCAGTGCATCGAT
1 ACTGTAGCAGTGCATCGAT
17917 ACACAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (21 bp):
ACTGTAGCAGTGCATCGATGC
Found at i:21279 original size:3 final size:3
Alignment explanation
Indices: 21271--21389 Score: 231
Period size: 3 Copynumber: 40.0 Consensus size: 3
21261 CTTCTAATGC
21271 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21319 ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21366 ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
21390 TCGCTGACCA
Statistics
Matches: 115, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 113 0.98
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:27465 original size:38 final size:38
Alignment explanation
Indices: 27422--27497 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
27412 AACATTGATA
27422 TTTGCTCTATTGATCAATTAATTCAGATCGAAAACTAT
1 TTTGCTCTATTGATCAATTAATTCAGATCGAAAACTAT
*
27460 TTTGCTCTATTGATCAATTAATTCAGATCGGAAACTAT
1 TTTGCTCTATTGATCAATTAATTCAGATCGAAAACTAT
27498 AAAGTCAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (38 bp):
TTTGCTCTATTGATCAATTAATTCAGATCGAAAACTAT
Found at i:27915 original size:3 final size:3
Alignment explanation
Indices: 27907--28001 Score: 136
Period size: 3 Copynumber: 31.7 Consensus size: 3
27897 CCATATTAAA
* * * * *
27907 TAT TAT TAT TAT TGT TAT TAT AAT AAT AAT AAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
27955 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
28002 AATATATATT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 86 1.00
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:29452 original size:13 final size:13
Alignment explanation
Indices: 29436--29482 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
29426 ATATAATAAA
29436 TAAATATTTATTT
1 TAAATATTTATTT
*
29449 TAAATAAATTATTT
1 TAAAT-ATTTATTT
29463 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
29476 TCAATAT
1 TAAATAT
29483 CAAAGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:31408 original size:13 final size:13
Alignment explanation
Indices: 31392--31438 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
31382 ATATAATAAA
31392 TAAATATTTATTT
1 TAAATATTTATTT
*
31405 TAAATAAATTATTT
1 TAAAT-ATTTATTT
31419 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
31432 TCAATAT
1 TAAATAT
31439 CAAAGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:32141 original size:18 final size:18
Alignment explanation
Indices: 32094--32142 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
32084 CTTTTCAATT
32094 TTTTTA-TTTATTTATTA
1 TTTTTATTTTATTTATTA
**
32111 TTTTTATAATATTTA-TA
1 TTTTTATTTTATTTATTA
32128 TGTTTTATTTTATTT
1 T-TTTTATTTTATTT
32143 GCAAGTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 9 0.35
18 17 0.65
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTTATTTTATTTATTA
Found at i:32164 original size:13 final size:15
Alignment explanation
Indices: 32133--32169 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
32123 TTATATGTTT
32133 TATTTTATTTGCAAG
1 TATTTTATTTGCAAG
32148 TATTTTATTT-C-AG
1 TATTTTATTTGCAAG
32161 TA-TTTATTT
1 TATTTTATTT
32170 TTCTATCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 1 0.05
15 10 0.45
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (15 bp):
TATTTTATTTGCAAG
Found at i:41145 original size:10 final size:10
Alignment explanation
Indices: 41130--41175 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
41120 TATTATGCTT
41130 GAAAAAAAAA
1 GAAAAAAAAA
41140 GAAAAAAAAA
1 GAAAAAAAAA
41150 GAAAAAAAAA
1 GAAAAAAAAA
*
41160 -AGAGAAAAAA
1 GA-AAAAAAAA
41170 GAAAAA
1 GAAAAA
41176 GGGGGGTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 1 0.03
10 30 0.94
11 1 0.03
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:41147 original size:11 final size:11
Alignment explanation
Indices: 41131--41169 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
41121 ATTATGCTTG
41131 AAAAAAAAAG-
1 AAAAAAAAAGA
41141 AAAAAAAAAGA
1 AAAAAAAAAGA
41152 AAAAAAAAAGA
1 AAAAAAAAAGA
*
41163 GAAAAAA
1 AAAAAAA
41170 GAAAAAGGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:41512 original size:16 final size:16
Alignment explanation
Indices: 41486--41530 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
41476 TTTGAATACA
*
41486 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
41503 -TTCAATTTATTTGAG
1 ATTCAATTTATTTAAG
41518 ATTCAATTTATTT
1 ATTCAATTTATTT
41531 TTGGAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:42990 original size:83 final size:84
Alignment explanation
Indices: 42269--42992 Score: 1155
Period size: 83 Copynumber: 8.7 Consensus size: 84
42259 CATTAACTGA
42269 AAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACA
1 AAGATGAATTTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACA
42332 GAA-CAATCATTGAATTTAG
65 GAACCAATCATTGAATTTAG
*
42351 AAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGG-TTGGACA
1 AAGATGAATTTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACA
42414 GAACCAATCATTGAATTTAG
65 GAACCAATCATTGAATTTAG
* * *
42434 AAGATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTAG-CAG
1 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAG
*
42498 AACCAATCATTGAATTTGG
66 AACCAATCATTGAATTTAG
*
42517 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAG
42581 AACCAATCATTGAATTTAG
66 AACCAATCATTGAATTTAG
* * * * *
42600 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAG-TAG
1 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAG
**
42664 AACCAATCATTGAATTGGG
66 AACCAATCATTGAATTTAG
*
42683 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAG
42747 AACCAATCATTGAATTTAG
66 AACCAATCATTGAATTTAG
* * *
42766 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAG-CAG
1 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAG
**
42830 AACCAATCATTGAATTGGG
66 AACCAATCATTGAATTTAG
*
42849 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAG
1 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAG
*
42913 AACCAATCATTGAATTTGG
66 AACCAATCATTGAATTTAG
*
42932 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
42993 TAAGAACTAC
Statistics
Matches: 596, Mismatches: 39, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
82 71 0.12
83 515 0.86
84 10 0.02
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (84 bp):
AAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAG
AACCAATCATTGAATTTAG
Found at i:43948 original size:114 final size:113
Alignment explanation
Indices: 43660--44508 Score: 1256
Period size: 114 Copynumber: 7.5 Consensus size: 113
43650 TGGATTGACA
* *
43660 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
1 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* *
43725 AGAATTTGTTCAACCTTCTGCCT-AATTCTATCACTTGATGGATCAGCT
66 AGAATTTGTTCAACCTTTTGCCTGAATTC-ATCACTTGATGGATCATCT
*
43773 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
1 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * *
43838 AGAATTTGTTCAACCTGTTACCTGAATTCATCACTTGATGGATTATCT
66 AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCATCT
* *
43886 TTTCCAAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAATTCATAATGAG
1 TTTCC-AGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
* *
43951 AAGAATTTGTTCAACCTTCTGCCT-AATTCTATCACTTGATGGATCAGCT
65 AAGAATTTGTTCAACCTTTTGCCTGAATTC-ATCACTTGATGGATCATCT
*
44000 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGA
1 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * *
44065 AGAATTTGTTCAACCTTTTTCCTGAATTCATCAAATTGATGGATTATCT
66 AGAATTTGTTCAACCTTTTGCCTGAATTCATC-ACTTGATGGATCATCT
44114 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
** * *
44179 AGAATTTGTTCAACCTTTTTTCTGAATTCATCAAATTGATGGATTATCT
66 AGAATTTGTTCAACCTTTTGCCTGAATTCATC-ACTTGATGGATCATCT
44228 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * * * *
44293 AGAATTTGTTCAATCTTTTGCTTGAATTCATCATTTGATGGATCAACA
66 AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCATCT
* *
44341 TTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 TTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * * * *
44405 GAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATGGATCATCA
62 GAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCATCT
** * *
44457 TCCCCAGCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG-AGAAGAA
1 TTTCCAG-AGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
44509 TTTATTCAAT
Statistics
Matches: 686, Mismatches: 39, Indels: 22
0.92 0.05 0.03
Matches are distributed among these distances:
112 3 0.00
113 234 0.34
114 342 0.50
115 2 0.00
116 86 0.13
117 17 0.02
118 2 0.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATCATCT
Found at i:44068 original size:227 final size:226
Alignment explanation
Indices: 43641--44508 Score: 1278
Period size: 227 Copynumber: 3.8 Consensus size: 226
43631 ATTCAAATCT
*
43641 ATCATTTGATGGATTGA-CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATCATTTGATGGATT-ATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
43705 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTCTGCCT-AATTCTATCACTTGATGGATC
65 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTCTGCCTGAATTC-ATCACTTGATGGATC
*
43769 AGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAAT
129 AGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
*
43834 GAGAAGAATTTGTTCAACCTGTTACCTGAATTC
194 GAGAAGAATTTGTTCAACCTTTTACCTGAATTC
* *
43867 ATCACTTGATGGATTATCTTTTCCAAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATCATTTGATGGATTATCATTTCC-AGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
43932 AGAATAAATTCATAATGAGAAGAATTTGTTCAACCTTCTGCCT-AATTCTATCACTTGATGGATC
65 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTCTGCCTGAATTC-ATCACTTGATGGATC
43996 AGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
129 AGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* *
44061 AAGAAGAATTTGTTCAACCTTTTTCCTGAATTC
194 GAGAAGAATTTGTTCAACCTTTTACCTGAATTC
* *
44094 ATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATC-ATTTGATGGATTATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * ** * *
44159 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTTCTGAATTCATCAAATTGATGGATT
65 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTCTGCCTGAATTCATC-ACTTGATGGATC
*
44224 ATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
129 AGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * *
44289 GAGAAGAATTTGTTCAATCTTTTGCTTGAATTC
194 GAGAAGAATTTGTTCAACCTTTTACCTGAATTC
* * * *
44322 ATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATCATTTGATGGATTATCATTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* * * * * *
44386 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATGGA
62 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTCTGCCTGAATTCATCACTTGATGGA
* * ** * *
44451 TCATCATCCCCAGCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG-AGAAGAA
127 TCAGCTTTTCCAG-AGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
44509 TTTATTCAAT
Statistics
Matches: 593, Mismatches: 39, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
225 1 0.00
226 23 0.04
227 315 0.53
228 131 0.22
229 26 0.04
230 97 0.16
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (226 bp):
ATCATTTGATGGATTATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTCTGCCTGAATTCATCACTTGATGGATCAG
CTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
GAAGAATTTGTTCAACCTTTTACCTGAATTC
Found at i:44260 original size:341 final size:341
Alignment explanation
Indices: 43638--44508 Score: 1315
Period size: 341 Copynumber: 2.5 Consensus size: 341
43628 AAGATTCAAA
* *
43638 TCTATCATTTGATGGAT-TGACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
1 TCTATCATTTGATGGATCAG-CATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAA
* * *
43702 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTCTGCCT-AATTCTATCACTTGATGG
65 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTC-ATCAATTGATGG
*
43766 ATCAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
129 ATCATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
*
43831 AATGAGAAGAATTTGTTCAACCTGTTACCTGAATTCATCACTTGATGGATTATCTTTTCCAAGAG
194 AATGAGAAGAATTTGTTCAACCTGTTACCTGAATTCATCAATTGATGGATTATCTTTTCCAAGAG
*
43896 AAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAATTCATAATGAGAAGAATTTGT
259 AAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
43961 TCAACCTTCTGCCT-AAT
324 TCAACCTTCTGCCTGAAT
* *
43978 TCTATCACTTGATGGATCAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAG
1 TCTATCATTTGATGGATCAGCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAG
* *
44043 GAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTTCCTGAATTCATCAAATTGATGGA
66 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATC-AATTGATGGA
* *
44108 TTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
130 TCATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATA
* **
44173 ATGAGAAGAATTTGTTCAACCTTTTTTCTGAATTCATCAAATTGATGGATTATCTTTTCC-AGAG
195 ATGAGAAGAATTTGTTCAACCTGTTACCTGAATTCATC-AATTGATGGATTATCTTTTCCAAGAG
*
44237 AAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
259 AAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
* * *
44302 TCAATCTTTTGCTTGAAT
324 TCAACCTTCTGCCTGAAT
* * *
44320 TC-ATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAA
1 TCTATCATTTGATGGATCAGCATTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAA
* * * *
44383 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGAT
62 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCAATTGAT
* ** * *
44448 GGATCATCATCCCCAGCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG-AGAAGAA
127 GGATCATCTTTTCCAG-AGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
44509 TTTATTCAAT
Statistics
Matches: 483, Mismatches: 38, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
340 106 0.22
341 229 0.47
342 25 0.05
343 26 0.05
344 97 0.20
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (341 bp):
TCTATCATTTGATGGATCAGCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAG
GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCAATTGATGGAT
CATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAA
TGAGAAGAATTTGTTCAACCTGTTACCTGAATTCATCAATTGATGGATTATCTTTTCCAAGAGAA
GGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
AACCTTCTGCCTGAAT
Found at i:44659 original size:3 final size:3
Alignment explanation
Indices: 44651--44727 Score: 136
Period size: 3 Copynumber: 25.7 Consensus size: 3
44641 CCATATTAAA
* *
44651 TAT TAT TAT TAT TGT TAT TAT AAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
44699 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
44728 AATATATATT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:47086 original size:83 final size:83
Alignment explanation
Indices: 46868--47161 Score: 527
Period size: 83 Copynumber: 3.5 Consensus size: 83
46858 TATAATGTGC
*
46868 TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACCAATCATTGA
1 TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACATAACCAATCATTGA
* *
46933 ATTTGGAAGAAT-AATGTG
66 GTTTGGAAG-ATGAATTTG
46951 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACATAACCAATCATTG
1 -TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACATAACCAATCATTG
47016 AGTTTGGAAGATGAATTTG
65 AGTTTGGAAGATGAATTTG
*
47035 TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACATAACCAATCATTGA
1 TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACATAACCAATCATTGA
47100 GTTTGGAAGATGAATTTG
66 GTTTGGAAGATGAATTTG
47118 TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
47162 GTTGGTAGGA
Statistics
Matches: 205, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
83 128 0.62
84 77 0.38
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (83 bp):
TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACATAACCAATCATTGA
GTTTGGAAGATGAATTTG
Found at i:48080 original size:117 final size:116
Alignment explanation
Indices: 47912--48445 Score: 805
Period size: 117 Copynumber: 4.6 Consensus size: 116
47902 TCCAGAAAAG
47912 GTTCATAATGAGAAGAA--CTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTT
1 GTTCATAATGAGAAGAACTCTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTT
* *
47975 CAACGTTTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGA
66 CAACCTTTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGAAGA
*
48026 GTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAAAAGAAGTTCATAATAAGAAGAATTTGT
1 GTTCATAATGAGAAGAACTC-TCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGT
48091 TCAACCTTTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGAAGA
65 TCAACCTTTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGAAGA
*
48143 GTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
1 GTTCATAATGAGAAGAACTC-TCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGT
* * * * * *** *
48208 TCAACCTTTT-ATCTGAATTCATCACTGGATGGATTATTTTTTCCAGAGAA-A
65 TCAACCTTTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAG-GAAGA
* *
48259 GTTCATAATGAGAAGAAC-C-CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GTTCATAATGAGAAGAACTCTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTT
*
48322 CAACTTTTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGAAGA
66 CAACCTTTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGAAGA
* * *
48373 GTTCATAATGAGAAGAA--CTCATCTCAAGAAGAAAGAAGAAGTTCATAATAAGAAGAACTTGTT
1 GTTCATAATGAGAAGAACTCTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTT
*
48436 CAACTTTTTG
66 CAACCTTTTG
48446 CATAATTCTA
Statistics
Matches: 384, Mismatches: 29, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
113 55 0.14
114 113 0.29
115 1 0.00
116 47 0.12
117 168 0.44
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (116 bp):
GTTCATAATGAGAAGAACTCTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTT
CAACCTTTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGAAGA
Found at i:48769 original size:3 final size:3
Alignment explanation
Indices: 48761--48816 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
48751 TTTTTATCCA
48761 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
48809 TAT TAT TA
1 TAT TAT TA
48817 AATATATATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:48828 original size:11 final size:11
Alignment explanation
Indices: 48812--48843 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
48802 TTATTATTAT
48812 TATTAAATATA
1 TATTAAATATA
48823 TATTAAATATA
1 TATTAAATATA
48834 TATATAAATA
1 TAT-TAAATA
48844 ATTAATTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATTAAATATA
Found at i:50265 original size:13 final size:13
Alignment explanation
Indices: 50249--50295 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
50239 ATATAATAAA
50249 TAAATATTTATTT
1 TAAATATTTATTT
*
50262 TAAATAAATTATTT
1 TAAAT-ATTTATTT
50276 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
50289 TCAATAT
1 TAAATAT
50296 CAAAGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:64210 original size:23 final size:23
Alignment explanation
Indices: 64182--64228 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
64172 TATAAAATTG
*
64182 ATTTTTTTTTTAATTTTTATATAA
1 ATTTTTTATTT-ATTTTTATATAA
*
64206 ATTTTTTATTTCTTTTTATATAA
1 ATTTTTTATTTATTTTTATATAA
64229 TCCCTAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
ATTTTTTATTTATTTTTATATAA
Found at i:74359 original size:25 final size:24
Alignment explanation
Indices: 74319--74366 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
74309 ATCAAACATA
74319 ATAATAAAAAATTCATTTATGTTT
1 ATAATAAAAAATTCATTTATGTTT
74343 ATAA-AAAAAATAATCATTTATGTT
1 ATAATAAAAAAT--TCATTTATGTT
74367 GTCTAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.32
24 4 0.18
25 11 0.50
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (24 bp):
ATAATAAAAAATTCATTTATGTTT
Found at i:78218 original size:37 final size:36
Alignment explanation
Indices: 78143--78218 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
78133 TTTTTATATT
*
78143 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
78179 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
78216 TTT
1 TTT
78219 GTAATATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:79450 original size:116 final size:116
Alignment explanation
Indices: 79278--79488 Score: 316
Period size: 116 Copynumber: 1.8 Consensus size: 116
79268 TTATTTTTAA
* * *
79278 TCTCAGTTATTTATTTCTAGTAATTCAAAAATATTAAATCTATGTAAAATTAAAATATTTTAC-C
1 TCTCAATTATTTATCTCTAGTAATTCAAAAATATTAAATCTATATAAAATTAAAATATTTTACAC
79342 TAATATAATTAGATCCTATCATTTTATTTTAATGAATATCTTTCATTTTTTC
66 -AATATAATTAGATCCTATCATTTTATTTTAATGAATATCTTTCATTTTTTC
* * ** * *
79394 TCTCAATTGTTTATCTCTATTAATTCAACGATGTTAAATTTATATAAAATTAAAATATTTTACAC
1 TCTCAATTATTTATCTCTAGTAATTCAAAAATATTAAATCTATATAAAATTAAAATATTTTACAC
*
79459 AATATAATTAGATTCTATCATTTTATTTTA
66 AATATAATTAGATCCTATCATTTTATTTTA
79489 TTATATAAAT
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
116 83 0.99
117 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (116 bp):
TCTCAATTATTTATCTCTAGTAATTCAAAAATATTAAATCTATATAAAATTAAAATATTTTACAC
AATATAATTAGATCCTATCATTTTATTTTAATGAATATCTTTCATTTTTTC
Found at i:82981 original size:12 final size:12
Alignment explanation
Indices: 82964--82994 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
82954 ATTAAAGAAA
82964 GAAATAATGACG
1 GAAATAATGACG
82976 GAAATAATGACG
1 GAAATAATGACG
82988 GAAATAA
1 GAAATAA
82995 ACTAAACTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.55, C:0.06, G:0.23, T:0.16
Consensus pattern (12 bp):
GAAATAATGACG
Found at i:83794 original size:21 final size:22
Alignment explanation
Indices: 83770--83810 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
83760 GTCCGAAGGA
*
83770 CACATA-GGTTGCATCGAAATT
1 CACATAGGGTTGCACCGAAATT
83791 CACATAGGGTTGCACCGAAA
1 CACATAGGGTTGCACCGAAA
83811 CACATATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (22 bp):
CACATAGGGTTGCACCGAAATT
Done.