Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006563.1 Hibiscus syriacus cultivar Beakdansim tig00016059_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: 114357
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Found at i:7351 original size:57 final size:59
Alignment explanation
Indices: 7290--7453 Score: 248
Period size: 58 Copynumber: 2.8 Consensus size: 59
7280 TTAAAAATAT
* *
7290 ATTTTTCTATAA-ATTAATCTT-TTTTTAATTTAGTATTATGACTAAAATTATTTATTA
1 ATTTTTCTATAATATTAATTTTGTTTTTTATTTAGTATTATGACTAAAATTATTTATTA
7347 ATTTTTC-ATAATATTAATTTTGTTTTTTATTTAGTATTATGACTAAAATTATTTATTA
1 ATTTTTCTATAATATTAATTTTGTTTTTTATTTAGTATTATGACTAAAATTATTTATTA
* *
7405 TTTTTTCT-TAATATTAATTTTGTTTTTTATTTAGTTTTATGTAC-AAAAT
1 ATTTTTCTATAATATTAATTTTGTTTTTTATTTAGTATTATG-ACTAAAAT
7454 AATTAATACT
Statistics
Matches: 99, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
56 4 0.04
57 15 0.15
58 78 0.79
59 2 0.02
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (59 bp):
ATTTTTCTATAATATTAATTTTGTTTTTTATTTAGTATTATGACTAAAATTATTTATTA
Found at i:7407 original size:29 final size:29
Alignment explanation
Indices: 7317--7407 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 29
7307 TCTTTTTTTA
7317 ATTTAGTATTATGACTAAAATTATTTATT
1 ATTTAGTATTATGACTAAAATTATTTATT
* * * ** * *
7346 AATTT-TTCATAAT-ATTAATTTTGTTTTTT
1 -ATTTAGT-ATTATGACTAAAATTATTTATT
7375 ATTTAGTATTATGACTAAAATTATTTATT
1 ATTTAGTATTATGACTAAAATTATTTATT
7404 ATTT
1 ATTT
7408 TTTCTTAATA
Statistics
Matches: 44, Mismatches: 14, Indels: 7
0.68 0.22 0.11
Matches are distributed among these distances:
28 8 0.18
29 28 0.64
30 8 0.18
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.57
Consensus pattern (29 bp):
ATTTAGTATTATGACTAAAATTATTTATT
Found at i:7434 original size:29 final size:29
Alignment explanation
Indices: 7348--7436 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 29
7338 TATTTATTAA
*
7348 TTTTTCATAATATTAATTTTGTTTTTTAT
1 TTTTTCTTAATATTAATTTTGTTTTTTAT
** * * ** * *
7377 TTAGTATT-ATGACTAAAATTATTTATTAT
1 TTTTTCTTAAT-ATTAATTTTGTTTTTTAT
7406 TTTTTCTTAATATTAATTTTGTTTTTTAT
1 TTTTTCTTAATATTAATTTTGTTTTTTAT
7435 TT
1 TT
7437 AGTTTTATGT
Statistics
Matches: 41, Mismatches: 17, Indels: 4
0.66 0.27 0.06
Matches are distributed among these distances:
28 2 0.05
29 37 0.90
30 2 0.05
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.65
Consensus pattern (29 bp):
TTTTTCTTAATATTAATTTTGTTTTTTAT
Found at i:7544 original size:31 final size:31
Alignment explanation
Indices: 7464--7525 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
7454 AATTAATACT
* *
7464 AAAAAACTTAATAAATAA-TTTAGTCATAAG
1 AAAAAAATTAACAAATAATTTTAGTCATAAG
7494 AAAAAAATTAACAAATAATTTTAGTCATAAG
1 AAAAAAATTAACAAATAATTTTAGTCATAAG
7525 A
1 A
7526 CTAAATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 16 0.55
31 13 0.45
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (31 bp):
AAAAAAATTAACAAATAATTTTAGTCATAAG
Found at i:8654 original size:26 final size:25
Alignment explanation
Indices: 8592--8655 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
8582 GTAATAATAA
* *
8592 TATACTATT-TATTTTTAAATGAAT
1 TATATTATTATATTTATAAATGAAT
* *
8616 TATTATAAATATATTTATAAATGATAT
1 TA-TATTATTATATTTATAAATGA-AT
8643 TATATTATTATAT
1 TATATTATTATAT
8656 CATATATAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
24 2 0.06
25 4 0.13
26 21 0.68
27 4 0.13
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (25 bp):
TATATTATTATATTTATAAATGAAT
Found at i:8689 original size:25 final size:25
Alignment explanation
Indices: 8630--8689 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
8620 ATAAATATAT
* * *
8630 TTATAAATGATATTATATTATTATA
1 TTATAAATAATATTATAATATTAAA
* *
8655 TCATATATAATATT-TCAATATTAAA
1 TTATAAATAATATTAT-AATATTAAA
8680 TTATAAATAA
1 TTATAAATAA
8690 AAATTAGTAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (25 bp):
TTATAAATAATATTATAATATTAAA
Found at i:8729 original size:23 final size:24
Alignment explanation
Indices: 8703--8756 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
8693 TTAGTATGTC
* *
8703 TATATTGTAAAAATAAATTA-TTT
1 TATATTATAAAAATAAATAATTTT
* *
8726 TATAGTATAAAAATAAGTAATTTT
1 TATATTATAAAAATAAATAATTTT
8750 TATATTA
1 TATATTA
8757 AATTTTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (24 bp):
TATATTATAAAAATAAATAATTTT
Found at i:9552 original size:16 final size:15
Alignment explanation
Indices: 9524--9562 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
9514 TTCAAGTTTT
9524 TTTCGATTCAGTTAC
1 TTTCGATTCAGTTAC
* *
9539 TTTCTATTCGAGTTGC
1 TTTCGATTC-AGTTAC
9555 TTTCGATT
1 TTTCGATT
9563 TAGGTGACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.51
Consensus pattern (15 bp):
TTTCGATTCAGTTAC
Found at i:9675 original size:48 final size:46
Alignment explanation
Indices: 9583--9675 Score: 105
Period size: 48 Copynumber: 2.0 Consensus size: 46
9573 TTGATTAGGA
* * * *
9583 TTACTTTCGGTTTGGATAATTTGGGTCAGTTTCGGTTCGGTTCAAG
1 TTACTTTCAGTTTGGAAAATTTGGGTCAGTTTCAGTTCGATTCAAG
** *
9629 TTACTTTCAGTTTGGCTAAAATTTGGGTTGGTTTCAGTTTGATTCAA
1 TTACTTTCAGTTTGG--AAAATTTGGGTCAGTTTCAGTTCGATTCAA
9676 TATTTTCAGG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
46 14 0.37
48 24 0.63
ACGTcount: A:0.18, C:0.12, G:0.25, T:0.45
Consensus pattern (46 bp):
TTACTTTCAGTTTGGAAAATTTGGGTCAGTTTCAGTTCGATTCAAG
Found at i:10017 original size:23 final size:23
Alignment explanation
Indices: 9976--10019 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
9966 AAAAATATTA
*
9976 TTTATCTAATAATATTTAATTTC
1 TTTATCTAATAATAATTAATTTC
9999 TTTAT-TAATAATAAATTAATT
1 TTTATCTAATAAT-AATTAATT
10020 ATTATTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTATCTAATAATAATTAATTTC
Found at i:10051 original size:50 final size:48
Alignment explanation
Indices: 9986--10091 Score: 151
Period size: 50 Copynumber: 2.2 Consensus size: 48
9976 TTTATCTAAT
*
9986 AATATTTAATTTCTTTA-TTAATAATAAATTAATTATTATTCAATTTCAAA
1 AATATTTAATTTCTTTACTT-ATAATAAATTAATTATCATTCAA-TT-AAA
**
10036 AATATTTCTTTTCTTTACTTATAATAAATTAATTATCATTCAATTAAA
1 AATATTTAATTTCTTTACTTATAATAAATTAATTATCATTCAATTAAA
10084 AATATTTA
1 AATATTTA
10092 TTTATTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
48 10 0.20
49 2 0.04
50 37 0.73
51 2 0.04
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (48 bp):
AATATTTAATTTCTTTACTTATAATAAATTAATTATCATTCAATTAAA
Found at i:16495 original size:28 final size:28
Alignment explanation
Indices: 16455--16552 Score: 196
Period size: 28 Copynumber: 3.5 Consensus size: 28
16445 GGACTCCTTT
16455 TATTTTCTTCTTTTGTTAGATCTATACA
1 TATTTTCTTCTTTTGTTAGATCTATACA
16483 TATTTTCTTCTTTTGTTAGATCTATACA
1 TATTTTCTTCTTTTGTTAGATCTATACA
16511 TATTTTCTTCTTTTGTTAGATCTATACA
1 TATTTTCTTCTTTTGTTAGATCTATACA
16539 TATTTTCTTCTTTT
1 TATTTTCTTCTTTT
16553 AATAATATTA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.19, C:0.14, G:0.06, T:0.60
Consensus pattern (28 bp):
TATTTTCTTCTTTTGTTAGATCTATACA
Found at i:18316 original size:21 final size:20
Alignment explanation
Indices: 18278--18316 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
18268 CATTCTTGAT
* *
18278 TTTTGCCTCCATATATCCTC
1 TTTTGCCTCAATAAATCCTC
18298 TTTTGCTCTCAATAAATCC
1 TTTTGC-CTCAATAAATCC
18317 CATAACTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.21, C:0.31, G:0.05, T:0.44
Consensus pattern (20 bp):
TTTTGCCTCAATAAATCCTC
Found at i:20863 original size:42 final size:42
Alignment explanation
Indices: 20816--20910 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
20806 GATACACCTA
* * *
20816 TCATCATTCAAGAGGCGCCTTCTATCGTTAAAGAGGCCCCTC
1 TCATCATTCAAGAAGCCCCTTCTACCGTTAAAGAGGCCCCTC
* *
20858 TCATCA-TCGAAGAAGCCCCTTCTACCGTTCAAGAGGCCCCTG
1 TCATCATTC-AAGAAGCCCCTTCTACCGTTAAAGAGGCCCCTC
*
20900 TCATCGTTCAA
1 TCATCATTCAA
20911 TAGGTCCCCC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.04
42 41 0.91
43 2 0.04
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (42 bp):
TCATCATTCAAGAAGCCCCTTCTACCGTTAAAGAGGCCCCTC
Found at i:20907 original size:21 final size:20
Alignment explanation
Indices: 20816--20910 Score: 84
Period size: 21 Copynumber: 4.5 Consensus size: 20
20806 GATACACCTA
* *
20816 TCATCATTCAAGAGGCGCCT
1 TCATCGTTCAAGAGGCCCCT
*
20836 TCTATCGTTAAAGAGGCCCCT
1 TC-ATCGTTCAAGAGGCCCCT
* *
20857 CTCATC-ATCGAAGAAGCCCCT
1 -TCATCGTTC-AAGAGGCCCCT
*
20878 TCTACCGTTCAAGAGGCCCCT
1 TC-ATCGTTCAAGAGGCCCCT
20899 GTCATCGTTCAA
1 -TCATCGTTCAA
20911 TAGGTCCCCC
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
20 5 0.08
21 48 0.81
22 6 0.10
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCCT
Found at i:22502 original size:20 final size:20
Alignment explanation
Indices: 22473--22518 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
22463 CGGTTTGCGA
*
22473 TTTCGCGTTGCGAATTTGAC
1 TTTCGTGTTGCGAATTTGAC
22493 TTTCGTGTTGCGAATTTGAC
1 TTTCGTGTTGCGAATTTGAC
*
22513 TATCGT
1 TTTCGT
22519 AACGTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.15, C:0.17, G:0.24, T:0.43
Consensus pattern (20 bp):
TTTCGTGTTGCGAATTTGAC
Found at i:22561 original size:20 final size:20
Alignment explanation
Indices: 22538--22576 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
22528 TTCACGTTAT
22538 GAATTTGACTTTCGCATTGC
1 GAATTTGACTTTCGCATTGC
22558 GAATTTGACTTTCGCATTG
1 GAATTTGACTTTCGCATTG
22577 ATCGCAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (20 bp):
GAATTTGACTTTCGCATTGC
Found at i:22885 original size:18 final size:18
Alignment explanation
Indices: 22862--22897 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
22852 AAGCCGGTTG
22862 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
22880 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
22898 CCTTTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:24286 original size:25 final size:25
Alignment explanation
Indices: 24258--24307 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
24248 CATTATTTTC
* *
24258 CAAATAATGTACTCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
24283 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
24308 TAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:24403 original size:20 final size:20
Alignment explanation
Indices: 24378--24456 Score: 62
Period size: 20 Copynumber: 4.2 Consensus size: 20
24368 AAGGTAAACT
*
24378 TTCGCAATGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
24398 TTCGCAACGCGAAA-T--AA
1 TTCGCAACGCGAAAGTCAAA
*** * *
24415 ---GCGTTGCGATAGTTAAA
1 TTCGCAACGCGAAAGTCAAA
24432 TTCGCAACGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
24452 TTCGC
1 TTCGC
24457 GTTGCGATTT
Statistics
Matches: 43, Mismatches: 10, Indels: 12
0.66 0.15 0.18
Matches are distributed among these distances:
14 7 0.16
15 1 0.02
17 4 0.09
19 1 0.02
20 30 0.70
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (20 bp):
TTCGCAACGCGAAAGTCAAA
Found at i:24463 original size:20 final size:20
Alignment explanation
Indices: 24415--24463 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
24405 CGCGAAATAA
* *
24415 GCGTTGCGATAGTTAAATTC
1 GCGTTGCGAAAGTCAAATTC
***
24435 GCAACGCGAAAGTCAAATTC
1 GCGTTGCGAAAGTCAAATTC
24455 GCGTTGCGA
1 GCGTTGCGA
24464 TTTTCAGTTT
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (20 bp):
GCGTTGCGAAAGTCAAATTC
Found at i:24503 original size:20 final size:20
Alignment explanation
Indices: 24478--24526 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
24468 CAGTTTGCGA
24478 TTTCGCGTTCCAAATTTGAC
1 TTTCGCGTTCCAAATTTGAC
* *
24498 TTTCGCGTTGCGAATTTGAC
1 TTTCGCGTTCCAAATTTGAC
*
24518 TTTCACGTT
1 TTTCGCGTT
24527 GATTGCAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.43
Consensus pattern (20 bp):
TTTCGCGTTCCAAATTTGAC
Found at i:24834 original size:18 final size:18
Alignment explanation
Indices: 24811--24846 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24801 AAGCCGGTTG
*
24811 TGATTGGGATTTTCATTT
1 TGATTGCGATTTTCATTT
*
24829 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTCATTT
24847 CCTTTTTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.06, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTCATTT
Found at i:27164 original size:24 final size:24
Alignment explanation
Indices: 27113--27164 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
27103 ATCTGAGTAT
** *
27113 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
27137 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
27161 TGAC
1 TGAC
27165 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:28146 original size:19 final size:19
Alignment explanation
Indices: 28123--28190 Score: 100
Period size: 19 Copynumber: 3.5 Consensus size: 19
28113 ATTCGTGTTA
*
28123 CGAATTTGAAATTTAGTTG
1 CGAATTTGAAATTCAGTTG
*
28142 GGAATTTGAAATTCAGTTG
1 CGAATTTGAAATTCAGTTG
28161 CGAATTTGAAATTCAGCGTTG
1 CGAATTTGAAATTCA--GTTG
28182 CGAATTTGA
1 CGAATTTGA
28191 CTTTTGTGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 31 0.70
21 13 0.30
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.37
Consensus pattern (19 bp):
CGAATTTGAAATTCAGTTG
Found at i:28207 original size:20 final size:20
Alignment explanation
Indices: 28178--28244 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
28168 GAAATTCAGC
28178 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
* * * *
28198 GTTGCAAATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGT
* *
28218 GTTGTGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTTTGT
28238 GTTGCGA
1 GTTGCGA
28245 TTTACAAATT
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.18, C:0.13, G:0.25, T:0.43
Consensus pattern (20 bp):
GTTGCGAATTTGACTTTTGT
Found at i:28295 original size:39 final size:40
Alignment explanation
Indices: 28171--28304 Score: 175
Period size: 40 Copynumber: 3.4 Consensus size: 40
28161 CGAATTTGAA
* *
28171 ATTCAGCGTTGCGAATTTGACTTTTGTGTTGCAAATTTGAC-T
1 ATTC-GCGTTGCGAATTTGACTTCTGTGTTGC-GATTT-ACAT
* *
28213 A-TCGCGTTGTGAATTTGACTTCTGTGTTGCGATTTACAA
1 ATTCGCGTTGCGAATTTGACTTCTGTGTTGCGATTTACAT
*
28252 ATTCGCGTTGCGAATTTGACTTCTATG-TGCGATTTACAT
1 ATTCGCGTTGCGAATTTGACTTCTGTGTTGCGATTTACAT
28291 ATTCGCGTTGCGAA
1 ATTCGCGTTGCGAA
28305 ATTGGAAACT
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.02
39 30 0.36
40 48 0.58
41 2 0.02
42 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.40
Consensus pattern (40 bp):
ATTCGCGTTGCGAATTTGACTTCTGTGTTGCGATTTACAT
Found at i:28320 original size:20 final size:20
Alignment explanation
Indices: 28295--28344 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
28285 TTACATATTC
28295 GCGTTGCGAAATTGGAAACT
1 GCGTTGCGAAATTGGAAACT
* **
28315 GGGTTGCGAAATTGGAGTCT
1 GCGTTGCGAAATTGGAAACT
28335 GCGTTGCGAA
1 GCGTTGCGAA
28345 TTTGAGATCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.14, G:0.36, T:0.26
Consensus pattern (20 bp):
GCGTTGCGAAATTGGAAACT
Found at i:38970 original size:35 final size:35
Alignment explanation
Indices: 38889--39095 Score: 233
Period size: 35 Copynumber: 5.9 Consensus size: 35
38879 AGAAAAGTTA
*
38889 ATCTTAAGCCTTCACCA-AAGAGGAGTGAAGCAAACC
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC-AACC
* * * *
38925 ATCTTAAGCCTTCACCGGAGAGTAGTGAAACAATC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAACC
* * **
38960 ATCTTAAGCCTTCACAGAAAAATAGTGAAGCAGTC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAACC
38995 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGC-ACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAACC
* * * *
39029 ATCTTAAGCCTTCATAGAGGAGTATTGAAGC-ACA
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAACC
*
39063 ATCTTAAGCATTCATC-GAAGAGTAGTGAAGCAA
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGCAA
39096 ATCCATCCAT
Statistics
Matches: 145, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
34 57 0.39
35 63 0.43
36 25 0.17
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (35 bp):
ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAACC
Found at i:39187 original size:21 final size:21
Alignment explanation
Indices: 39163--39203 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
39153 GATGTTTTAA
39163 GAAG-ATGAAATTTTTGAAAAC
1 GAAGAATGAAATTTTT-AAAAC
*
39184 GAAGAATGCAATTTTTAAAA
1 GAAGAATGAAATTTTTAAAA
39204 TTTCACGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.49, C:0.05, G:0.17, T:0.29
Consensus pattern (21 bp):
GAAGAATGAAATTTTTAAAAC
Found at i:39470 original size:216 final size:215
Alignment explanation
Indices: 39098--40305 Score: 1899
Period size: 216 Copynumber: 5.6 Consensus size: 215
39088 TGAAGCAAAT
* *
39098 CCATCCATAAAACCTTTGGGTAGGATGTTTTCACATGAATTTGAAAATG-AAAAATGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTTTA
* * * *
39162 AGAAGATGAAATTTTTGAAAACGAAGAATGCAATTTTTAAAATTTCACGATTTATAAGTCCTTCG
66 AGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTCA
*
39227 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTAAGCCTTCAGAGC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTAAGCCTTTAGAGC
*
39292 AAAATGATAAGTCCTTCGGG
196 AAGATGATAAGTCCTTCGGG
*
39312 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAAAGGATGTTTT
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATG-AAAAAATGATGTTTT
* *
39377 AAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTATTAGTCTTTC
65 AAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTC
* *
39442 AGGCCATCAGTAAGTATTTCGAGCATGATGCTTAAATCCTTCAAGTCATCTGTAAGCCTTTAGAG
130 AGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTAAGCCTTTAGAG
*
39507 CAAGATGTTAAGTCCTTCGGG
195 CAAGATGATAAGTCCTTCGGG
39528 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAAATGATGTTTT
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATG-AAAAAATGATGTTTT
*
39593 AAGAAGATGGAATTTTTGAAAATGAAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTC
65 AAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTC
* * *
39658 -GAGCCATCAGTAAGTCTTTCAACCATGATGCTTAAATCCTTCAAGTCATCTGTAAGCCTTTAGA
130 AG-GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTAAGCCTTTAGA
*
39722 GCAAGATGATAAGTCCTTTGGG
194 GCAAGATGATAAGTCCTTCGGG
* * *
39744 CCATCCATAAAACCTTTGGGTAGGATGTTTTCACATGAATTTGTGAATGAAAAAACGATGTTTT-
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTTTA
* *
39808 --AAGATGGAATTTTTGAAAACGAAGAAAGCGATTTTCAAAATTTCACGATTTATAAGTCCTTCG
66 AGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTCA
* * * *
39871 GGTCATCAGTAAGTCTTTCGAGCATGATGCCTAAATCCTTCGGGTCATCTGCAAGCCTTTAGAGC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTAAGCCTTTAGAGC
*
39936 AAGATGATAAGTCTTTCGGG
196 AAGATGATAAGTCCTTCGGG
* * *
39956 CCATCCATAAAACCTTCGGGTAGGATGTTTTCATATGAATTTGAAAATTAAAAAATGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTTTA
* * * * *
40021 AAAAAATGAAATTATTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCA
66 AGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTCA
*
40086 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTAAGCCTTTAGAGC
* *
40151 AAGATGATAAGTACTTCGAG
196 AAGATGATAAGTCCTTCGGG
* * * *
40171 CCATCTATAAAACCTTCGGGTAGAATGTTTTCAAATAAATTTGAGAATG-AAAAATGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTTTA
* * * * *
40235 A-AAAATGTAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGCCCTTCG
66 AGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTCA
40299 GGCCATC
131 GGCCATC
40306 CATAAGACCT
Statistics
Matches: 922, Mismatches: 65, Indels: 15
0.92 0.06 0.01
Matches are distributed among these distances:
212 193 0.21
213 67 0.07
214 63 0.07
215 194 0.21
216 405 0.44
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (215 bp):
CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAATGATGTTTTA
AGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTCA
GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTAAGCCTTTAGAGC
AAGATGATAAGTCCTTCGGG
Found at i:40249 original size:428 final size:428
Alignment explanation
Indices: 39098--40305 Score: 1920
Period size: 428 Copynumber: 2.8 Consensus size: 428
39088 TGAAGCAAAT
* *
39098 CCATCCATAAAACCTTTGGGTAGGATGTTTTCACATGAATTTGAAAA-TGAAAAATGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATTAAAAAATGATGTTTTA
* *
39162 AGAAGATGAAATTTTTGAAAACGAAGAATGCAATTTTTAAAATTTCACGATTTATAAGTCCTTCG
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTC-
*
39227 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTAAGCCTTCAGAGC
130 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTAAGCCTTTAGAGC
*
39292 AAAATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAG
195 AAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAG
*
39357 AATGAAAAAAAGGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATT
260 AATG-AAAAAACGATGTTTTAA-AAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATT
* * * *
39422 TCACGATTTATTAGTCTTTCAGGCCATCAGTAAGTATTTCGAGCATGATGCTTAAATCCTTCAAG
323 TCACGATTTATAAGTCCTTCGGGCCATCAGTAAGTATTTCGAGCATGATGCCTAAATCCTTCAAG
* *
39487 TCATCTGTAAGCCTTTAGAGCAAGATGTTAAGTCCTTCGGG
388 TCATCTGCAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGG
* *
39528 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAAATGATGTTTT
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAAT-TAAAAAATGATGTTTT
* *
39593 AAGAAGATGGAATTTTTGAAAATGAAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTC
65 AAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTC
* * *
39658 GAGCCATCAGTAAGTCTTTCAACCATGATGCTTAAATCCTTCAAGTCATCTGTAAGCCTTTAGAG
130 G-GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTAAGCCTTTAGAG
* * *
39723 CAAGATGATAAGTCCTTTGGGCCATCCATAAAACCTTTGGGTAGGATGTTTTCACATGAATTTGT
194 CAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGA
*
39788 GAATGAAAAAACGATGTTTT--AAGATGGAATTTTTGAAAACGAAGAAAGCGATTTTCAAAATTT
259 GAATGAAAAAACGATGTTTTAAAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTT
* * **
39851 CACGATTTATAAGTCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCCTAAATCCTTCGGGT
324 CACGATTTATAAGTCCTTCGGGCCATCAGTAAGTATTTCGAGCATGATGCCTAAATCCTTCAAGT
*
39916 CATCTGCAAGCCTTTAGAGCAAGATGATAAGTCTTTCGGG
389 CATCTGCAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGG
*
39956 CCATCCATAAAACCTTCGGGTAGGATGTTTTCATATGAATTTGAAAATTAAAAAATGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATTAAAAAATGATGTTTTA
* * * *
40021 AAAAAATGAAATTATTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCA
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTC-
*
40086 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
130 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTAAGCCTTTAGAGC
* * * * * *
40151 AAGATGATAAGTACTTCGAGCCATCTATAAAACCTTCGGGTAGAATGTTTTCAAATAAATTTGAG
195 AAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAG
* * *
40216 AATG-AAAAATGATGTTTTAAAAAATGTAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTC
260 AATGAAAAAACGATGTTTTAAAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTC
* *
40280 ACAATTTATAAGCCCTTCGGGCCATC
325 ACGATTTATAAGTCCTTCGGGCCATC
40306 CATAAGACCT
Statistics
Matches: 714, Mismatches: 58, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
426 13 0.02
427 194 0.27
428 247 0.35
430 45 0.06
431 15 0.02
432 200 0.28
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (428 bp):
CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATTAAAAAATGATGTTTTA
AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACGATTTATAAGTCCTTCG
GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTAAGCCTTTAGAGCA
AGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGA
ATGAAAAAACGATGTTTTAAAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCA
CGATTTATAAGTCCTTCGGGCCATCAGTAAGTATTTCGAGCATGATGCCTAAATCCTTCAAGTCA
TCTGCAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGG
Found at i:40390 original size:130 final size:129
Alignment explanation
Indices: 40164--40435 Score: 420
Period size: 130 Copynumber: 2.1 Consensus size: 129
40154 ATGATAAGTA
* *
40164 CTTCGAGCCATCTATAAAACCTTCGGGTAGAATGTTTTCAAATAAATTTGAGAATGAAAAATGAT
1 CTTCGGGCCATCCATAAAACCTTCGGGTAGAATGTTTTCAAATAAATTTGAGAATGAAAAATGAT
*
40229 GTTTTAAAAAATGTAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGCC
66 GTTTT-AAAAATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGCC
* * *
40294 CTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGAGAATGAAAAAAATG
1 CTTCGGGCCATCCATAAAACCTTCGGGTAGAATGTTTTCAAATAAATTTGAGAATG--AAAAATG
** * *
40359 ATGTTTT-AGGATGGAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGT
64 ATGTTTTAAAAATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGC
40423 C
129 C
40424 CTTCGGGCCATC
1 CTTCGGGCCATC
40436 GGTAAGTCTT
Statistics
Matches: 130, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
130 116 0.89
132 14 0.11
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (129 bp):
CTTCGGGCCATCCATAAAACCTTCGGGTAGAATGTTTTCAAATAAATTTGAGAATGAAAAATGAT
GTTTTAAAAATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGCC
Found at i:47701 original size:31 final size:29
Alignment explanation
Indices: 47630--47708 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 29
47620 CAAATTTTAG
* ** *
47630 TTAGCGACCAAAACATAAATTTTGAAAGT
1 TTAGGGACCAAAGTATAAAGTTTGAAAGT
47659 TTAGTGG-CCAAAGTATAAAGTTTGAAAATGT
1 TTAG-GGACCAAAGTATAAAGTTTG-AAA-GT
47690 TTAGGGACCAAAGTGATAA
1 TTAGGGACCAAAGT-ATAA
47709 TTTTCTCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
29 18 0.44
30 6 0.15
31 13 0.32
32 4 0.10
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (29 bp):
TTAGGGACCAAAGTATAAAGTTTGAAAGT
Found at i:50867 original size:12 final size:12
Alignment explanation
Indices: 50845--50897 Score: 54
Period size: 13 Copynumber: 4.3 Consensus size: 12
50835 GTATCAGGAA
50845 GAAAA-GAATAT
1 GAAAATGAATAT
50856 GAAAATGAATAT
1 GAAAATGAATAT
* *
50868 GAAAGTGATAGAT
1 GAAAATGA-ATAT
*
50881 GAAAATAAAATAT
1 GAAAAT-GAATAT
50894 GAAA
1 GAAA
50898 TGTTCTGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
11 5 0.15
12 13 0.38
13 15 0.44
14 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (12 bp):
GAAAATGAATAT
Found at i:52347 original size:18 final size:18
Alignment explanation
Indices: 52324--52370 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
52314 TCAATGCCGG
*
52324 TCAACGGTCAACGGTCGA
1 TCAACGATCAACGGTCGA
* *
52342 TCAACGATGAACGGTCGG
1 TCAACGATCAACGGTCGA
52360 TCAACGATCAA
1 TCAACGATCAA
52371 TAGTTAACGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.32, C:0.26, G:0.26, T:0.17
Consensus pattern (18 bp):
TCAACGATCAACGGTCGA
Found at i:59754 original size:30 final size:30
Alignment explanation
Indices: 59698--59754 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
59688 GATTTGGGAT
*
59698 CCGAATTTAATCAAAATGTTACTTTAGCCC
1 CCGAATTTAATCAAAATGTTAATTTAGCCC
* *
59728 CCGAATTTAGTTAAAAT-TTCAATTTAG
1 CCGAATTTAATCAAAATGTT-AATTTAG
59755 TTCTCGAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.09
30 21 0.91
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.37
Consensus pattern (30 bp):
CCGAATTTAATCAAAATGTTAATTTAGCCC
Found at i:74228 original size:20 final size:20
Alignment explanation
Indices: 74203--74241 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
74193 GCCCAATATC
*
74203 ACATTCTAACATCAATTTCA
1 ACATTCTAAAATCAATTTCA
*
74223 ACATTCTAAAATTAATTTC
1 ACATTCTAAAATCAATTTC
74242 TAGCATAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (20 bp):
ACATTCTAAAATCAATTTCA
Found at i:81057 original size:47 final size:47
Alignment explanation
Indices: 80988--81084 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
80978 CTCTTATTTT
80988 AAATCTTATTTAACCCTTCCTTAAGCTTACATATCACTTAAGGTTGC
1 AAATCTTATTTAACCCTTCCTTAAGCTTACATATCACTTAAGGTTGC
81035 AAATCTTATTTAACCCTTCCTTAAGCTTACATATCACTTAAGGTTGC
1 AAATCTTATTTAACCCTTCCTTAAGCTTACATATCACTTAAGGTTGC
81082 AAA
1 AAA
81085 AAAACCATAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (47 bp):
AAATCTTATTTAACCCTTCCTTAAGCTTACATATCACTTAAGGTTGC
Found at i:86238 original size:21 final size:19
Alignment explanation
Indices: 86200--86245 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
86190 AATTAATCCT
86200 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
86220 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
86241 A-TAAT
1 ACTAAT
86246 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:95025 original size:90 final size:90
Alignment explanation
Indices: 94878--95067 Score: 371
Period size: 90 Copynumber: 2.1 Consensus size: 90
94868 TTACACTAAC
94878 ACTTCTTATTGTGTTGATGCACCATCTTAATCAGACTAATCAGGAGGATTATGATTAACTATATT
1 ACTTCTTATTGTGTTGATGCACCATCTTAATCAGACTAATCAGGAGGATTATGATTAACTATATT
94943 ATTTCCACTATGCACCTATTCTCAA
66 ATTTCCACTATGCACCTATTCTCAA
94968 ACTTCTTATTGTGTTGATGCACCATCTTAATCAGACTAATCAGGAGGATTATGATTAACTATATT
1 ACTTCTTATTGTGTTGATGCACCATCTTAATCAGACTAATCAGGAGGATTATGATTAACTATATT
95033 ATTTCCACTATGCACCTATTCTCAA
66 ATTTCCACTATGCACCTATTCTCAA
*
95058 ACCTCTTATT
1 ACTTCTTATT
95068 CGATCACTTA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 99 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (90 bp):
ACTTCTTATTGTGTTGATGCACCATCTTAATCAGACTAATCAGGAGGATTATGATTAACTATATT
ATTTCCACTATGCACCTATTCTCAA
Found at i:104221 original size:20 final size:21
Alignment explanation
Indices: 104172--104223 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
104162 TCTTTAGGCC
* *
104172 AAGGGATCGATGTTTTCTCCT
1 AAGGGATCAATGCTTTCTCCT
104193 AAGGGATCAATGCTTTCTCCT
1 AAGGGATCAATGCTTTCTCCT
104214 AA-GGATCAAT
1 AAGGGATCAAT
104224 CATTTTATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 8 0.28
21 21 0.72
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (21 bp):
AAGGGATCAATGCTTTCTCCT
Found at i:106145 original size:28 final size:28
Alignment explanation
Indices: 106084--106147 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
106074 GCACAATATT
* *
106084 CACTCAAAAGTACCTCATCAGTAATCTA
1 CACTCGAAAGTACCTCAACAGTAATCTA
* *
106112 CACTCGAAAGTGCCTCAACAGTAATCTG
1 CACTCGAAAGTACCTCAACAGTAATCTA
106140 CACTCGAA
1 CACTCGAA
106148 TTGTCTCATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (28 bp):
CACTCGAAAGTACCTCAACAGTAATCTA
Found at i:109252 original size:28 final size:27
Alignment explanation
Indices: 109212--109265 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
109202 ATGTTACCTA
* *
109212 TGGTGGAAATTATCTACGAGGCACTTTC
1 TGGTGCAAATTATATACG-GGCACTTTC
* *
109240 TGGTGCAATTTATATACGGGTACTTT
1 TGGTGCAAATTATATACGGGCACTTT
109266 TCAGTGCATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
TGGTGCAAATTATATACGGGCACTTTC
Done.