Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009758.1 Kokia drynarioides strain JFW-HI SEQ_124477, 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: 108173
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:1687 original size:57 final size:56
Alignment explanation
Indices: 1620--1726 Score: 178
Period size: 57 Copynumber: 1.9 Consensus size: 56
1610 AATAAGAAAC
* *
1620 ATTTGAAAATGATTATGGTTTTCTCCAAAATGAAAATAAAAATGAAGAAATGAAATA
1 ATTTGAAAATGAATATAGTTTTCTCCAAAATGAAAATAAAAATGAA-AAATGAAATA
*
1677 ATTTGAAAATGAATGTAGTTTTCTCCAAAATGAAAATAAAAATGAAAAAT
1 ATTTGAAAATGAATATAGTTTTCTCCAAAATGAAAATAAAAATGAAAAAT
1727 TACTGAAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
56 4 0.09
57 43 0.91
ACGTcount: A:0.51, C:0.06, G:0.13, T:0.30
Consensus pattern (56 bp):
ATTTGAAAATGAATATAGTTTTCTCCAAAATGAAAATAAAAATGAAAAATGAAATA
Found at i:6368 original size:14 final size:16
Alignment explanation
Indices: 6334--6372 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
6324 CACTAAATTT
6334 GTTAATTATACTTAAG
1 GTTAATTATACTTAAG
*
6350 GTTAATTA-A-TTATG
1 GTTAATTATACTTAAG
6364 GTTAATTAT
1 GTTAATTAT
6373 GTTAATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 12 0.57
15 1 0.05
16 8 0.38
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.49
Consensus pattern (16 bp):
GTTAATTATACTTAAG
Found at i:7322 original size:12 final size:12
Alignment explanation
Indices: 7305--7330 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7295 ATGTTGCCCC
7305 TGCTTACAATAT
1 TGCTTACAATAT
7317 TGCTTACAATAT
1 TGCTTACAATAT
7329 TG
1 TG
7331 GTGAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (12 bp):
TGCTTACAATAT
Found at i:8175 original size:14 final size:14
Alignment explanation
Indices: 8158--8205 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
8148 ACCCTAGACT
8158 CTAAACCCAAAATC
1 CTAAACCCAAAATC
*
8172 CTAAACCCTAAA-C
1 CTAAACCCAAAATC
8185 CTTTAAACCCAAAATC
1 C--TAAACCCAAAATC
8201 CTAAA
1 CTAAA
8206 TTTGAGCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 2 0.07
14 15 0.52
15 10 0.34
16 2 0.07
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (14 bp):
CTAAACCCAAAATC
Found at i:9081 original size:96 final size:96
Alignment explanation
Indices: 8906--9087 Score: 219
Period size: 96 Copynumber: 1.9 Consensus size: 96
8896 AAGGATATTT
** * **
8906 GATTATCTCGATTTGAAGAAAGGTTGCACCTAGTGAGTTAAGGCGTAATATTTCAGAACCGAAGA
1 GATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCCAAATATTTCAGAACCGAAGA
*
8971 TAAGGAAACATTGCCTCGATTAAGGGTGTTC
66 TAAAGAAACATTGCCTCGATTAAGGGTGTTC
* *
9002 GATTATTTCGATTTGAAGAAAAATTGCATCTAGTAAGTTAAGGCACAAAT-TTTC-GAAACTCGA
1 GATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGC-CAAATATTTCAG-AAC-CGA
*
9065 A-ATAAAAGAAA-TTTGCCTCGATT
63 AGAT-AAAGAAACATTGCCTCGATT
9088 TTAAAGTTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
95 1 0.01
96 59 0.81
97 13 0.18
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (96 bp):
GATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCCAAATATTTCAGAACCGAAGA
TAAAGAAACATTGCCTCGATTAAGGGTGTTC
Found at i:9488 original size:30 final size:29
Alignment explanation
Indices: 9396--9722 Score: 264
Period size: 29 Copynumber: 11.2 Consensus size: 29
9386 TCATTTTGAG
* * *
9396 AGTTTTGAGGTCGAAAATGGAGATTTTGGA
1 AGTTTTGGGGTCAAAAATGGA-TTTTTGGA
* * *
9426 AG-TTCGAGGGT-AAAAATGGAATTTTAGA
1 AGTTTTG-GGGTCAAAAATGGATTTTTGGA
9454 AGTTTTGGGGTCAAAAATGGCATTTTTGGA
1 AGTTTTGGGGTCAAAAATGG-ATTTTTGGA
*
9484 AGTTTTGGGTTCAAAAATGGCATTTTTGGA
1 AGTTTTGGGGTCAAAAATGG-ATTTTTGGA
*
9514 AG-TTTGGGGAT-AAAAATTGAATTTTTGGA
1 AGTTTTGGGG-TCAAAAA-TGGATTTTTGGA
* * * *
9543 AG-TTTCGAGACTAAAATGGGATTTTTGGA
1 AGTTTTGGGGTCAAAAAT-GGATTTTTGGA
* **
9572 AGTTTAGGGGT-AAAAATGGATTTTTTTA
1 AGTTTTGGGGTCAAAAATGGATTTTTGGA
9600 AGTTTTGGGG-CTAAAAATGGGATTTTTGGA
1 AGTTTTGGGGTC-AAAAAT-GGATTTTTGGA
* *
9630 AG-TTTGAGGGT-AAAATTGAATTTTTTGGA
1 AGTTTTG-GGGTCAAAAATGGA-TTTTTGGA
9659 AGTTTTGGGGTC-AAAATGGGATTTTTGGA
1 AGTTTTGGGGTCAAAAAT-GGATTTTTGGA
* *
9688 AG-TTCGGGGAT-GAAAATGGAATTTTTGGA
1 AGTTTTGGGG-TCAAAAATGG-ATTTTTGGA
9717 CAGTTT
1 -AGTTT
9723 ATAGACCTTC
Statistics
Matches: 244, Mismatches: 30, Indels: 45
0.76 0.09 0.14
Matches are distributed among these distances:
28 42 0.17
29 128 0.52
30 72 0.30
31 2 0.01
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.37
Consensus pattern (29 bp):
AGTTTTGGGGTCAAAAATGGATTTTTGGA
Found at i:9586 original size:58 final size:58
Alignment explanation
Indices: 9419--9722 Score: 307
Period size: 58 Copynumber: 5.2 Consensus size: 58
9409 AAAATGGAGA
* * * * * *
9419 TTTTGGAAG-TTCGAGGGTAAAAAT-GGAATTTTAGAAGTTTTGGGGTCAAAAATGGCAT
1 TTTTGGAAGTTTTGAGGCTAAAAATGGGATTTTTGGAAG-TTTGGGGT-AAAAATTGAAT
* *
9477 TTTTGGAAGTTTTG-GGTTCAAAAATGGCATTTTTGGAAGTTTGGGGATAAAAATTGAAT
1 TTTTGGAAGTTTTGAGGCT-AAAAATGGGATTTTTGGAAGTTTGGGG-TAAAAATTGAAT
* * *
9536 TTTTGGAAGTTTCGAGACT-AAAATGGGATTTTTGGAAGTTTAGGGGTAAAAA-TGGAT
1 TTTTGGAAGTTTTGAGGCTAAAAATGGGATTTTTGGAAGTTT-GGGGTAAAAATTGAAT
** *
9593 TTTTTTAAGTTTTGGGGCTAAAAATGGGATTTTTGGAAGTTTGAGGGT-AAAATTGAATT
1 TTTTGGAAGTTTTGAGGCTAAAAATGGGATTTTTGGAAGTTTG-GGGTAAAAATTGAA-T
* * * * *
9652 TTTTGGAAGTTTTG-GGGTCAAAATGGGATTTTTGGAAGTTCGGGGATGAAAATGGAAT
1 TTTTGGAAGTTTTGAGGCTAAAAATGGGATTTTTGGAAGTTTGGGG-TAAAAATTGAAT
9710 TTTTGGACAGTTT
1 TTTTGGA-AGTTT
9723 ATAGACCTTC
Statistics
Matches: 209, Mismatches: 24, Indels: 25
0.81 0.09 0.10
Matches are distributed among these distances:
57 26 0.12
58 102 0.49
59 68 0.33
60 13 0.06
ACGTcount: A:0.30, C:0.04, G:0.29, T:0.38
Consensus pattern (58 bp):
TTTTGGAAGTTTTGAGGCTAAAAATGGGATTTTTGGAAGTTTGGGGTAAAAATTGAAT
Found at i:10639 original size:3 final size:3
Alignment explanation
Indices: 10631--10697 Score: 55
Period size: 3 Copynumber: 22.0 Consensus size: 3
10621 TTTCGACTTT
* * * * *
10631 TTA TTA TTA TTA ATA TTAA TTA ATA TTA TCA TTA TTA -CA ATA TTTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA -TTA
*
10677 TTA TTA TTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
10698 ATAACCATTT
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
2 1 0.02
3 44 0.88
4 5 0.10
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:10664 original size:12 final size:12
Alignment explanation
Indices: 10632--10700 Score: 67
Period size: 12 Copynumber: 6.2 Consensus size: 12
10622 TTCGACTTTT
10632 TATTATTATTAA
1 TATTATTATTAA
10644 TATTA--ATTAA
1 TATTATTATTAA
* *
10654 TATTATCATTAT
1 TATTATTATTAA
* *
10666 TA-CAATATT--
1 TATTATTATTAA
10675 TATTATTATTAA
1 TATTATTATTAA
10687 TATTATTATTAA
1 TATTATTATTAA
10699 TA
1 TA
10701 ACCATTTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
9 2 0.04
10 15 0.33
11 4 0.09
12 25 0.54
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:10719 original size:43 final size:42
Alignment explanation
Indices: 10630--10712 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 42
10620 CTTTCGACTT
* *
10630 TTTATTATTATTAATATTAATTAATATTATCATTATTACAATA
1 TTTATTATTATTAATATTAATTAATA-TACCATTAATACAATA
10673 TTTATTATTATTAATATTATTATTAATA-ACCATTTAATAC
1 TTTATTATTATTAATATTA--ATTAATATACCA-TTAATAC
10713 CTATTTAACG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
43 22 0.63
44 6 0.17
45 7 0.20
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (42 bp):
TTTATTATTATTAATATTAATTAATATACCATTAATACAATA
Found at i:11452 original size:17 final size:17
Alignment explanation
Indices: 11399--11508 Score: 132
Period size: 17 Copynumber: 6.4 Consensus size: 17
11389 TTTTATTTAT
* * *
11399 TTTAATTTTATAATAAT
1 TTTAAATTTAAAATAAA
*
11416 TTTAAATTTGAAAATGAA
1 TTTAAATTT-AAAATAAA
*
11434 TTTAAACTTAAAATAAA
1 TTTAAATTTAAAATAAA
11451 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
11468 TTTAAATTCTAAAACAAA
1 TTTAAATT-TAAAATAAA
11486 TTT-AATCTTAAAATAAA
1 TTTAAAT-TTAAAATAAA
11503 TTTAAA
1 TTTAAA
11509 ATGAGTTTGA
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
17 53 0.66
18 27 0.34
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:11466 original size:52 final size:52
Alignment explanation
Indices: 11399--11508 Score: 150
Period size: 52 Copynumber: 2.1 Consensus size: 52
11389 TTTTATTTAT
* * * **
11399 TTTAATTTTATAATAATTTTAAATT-TGAAAATGAATTTAAACTTAAAATAAA
1 TTTAAATTTAAAATAAATTTAAATTCT-AAAACAAATTTAAACTTAAAATAAA
*
11451 TTTAAATTTAAAATAAATTTAAATTCTAAAACAAATTTAATCTTAAAATAAA
1 TTTAAATTTAAAATAAATTTAAATTCTAAAACAAATTTAAACTTAAAATAAA
11503 TTTAAA
1 TTTAAA
11509 ATGAGTTTGA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
52 50 0.98
53 1 0.02
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (52 bp):
TTTAAATTTAAAATAAATTTAAATTCTAAAACAAATTTAAACTTAAAATAAA
Found at i:11481 original size:35 final size:34
Alignment explanation
Indices: 11410--11508 Score: 128
Period size: 35 Copynumber: 2.9 Consensus size: 34
11400 TTAATTTTAT
* *
11410 AATAATTTTAAATTTGAAAATGAATTTAAACTTAA
1 AATAAATTTAAATTT-AAAATAAATTTAAACTTAA
*
11445 AATAAATTTAAATTTAAAATAAATTTAAATTCTAA
1 AATAAATTTAAATTTAAAATAAATTTAAACT-TAA
*
11480 AACAAATTT-AATCTTAAAATAAATTTAAA
1 AATAAATTTAAAT-TTAAAATAAATTTAAA
11509 ATGAGTTTGA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
34 17 0.29
35 41 0.71
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (34 bp):
AATAAATTTAAATTTAAAATAAATTTAAACTTAA
Found at i:12313 original size:208 final size:208
Alignment explanation
Indices: 11906--12492 Score: 888
Period size: 208 Copynumber: 2.9 Consensus size: 208
11896 CTATATTGTT
* ** ** *
11906 TCATCAGGAAGATGGTTTTGGTTTACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGCTT
1 TCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTGACCTTTTATTGCTT
* * * * ** * * *
11971 CGACCTGCTTCTCGGTGTCTCATCAGGAAGCT--GG---G--ATTTTGCTCACATCCAGCGTGGA
66 CGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAAATTTGCTCGCTTTGAGCCTCGT
12029 TT--T-GATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATTC
131 TTCATCGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATTC
*
12091 GCTTCTTTGTATC
196 GCTTCTCTGTATC
*
12104 TCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTGATCTTTTATTGCTT
1 TCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTGACCTTTTATTGCTT
* *
12169 CGACCTGCTTCTCAATGTCTCATCAGGAAGCTGGGGTTCGAAAATTTGCTCGTTTTGAGCCTCGT
66 CGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAAATTTGCTCGCTTTGAGCCTCGT
12234 TTCATCGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATTC
131 TTCATCGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATTC
12299 GCTTCTCTGTATC
196 GCTTCTCTGTATC
* *
12312 TCATCAGGAAGACGAATTTGGTCCACTTCTTAATATCTCATCAGGAAGCTGACCTTTTATTGCTT
1 TCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTGACCTTTTATTGCTT
* *
12377 TGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCAAAAATTTGCTCGCTTTGAGCCTCGT
66 CGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAAATTTGCTCGCTTTGAGCCTCGT
*
12442 TTCATCGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGCTGACCGCATC
131 TTCATCGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATC
12493 ACTGTTTGTG
Statistics
Matches: 352, Mismatches: 27, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
198 88 0.25
200 2 0.01
203 1 0.00
205 16 0.05
207 1 0.00
208 244 0.69
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (208 bp):
TCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTGACCTTTTATTGCTT
CGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAAATTTGCTCGCTTTGAGCCTCGT
TTCATCGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATTC
GCTTCTCTGTATC
Found at i:31684 original size:18 final size:16
Alignment explanation
Indices: 31653--31688 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
31643 CCTCAATACC
31653 ATTTCATTTCAATTTA
1 ATTTCATTTCAATTTA
31669 ATTTCATTCCTCAATTTA
1 ATTTCATT--TCAATTTA
31687 AT
1 AT
31689 ATTTACTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTCATTTCAATTTA
Found at i:34402 original size:7 final size:7
Alignment explanation
Indices: 34392--34417 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
34382 CTAGGTTCAT
34392 GGTTTTG
1 GGTTTTG
34399 GGTTTTG
1 GGTTTTG
34406 GGTTTTG
1 GGTTTTG
34413 GGTTT
1 GGTTT
34418 AGGCTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.42, T:0.58
Consensus pattern (7 bp):
GGTTTTG
Found at i:35666 original size:13 final size:13
Alignment explanation
Indices: 35650--35674 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35640 AGGAACTTTG
35650 CAACCACTTTTTT
1 CAACCACTTTTTT
35663 CAACCACTTTTT
1 CAACCACTTTTT
35675 AATTAAAAAA
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:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (13 bp):
CAACCACTTTTTT
Found at i:35929 original size:15 final size:15
Alignment explanation
Indices: 35877--35946 Score: 50
Period size: 15 Copynumber: 4.7 Consensus size: 15
35867 GATGATCTGT
*
35877 ATAAAAATAAAAAAA
1 ATAAAAATAAAAATA
* * ** *
35892 ATAGAATTAAATTTG
1 ATAAAAATAAAAATA
*
35907 ATTAAAATAAAAATA
1 ATAAAAATAAAAATA
* **
35922 ATAGAAATAATTATA
1 ATAAAAATAAAAATA
35937 ATAAAAATAA
1 ATAAAAATAA
35947 TTAAGATCGA
Statistics
Matches: 38, Mismatches: 17, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (15 bp):
ATAAAAATAAAAATA
Found at i:35944 original size:30 final size:30
Alignment explanation
Indices: 35877--35946 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
35867 GATGATCTGT
* *
35877 ATAAAAATAAAAAAAATAGAATTAAATTTG
1 ATAAAAATAAAAAAAATAGAAATAAATTTA
* *
35907 ATTAAAATAAAAATAATAGAAAT-AATTATA
1 ATAAAAATAAAAAAAATAGAAATAAATT-TA
35937 ATAAAAATAA
1 ATAAAAATAA
35947 TTAAGATCGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 4 0.12
30 30 0.88
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (30 bp):
ATAAAAATAAAAAAAATAGAAATAAATTTA
Found at i:35947 original size:15 final size:15
Alignment explanation
Indices: 35919--35949 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35909 TAAAATAAAA
*
35919 ATAATAGAAATAATT
1 ATAATAAAAATAATT
35934 ATAATAAAAATAATT
1 ATAATAAAAATAATT
35949 A
1 A
35950 AGATCGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
ATAATAAAAATAATT
Found at i:38429 original size:43 final size:43
Alignment explanation
Indices: 38381--38585 Score: 214
Period size: 43 Copynumber: 4.7 Consensus size: 43
38371 GTTAGCGAAA
* * * * *
38381 TTTGT-GAGAAAAACGTCGCTAAAGAATATGCTCTTTATCGGCG
1 TTTGTGGA-AAAAACGCCGCTAAAGAACATGTTCTATAGCGGCG
* * *
38424 TTTGTGGGAAAAAACGCCACTAAAGAATATGTTCTATAGTGGCG
1 TTTGT-GGAAAAAACGCCGCTAAAGAACATGTTCTATAGCGGCG
* * * * *
38468 TTTGTGGAAAAAACGCCGTTGAAGACCATGTTCTTTAGCAGCG
1 TTTGTGGAAAAAACGCCGCTAAAGAACATGTTCTATAGCGGCG
* * *
38511 TTTGTGGTAAAAGCGCCGCTAAAGAACATGTTCTATAGCGGAG
1 TTTGTGGAAAAAACGCCGCTAAAGAACATGTTCTATAGCGGCG
* * *
38554 TTTGTGGGAAAAACACCGCTAAAGATCATGTT
1 TTTGTGGAAAAAACGCCGCTAAAGAACATGTT
38586 TTTTTATTTG
Statistics
Matches: 134, Mismatches: 26, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
43 98 0.73
44 34 0.25
45 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (43 bp):
TTTGTGGAAAAAACGCCGCTAAAGAACATGTTCTATAGCGGCG
Found at i:45818 original size:16 final size:17
Alignment explanation
Indices: 45799--45833 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
45789 ACTACTTAAA
45799 TTCAGTACTT-ATTTTT
1 TTCAGTACTTAATTTTT
*
45815 TTCATTACTTAATTTTT
1 TTCAGTACTTAATTTTT
45832 TT
1 TT
45834 TAGTTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.20, C:0.11, G:0.03, T:0.66
Consensus pattern (17 bp):
TTCAGTACTTAATTTTT
Found at i:49032 original size:13 final size:12
Alignment explanation
Indices: 49006--49047 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
48996 TGATTTCTCA
*
49006 ATTTTTTT-TCT
1 ATTTTTTTCTTT
49017 ATTTTTGTTCTTT
1 ATTTTT-TTCTTT
49030 ATTTCTTTTCTTT
1 ATTT-TTTTCTTT
49043 ATTTT
1 ATTTT
49048 ACGCCTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.22
12 3 0.11
13 16 0.59
14 2 0.07
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.79
Consensus pattern (12 bp):
ATTTTTTTCTTT
Found at i:59066 original size:5 final size:5
Alignment explanation
Indices: 59056--59089 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
59046 TCACATGTTG
59056 AATTA AATTA AATTA AATTA AATTGA AATATA AA
1 AATTA AATTA AATTA AATTA AATT-A AAT-TA AA
59090 ATTCAAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 19 0.70
6 7 0.26
7 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (5 bp):
AATTA
Found at i:59634 original size:21 final size:21
Alignment explanation
Indices: 59592--59634 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
59582 TGGTTTTATT
* **
59592 AAATGATAAAAAAATATCTTA
1 AAATAATAAAAAAATAAATTA
59613 AAATAATAAAAAAATAAATTA
1 AAATAATAAAAAAATAAATTA
59634 A
1 A
59635 GTGTCTAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
AAATAATAAAAAAATAAATTA
Found at i:61179 original size:76 final size:76
Alignment explanation
Indices: 61053--61279 Score: 454
Period size: 76 Copynumber: 3.0 Consensus size: 76
61043 TATTAAAAAG
61053 AAACAAAGTCAATTGTTCATCTTTTCTTCTTCTCCACCCCAAACAAAGAAGGAAGGAATAGGGTT
1 AAACAAAGTCAATTGTTCATCTTTTCTTCTTCTCCACCCCAAACAAAGAAGGAAGGAATAGGGTT
61118 TTAAGTTCAAC
66 TTAAGTTCAAC
61129 AAACAAAGTCAATTGTTCATCTTTTCTTCTTCTCCACCCCAAACAAAGAAGGAAGGAATAGGGTT
1 AAACAAAGTCAATTGTTCATCTTTTCTTCTTCTCCACCCCAAACAAAGAAGGAAGGAATAGGGTT
61194 TTAAGTTCAAC
66 TTAAGTTCAAC
61205 AAACAAAGTCAATTGTTCATCTTTTCTTCTTCTCCACCCCAAACAAAGAAGGAAGGAATAGGGTT
1 AAACAAAGTCAATTGTTCATCTTTTCTTCTTCTCCACCCCAAACAAAGAAGGAAGGAATAGGGTT
61270 TTAAGTTCAA
66 TTAAGTTCAA
61280 AACTTTTGGT
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 151 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.29
Consensus pattern (76 bp):
AAACAAAGTCAATTGTTCATCTTTTCTTCTTCTCCACCCCAAACAAAGAAGGAAGGAATAGGGTT
TTAAGTTCAAC
Found at i:62178 original size:10 final size:10
Alignment explanation
Indices: 62147--62180 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
62137 TAATTTTAAT
62147 TTTTATATTA
1 TTTTATATTA
*
62157 TATTATATTA
1 TTTTATATTA
*
62167 TTTTATTTTA
1 TTTTATATTA
62177 TTTT
1 TTTT
62181 TGTAATGGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTATATTA
Found at i:62466 original size:14 final size:14
Alignment explanation
Indices: 62444--62539 Score: 64
Period size: 11 Copynumber: 7.2 Consensus size: 14
62434 AATTTTAAAA
62444 TTATTAAAATTATT
1 TTATTAAAATTATT
* *
62458 TTTTTAAAATATAATA
1 TTATTAAAAT-T-ATT
62474 TTATTAAAATTA--
1 TTATTAAAATTATT
62486 TT-TTAAAATTA--
1 TTATTAAAATTATT
*
62497 AT-TTAAAATTA-T
1 TTATTAAAATTATT
**
62509 TT-TTAAAATATAAA
1 TTATTAAAAT-TATT
62523 TTATTAAAATTATT
1 TTATTAAAATTATT
62537 TTA
1 TTA
62540 AAATTATAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
11 19 0.28
12 10 0.15
13 2 0.03
14 17 0.25
15 9 0.13
16 11 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTATTAAAATTATT
Found at i:62489 original size:27 final size:27
Alignment explanation
Indices: 62441--62548 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
62431 AATAATTTTA
62441 AAATTATTAAAATTATTTTTTTAAAATAT
1 AAATTATTAAAATTA--TTTTTAAAATAT
62470 AATATTATTAAAATTA-TTTTAAAAT-T
1 AA-ATTATTAAAATTATTTTTAAAATAT
62496 -AA-T-TTAAAATTATTTTTAAAATAT
1 AAATTATTAAAATTATTTTTAAAATAT
62520 AAATTATTAAAATTA-TTTTAAAATTAT
1 AAATTATTAAAATTATTTTTAAAA-TAT
62547 AA
1 AA
62549 TCATCATCCT
Statistics
Matches: 72, Mismatches: 0, Indels: 16
0.82 0.00 0.18
Matches are distributed among these distances:
22 9 0.12
23 10 0.14
24 2 0.03
25 3 0.04
26 10 0.14
27 23 0.32
29 2 0.03
30 13 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
AAATTATTAAAATTATTTTTAAAATAT
Found at i:62493 original size:11 final size:11
Alignment explanation
Indices: 62472--62546 Score: 87
Period size: 11 Copynumber: 6.3 Consensus size: 11
62462 TAAAATATAA
62472 TATTATTAAAAT
1 TATT-TTAAAAT
62484 TATTTTAAAAT
1 TATTTTAAAAT
*
62495 TAATTTAAAAT
1 TATTTTAAAAT
62506 TATTTTTAAAAT
1 TA-TTTTAAAAT
62518 ATAAATTATTAAAAT
1 -T--ATT-TTAAAAT
62533 TATTTTAAAAT
1 TATTTTAAAAT
62544 TAT
1 TAT
62547 AATCATCATC
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
11 29 0.52
12 15 0.27
13 1 0.02
14 3 0.05
15 8 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TATTTTAAAAT
Found at i:62545 original size:49 final size:50
Alignment explanation
Indices: 62430--62545 Score: 184
Period size: 50 Copynumber: 2.3 Consensus size: 50
62420 CCATATCAAC
*
62430 AAATAATTTTAAAATT-ATTAAAATTATTTTTTTAAAATATAATATTATTA
1 AAATTATTTTAAAATTAATTAAAATTA-TTTTTTAAAATATAATATTATTA
62480 AAATTATTTTAAAATTAATTTAAAATTA-TTTTTAAAATATAA-ATTATTA
1 AAATTATTTTAAAATTAA-TTAAAATTATTTTTTAAAATATAATATTATTA
62529 AAATTATTTTAAAATTA
1 AAATTATTTTAAAATTA
62546 TAATCATCAT
Statistics
Matches: 63, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
49 24 0.38
50 29 0.46
51 1 0.02
52 9 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (50 bp):
AAATTATTTTAAAATTAATTAAAATTATTTTTTAAAATATAATATTATTA
Found at i:63264 original size:20 final size:20
Alignment explanation
Indices: 63239--63305 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
63229 GATGATAATT
63239 ATAATTTTAAAATAATTTT--A
1 ATAATTTT--AATAATTTTAAA
63259 ATAATTTT-AT-ATTTTAAAAA
1 ATAATTTTAATAATTTT--AAA
63279 ATAATTTTAATAATTTTAAA
1 ATAATTTTAATAATTTTAAA
*
63299 ATTATTT
1 ATAATTT
63306 GCTGACGTGG
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
16 5 0.12
17 2 0.05
20 26 0.65
21 2 0.05
22 5 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATAATTTTAATAATTTTAAA
Found at i:65155 original size:17 final size:17
Alignment explanation
Indices: 65133--65171 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
65123 CCATTCTAAG
65133 ATTTATTTT-AAGATTAA
1 ATTTATTTTGAA-ATTAA
*
65150 ATTTATTTTGAATTTAA
1 ATTTATTTTGAAATTAA
65167 ATTTA
1 ATTTA
65172 AATTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
ATTTATTTTGAAATTAA
Found at i:65165 original size:11 final size:11
Alignment explanation
Indices: 65146--65218 Score: 64
Period size: 11 Copynumber: 6.8 Consensus size: 11
65136 TATTTTAAGA
65146 TTAAATTTATT
1 TTAAATTTATT
* *
65157 TTGAATTTAAAT
1 TTAAATTT-ATT
65169 TTAAATTTATT
1 TTAAATTTATT
65180 TTAAA---A-T
1 TTAAATTTATT
*
65187 TTAAATTTAAT
1 TTAAATTTATT
*
65198 TTAAATTTAGAT
1 TTAAATTTA-TT
65210 TTAAATTTA
1 TTAAATTTA
65219 AAACTTGTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
7 6 0.12
8 1 0.02
10 1 0.02
11 24 0.46
12 20 0.38
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (11 bp):
TTAAATTTATT
Found at i:65165 original size:23 final size:23
Alignment explanation
Indices: 65139--65200 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
65129 TAAGATTTAT
*
65139 TTTAAGATTAAATTTATTTT-GAA
1 TTTAA-ATTAAATTTATTTTAAAA
65162 TTTAAATTTAAATTTATTTTAAAA
1 TTTAAA-TTAAATTTATTTTAAAA
*
65186 TTTAAATTTAATTTA
1 TTTAAATTAAATTTA
65201 AATTTAGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 1 0.03
23 26 0.74
24 8 0.23
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (23 bp):
TTTAAATTAAATTTATTTTAAAA
Found at i:65171 original size:6 final size:6
Alignment explanation
Indices: 65146--65220 Score: 84
Period size: 6 Copynumber: 12.8 Consensus size: 6
65136 TATTTTAAGA
* * *
65146 TTAAAT TT-ATT TTGAAT TTAAAT TTAAAT TT-ATT TTAAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAAAT
*
65193 TT-AAT TTAAAT TTAGAT TTAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
65221 ACTTGTTATG
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
5 13 0.22
6 41 0.71
7 4 0.07
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:65211 original size:23 final size:22
Alignment explanation
Indices: 65146--65219 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 22
65136 TATTTTAAGA
* *
65146 TTAAATTTATTTTGAATTTAAAT
1 TTAAATTTAATTTAAATTT-AAT
*
65169 TTAAATTT-ATTTTAA---AAT
1 TTAAATTTAATTTAAATTTAAT
65187 TTAAATTTAATTTAAATTTAGAT
1 TTAAATTTAATTTAAATTTA-AT
65210 TTAAATTTAA
1 TTAAATTTAA
65220 AACTTGTTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
18 11 0.26
19 6 0.14
22 6 0.14
23 20 0.47
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (22 bp):
TTAAATTTAATTTAAATTTAAT
Found at i:65871 original size:30 final size:30
Alignment explanation
Indices: 65837--65930 Score: 134
Period size: 30 Copynumber: 3.1 Consensus size: 30
65827 AGCAGTGGCA
*
65837 CGTGCACCGAAGGACTGCGGGACGGCAGCG
1 CGTGCACCGGAGGACTGCGGGACGGCAGCG
*
65867 CGTGCACCGGAGGACTGCGGGATGGCAGCG
1 CGTGCACCGGAGGACTGCGGGACGGCAGCG
* * * *
65897 CATGCACCGGAGGACTACGAGACGGTAGCG
1 CGTGCACCGGAGGACTGCGGGACGGCAGCG
65927 CGTG
1 CGTG
65931 GTGCGCGTGG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.20, C:0.28, G:0.43, T:0.10
Consensus pattern (30 bp):
CGTGCACCGGAGGACTGCGGGACGGCAGCG
Found at i:66583 original size:30 final size:29
Alignment explanation
Indices: 66522--66900 Score: 288
Period size: 30 Copynumber: 12.9 Consensus size: 29
66512 AAACTATTCG
* * *
66522 AAAATTTCATTTTTACCTTC-GAACTTCTA
1 AAAATTCCATTTTTACC-TCAAAACTTCCA
**
66551 AAAATTCCATTTTTGACCTCAAAACTTTTA
1 AAAATTCCATTTTT-ACCTCAAAACTTCCA
**
66581 AAAATTCCATTTTTACC-CCGAACTTCCA
1 AAAATTCCATTTTTACCTCAAAACTTCCA
* *
66609 AAAATTCCATTTTTAACCCCGAAACTTCCA
1 AAAATTCCATTTTT-ACCTCAAAACTTCCA
66639 AAAATTCCATTTTTGACCTCAAAACTTCCA
1 AAAATTCCATTTTT-ACCTCAAAACTTCCA
* *
66669 AAGATTCCATTTTTAACCTCAAAACTTCTA
1 AAAATTCCATTTTT-ACCTCAAAACTTCCA
* * **
66699 ATAATTCCATTTTTACCCCCGAACTTCCA
1 AAAATTCCATTTTTACCTCAAAACTTCCA
* **
66728 AAAATTCCATTTTTACC-CTTAAACTTTAA
1 AAAATTCCATTTTTACCTC-AAAACTTCCA
66757 AAAATTCCATTTTTGACC-CTAAAACTTCCA
1 AAAATTCCATTTTT-ACCTC-AAAACTTCCA
* * * * *
66787 AAAAATCTATTTTTACCCTC-GAACCTCTA
1 AAAATTCCATTTTTA-CCTCAAAACTTCCA
* * * *
66816 AAATTTCCATTTTTGTCC-CTGAAACTTTCA
1 AAAATTCCATTTTT-ACCTC-AAAACTTCCA
* * *
66846 AAAATTACCATTTTT-CCCCCATA-TATCCA
1 AAAATT-CCATTTTTACCTCAAAACT-TCCA
* *
66875 AAAACTCCATTTTTGACCTCGAAACT
1 AAAATTCCATTTTT-ACCTCAAAACT
66901 CTCAAAATCA
Statistics
Matches: 283, Mismatches: 50, Indels: 32
0.78 0.14 0.09
Matches are distributed among these distances:
28 32 0.11
29 100 0.35
30 141 0.50
31 10 0.04
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATTCCATTTTTACCTCAAAACTTCCA
Found at i:66645 original size:88 final size:86
Alignment explanation
Indices: 66522--66984 Score: 388
Period size: 88 Copynumber: 5.2 Consensus size: 86
66512 AAACTATTCG
* * * *
66522 AAAATTTCATTTTTACCTTCGAACTTCTAAAAATTCCATTTTTGACCTCAAAACTTTTAAAAATT
1 AAAATTCCATTTTTACC-CCGAACTTCCAAAAATTCCATTTTTGACC-CAAAACTTTCAAAAATT
*
66587 CCATTTTT-ACCCCGAACTTCCA
64 CCATTTTTAACCCCAAACTTCCA
* *
66609 AAAATTCCATTTTTAACCCCGAAACTTCCAAAAATTCCATTTTTGACCTCAAAACTTCCAAAGAT
1 AAAATTCCATTTTT-ACCCCG-AACTTCCAAAAATTCCATTTTTGACC-CAAAACTTTCAAAAAT
* *
66674 TCCATTTTTAACCTCAAAACTTCTA
63 TCCATTTTTAACC-CCAAACTTCCA
* * *
66699 ATAATTCCATTTTTACCCCCGAACTTCCAAAAATTCCATTTTT-ACCCTTAAACTTTAAAAAATT
1 AAAATTCCATTTTTA-CCCCGAACTTCCAAAAATTCCATTTTTGACCC-AAAACTTTCAAAAATT
* *
66763 CCATTTTTGACCCTAAAACTTCCA
64 CCATTTTTAACCC-CAAACTTCCA
* * * * * * *
66787 AAAAATCTATTTTTACCCTCGAACCTCTAAAATTTCCATTTTTGTCCCTGAAACTTTCAAAAATT
1 AAAATTCCATTTTTACCC-CGAACTTCCAAAAATTCCATTTTTGACCC-AAAACTTTCAAAAATT
* *
66852 ACCATTTTT-CCCCCATA-TATCCA
64 -CCATTTTTAACCCCAAACT-TCCA
* * * * *
66875 AAAACTCCATTTTTGACCTCGAAAC-TCTC-AAAA-TCACCTTTTT-ACCCCCAAA-TGTTTAAA
1 AAAATTCCATTTTT-ACCCCG-AACTTC-CAAAAATTC-CATTTTTGA-CCCAAAACT-TTCAAA
* *
66935 AATTCCATTTTTAACCCCAAATTTTCCC
60 AATTCCATTTTTAACCCCAAA-CTTCCA
66963 AAAATTACCA-TTTTACTCCCGA
1 AAAATT-CCATTTTTAC-CCCGA
66985 GAATCCAAAA
Statistics
Matches: 312, Mismatches: 42, Indels: 44
0.78 0.11 0.11
Matches are distributed among these distances:
86 9 0.03
87 44 0.14
88 168 0.54
89 57 0.18
90 34 0.11
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (86 bp):
AAAATTCCATTTTTACCCCGAACTTCCAAAAATTCCATTTTTGACCCAAAACTTTCAAAAATTCC
ATTTTTAACCCCAAACTTCCA
Found at i:66752 original size:118 final size:116
Alignment explanation
Indices: 66522--66900 Score: 419
Period size: 118 Copynumber: 3.2 Consensus size: 116
66512 AAACTATTCG
* * * * *
66522 AAAATTTCATTTTT-ACCTTC-GAACTTCTAAAAATTCCATTTTTGACCTCAAAACTTTTAAAAA
1 AAAATTCCATTTTTGACC-TCAAAACTTCCAAAAATTCCATTTTTAACCTCAAAACTTCT-AAAA
*
66585 TTCCATTTTTACCCCGAACTTCCAAAAATTCCATTTTTAACCCCGAAACTTCCA
64 TTCCATTTTTACCCCGAACTTCCAAAAATTCCATTTTT-ACCCCCAAACTTCCA
*
66639 AAAATTCCATTTTTGACCTCAAAACTTCCAAAGATTCCATTTTTAACCTCAAAACTTCTAATAAT
1 AAAATTCCATTTTTGACCTCAAAACTTCCAAAAATTCCATTTTTAACCTCAAAACTTCTAA-AAT
** **
66704 TCCATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTACCCTTAAACTTTAA
65 TCCATTTTTA-CCCCGAACTTCCAAAAATTCCATTTTTACCCCCAAACTTCCA
* * * * *
66757 AAAATTCCATTTTTGACC-CTAAAACTTCCAAAAAATCTATTTTTACCCTC-GAACCTCTAAAAT
1 AAAATTCCATTTTTGACCTC-AAAACTTCCAAAAATTCCATTTTTAACCTCAAAACTTCTAAAA-
* * * *
66820 TTCCATTTTTGTCCCTGAAACTTTCAAAAATTACCATTTTT-CCCCCATA-TATCCA
64 TTCCATTTTT-ACCCCG-AACTTCCAAAAATT-CCATTTTTACCCCCAAACT-TCCA
* *
66875 AAAACTCCATTTTTGACCTCGAAACT
1 AAAATTCCATTTTTGACCTCAAAACT
66901 CTCAAAATCA
Statistics
Matches: 225, Mismatches: 26, Indels: 21
0.83 0.10 0.08
Matches are distributed among these distances:
116 2 0.01
117 41 0.18
118 146 0.65
119 36 0.16
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.36
Consensus pattern (116 bp):
AAAATTCCATTTTTGACCTCAAAACTTCCAAAAATTCCATTTTTAACCTCAAAACTTCTAAAATT
CCATTTTTACCCCGAACTTCCAAAAATTCCATTTTTACCCCCAAACTTCCA
Found at i:66942 original size:58 final size:59
Alignment explanation
Indices: 66756--66951 Score: 161
Period size: 59 Copynumber: 3.3 Consensus size: 59
66746 TTAAACTTTA
* * * * **
66756 AAAAATTCCATTTTTGACCCTAAAACT-TCCAAAAA--ATCTATTTTTACCCTCGAACCTCT
1 AAAAATTCCATTTTTGACCCTGAAACTCT-CAAAAATCA-CCATTTTT-CCCCCAAATATCT
* * * * * *
66815 AAAATTTCCATTTTTGTCCCTGAAACTTTCAAAAATTACCATTTTTCCCCCATATATCC
1 AAAAATTCCATTTTTGACCCTGAAACTCTCAAAAATCACCATTTTTCCCCCAAATATCT
* * *
66874 AAAAACTCCATTTTTGA-CCTCGAAACTCTC-AAAATCACC-TTTTTACCCCCAAATGTTT
1 AAAAATTCCATTTTTGACCCT-GAAACTCTCAAAAATCACCATTTTT-CCCCCAAATATCT
*
66932 AAAAATTCCATTTTTAACCC
1 AAAAATTCCATTTTTGACCC
66952 CAAATTTTCC
Statistics
Matches: 110, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
57 5 0.05
58 35 0.32
59 61 0.55
60 8 0.07
61 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.35
Consensus pattern (59 bp):
AAAAATTCCATTTTTGACCCTGAAACTCTCAAAAATCACCATTTTTCCCCCAAATATCT
Found at i:66977 original size:30 final size:29
Alignment explanation
Indices: 66902--66977 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 29
66892 CTCGAAACTC
* * *
66902 TCAAAATCACCTTTTTACCCCCAAATGTT
1 TCAAAATTACCATTTTAACCCCAAATGTT
*
66931 TAAAAATT-CCATTTTTAACCCCAAAT-TT
1 TCAAAATTACCA-TTTTAACCCCAAATGTT
66959 TCCCAAAATTACCATTTTA
1 T--CAAAATTACCATTTTA
66978 CTCCCGAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
28 5 0.13
29 19 0.50
30 11 0.29
31 3 0.08
ACGTcount: A:0.36, C:0.26, G:0.01, T:0.37
Consensus pattern (29 bp):
TCAAAATTACCATTTTAACCCCAAATGTT
Found at i:68755 original size:24 final size:24
Alignment explanation
Indices: 68720--68829 Score: 143
Period size: 24 Copynumber: 4.6 Consensus size: 24
68710 CATTATTTTG
68720 ATTCT-GGACTCGTAAGAGCTAACC
1 ATTCTAGG-CTCGTAAGAGCTAACC
68744 ATTCTAGGCTCGTAAGAGCTAACC
1 ATTCTAGGCTCGTAAGAGCTAACC
* * *
68768 ATTCTGGGCTCATAAGAGTTAACC
1 ATTCTAGGCTCGTAAGAGCTAACC
68792 ATTCTAGGCTCGT-AGAAGCTAACC
1 ATTCTAGGCTCGTAAG-AGCTAACC
* *
68816 ATTTTGGGCTCGTA
1 ATTCTAGGCTCGTA
68830 TGGGTTAATA
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
23 2 0.03
24 71 0.95
25 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (24 bp):
ATTCTAGGCTCGTAAGAGCTAACC
Found at i:68837 original size:48 final size:48
Alignment explanation
Indices: 68720--68826 Score: 162
Period size: 48 Copynumber: 2.2 Consensus size: 48
68710 CATTATTTTG
* * *
68720 ATTCTGGACTCGTAAGAGCTAACCATTCTAGGCTCGTAAGAGCTAACC
1 ATTCTGGGCTCATAAGAGTTAACCATTCTAGGCTCGTAAGAGCTAACC
68768 ATTCTGGGCTCATAAGAGTTAACCATTCTAGGCTCGT-AGAAGCTAACC
1 ATTCTGGGCTCATAAGAGTTAACCATTCTAGGCTCGTAAG-AGCTAACC
*
68816 ATTTTGGGCTC
1 ATTCTGGGCTC
68827 GTATGGGTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 2 0.04
48 52 0.96
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (48 bp):
ATTCTGGGCTCATAAGAGTTAACCATTCTAGGCTCGTAAGAGCTAACC
Found at i:70794 original size:4 final size:4
Alignment explanation
Indices: 70785--70820 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
70775 ATAATATTTA
70785 TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC
70821 AACCTATAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
TATC
Found at i:71568 original size:12 final size:12
Alignment explanation
Indices: 71551--71587 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
71541 ATTTAACTTC
71551 ATTTTAAATTTA
1 ATTTTAAATTTA
71563 ATTTTAAATTT-
1 ATTTTAAATTTA
71574 ATTTTCAAATTTA
1 ATTTT-AAATTTA
71587 A
1 A
71588 AATTATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.22
12 17 0.74
13 1 0.04
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTTTAAATTTA
Found at i:71580 original size:29 final size:30
Alignment explanation
Indices: 71528--71604 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 30
71518 AATTTGTTAA
* *
71528 AAATTTAA-ATTAAATTTAACTTC-ATTTT
1 AAATTTAATTTTAAATTTAACTTCAAATTT
**
71556 AAATTTAATTTTAAATTTATTTTCAAATTT
1 AAATTTAATTTTAAATTTAACTTCAAATTT
* *
71586 AAAATT-ATTATAAATTTAA
1 AAATTTAATTTTAAATTTAA
71605 GATAAAGTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 8 0.20
29 23 0.57
30 9 0.22
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (30 bp):
AAATTTAATTTTAAATTTAACTTCAAATTT
Found at i:71602 original size:17 final size:18
Alignment explanation
Indices: 71565--71604 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
71555 TAAATTTAAT
* *
71565 TTTAAATTTATTTTCAAA
1 TTTAAAATTATTATCAAA
71583 TTTAAAATTATTAT-AAA
1 TTTAAAATTATTATCAAA
71600 TTTAA
1 TTTAA
71605 GATAAAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAAAATTATTATCAAA
Found at i:72348 original size:20 final size:19
Alignment explanation
Indices: 72320--72357 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
72310 TTTCATAATA
*
72320 TTTATTATTAATAAATATTT
1 TTTAATATTAAT-AATATTT
72340 TTTAATATTAATAATATT
1 TTTAATATTAATAATATT
72358 AATGAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTAATATTAATAATATTT
Found at i:73465 original size:29 final size:28
Alignment explanation
Indices: 73439--73627 Score: 102
Period size: 29 Copynumber: 6.5 Consensus size: 28
73429 GAACCTTCTG
73439 AAAATTACCATTTTACCCCAAAACTTCCA
1 AAAATTACCATTTTACCCCAAAACTT-CA
* * *
73468 AAAA-TCCCATTTTTGACCCCGAACCTTCCA
1 AAAATTACCA-TTTT-ACCCCAAAACTT-CA
**
73498 AAAATTACCATTTTACCCCCGAACTTCCA
1 AAAATTACCATTTTACCCCAAAACTT-CA
* *
73527 AAAA-TCCCATTTTTGACCCC-GAACTTCCA
1 AAAATTACCA-TTTT-ACCCCAAAACTT-CA
* * * *
73556 AAAA-TCCCATTTTTGACCTCGAACCTTCCA
1 AAAATTACCA-TTTT-ACCCCAAAACTT-CA
*
73586 AAAATTACCATTTTAGCCCC-GAACTTCCA
1 AAAATTACCATTTTA-CCCCAAAACTT-CA
*
73615 AAAA-TCCCATTTT
1 AAAATTACCATTTT
73628 TGACCCTGAA
Statistics
Matches: 136, Mismatches: 16, Indels: 17
0.80 0.09 0.10
Matches are distributed among these distances:
28 16 0.12
29 68 0.50
30 44 0.32
31 8 0.06
ACGTcount: A:0.34, C:0.33, G:0.05, T:0.29
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCAAAACTTCA
Found at i:73523 original size:59 final size:58
Alignment explanation
Indices: 73460--73809 Score: 467
Period size: 59 Copynumber: 6.0 Consensus size: 58
73450 TTTACCCCAA
*
73460 AACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCCAAAAATTACCA-TTTT-ACCCCCG
1 AACTTCCAAAAATCCCATTTTTGACCCCGAA-CTTCCAAAAA-TCCCATTTTTGA-CCCCG
*
73519 AACTTCCAAAAATCCCATTTTTGACCCCGAACTTCCAAAAATCCCATTTTTGACCTCG
1 AACTTCCAAAAATCCCATTTTTGACCCCGAACTTCCAAAAATCCCATTTTTGACCCCG
* * *
73577 AACCTTCCAAAAATTACCATTTTAG-CCCCGAACTTCCAAAAATCCCATTTTTGACCCTG
1 AA-CTTCCAAAAA-TCCCATTTTTGACCCCGAACTTCCAAAAATCCCATTTTTGACCCCG
* * *
73636 AACTTCCAAAAATTCCATTTTTGACCACGAACTTCCAAAAATCCCGTTTTTGACCCCG
1 AACTTCCAAAAATCCCATTTTTGACCCCGAACTTCCAAAAATCCCATTTTTGACCCCG
* * * *
73694 AGCTTCCAAAAATCCCGTTTTTGACCCCGAACTTTCAAAAATCCCATTTTTGACTCCG
1 AACTTCCAAAAATCCCATTTTTGACCCCGAACTTCCAAAAATCCCATTTTTGACCCCG
* *
73752 AACCTTCCAAAAATTACCA-TTTT-ACCTCCGAACTTCCAAAAATCCCGTTTTTGACCCC
1 AA-CTTCCAAAAA-TCCCATTTTTGACC-CCGAACTTCCAAAAATCCCATTTTTGACCCC
73810 AAACATTTTG
Statistics
Matches: 259, Mismatches: 24, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
57 13 0.05
58 116 0.45
59 118 0.46
60 12 0.05
ACGTcount: A:0.31, C:0.33, G:0.07, T:0.29
Consensus pattern (58 bp):
AACTTCCAAAAATCCCATTTTTGACCCCGAACTTCCAAAAATCCCATTTTTGACCCCG
Found at i:73579 original size:88 final size:88
Alignment explanation
Indices: 73460--73863 Score: 541
Period size: 88 Copynumber: 4.6 Consensus size: 88
73450 TTTACCCCAA
*
73460 AACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCCAAAAATTACCATTTTACCCCCGAACTTC
1 AACTTCCAAAAATCCCATTTTTGACCTCGAACCTTCCAAAAATTACCATTTTACCCCCGAACTTC
73525 CAAAAATCCCATTTTTGACCCCG
66 CAAAAATCCCATTTTTGACCCCG
*
73548 AACTTCCAAAAATCCCATTTTTGACCTCGAACCTTCCAAAAATTACCATTTTAGCCCCGAACTTC
1 AACTTCCAAAAATCCCATTTTTGACCTCGAACCTTCCAAAAATTACCATTTTACCCCCGAACTTC
*
73613 CAAAAATCCCATTTTTGACCCTG
66 CAAAAATCCCATTTTTGACCCCG
* * * * *
73636 AACTTCCAAAAATTCCATTTTTGACCACGAA-CTTCCAAAAA-TCCCGTTTTTGA-CCCCGAGCT
1 AACTTCCAAAAATCCCATTTTTGACCTCGAACCTTCCAAAAATTACC-ATTTT-ACCCCCGAACT
*
73698 TCCAAAAATCCCGTTTTTGACCCCG
64 TCCAAAAATCCCATTTTTGACCCCG
* *
73723 AACTTTCAAAAATCCCATTTTTGA-CTCCGAACCTTCCAAAAATTACCATTTTACCTCCGAACTT
1 AACTTCCAAAAATCCCATTTTTGACCT-CGAACCTTCCAAAAATTACCATTTTACCCCCGAACTT
* *
73787 CCAAAAATCCCGTTTTTGACCCCA
65 CCAAAAATCCCATTTTTGACCCCG
** * * * *
73811 AACATTTTGAAAATTACCA-TTTT-ACCTCCGAACCTTCTAAAAACTACCATTTT
1 AAC--TTCCAAAAATCCCATTTTTGACCT-CGAACCTTCCAAAAATTACCATTTT
73864 GCCCTCGTGC
Statistics
Matches: 284, Mismatches: 23, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
86 4 0.01
87 72 0.25
88 164 0.58
89 33 0.12
90 11 0.04
ACGTcount: A:0.32, C:0.32, G:0.07, T:0.30
Consensus pattern (88 bp):
AACTTCCAAAAATCCCATTTTTGACCTCGAACCTTCCAAAAATTACCATTTTACCCCCGAACTTC
CAAAAATCCCATTTTTGACCCCG
Found at i:73628 original size:29 final size:29
Alignment explanation
Indices: 73460--73809 Score: 467
Period size: 29 Copynumber: 12.0 Consensus size: 29
73450 TTTACCCCAA
73460 AACTTCCAAAAATCCCATTTTTGACCCCG
1 AACTTCCAAAAATCCCATTTTTGACCCCG
*
73489 AACCTTCCAAAAATTACCA-TTTT-ACCCCCG
1 AA-CTTCCAAAAA-TCCCATTTTTGA-CCCCG
73519 AACTTCCAAAAATCCCATTTTTGACCCCG
1 AACTTCCAAAAATCCCATTTTTGACCCCG
*
73548 AACTTCCAAAAATCCCATTTTTGACCTCG
1 AACTTCCAAAAATCCCATTTTTGACCCCG
* *
73577 AACCTTCCAAAAATTACCATTTTAG-CCCCG
1 AA-CTTCCAAAAA-TCCCATTTTTGACCCCG
*
73607 AACTTCCAAAAATCCCATTTTTGACCCTG
1 AACTTCCAAAAATCCCATTTTTGACCCCG
* *
73636 AACTTCCAAAAATTCCATTTTTGACCACG
1 AACTTCCAAAAATCCCATTTTTGACCCCG
*
73665 AACTTCCAAAAATCCCGTTTTTGACCCCG
1 AACTTCCAAAAATCCCATTTTTGACCCCG
* *
73694 AGCTTCCAAAAATCCCGTTTTTGACCCCG
1 AACTTCCAAAAATCCCATTTTTGACCCCG
* *
73723 AACTTTCAAAAATCCCATTTTTGACTCCG
1 AACTTCCAAAAATCCCATTTTTGACCCCG
*
73752 AACCTTCCAAAAATTACCA-TTTT-ACCTCCG
1 AA-CTTCCAAAAA-TCCCATTTTTGACC-CCG
*
73782 AACTTCCAAAAATCCCGTTTTTGACCCC
1 AACTTCCAAAAATCCCATTTTTGACCCC
73810 AAACATTTTG
Statistics
Matches: 283, Mismatches: 25, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
28 16 0.06
29 191 0.67
30 59 0.21
31 17 0.06
ACGTcount: A:0.31, C:0.33, G:0.07, T:0.29
Consensus pattern (29 bp):
AACTTCCAAAAATCCCATTTTTGACCCCG
Found at i:73824 original size:59 final size:58
Alignment explanation
Indices: 73460--73863 Score: 439
Period size: 59 Copynumber: 6.9 Consensus size: 58
73450 TTTACCCCAA
* *
73460 AACTTCCAAAAA-TCCCATTTTTGACCCCGAACCTTCCAAAAATTACCA-TTTT-ACCCCCG
1 AACTTCCAAAAATTACCA-TTTTGACCCCGAA-CTTCCAAAAA-TCCCATTTTTGA-CCCCG
* *
73519 AACTTCCAAAAA-TCCCATTTTTGACCCCGAACTTCCAAAAATCCCATTTTTGACCTCG
1 AACTTCCAAAAATTACCA-TTTTGACCCCGAACTTCCAAAAATCCCATTTTTGACCCCG
*
73577 AACCTTCCAAAAATTACCATTTT-AGCCCCGAACTTCCAAAAATCCCATTTTTGACCCTG
1 AA-CTTCCAAAAATTACCATTTTGA-CCCCGAACTTCCAAAAATCCCATTTTTGACCCCG
* *
73636 AACTTCCAAAAATT-CCATTTTTGACCACGAACTTCCAAAAATCCCGTTTTTGACCCCG
1 AACTTCCAAAAATTACCA-TTTTGACCCCGAACTTCCAAAAATCCCATTTTTGACCCCG
* * * * *
73694 AGCTTCCAAAAA-TCCCGTTTTTGACCCCGAACTTTCAAAAATCCCATTTTTGACTCCG
1 AACTTCCAAAAATTACC-ATTTTGACCCCGAACTTCCAAAAATCCCATTTTTGACCCCG
* *
73752 AACCTTCCAAAAATTACCATTTT-ACCTCCGAACTTCCAAAAATCCCGTTTTTGACCCCA
1 AA-CTTCCAAAAATTACCATTTTGACC-CCGAACTTCCAAAAATCCCATTTTTGACCCCG
*** * *
73811 AACATTTTGAAAATTACCATTTT-ACCTCCGAACCTTCTAAAAACTACCATTTT
1 AAC-TTCCAAAAATTACCATTTTGACC-CCGAA-CTTCCAAAAA-TCCCATTTT
73864 GCCCTCGTGC
Statistics
Matches: 303, Mismatches: 27, Indels: 28
0.85 0.08 0.08
Matches are distributed among these distances:
57 8 0.03
58 122 0.40
59 150 0.50
60 16 0.05
61 7 0.02
ACGTcount: A:0.32, C:0.32, G:0.07, T:0.30
Consensus pattern (58 bp):
AACTTCCAAAAATTACCATTTTGACCCCGAACTTCCAAAAATCCCATTTTTGACCCCG
Found at i:75001 original size:3 final size:3
Alignment explanation
Indices: 74993--75020 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
74983 TATCTAACTT
74993 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
75021 GTATGATGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:76477 original size:15 final size:15
Alignment explanation
Indices: 76459--76512 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
76449 AATTAAATTT
76459 AAATATCTAACTAAA
1 AAATATCTAACTAAA
* *
76474 AAATATATAATTTAAA
1 AAATATCTAA-CTAAA
*
76490 TTTAATATCTAACTAAA
1 --AAATATCTAACTAAA
76507 AAATAT
1 AAATAT
76513 ATAATTTGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
15 14 0.47
16 4 0.13
17 4 0.13
18 8 0.27
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATATCTAACTAAA
Found at i:76502 original size:33 final size:34
Alignment explanation
Indices: 76451--76519 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 34
76441 TTTACAAAAA
76451 TTAAATTTAAATATCTAACTAAAAAATATATAAT
1 TTAAATTTAAATATCTAACTAAAAAATATATAAT
76485 TTAAATTT-AATATCTAACTAAAAAATATATAAT
1 TTAAATTTAAATATCTAACTAAAAAATATATAAT
76518 TT
1 TT
76520 GAAGGTTGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 27 0.77
34 8 0.23
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (34 bp):
TTAAATTTAAATATCTAACTAAAAAATATATAAT
Found at i:77290 original size:31 final size:31
Alignment explanation
Indices: 77252--77311 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
77242 ATGGTCATCG
77252 AACTATTCCA-AAGTTTTTATTTAAGTCACAT
1 AACTATT-CAGAAGTTTTTATTTAAGTCACAT
77283 AACTATTCAGAAGTTTTTATTTAAGTCAC
1 AACTATTCAGAAGTTTTTATTTAAGTCAC
77312 TTGATTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (31 bp):
AACTATTCAGAAGTTTTTATTTAAGTCACAT
Found at i:80062 original size:12 final size:12
Alignment explanation
Indices: 80022--80068 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 12
80012 AGCATAATTG
80022 TATAAAAATTA-
1 TATAAAAATTAT
80033 TATAATAAATATATT
1 TATAA-AAAT-TA-T
80048 TATAAAAATTAT
1 TATAAAAATTAT
80060 TATTAAAAA
1 TA-TAAAAA
80069 ATAAATAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
11 5 0.16
12 7 0.23
13 10 0.32
14 4 0.13
15 5 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TATAAAAATTAT
Found at i:90321 original size:56 final size:56
Alignment explanation
Indices: 90235--90346 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
90225 TTGTCATTAA
*
90235 AGTTTGAAAACTTATCCACGTAACTAATTGAATCTTAGCTTGTGCACGATATGTTT
1 AGTTTGAAAACTTATCAACGTAACTAATTGAATCTTAGCTTGTGCACGATATGTTT
*
90291 AGTTTGAAAACTTATCAACGTAACTAATTGAATCTTAGCTTGTGCAGGATATGTTT
1 AGTTTGAAAACTTATCAACGTAACTAATTGAATCTTAGCTTGTGCACGATATGTTT
90347 GAAAAGAATA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (56 bp):
AGTTTGAAAACTTATCAACGTAACTAATTGAATCTTAGCTTGTGCACGATATGTTT
Found at i:92485 original size:29 final size:29
Alignment explanation
Indices: 92443--92574 Score: 99
Period size: 29 Copynumber: 4.5 Consensus size: 29
92433 CACTTGAGGG
* *
92443 AAAAATGATAATTTTGGAAAAATCAGGGTC
1 AAAAATG-GAATTTTGGAAAAATTAGGGTC
* **
92473 AAAAATGGAATTTTGGGAAGTTTAGGGGT-
1 AAAAATGGAATTTTGGAAAAATTA-GGGTC
**
92502 -AAAATGGTAATTTTTGGTGAAATTAGGGTC
1 AAAAATGG-AA-TTTTGGAAAAATTAGGGTC
* **
92532 AAAAATGGAATTTTAGAAAGTTTGAGGGT-
1 AAAAATGGAATTTTGGAAAAATT-AGGGTC
*
92561 AAAAATGTAATTTT
1 AAAAATGGAATTTT
92575 TGGTGAAATC
Statistics
Matches: 81, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
28 7 0.09
29 39 0.48
30 28 0.35
31 7 0.09
ACGTcount: A:0.40, C:0.02, G:0.25, T:0.33
Consensus pattern (29 bp):
AAAAATGGAATTTTGGAAAAATTAGGGTC
Found at i:92528 original size:30 final size:29
Alignment explanation
Indices: 92468--92810 Score: 92
Period size: 29 Copynumber: 11.7 Consensus size: 29
92458 GGAAAAATCA
*
92468 GGGTCAAAAATGGAATTTTGG-GAAGTTTAG
1 GGGT-AAAAATGGAATTTTGGTGAA-ATTAG
92498 GGGT-AAAATGGTAATTTTTGGTGAAATTA-
1 GGGTAAAAATGG-AA-TTTTGGTGAAATTAG
* *
92527 GGGTCAAAAATGGAATTTT--AGAAAGTTTG
1 GGGT-AAAAATGGAATTTTGGTGAAA-TTAG
* *
92556 AGGGTAAAAATGTAATTTTTGGTGAAA-TCG
1 -GGGTAAAAATGGAA-TTTTGGTGAAATTAG
* ** * **
92586 GTGTCAAAAATAAAATTCT--AAAAAGTTTAG
1 GGGT-AAAAATGGAATTTTGGTGAAA--TTAG
* * *
92616 GGGTAAAAATGTAATTTT--AGAAAGTTTG
1 GGGTAAAAATGGAATTTTGGTGAAA-TTAG
* *
92644 AGGGT-AAAATGTAATTTTTGGTGAAA-TCG
1 -GGGTAAAAATGGAA-TTTTGGTGAAATTAG
* * ** *
92673 AGGTCAAAAATAGAATTTT-GAAAAATTTGG
1 GGGT-AAAAATGGAATTTTGGTGAAA-TTAG
* * * *
92703 GGGTAAAAATGTAATTTTTG-GAAGTTTG
1 GGGTAAAAATGGAATTTTGGTGAAATTAG
*
92731 AGGGT-AAAATGGTAATTTTTGGTGAAATCA-
1 -GGGTAAAAATGG-AA-TTTTGGTGAAATTAG
* * *
92761 AGGTCAAAAATGGGATTTT-GT-AAAGTTCG
1 GGGT-AAAAATGGAATTTTGGTGAAA-TTAG
*
92790 AGGGTAAAAATGTAATTTTGG
1 -GGGTAAAAATGGAATTTTGG
92811 AAAGTTTAGG
Statistics
Matches: 233, Mismatches: 46, Indels: 68
0.67 0.13 0.20
Matches are distributed among these distances:
27 10 0.04
28 40 0.17
29 93 0.40
30 61 0.26
31 25 0.11
32 4 0.02
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (29 bp):
GGGTAAAAATGGAATTTTGGTGAAATTAG
Found at i:92536 original size:59 final size:59
Alignment explanation
Indices: 92443--92633 Score: 228
Period size: 59 Copynumber: 3.2 Consensus size: 59
92433 CACTTGAGGG
** * * *
92443 AAAAATGATAA-TTTTGGAAAAATCAGGGTCAAAAATGGAATTTTGGGAAGTTTAGGGGT
1 AAAAATG-TAATTTTTGGTGAAATTAGGGTCAAAAATGGAATTTTAGAAAGTTTAGGGGT
92502 -AAAATGGTAATTTTTGGTGAAATTAGGGTCAAAAATGGAATTTTAGAAAGTTT-GAGGGT
1 AAAAAT-GTAATTTTTGGTGAAATTAGGGTCAAAAATGGAATTTTAGAAAGTTTAG-GGGT
* ** * *
92561 AAAAATGTAATTTTTGGTGAAA-TCGGTGTCAAAAATAAAATTCTAAAAAGTTTAGGGGT
1 AAAAATGTAATTTTTGGTGAAATTAGG-GTCAAAAATGGAATTTTAGAAAGTTTAGGGGT
92620 AAAAATGTAATTTT
1 AAAAATGTAATTTT
92634 AGAAAGTTTG
Statistics
Matches: 116, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
58 12 0.10
59 98 0.84
60 6 0.05
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.32
Consensus pattern (59 bp):
AAAAATGTAATTTTTGGTGAAATTAGGGTCAAAAATGGAATTTTAGAAAGTTTAGGGGT
Found at i:92662 original size:29 final size:30
Alignment explanation
Indices: 92526--92909 Score: 161
Period size: 29 Copynumber: 13.1 Consensus size: 30
92516 TGGTGAAATT
*
92526 AGGGTCAAAAATGGAA-TTTTAGAAAGTTTG
1 AGGGT-AAAAATGTAATTTTTAGAAAGTTTG
* *
92556 AGGGTAAAAATGTAATTTTTGGTGAAA--TCG
1 AGGGTAAAAATGTAATTTTT--AGAAAGTTTG
* * * * *
92586 -GTGTCAAAAAT-AAAATTCTAAAAAGTTT-
1 AGGGT-AAAAATGTAATTTTTAGAAAGTTTG
92614 AGGGGTAAAAATGTAA-TTTTAGAAAGTTTG
1 A-GGGTAAAAATGTAATTTTTAGAAAGTTTG
* *
92644 AGGGT-AAAATGTAATTTTTGGTGAAA--TCG
1 AGGGTAAAAATGTAATTTTT--AGAAAGTTTG
* *
92673 A-GGTCAAAAATAG-AATTTTGA-AAAATTTG
1 AGGGT-AAAAAT-GTAATTTTTAGAAAGTTTG
* *
92702 GGGGTAAAAATGTAATTTTT-GGAAGTTTG
1 AGGGTAAAAATGTAATTTTTAGAAAGTTTG
* *
92731 AGGGT-AAAATGGTAATTTTTGGTGAAA---TC
1 AGGGTAAAAAT-GTAATTTTT--AGAAAGTTTG
* ** *
92760 AAGGTCAAAAATGGGA-TTTT-GTAAAGTTCG
1 AGGGT-AAAAATGTAATTTTTAG-AAAGTTTG
*
92790 AGGGTAAAAATGTAA-TTTTGGAAAGTTT-
1 AGGGTAAAAATGTAATTTTTAGAAAGTTTG
** *
92818 AGGGGCAAAATATAATTTTTA-AGAAGTTT-
1 AGGGTAAAAATGTAATTTTTAGA-AAGTTTG
** * * *
92847 AGGAAAAAAATGTAATTTTCAAAAAGTTCG
1 AGGGTAAAAATGTAATTTTTAGAAAGTTTG
* * * *
92877 AGGGTCAAAATATAATTTCTAGACAGTTT-
1 AGGGTAAAAATGTAATTTTTAGAAAGTTTG
92906 AGGG
1 AGGG
92910 ACCTCCAAGG
Statistics
Matches: 264, Mismatches: 54, Indels: 73
0.68 0.14 0.19
Matches are distributed among these distances:
26 1 0.00
27 9 0.03
28 31 0.12
29 141 0.53
30 65 0.25
31 10 0.04
32 7 0.03
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.33
Consensus pattern (30 bp):
AGGGTAAAAATGTAATTTTTAGAAAGTTTG
Found at i:92706 original size:87 final size:87
Alignment explanation
Indices: 92527--92837 Score: 403
Period size: 88 Copynumber: 3.5 Consensus size: 87
92517 GGTGAAATTA
*
92527 GGGTCAAAAATGGAATTTTAGAAAGTTTGAGGGTAAAAATGTAATTTTTGGTGAAATCG-GTGTC
1 GGGT-AAAAATGTAATTTTAGAAAGTTTGAGGGT-AAAATGTAATTTTTGGTGAAATCGAG-GTC
* * *
92591 AAAAATAAAATTCT-AAAAAGTTTAG
63 AAAAATAGAATTTTGAAAAA-TTTGG
92616 GGGTAAAAATGTAATTTTAGAAAGTTTGAGGGTAAAATGTAATTTTTGGTGAAATCGAGGTCAAA
1 GGGTAAAAATGTAATTTTAGAAAGTTTGAGGGTAAAATGTAATTTTTGGTGAAATCGAGGTCAAA
92681 AATAGAATTTTGAAAAATTTGG
66 AATAGAATTTTGAAAAATTTGG
* * *
92703 GGGTAAAAATGTAATTTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTGGTGAAATCAAGGTCAA
1 GGGTAAAAATGTAATTTTAGAAAGTTTGAGGGTAAAAT-GTAATTTTTGGTGAAATCGAGGTCAA
* * * * * *
92768 AAATGGGATTTTGTAAAGTTCGA
65 AAATAGAATTTTGAAAAATTTGG
* * *
92791 GGGTAAAAATGTAATTTTGGAAAGTTT-AGGGGCAAAATATAATTTTT
1 GGGTAAAAATGTAATTTTAGAAAGTTTGA-GGGTAAAATGTAATTTTT
92838 AAGAAGTTTA
Statistics
Matches: 201, Mismatches: 17, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
87 88 0.44
88 109 0.54
89 4 0.02
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.33
Consensus pattern (87 bp):
GGGTAAAAATGTAATTTTAGAAAGTTTGAGGGTAAAATGTAATTTTTGGTGAAATCGAGGTCAAA
AATAGAATTTTGAAAAATTTGG
Found at i:92751 original size:59 final size:60
Alignment explanation
Indices: 92436--92886 Score: 218
Period size: 59 Copynumber: 7.7 Consensus size: 60
92426 TTTTAGACAC
* * *
92436 TTGAGGG-AAAAATGATAATTTTGGAAAAA-TCAGGGTCAAAAATGGAATTTTGGGAAGT
1 TTGAGGGTAAAAATGGTAATTTTTGAAAAATTCAGGGTCAAAAATGGAATTTTAGGAAGT
** *
92494 TT-AGGGGT-AAAATGGTAATTTTTGGTGAAATT-AGGGTCAAAAATGGAATTTTAGAAAGT
1 TTGA-GGGTAAAAATGGTAATTTTT-GAAAAATTCAGGGTCAAAAATGGAATTTTAGGAAGT
** ** * **
92553 TTGAGGGTAAAAAT-GTAATTTTTGGTGAAA-TC-GGTGTCAAAAATAAAATTCTAAAAAGT
1 TTGAGGGTAAAAATGGTAATTTTT-GAAAAATTCAGG-GTCAAAAATGGAATTTTAGGAAGT
* ** * * * *
92612 TT-AGGGGTAAAAAT-GTAATTTTAGAAAGTTTGAGGGT--AAAATGTAATTTTTGGTGAA-A
1 TTGA-GGGTAAAAATGGTAATTTTTGAAAAATTCAGGGTCAAAAATGGAA-TTTTAG-GAAGT
* * ** * *
92670 TCGA-GGTCAAAAATAG-AA-TTTTGAAAAATTTGGGGGT-AAAAATGTAATTTTTGGAAGT
1 TTGAGGGT-AAAAATGGTAATTTTTGAAAAA-TTCAGGGTCAAAAATGGAATTTTAGGAAGT
** * * *
92728 TTGAGGGT-AAAATGGTAATTTTTGGTGAAA-TCAAGGTCAAAAATGGGATTTT-GTAAAGT
1 TTGAGGGTAAAAATGGTAATTTTT-GAAAAATTCAGGGTCAAAAATGGAATTTTAG-GAAGT
* * * * * *
92787 TCGAGGGTAAAAAT-GTAA-TTTTGGAAAGTTTAGGGGCAAAATAT--AATTTTTAAGAAGT
1 TTGAGGGTAAAAATGGTAATTTTTGAAAAATTCAGGGTCAAAA-ATGGAA-TTTTAGGAAGT
** *
92845 TT-AGGAAAAAAAT-GTAA-TTTTCAAAAAGTTCGAGGGTCAAAA
1 TTGAGGGTAAAAATGGTAATTTTTGAAAAA-TTC-AGGGTCAAAA
92887 TATAATTTCT
Statistics
Matches: 303, Mismatches: 58, Indels: 63
0.71 0.14 0.15
Matches are distributed among these distances:
57 51 0.17
58 82 0.27
59 152 0.50
60 18 0.06
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.32
Consensus pattern (60 bp):
TTGAGGGTAAAAATGGTAATTTTTGAAAAATTCAGGGTCAAAAATGGAATTTTAGGAAGT
Found at i:92905 original size:59 final size:57
Alignment explanation
Indices: 92795--92908 Score: 149
Period size: 59 Copynumber: 2.0 Consensus size: 57
92785 GTTCGAGGGT
** * *
92795 AAAAATGTAATTTTGGAAAGTTTAGGGGCAAAATATAATTTTTAAGAAGTTTAGGAA
1 AAAAATGTAATTTTAAAAAGTTGAGGGGCAAAATATAATTTCTAAGAAGTTTAGGAA
*
92852 AAAAATGTAATTTTCAAAAAGTTCGAGGGTCAAAATATAATTTCT-AGACAGTTTAGG
1 AAAAATGTAATTTT-AAAAAGTT-GAGGGGCAAAATATAATTTCTAAGA-AGTTTAGG
92909 GACCTCCAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
57 14 0.29
58 9 0.18
59 26 0.53
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.32
Consensus pattern (57 bp):
AAAAATGTAATTTTAAAAAGTTGAGGGGCAAAATATAATTTCTAAGAAGTTTAGGAA
Found at i:94713 original size:6 final size:6
Alignment explanation
Indices: 94686--94791 Score: 71
Period size: 6 Copynumber: 18.2 Consensus size: 6
94676 TTGAACTTTC
* * * *
94686 ATTTAA ATTTATA A--TAA TTTTAA ATTTAGA A-ATAA ATTT-A TTCTTAG
1 ATTTAA ATTTA-A ATTTAA ATTTAA ATTTA-A ATTTAA ATTTAA AT-TTAA
** *
94733 ATT-AA ATTTAA ATTTAA ATTTAA AAATAA ATTTAA ATTTAA A-ATAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
*
94779 ATTTAA TTTTAA A
1 ATTTAA ATTTAA A
94792 ATAAACTTAA
Statistics
Matches: 75, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
4 1 0.01
5 14 0.19
6 55 0.73
7 5 0.07
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (6 bp):
ATTTAA
Found at i:94723 original size:29 final size:28
Alignment explanation
Indices: 94689--94783 Score: 93
Period size: 29 Copynumber: 3.3 Consensus size: 28
94679 AACTTTCATT
*
94689 TAAATTTATAATAATTTTAAATTTAGAAA
1 TAAATTTATAATAAATTTAAATTTA-AAA
** * *
94718 TAAATTTATTCTTAGA-TTAAATTTAAATT
1 TAAATTTA-TAATAAATTTAAATTTAAA-A
*
94747 TAAATTTAAAAATAAATTTAAATTTAAAA
1 TAAATTT-ATAATAAATTTAAATTTAAAA
94776 TAAATTTA
1 TAAATTTA
94784 ATTTTAAAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
28 3 0.06
29 34 0.65
30 15 0.29
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (28 bp):
TAAATTTATAATAAATTTAAATTTAAAA
Found at i:94777 original size:17 final size:17
Alignment explanation
Indices: 94686--94802 Score: 101
Period size: 17 Copynumber: 6.4 Consensus size: 17
94676 TTGAACTTTC
*
94686 ATTTAAATTTATAATAA
1 ATTTAAATTTAAAATAA
*
94703 TTTTAAATTTAGAAATAA
1 ATTTAAATTTA-AAATAA
*
94721 ATTTATTCTTAGA-TTAAATTTAA
1 ATTTA-----A-ATTTAAA-ATAA
94744 ATTTAAATTTAAAAATAA
1 ATTTAAATTT-AAAATAA
94762 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
*
94779 ATTTAATTTTAAAATAA
1 ATTTAAATTTAAAATAA
*
94796 ACTTAAA
1 ATTTAAA
94803 AAGGACCAAT
Statistics
Matches: 82, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
17 39 0.48
18 25 0.30
19 3 0.04
22 2 0.02
23 12 0.15
24 1 0.01
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:94780 original size:41 final size:41
Alignment explanation
Indices: 94704--94791 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 41
94694 TTATAATAAT
* * * *
94704 TTTAAATTTAGAAATAAATTTATTCTTAGATTAAATTTAAA
1 TTTAAATTTAAAAATAAATTTAATCTTAAAATAAATTTAAA
*
94745 TTTAAATTTAAAAATAAATTTAAAT-TTAAAATAAATTTAAT
1 TTTAAATTTAAAAATAAATTT-AATCTTAAAATAAATTTAAA
94786 TTTAAA
1 TTTAAA
94792 ATAAACTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
41 39 0.95
42 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.45
Consensus pattern (41 bp):
TTTAAATTTAAAAATAAATTTAATCTTAAAATAAATTTAAA
Found at i:96931 original size:23 final size:23
Alignment explanation
Indices: 96887--96933 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
96877 TTAATTTCTT
**
96887 AATACATATATTTCTATGTTCAC
1 AATACATATATTTCTACCTTCAC
*
96910 AATACATCTATTTCTACCTTCAC
1 AATACATATATTTCTACCTTCAC
96933 A
1 A
96934 TTTATTTCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.40
Consensus pattern (23 bp):
AATACATATATTTCTACCTTCAC
Found at i:97917 original size:28 final size:28
Alignment explanation
Indices: 97885--97946 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
97875 GAAAAATTAA
* * * *
97885 AAAAAAATATGTGAATAGGTTGATTTTTG
1 AAAAATATATGAGAATAGATCGA-TTTTG
*
97914 AAAAATTTATGAGAATAGATCGATTTTG
1 AAAAATATATGAGAATAGATCGATTTTG
97942 AAAAA
1 AAAAA
97947 CGTTTGATAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 10 0.36
29 18 0.64
ACGTcount: A:0.47, C:0.02, G:0.18, T:0.34
Consensus pattern (28 bp):
AAAAATATATGAGAATAGATCGATTTTG
Found at i:98851 original size:16 final size:17
Alignment explanation
Indices: 98830--98863 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
98820 TTTTTATATA
*
98830 TATACATATATG-TTGT
1 TATACATACATGATTGT
98846 TATACATACATGATTGT
1 TATACATACATGATTGT
98863 T
1 T
98864 GCAAAATTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (17 bp):
TATACATACATGATTGT
Found at i:107063 original size:11 final size:10
Alignment explanation
Indices: 107030--107072 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
107020 TAAAAAATAG
*
107030 AATTTATATA
1 AATTTATAAA
*
107040 AACTTAT-AA
1 AATTTATAAA
107049 AATTTATTAAA
1 AATTTA-TAAA
107060 AATTTATAAA
1 AATTTATAAA
107070 AAT
1 AAT
107073 ATAAAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
9 6 0.21
10 14 0.50
11 8 0.29
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (10 bp):
AATTTATAAA
Found at i:107324 original size:19 final size:19
Alignment explanation
Indices: 107300--107345 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
107290 GCAAGTTGCA
107300 CCAACCACCCCATCCTTAG
1 CCAACCACCCCATCCTTAG
107319 CCAACCACCCCATCCTTAG
1 CCAACCACCCCATCCTTAG
107338 CCAACCAC
1 CCAACCAC
107346 GTGCTGCCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.28, C:0.54, G:0.04, T:0.13
Consensus pattern (19 bp):
CCAACCACCCCATCCTTAG
Found at i:107755 original size:3 final size:3
Alignment explanation
Indices: 107747--107812 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
107737 TAAAAACGAT
* * * *
107747 TAA TAA TAA TAA CAA TAA TAA TTAA TAA TAG TAA TAAA TAA CAT TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA T-AA TAA TAA TAA
* *
107794 TAAA TAT TAA TAA AAA TAA
1 T-AA TAA TAA TAA TAA TAA
107813 AAAAGGGAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
3 39 0.81
4 9 0.19
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:107782 original size:19 final size:21
Alignment explanation
Indices: 107745--107806 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
107735 TTTAAAAACG
* *
107745 ATTAATAATAATAACAATAATA
1 ATTAATAATAATAATAATAA-C
*
107767 ATTAATAATAGTAATAAATAAC
1 ATTAATAATAATAAT-AATAAC
*
107789 ATTAATAAATATTAATAA
1 ATTAAT-AATAATAATAA
107807 AAATAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 21 0.62
23 13 0.38
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (21 bp):
ATTAATAATAATAATAATAAC
Found at i:107811 original size:29 final size:29
Alignment explanation
Indices: 107754--107813 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
107744 GATTAATAAT
* **
107754 AATAACAATAATAATTAATAATAGTAATA
1 AATAACAATAATAAATAATAATAAAAATA
* *
107783 AATAACATTAATAAATATTAATAAAAATA
1 AATAACAATAATAAATAATAATAAAAATA
107812 AA
1 AA
107814 AAAGGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (29 bp):
AATAACAATAATAAATAATAATAAAAATA
Done.