Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01002108.1 Kokia drynarioides strain JFW-HI SEQ_114030, 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: 137590
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Warning! 56 characters in sequence are not A, C, G, or T
Found at i:2367 original size:22 final size:20
Alignment explanation
Indices: 2322--2369 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
2312 AATTATATTT
*
2322 ATTTTTTAAAATTATTAATG
1 ATTTTTTAAAATTATTAATA
2342 ATTTTTTAAGAAATTCATTAA-A
1 ATTTTTT-A-AAATT-ATTAATA
2364 ATTTTT
1 ATTTTT
2370 AAACAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 7 0.29
21 1 0.04
22 11 0.46
23 5 0.21
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
ATTTTTTAAAATTATTAATA
Found at i:2617 original size:17 final size:17
Alignment explanation
Indices: 2596--2636 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
2586 AAAAAATATT
*
2596 TATATTTATATTATTTTA
1 TATATTTA-ATGATTTTA
2614 -ATATTTAATGATTTTA
1 TATATTTAATGATTTTA
2630 TATATTT
1 TATATTT
2637 TTTATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATATTTAATGATTTTA
Found at i:4182 original size:27 final size:27
Alignment explanation
Indices: 4147--4200 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4137 ATTAAAGCTG
4147 AATTCAAATACCAAATTCATCATTAAA
1 AATTCAAATACCAAATTCATCATTAAA
* * * *
4174 AATTTAAATATCAAATTGATTATTAAA
1 AATTCAAATACCAAATTCATCATTAAA
4201 GTCAAAATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.35
Consensus pattern (27 bp):
AATTCAAATACCAAATTCATCATTAAA
Found at i:4839 original size:19 final size:18
Alignment explanation
Indices: 4800--4833 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4790 ATGTTTAGCT
*
4800 ATTTTTTATATTTAACAA
1 ATTTTTTATATTGAACAA
4818 ATTTTTTA-ATTGAACA
1 ATTTTTTATATTGAACA
4834 TGAATTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (18 bp):
ATTTTTTATATTGAACAA
Found at i:5825 original size:22 final size:21
Alignment explanation
Indices: 5781--5821 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
5771 ATTTAGATTC
5781 ATTTTAAATCTATTCATATTA
1 ATTTTAAATCTATTCATATTA
* * *
5802 ATTTTTAATTTATTTATATT
1 ATTTTAAATCTATTCATATT
5822 TAATATTCAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTAAATCTATTCATATTA
Found at i:5875 original size:16 final size:16
Alignment explanation
Indices: 5850--5883 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
5840 TATATGTAAA
5850 ATATAATATTTTTAAT
1 ATATAATATTTTTAAT
5866 ATATAATATTTTTAAT
1 ATATAATATTTTTAAT
5882 AT
1 AT
5884 GTTTATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATAATATTTTTAAT
Found at i:12696 original size:20 final size:21
Alignment explanation
Indices: 12654--12700 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
12644 AAATTATACG
*
12654 TTTTATTAATTTATTAATATTA
1 TTTT-TTAATTTACTAATATTA
*
12676 TTTTTTAA-TTACTAATGTTA
1 TTTTTTAATTTACTAATATTA
12696 TTTTT
1 TTTTT
12701 AAACACGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 15 0.65
21 4 0.17
22 4 0.17
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTTTAATTTACTAATATTA
Found at i:14062 original size:16 final size:16
Alignment explanation
Indices: 14037--14069 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14027 CACTAAGTTA
14037 TTAGTAAATTTACATT
1 TTAGTAAATTTACATT
*
14053 TTAGTCAATTTACATT
1 TTAGTAAATTTACATT
14069 T
1 T
14070 AAAAAGTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (16 bp):
TTAGTAAATTTACATT
Found at i:15424 original size:23 final size:24
Alignment explanation
Indices: 15388--15437 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
15378 AATTAGATAA
15388 AAAAATAACACAAA-TATAATATT
1 AAAAATAACACAAACTATAATATT
*
15411 AAAAA-AACATCAAACTTTAATATT
1 AAAAATAACA-CAAACTATAATATT
15435 AAA
1 AAA
15438 TATTATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 9 0.38
24 11 0.46
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (24 bp):
AAAAATAACACAAACTATAATATT
Found at i:15968 original size:13 final size:13
Alignment explanation
Indices: 15952--16007 Score: 67
Period size: 13 Copynumber: 4.3 Consensus size: 13
15942 TTTAAACCAA
15952 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
***
15965 ACTTTTCAAATTT
1 ACTTTTCAAAAAC
*
15978 ACTTTTCTAAAAC
1 ACTTTTCAAAAAC
*
15991 ACTTTTTAAAAAC
1 ACTTTTCAAAAAC
16004 ACTT
1 ACTT
16008 CTTAAAAGCA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:15970 original size:26 final size:26
Alignment explanation
Indices: 15941--15996 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
15931 AACACTTAAA
15941 TTTT-AAACCAAACTTTTCAAAAACAC
1 TTTTCAAA-CAAACTTTTCAAAAACAC
*** *
15967 TTTTCAAATTTACTTTTCTAAAACAC
1 TTTTCAAACAAACTTTTCAAAAACAC
15993 TTTT
1 TTTT
15997 TAAAAACACT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.43
Consensus pattern (26 bp):
TTTTCAAACAAACTTTTCAAAAACAC
Found at i:19136 original size:22 final size:22
Alignment explanation
Indices: 19034--19142 Score: 67
Period size: 22 Copynumber: 4.8 Consensus size: 22
19024 TTTTAAATTG
*
19034 ATAATGATAAAATTATATTTTA
1 ATAATTATAAAATTATATTTTA
* * * *
19056 ATTATTTTAAAAGTAATAATTTA
1 ATAATTATAAAA-TTATATTTTA
* *
19079 AAAATTATAAAAATATAAATTATT-
1 ATAATTAT-AAAAT-TATATT-TTA
* * *
19103 ACAACTATAAAATTATATTTTT
1 ATAATTATAAAATTATATTTTA
* *
19125 ATTATTATAAAAATATAT
1 ATAATTATAAAATTATAT
19143 AATTCAATTC
Statistics
Matches: 64, Mismatches: 18, Indels: 10
0.70 0.20 0.11
Matches are distributed among these distances:
21 2 0.03
22 28 0.44
23 19 0.30
24 13 0.20
25 2 0.03
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
ATAATTATAAAATTATATTTTA
Found at i:20269 original size:50 final size:50
Alignment explanation
Indices: 20203--20309 Score: 146
Period size: 50 Copynumber: 2.2 Consensus size: 50
20193 TAGGAGTCTC
* * *
20203 ATAT-TTTTTTAATTATTATTATATTTTCTTGAAAACATTT-TTTATTTT
1 ATATATTTTTAAATTATTATTATACTTTCTTGAAAACATTTATGTATTTT
*
20251 ATATATTTTTAAATTTATTATTATACTTTCTTGAAAATATTTATGTATTTT
1 ATATATTTTTAAA-TTATTATTATACTTTCTTGAAAACATTTATGTATTTT
*
20302 ATACATTT
1 ATATATTT
20310 CTTTTAATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
48 4 0.08
49 7 0.14
50 26 0.51
51 14 0.27
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (50 bp):
ATATATTTTTAAATTATTATTATACTTTCTTGAAAACATTTATGTATTTT
Found at i:27630 original size:46 final size:46
Alignment explanation
Indices: 27561--27654 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
27551 CGGGCAACTC
*
27561 GTGCAGGAATATTGGTCCCATTATCATTCTGCAGAGTCACATTGAA
1 GTGCAGGAATACTGGTCCCATTATCATTCTGCAGAGTCACATTGAA
* *
27607 GTGCAGGAATACTGGTCCGATTATCATTCTGTAGAGTCACATTGAA
1 GTGCAGGAATACTGGTCCCATTATCATTCTGCAGAGTCACATTGAA
27653 GT
1 GT
27655 TTGCAATTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (46 bp):
GTGCAGGAATACTGGTCCCATTATCATTCTGCAGAGTCACATTGAA
Found at i:30348 original size:15 final size:15
Alignment explanation
Indices: 30324--30373 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
30314 TGATAAATTG
*
30324 AAAAATTAAATGCTA
1 AAAAAATAAATGCTA
* *
30339 AAAAAATAAATGTTG
1 AAAAAATAAATGCTA
* *
30354 AAAAAATAAGTACTA
1 AAAAAATAAATGCTA
30369 AAAAA
1 AAAAA
30374 TTATGTGTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.66, C:0.04, G:0.08, T:0.22
Consensus pattern (15 bp):
AAAAAATAAATGCTA
Found at i:45156 original size:14 final size:15
Alignment explanation
Indices: 45132--45160 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
45122 TACAGGTTGG
45132 TTTAGTTTTTATTTA
1 TTTAGTTTTTATTTA
45147 TTTA-TTTTTATTTA
1 TTTAGTTTTTATTTA
45161 ACTGTAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTAGTTTTTATTTA
Found at i:52615 original size:15 final size:15
Alignment explanation
Indices: 52595--52623 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
52585 TTATTCATGG
52595 AGTGATGAGGTAACC
1 AGTGATGAGGTAACC
52610 AGTGATGAGGTAAC
1 AGTGATGAGGTAAC
52624 TGTTGCTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.10, G:0.34, T:0.21
Consensus pattern (15 bp):
AGTGATGAGGTAACC
Found at i:67376 original size:4 final size:4
Alignment explanation
Indices: 67359--67405 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
67349 ACTTATATAT
* * *
67359 ATAG AGAG AGAG ATAG ATGG ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
67406 TATATAGAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.30, T:0.21
Consensus pattern (4 bp):
ATAG
Found at i:72196 original size:29 final size:28
Alignment explanation
Indices: 72145--72217 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
72135 ATATTTTTTA
*
72145 TAATTTTAAAATTTAATTTTTTTACTTT
1 TAATTTTAAAATTTAATTATTTTACTTT
* *
72173 TAATTTTAAGAATTTAGTTATTTTATTTTT
1 TAATTTTAA-AATTTAATTATTTTA-CTTT
72203 TCATATTTTAAAATT
1 T-A-ATTTTAAAATT
72218 CAGGTCCAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 9 0.24
29 13 0.34
30 4 0.11
31 5 0.13
32 7 0.18
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (28 bp):
TAATTTTAAAATTTAATTATTTTACTTT
Found at i:73765 original size:29 final size:28
Alignment explanation
Indices: 73710--73765 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 28
73700 TTATATCAAT
73710 TAAAAAAATATCATTAAACAATCAAATAA
1 TAAAAAAATATCATTAAACAA-CAAATAA
*
73739 TAAAAAAATAGTGATTAAAACAA-AAAT
1 TAAAAAAATA-TCATT-AAACAACAAAT
73766 TTATTCATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 14 0.58
30 4 0.17
31 6 0.25
ACGTcount: A:0.66, C:0.07, G:0.04, T:0.23
Consensus pattern (28 bp):
TAAAAAAATATCATTAAACAACAAATAA
Found at i:78458 original size:59 final size:58
Alignment explanation
Indices: 78220--78617 Score: 300
Period size: 60 Copynumber: 6.7 Consensus size: 58
78210 TGAAAAAAAA
* * *
78220 TTTTGGTGTTGGCCATGCCATGATCGACACTCCCTTTTTGTCAAATAAAAAATTCAAAT
1 TTTTGGTGTTGGCCATGCCATGACCGACAC-CCCTTTTTATCAGATAAAAAATTCAAAT
* ** *
78279 ATTTTGTTGTTGGCCATGCCATGACCGACACCCTCTTTTTTATTTGATAAAAAAATCAAATT
1 -TTTTGGTGTTGGCCATGCCATGACCGACACCC-C-TTTTTATCAGATAAAAAATTCAAA-T
* * * ** * *
78341 TTTTTGTGTTGACCATTG-CATGGCCGACATTCCTTTTTATCTGAATAAAAAAATCAAAT
1 TTTTGGTGTTGGCCA-TGCCATGACCGACACCCCTTTTTATCAG-ATAAAAAATTCAAAT
* *** * *
78400 TTTTGGGTGTTGGCTATGCCATGGTTGACACACCTTTTTGTCAGATAAAAAATTCAAATTT
1 TTTT-GGTGTTGGCCATGCCATGACCGACACCCCTTTTTATCAGATAAAAAATTCAAA--T
* * * * * *
78461 TTTTTGTGTTGGCCAAGCCATGGCCGATACCCCTTTTTTATCTG-TGAAAAAA-TCAATTT
1 TTTTGGTGTTGGCCATGCCATGACCGACACCCC-TTTTTATCAGAT-AAAAAATTCAA-AT
* * * * ** * *
78520 TTTTTGTGTTAGCCATGCAATGATCGACACAATCTTTTTGTCAGATAAACAATTCAAAT
1 TTTTGGTGTTGGCCATGCCATGACCGACAC-CCCTTTTTATCAGATAAAAAATTCAAAT
* *
78579 TTTTGGTGTTAGTCATTG-CATGACCGACACCCCCTTTTT
1 TTTTGGTGTTGGCCA-TGCCATGACCGACA-CCCCTTTTT
78618 TTATCTGGTA
Statistics
Matches: 269, Mismatches: 52, Indels: 35
0.76 0.15 0.10
Matches are distributed among these distances:
59 98 0.36
60 107 0.40
61 61 0.23
62 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (58 bp):
TTTTGGTGTTGGCCATGCCATGACCGACACCCCTTTTTATCAGATAAAAAATTCAAAT
Found at i:78668 original size:120 final size:119
Alignment explanation
Indices: 78433--78669 Score: 282
Period size: 120 Copynumber: 2.0 Consensus size: 119
78423 GTTGACACAC
* * * *
78433 CTTTTTGTCAGATAAAAAATTCAAATTTTTTTTGTGTTGGCCAAGCCATGGCCGATACCCCTTTT
1 CTTTTTGTCAGATAAAAAATTCAAA-TTTTTTGGTGTTAGCCAAGCCATGACCGACACCCCTTTT
* * * *
78498 TTATCTGTGAAAAAATCAATTTTTTTTGTGTTAGCCATGCAATGATCGACACAAT
65 TTATCTGTGAAAAAACCAATTTGTTTTGTGATAGCCATGCAATGACCGACACAAT
* * *
78553 CTTTTTGTCAGATAAACAATTCAAA-TTTTTGGTGTTAGTCATTG-CATGACCGACACCCCCTTT
1 CTTTTTGTCAGATAAAAAATTCAAATTTTTTGGTGTTAGCCA-AGCCATGACCGACA-CCCC-TT
* * *
78616 TTTTATCTG-GTAAAAAACCAATTTGTTTTGTGATGGTCATGCAATGGCCGACAC
63 TTTTATCTGTG-AAAAAACCAATTTGTTTTGTGATAGCCATGCAATGACCGACAC
78670 CAACTTTCTC
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
118 22 0.22
119 6 0.06
120 71 0.72
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (119 bp):
CTTTTTGTCAGATAAAAAATTCAAATTTTTTGGTGTTAGCCAAGCCATGACCGACACCCCTTTTT
TATCTGTGAAAAAACCAATTTGTTTTGTGATAGCCATGCAATGACCGACACAAT
Found at i:81501 original size:84 final size:84
Alignment explanation
Indices: 81345--82093 Score: 1228
Period size: 84 Copynumber: 8.8 Consensus size: 84
81335 ATTTAAAATT
* * * *
81345 TGATAAAAATTGTAATATAATAATAATCTTTTTTATTTAAATAATAAAATTTAGTAAAAAATATA
1 TGATAAAAATTGTAATATAATAATAA--TTTTTTATTTAAATATTAAAATTTGGTAAATAATGTA
*
81410 TTGTCAAATCAACACATTATA
64 TTGTCAAATCAACACATTATC
* *
81431 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTAAATTTTAGTAAATAATGTATT
1 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTAAAATTTGGTAAATAATGTATT
* *
81496 ATCAAATCAACACATTATT
66 GTCAAATCAACACATTATC
*
81515 TGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGGTAAATAATGTATT
1 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTAAAATTTGGTAAATAATGTATT
81580 GTCAAATCAACACATTATC
66 GTCAAATCAACACATTATC
*
81599 TGATAAAAATTGTAATATAATAATAATTTTTTATTGAAATATTAAAATTTGGTAAATAATGTATT
1 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTAAAATTTGGTAAATAATGTATT
81664 GTCAAATCAACACATTATC
66 GTCAAATCAACACATTATC
*
81683 TGATAAAAATTGTAATATAATAATAATTTTTTATTGAAATATTAAAATTTGGTAAATAATGTATT
1 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTAAAATTTGGTAAATAATGTATT
81748 GTCAAATCAACACATTATC
66 GTCAAATCAACACATTATC
*
81767 TGATAAAAATTGTAATATAACAATAATATTTTTTATTTAAATATTAAAATTTGGTAAATAATGTA
1 TGATAAAAATTGTAATATAATAAT-A-ATTTTTTATTTAAATATTAAAATTTGGTAAATAATGTA
81832 TTGTCAAATCAACACATTATC
64 TTGTCAAATCAACACATTATC
*
81853 TGATAAAAATTGTAATATAATAATAATATTTTTTATTTAAATATTAAAATTTGGTAAATAATATA
1 TGATAAAAATTGTAATATAATAAT-A-ATTTTTTATTTAAATATTAAAATTTGGTAAATAATGTA
* *
81918 TTGTCAAATTAACACATTATT
64 TTGTCAAATCAACACATTATC
81939 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTAAAATTTGGTAAATAATGTATT
1 TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTAAAATTTGGTAAATAATGTATT
* *
82004 GTCAAATTAACACATTATG
66 GTCAAATCAACACATTATC
* *
82023 TGATAAAAATTATAATATAATAATAATAATTTTTTTATTTAAATATTAAAATTTGATAAATAATG
1 TGATAAAAATTGT-A-AT-ATAATAATAA-TTTTTTATTTAAATATTAAAATTTGGTAAATAATG
82088 TATTGT
62 TATTGT
82094 TGATATAAAT
Statistics
Matches: 634, Mismatches: 23, Indels: 10
0.95 0.03 0.01
Matches are distributed among these distances:
84 389 0.61
85 3 0.00
86 192 0.30
87 10 0.02
88 40 0.06
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (84 bp):
TGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTAAAATTTGGTAAATAATGTATT
GTCAAATCAACACATTATC
Found at i:82275 original size:11 final size:12
Alignment explanation
Indices: 82254--82301 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
82244 AACATGTACC
82254 TTAATTTTCAAA
1 TTAATTTTCAAA
*
82266 TTAATTTCAACTTAAA
1 TTAATTT----TCAAA
82282 TTAATTTTCAAA
1 TTAATTTTCAAA
82294 TTAATTTT
1 TTAATTTT
82302 TACACAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
12 19 0.63
16 11 0.37
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (12 bp):
TTAATTTTCAAA
Found at i:82299 original size:16 final size:16
Alignment explanation
Indices: 82263--82297 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
82253 CTTAATTTTC
*
82263 AAATTAATTTCAACTT
1 AAATTAATTTCAAATT
82279 AAATTAATTTTCAAATT
1 AAATTAA-TTTCAAATT
82296 AA
1 AA
82298 TTTTTACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATTAATTTCAAATT
Found at i:85291 original size:26 final size:25
Alignment explanation
Indices: 85262--85311 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
85252 TTTTTTTCAT
85262 TTATTTCTTAAAATTAATTTTAATTA
1 TTATTTCTTAAAA-TAATTTTAATTA
* * *
85288 TTATTTTTTAATATATTTTTAATT
1 TTATTTCTTAAAATAATTTTAATT
85312 TGTCGATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATTTCTTAAAATAATTTTAATTA
Found at i:85755 original size:33 final size:33
Alignment explanation
Indices: 85718--85783 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
85708 TTACGGTTAT
* *
85718 ACCACATAGTTACATTTAGC-GATAATTATATCA
1 ACCACAAAGTTACATTTAGCAG-CAATTATATCA
85751 ACCACAAAGTTACATTTAGCAGCAATTATATCA
1 ACCACAAAGTTACATTTAGCAGCAATTATATCA
85784 TTTACATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (33 bp):
ACCACAAAGTTACATTTAGCAGCAATTATATCA
Found at i:86250 original size:60 final size:59
Alignment explanation
Indices: 86093--86441 Score: 262
Period size: 60 Copynumber: 5.8 Consensus size: 59
86083 CCATTGCACA
* * * * *
86093 GCCAACACAAAAAAAATT-AATTTTTTACTACATAAAAAAAAGGGTGTCGGCCATTGCATG
1 GCCAACACAAAAAAAATTGAATTTTTTATTAGA-AAAAAAGA-GGTGTCGGTCATGGCATG
* * * *
86153 ACCAACACAAAAAAAATT-ATTTTTTTACTAGATAAAAAAGAGGTGTCGGTCATGGCTTG
1 GCCAACACAAAAAAAATTGAATTTTTTATTAGA-AAAAAAGAGGTGTCGGTCATGGCATG
* * * *
86212 GCCAACAAAAAAAAAATTGAATTTTTTATTTGACAAAAAGGAGGTGTC-GTCCATGACATG
1 GCCAACACAAAAAAAATTGAATTTTTTATTAGA-AAAAAAGAGGTGTCGGT-CATGGCATG
** ** * * * *
86272 GTTAACACCCAAAAATTTG-ATTTTTTATTCAGATAAAAAGGGGTGTCGATCAT-GCAATG
1 GCCAACACAAAAAAAATTGAATTTTTTATT-AGAAAAAAAGAGGTGTCGGTCATGGC-ATG
* * * * * *
86331 ACCAACACCAAAAAATTTGATTTTTTTATCAGATAAAAAG-GGAATGTCGGTCATGGCATG
1 GCCAACACAAAAAAAATTGAATTTTTTATTAGAAAAAAAGAGG--TGTCGGTCATGGCATG
* * * *
86391 GCCAACATC-AAAAGATTTGAATTTTTTATCTAACAAAAAAAGGGGTGTCGG
1 GCCAACA-CAAAAAAAATTGAATTTTTTAT-T-AGAAAAAAAGAGGTGTCGG
86442 CCGTGACATA
Statistics
Matches: 235, Mismatches: 41, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
58 3 0.01
59 85 0.36
60 128 0.54
61 9 0.04
62 8 0.03
63 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (59 bp):
GCCAACACAAAAAAAATTGAATTTTTTATTAGAAAAAAAGAGGTGTCGGTCATGGCATG
Found at i:86369 original size:119 final size:119
Alignment explanation
Indices: 86094--86440 Score: 264
Period size: 119 Copynumber: 2.9 Consensus size: 119
86084 CATTGCACAG
* * * * *
86094 CCAACACAAAAAAAATT-AATTTTTTACTACATAAAAAAAAGGG--TGTCGGCCATTG-CATGAC
1 CCAACAAAAAAAAAATTGAATTTTTTA-T-CA-GACAAAAAGGGAATGTCGGTCA-TGACATGGC
* * * * * * * * *
86155 CAACACAAAAAAAATT-ATTTTTTTACTAGATAAAAAAGAGGTGTCGGTCATGGCTTGG
62 CAACACCAAAAGATTTGAATTTTTTATTAGAT-AAAAAGGGGTGTCGATCATGGCATGA
** * **
86213 CCAACAAAAAAAAAATTGAATTTTTTATTTGACAAAAA-GGAGGTGTC-GTCCATGACATGGTTA
1 CCAACAAAAAAAAAATTGAATTTTTTATCAGACAAAAAGGGA-ATGTCGGT-CATGACATGGCCA
86276 ACACCCAAAA-ATTTG-ATTTTTTATTCAGATAAAAAGGGGTGTCGATCAT-GCAATGA
64 ACA-CCAAAAGATTTGAATTTTTTATT-AGATAAAAAGGGGTGTCGATCATGGC-ATGA
** * * * *
86332 CCAACACCAAAAAATTTGATTTTTTTATCAGATAAAAAGGGAATGTCGGTCATGGCATGGCCAAC
1 CCAACAAAAAAAAAATTGAATTTTTTATCAGACAAAAAGGGAATGTCGGTCATGACATGGCCAAC
* * *
86397 ATCAAAAGATTTGAATTTTTTATCTAACAAAAAAAGGGGTGTCG
66 ACCAAAAGATTTGAATTTTTTAT-T-AGATAAAAAGGGGTGTCG
86441 GCCGTGACAT
Statistics
Matches: 181, Mismatches: 32, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
116 2 0.01
117 6 0.03
118 10 0.06
119 114 0.63
120 32 0.18
121 17 0.09
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.28
Consensus pattern (119 bp):
CCAACAAAAAAAAAATTGAATTTTTTATCAGACAAAAAGGGAATGTCGGTCATGACATGGCCAAC
ACCAAAAGATTTGAATTTTTTATTAGATAAAAAGGGGTGTCGATCATGGCATGA
Found at i:86573 original size:15 final size:16
Alignment explanation
Indices: 86545--86575 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
86535 GTATTTTCGT
86545 ATATTAATAAAATACA
1 ATATTAATAAAATACA
86561 ATATTAA-AAAATACA
1 ATATTAATAAAATACA
86576 TAGGTGTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
ATATTAATAAAATACA
Found at i:96569 original size:18 final size:18
Alignment explanation
Indices: 96543--96581 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
96533 GGTCACCATT
* *
96543 AAAGTCAAAAAGAAAAAC
1 AAAGCCAAAAACAAAAAC
96561 AAAGCCAAAAACAAAAAC
1 AAAGCCAAAAACAAAAAC
96579 AAA
1 AAA
96582 AAAAAGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.74, C:0.15, G:0.08, T:0.03
Consensus pattern (18 bp):
AAAGCCAAAAACAAAAAC
Found at i:96600 original size:23 final size:24
Alignment explanation
Indices: 96548--96592 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
96538 CCATTAAAGT
*
96548 CAAAAAGAAAAACAAAGCCAAAAA
1 CAAAAACAAAAACAAAGCCAAAAA
96572 CAAAAACAAAAA-AAAG-CAAAA
1 CAAAAACAAAAACAAAGCCAAAA
96593 GCGAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 4 0.20
24 11 0.55
ACGTcount: A:0.78, C:0.16, G:0.07, T:0.00
Consensus pattern (24 bp):
CAAAAACAAAAACAAAGCCAAAAA
Found at i:104793 original size:19 final size:19
Alignment explanation
Indices: 104765--104813 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
104755 TTTTTTTAAA
*
104765 AAAATTTAAAAATTCAAA-T
1 AAAATATAAAAATT-AAATT
*
104784 AAAATATAAATATTAAATT
1 AAAATATAAAAATTAAATT
104803 AAAA-ATAAAAA
1 AAAATATAAAAA
104814 ATATTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATATAAAAATTAAATT
Found at i:110549 original size:94 final size:95
Alignment explanation
Indices: 110415--110588 Score: 280
Period size: 94 Copynumber: 1.8 Consensus size: 95
110405 TTTTTGTTAA
* * *
110415 GAAATCTCAATTGAGGAATTTAAACAAGATTTCATGAACTCGTACTATTATTCAAATTACAGATT
1 GAAATATCAATTGAGGAATTTAAACAAGATTTCATCAACTCGTAATATTATTCAAATTACAGATT
110480 T-AAAGATGCATTCGTCGACGCAATTTCATT
66 TGAAA-ATGCATTCGTCGACGCAATTTCATT
* *
110510 GAAATATCACTTGAGGAA-TTAAACAAGATTTCATCAACTCGTAATATTATTCAAATTGCAGATT
1 GAAATATCAATTGAGGAATTTAAACAAGATTTCATCAACTCGTAATATTATTCAAATTACAGATT
110574 TGAAAATGCATTCGT
66 TGAAAATGCATTCGT
110589 TCATCAACGC
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
94 54 0.74
95 19 0.26
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (95 bp):
GAAATATCAATTGAGGAATTTAAACAAGATTTCATCAACTCGTAATATTATTCAAATTACAGATT
TGAAAATGCATTCGTCGACGCAATTTCATT
Found at i:118111 original size:15 final size:15
Alignment explanation
Indices: 118077--118109 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
118067 AAAATAAAAA
*
118077 ATTTAAAAAATTATT
1 ATTTAAAAAAATATT
118092 ATTTAAAAAAAT-TT
1 ATTTAAAAAAATATT
118106 ATTT
1 ATTT
118110 TATAAGTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTAAAAAAATATT
Found at i:118466 original size:415 final size:422
Alignment explanation
Indices: 117664--118514 Score: 1053
Period size: 415 Copynumber: 2.0 Consensus size: 422
117654 TATAAAAAAC
* *** *
117664 AAAAATTATTTTACAAGTACTTCTCGTTACATTCTTTTTGATCTTTTTTAATTATTTAATAATAT
1 AAAAATTATTTTACAAGTACTTCTCATTACATTCTTCACGATCCTTTTTAATTATTTAATAATAT
117729 TTCAGTTATTTTTTCATGTTATTCATACATAAATTTAATATTTTTTATCCTAAATATTAAACTTA
66 TTCAGTTATTTTTTCATGTTATTCATAC---AA-TTAATATTTTTTATCCTAAATATTAAACTTA
* *
117794 AAATTCTAAACTTTGAATTAAACCCAAAACTTCGAATCAAAATCAAGATTCGAGGTTTATGTTTG
127 AAATTCTAAACTTTGAATCAAACCCAAAACTTCGAATCAAAATCAAGATTCGAGGTTCATGTTTG
* *
117859 AGGTTTGAAATTTAAAATTCAAAAATTAAAGTTCATGGTTTTGTGTTCGGAATTCAAGATAAAAA
192 AGGTTTG-------AAAGT-----ATTAAAGTTCATGGTTTTATGTTCGGAATTCAAGATAAAAA
* * *
117924 AATTTATTAAAATTATATCATTATATGTTAATGACATGAAAAAATTACTAAAATGTCATTAAATA
245 AAATTACTAAAATTATATAATTATATGTTAATGACATGAAAAAATTACTAAAATGTCATTAAATA
* *
117989 ATTTGAAAGCAATAATGAATAATGTGGGGGGAATGATTTATTAAAAAAAAATTTCCGTATAAATG
310 ATTTGAAAGCAATAATGAATAATGTGGGGGAAATAATTTATTAAAAAAAAATTTCCGTATAAATG
* *
118054 T-ACTTTT-T-ATAAAAAAATAAAAAATTT-AAAAAATTATTATTTAA
375 TAAATTTTATAAAAAAAAAATAAAAAATTTAAAAAAATTATTATTTAA
* * *
118098 AAAAATTTATTTTATAAGTCCTTCTCATTACATTCTTCACGATTCCTTTTTAATTATTTAATGAT
1 AAAAA-TTATTTTACAAGTACTTCTCATTACATTCTTCACGA-TCCTTTTTAATTATTTAATAAT
*
118163 ATTTCAGTTATTTTTTCATGTTATTGATAC-A-T-AT-TTTTTTATCCTAAATATTAAACTTAAG
64 ATTTCAGTTATTTTTTCATGTTATTCATACAATTAATATTTTTTATCCTAAATATTAAACTTAA-
* * * ** *
118224 ACTT-TAAACTTTGAATCAAACCCTAAACTTTGAATCCGAATCAAGGTTCGAGGTTCATGTTTGA
128 AATTCTAAACTTTGAATCAAACCCAAAACTTCGAATCAAAATCAAGATTCGAGGTTCATGTTTGA
*
118288 GGTTTG-AAGT-TTAAGGTTCATGGTTTTATGTTCGGAATTCAACG-TAAAAAAAAATTACTAAA
193 GGTTTGAAAGTATTAAAGTTCATGGTTTTATGTTCGGAATTCAA-GAT-AAAAAAAATTACTAAA
* *
118350 ATTATATAATTATATGTTAATGACATGAAAAAATTACTAAAATGTTATTAAATAATTTGAGAGCA
256 ATTATATAATTATATGTTAATGACATGAAAAAATTACTAAAATGTCATTAAATAATTTGAAAGCA
* * * **** **
118415 CTCATGAATAATGTGGTGGAAATAATTTA-TAAAATATTTTTTTTTGTATAAATGTAAATTTTAT
321 ATAATGAATAATGTGGGGGAAATAATTTATTAAAA-AAAAATTTCCGTATAAATGTAAATTTTAT
* *
118479 AAAAAAAAAATACAAAATTTAAAAAAATTCTTATTT
385 AAAAAAAAAATAAAAAATTTAAAAAAATTATTATTT
118515 TATATTAAAT
Statistics
Matches: 367, Mismatches: 40, Indels: 35
0.83 0.09 0.08
Matches are distributed among these distances:
414 36 0.10
415 115 0.31
416 5 0.01
417 1 0.00
418 17 0.05
419 14 0.04
420 3 0.01
428 85 0.23
429 5 0.01
430 1 0.00
432 1 0.00
434 5 0.01
435 30 0.08
436 49 0.13
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (422 bp):
AAAAATTATTTTACAAGTACTTCTCATTACATTCTTCACGATCCTTTTTAATTATTTAATAATAT
TTCAGTTATTTTTTCATGTTATTCATACAATTAATATTTTTTATCCTAAATATTAAACTTAAAAT
TCTAAACTTTGAATCAAACCCAAAACTTCGAATCAAAATCAAGATTCGAGGTTCATGTTTGAGGT
TTGAAAGTATTAAAGTTCATGGTTTTATGTTCGGAATTCAAGATAAAAAAAATTACTAAAATTAT
ATAATTATATGTTAATGACATGAAAAAATTACTAAAATGTCATTAAATAATTTGAAAGCAATAAT
GAATAATGTGGGGGAAATAATTTATTAAAAAAAAATTTCCGTATAAATGTAAATTTTATAAAAAA
AAAATAAAAAATTTAAAAAAATTATTATTTAA
Found at i:119915 original size:2 final size:2
Alignment explanation
Indices: 119908--119944 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
119898 AGTGCAATGC
119908 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
119945 GCTTTTTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:126610 original size:30 final size:30
Alignment explanation
Indices: 126574--126725 Score: 250
Period size: 30 Copynumber: 5.1 Consensus size: 30
126564 TTGGTGCCAA
* *
126574 TGGATTTGGGGATTCATCATTGATCTTCTC
1 TGGATTTGGGGTTTCATCACTGATCTTCTC
126604 TGGATTTGGGGTTTCATCACTGATCTTCTC
1 TGGATTTGGGGTTTCATCACTGATCTTCTC
* *
126634 TGGATCTGGGGTTTCATCACTGGTCTTCTC
1 TGGATTTGGGGTTTCATCACTGATCTTCTC
*
126664 TGGATTTGGGGTTTCATCACTGGTCTTCTC
1 TGGATTTGGGGTTTCATCACTGATCTTCTC
*
126694 TGGATTTGGGGCTTCATCACTGATCTTCTC
1 TGGATTTGGGGTTTCATCACTGATCTTCTC
126724 TG
1 TG
126726 CCATTTTTTT
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 115 1.00
ACGTcount: A:0.12, C:0.20, G:0.25, T:0.42
Consensus pattern (30 bp):
TGGATTTGGGGTTTCATCACTGATCTTCTC
Found at i:127114 original size:22 final size:22
Alignment explanation
Indices: 127071--127115 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
127061 TGGGACAAAG
* *
127071 AAAAATTCAAGTATCAATTTGA
1 AAAAATTCAAGTACCAAATTGA
* *
127093 AAAAATTGAGGTACCAAATTGA
1 AAAAATTCAAGTACCAAATTGA
127115 A
1 A
127116 TATTAAAGTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.27
Consensus pattern (22 bp):
AAAAATTCAAGTACCAAATTGA
Found at i:129423 original size:23 final size:23
Alignment explanation
Indices: 129397--129447 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
129387 AGGTGATTAT
**
129397 ATATAAAATTTTAATAAATAAAA
1 ATATAAAATTAAAATAAATAAAA
** *
129420 ATATTCAATTAAAATAAATAAAT
1 ATATAAAATTAAAATAAATAAAA
129443 ATATA
1 ATATA
129448 TTTAAAATTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
ATATAAAATTAAAATAAATAAAA
Found at i:129832 original size:31 final size:32
Alignment explanation
Indices: 129777--129861 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 32
129767 AATAGTCTAT
*
129777 ATTTTTA-TAATTTTTAAAAAATTAAA-TATA
1 ATTTTTATTATTTTTTAAAAAATTAAATTATA
* * *
129807 ATTTTTATTATTTTTTATAAGATTAAATTGTA
1 ATTTTTATTATTTTTTAAAAAATTAAATTATA
*
129839 ATTTTATCATTATTAATTTAAAA
1 ATTTT-T-ATTATT-TTTTAAAA
129862 TTTTATAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
30 7 0.16
31 16 0.36
32 8 0.18
33 1 0.02
34 6 0.14
35 6 0.14
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (32 bp):
ATTTTTATTATTTTTTAAAAAATTAAATTATA
Found at i:135629 original size:17 final size:17
Alignment explanation
Indices: 135609--135642 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
135599 CAACGACGAA
135609 CAAAAA-CCAATCAATCT
1 CAAAAATCCAAT-AATCT
135626 CAAAAATCCAATAATCT
1 CAAAAATCCAATAATCT
135643 ATTCTCCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (17 bp):
CAAAAATCCAATAATCT
Done.