Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002490.1 Hibiscus syriacus cultivar Beakdansim tig00005078_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 136957
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Found at i:2653 original size:20 final size:20
Alignment explanation
Indices: 2625--2855 Score: 291
Period size: 20 Copynumber: 11.6 Consensus size: 20
2615 AAATTTCAGT
* *
2625 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
2645 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
2665 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
2685 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
2705 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
2725 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
2745 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
2765 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
2785 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
2805 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
2825 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
2845 GTTGCGATTTA
1 GTTGCGATTTA
2856 TGTGTTCGCG
Statistics
Matches: 191, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 191 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:2873 original size:40 final size:40
Alignment explanation
Indices: 2625--2893 Score: 288
Period size: 40 Copynumber: 6.7 Consensus size: 40
2615 AAATTTCAGT
* * * **
2625 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTCGC
* * **
2665 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTCGC
* * **
2705 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTCGC
* * *
2745 GTTGCGATTTACGGATACGCGTTGCGATATACGGATACGC
1 GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTCGC
* * * *
2785 ATTGCGATTTACGGATACGCGTTGCGATTTACGGATACAC
1 GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTCGC
* *
2825 GTTGCGATTTACGGATACGCGTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACAGATACGCGTTGCGATTTACG-GATTCGC
* * * *
2865 GTTACGATTTTCATATTCGCGTTGCGATT
1 GTTGCGATTTACAGATACGCGTTGCGATT
2894 CTGGAAAATC
Statistics
Matches: 208, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 207 1.00
41 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (40 bp):
GTTGCGATTTACAGATACGCGTTGCGATTTACGGATTCGC
Found at i:2888 original size:60 final size:60
Alignment explanation
Indices: 2625--2893 Score: 283
Period size: 60 Copynumber: 4.5 Consensus size: 60
2615 AAATTTCAGT
* * * * * * *
2625 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTA-TCGTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGA-TACGCGTTGCGATTTACGGATTCGC
* * * * **
2685 GTTGCGATTTACGGATTA-TCGTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGA-TACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATTCGC
* * *
2745 GTTGCGATTTACGGATACGCGTTGCGATATACGGATACGCATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATTCGC
* *
2805 GTTGCGATTTACGGATACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACG-GATTCGC
* * ** *
2865 GTTACGATTTTCATATTCGCGTTGCGATT
1 GTTGCGATTTACGGATACGCGTTGCGATT
2894 CTGGAAAATC
Statistics
Matches: 178, Mismatches: 27, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
59 3 0.02
60 173 0.97
61 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (60 bp):
GTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATTCGC
Found at i:10665 original size:15 final size:15
Alignment explanation
Indices: 10645--10697 Score: 79
Period size: 15 Copynumber: 3.5 Consensus size: 15
10635 TGAGACATTA
10645 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
*
10660 CCCGCCCCACATCCG
1 CCCGCCCCGCATCCG
*
10675 CCCGCCCAGCTATCCG
1 CCCGCCCCGC-ATCCG
10691 CCCGCCC
1 CCCGCCC
10698 AGTTAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
15 22 0.65
16 12 0.35
ACGTcount: A:0.09, C:0.66, G:0.17, T:0.08
Consensus pattern (15 bp):
CCCGCCCCGCATCCG
Found at i:10691 original size:16 final size:15
Alignment explanation
Indices: 10645--10699 Score: 76
Period size: 16 Copynumber: 3.6 Consensus size: 15
10635 TGAGACATTA
*
10645 CCCGCCCCGCATCCG
1 CCCGCCCAGCATCCG
10660 CCCGCCCCA-CATCCG
1 CCCG-CCCAGCATCCG
10675 CCCGCCCAGCTATCCG
1 CCCGCCCAGC-ATCCG
10691 CCCGCCCAG
1 CCCGCCCAG
10700 TTAAATATCT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
14 4 0.11
15 15 0.42
16 17 0.47
ACGTcount: A:0.11, C:0.64, G:0.18, T:0.07
Consensus pattern (15 bp):
CCCGCCCAGCATCCG
Found at i:14124 original size:2 final size:2
Alignment explanation
Indices: 14117--14156 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
14107 ATAAGAATTA
14117 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14157 TTTAAACCCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14499 original size:84 final size:84
Alignment explanation
Indices: 14365--14552 Score: 268
Period size: 84 Copynumber: 2.2 Consensus size: 84
14355 CTGAATGAAA
* * *
14365 TCGAACTCGTCAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
1 TCGAACTCG-AAGGTCTTTGGTTAGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
14430 TGCCTCGGAGCTGAGAGTAG
65 TGCCTCGGAGCTGAGAGTAG
* * * *
14450 TCGAACTCGAAGGTCTTTGGTTAGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTAGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* * *
14515 GCCTTGGAGTTGAGCGTAG
66 GCCTCGGAGCTGAGAGTAG
*
14534 TCGAACTCAAAGGTCTTTG
1 TCGAACTCGAAGGTCTTTG
14553 TGTTTCAAGA
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 83 0.90
85 9 0.10
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTGGTTAGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
GCCTCGGAGCTGAGAGTAG
Found at i:14622 original size:33 final size:33
Alignment explanation
Indices: 14540--14667 Score: 179
Period size: 33 Copynumber: 3.9 Consensus size: 33
14530 GTAGTCGAAC
*
14540 TCAAAGG-TCTTTGTGTTTCAAGAGAAAC-ATTT
1 TCAAAGGTTTTTTGTGTTTCAAGAGAAACGA-TT
**
14572 TCAAAGGTTTTTTTGTGTTTCAAGAGGCACGATT
1 TCAAAGG-TTTTTTGTGTTTCAAGAGAAACGATT
14606 TCAAAGGTTTTTTGTGTTTCAAGAGAAACGATT
1 TCAAAGGTTTTTTGTGTTTCAAGAGAAACGATT
* *
14639 TCAAAGATTTTTTGTGTTTAAAGAGAAAC
1 TCAAAGGTTTTTTGTGTTTCAAGAGAAAC
14668 TGTCTCCATG
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
32 7 0.08
33 51 0.59
34 27 0.31
35 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (33 bp):
TCAAAGGTTTTTTGTGTTTCAAGAGAAACGATT
Found at i:14650 original size:67 final size:65
Alignment explanation
Indices: 14540--14663 Score: 187
Period size: 67 Copynumber: 1.9 Consensus size: 65
14530 GTAGTCGAAC
* *
14540 TCAAAGGTCTTTGTGTTTCAAGAGAAACATTTTCAAAGGTTTTTTTGTGTTTCAAGAGGCACGAT
1 TCAAAGGTCTTTGTGTTTCAAGAGAAACATTTTCAAA-GATTTTTTGTGTTTAAAGAGGCACGAT
14605 T
65 T
*
14606 TCAAAGGTTTTTTGTGTTTCAAGAGAAACGA-TTTCAAAGATTTTTTGTGTTTAAAGAG
1 TCAAAGG-TCTTTGTGTTTCAAGAGAAAC-ATTTTCAAAGATTTTTTGTGTTTAAAGAG
14664 AAACTGTCTC
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
66 25 0.47
67 27 0.51
68 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (65 bp):
TCAAAGGTCTTTGTGTTTCAAGAGAAACATTTTCAAAGATTTTTTGTGTTTAAAGAGGCACGATT
Found at i:14766 original size:36 final size:36
Alignment explanation
Indices: 14716--14822 Score: 178
Period size: 36 Copynumber: 3.0 Consensus size: 36
14706 TATTGGTTGG
*
14716 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
14752 TGTTTCAAGAGAAACCGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
14788 TGGTTCAAGAGAAATTGTCTCAAGAGAGACAAAAT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
14823 CTTTAGTTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.23
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:16041 original size:105 final size:105
Alignment explanation
Indices: 15246--16816 Score: 2478
Period size: 105 Copynumber: 14.9 Consensus size: 105
15236 TGGAAAATTA
* * *
15246 TTTGTTGACAACCAGCCGTCCCTTCGTTTGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATC
1 TTTGTTGACAACCAGCGGTCCCTTCG-TCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
* * *
15311 CTTCGCTGTGAAGTTGAAATTGGCTCTTGAAATTGGGAAATTG
65 CTTCGTTGTGAAGTTGAAATTGACTC-TGAAATTGAGAAA-TG
*
15354 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* *
15419 TTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAA-ATG
* * *
15460 TTTGTTGACAACCAGCGGCCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATGTCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* *
15525 TTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAA-TG
* *
15566 TTTATTGACAACCAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* * *
15631 TTCGTTGTGAAGTTAAAATTGGCTCTTGAAATTGGGAAATTG
66 TTCGTTGTGAAGTTGAAATTGACTC-TGAAATTGAGAAA-TG
* * * *
15673 TTTATTGACAACCAGCGGTCCATTCATAGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* * *
15738 TTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTA
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAA-ATG
* * *
15779 TTTGTTGACAATCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* *
15844 TTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAA-TG
* *
15885 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* * * *
15950 TTCGATGTGAAGTCGAAATTGGCTCTGAAATTGGGAAATG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATG
* *
15990 TTTATTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* *
16055 TTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATG
**
16095 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTATGTTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* * * *
16160 TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAA-ATG
16201 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* *
16266 TTCATTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATG
16306 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
*
16371 TTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATG
16411 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
*
16476 TTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATG
16516 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
*
16581 TTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATG
*
16621 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCA
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
*
16686 TTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATG
66 TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATG
* * * * * *
16726 TTTGTTGACAACCAGCGGCCCCTTCGTCATGAAGTTGAGCTTGTGTTGTCTTGGA-TTCAAGATC
1 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGTCCAATATC
* *
16790 CTTCGTTGAGAAGTTGAAATTTACTCT
65 CTTCGTTGTGAAGTTGAAATTGACTCT
16817 CGAGTAAGTT
Statistics
Matches: 1378, Mismatches: 78, Indels: 17
0.94 0.05 0.01
Matches are distributed among these distances:
105 697 0.51
106 494 0.36
107 163 0.12
108 24 0.02
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
TTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATG
Found at i:21439 original size:2 final size:2
Alignment explanation
Indices: 21432--21461 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21422 ATAAGAATTA
21432 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21462 TTTAAACCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29834 original size:36 final size:36
Alignment explanation
Indices: 29777--29859 Score: 107
Period size: 36 Copynumber: 2.3 Consensus size: 36
29767 TACTCATTCC
*
29777 TATTTTC-AACAAACATCTACCAAAATTTGAAAAACA
1 TATTTTCAAAGAAACATCTACCAAAATTTGAAAAA-A
* *
29813 T-TTTTCAAAGAAACATTTACCAAACTTTGAAAAAA
1 TATTTTCAAAGAAACATCTACCAAAATTTGAAAAAA
29848 TATTTTCCAAAG
1 TATTTT-CAAAG
29860 TTGGTTGCCA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
35 7 0.17
36 29 0.71
37 5 0.12
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.31
Consensus pattern (36 bp):
TATTTTCAAAGAAACATCTACCAAAATTTGAAAAAA
Found at i:41707 original size:2 final size:2
Alignment explanation
Indices: 41702--41730 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
41692 ACATGGTGTG
41702 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
41731 CGTCGGAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49847 original size:27 final size:29
Alignment explanation
Indices: 49789--49857 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
49779 AAATAATACT
*
49789 AATAAAATTATCTTATTTTCTTAACTAAA
1 AATAAAATTATATTATTTTCTTAACTAAA
49818 AATAAAATTATATTA-TTT-TTAACTAAA
1 AATAAAATTATATTATTTTCTTAACTAAA
49845 AATTAAATATTAT
1 AA-TAAA-ATTAT
49858 TAATTAATAG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
27 11 0.30
28 7 0.19
29 19 0.51
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (29 bp):
AATAAAATTATATTATTTTCTTAACTAAA
Found at i:49858 original size:27 final size:26
Alignment explanation
Indices: 49801--49859 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
49791 TAAAATTATC
49801 TTATT-TTCTTAACTAAAAATAAAAT
1 TTATTATTCTTAACTAAAAATAAAAT
* *
49826 TATATTATTTTTAACTAAAAATTAAAT
1 T-TATTATTCTTAACTAAAAATAAAAT
49853 ATTATTA
1 -TTATTA
49860 ATTAATAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 1 0.03
26 4 0.14
27 23 0.79
28 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (26 bp):
TTATTATTCTTAACTAAAAATAAAAT
Found at i:54880 original size:21 final size:21
Alignment explanation
Indices: 54856--54901 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
54846 CCTGCTCAGG
*
54856 ACGACGAAGATGACGACGATA
1 ACGACGAAGACGACGACGATA
* **
54877 ACGATGGTGACGACGACGATA
1 ACGACGAAGACGACGACGATA
54898 ACGA
1 ACGA
54902 TGACAACGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.30, T:0.11
Consensus pattern (21 bp):
ACGACGAAGACGACGACGATA
Found at i:54910 original size:21 final size:21
Alignment explanation
Indices: 54867--54910 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
54857 CGACGAAGAT
***
54867 GACGACGATAACGATGGTGAC
1 GACGACGATAACGATGACAAC
54888 GACGACGATAACGATGACAAC
1 GACGACGATAACGATGACAAC
54909 GA
1 GA
54911 GGAGTCAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.20, G:0.30, T:0.11
Consensus pattern (21 bp):
GACGACGATAACGATGACAAC
Found at i:58897 original size:50 final size:51
Alignment explanation
Indices: 58793--58917 Score: 152
Period size: 50 Copynumber: 2.5 Consensus size: 51
58783 TTACGTGGCG
* * *
58793 TATAGCGC-GTATCAAGGGGCGCGCTATACTCCACGTGTACCCAGTCAGCG
1 TATAGCGCGGTATCAAGGGGCGCGCTATACTCCACGTGTACCCAATCAACA
58843 TATAGCGCGGT-TC-AGGGGCGCGCTATACTCCACGTG-ACGCCAAATCAACA
1 TATAGCGCGGTATCAAGGGGCGCGCTATACTCCACGTGTAC-CC-AATCAACA
* *
58893 TATAGCGCGGTA-CAAGAGGCACGCT
1 TATAGCGCGGTATCAAGGGGCGCGCT
58918 TTCCTGCTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
48 2 0.03
49 25 0.38
50 27 0.42
51 11 0.17
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.18
Consensus pattern (51 bp):
TATAGCGCGGTATCAAGGGGCGCGCTATACTCCACGTGTACCCAATCAACA
Found at i:59877 original size:6 final size:6
Alignment explanation
Indices: 59868--59900 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
59858 GAAAGAGGCG
*
59868 GAGGAA GAGGAA GAGGAA GAGGAA GAGCAA GAG
1 GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAG
59901 TGAGGGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.48, T:0.00
Consensus pattern (6 bp):
GAGGAA
Found at i:62219 original size:102 final size:104
Alignment explanation
Indices: 62042--62247 Score: 353
Period size: 103 Copynumber: 2.0 Consensus size: 104
62032 TAAACTATAT
* *
62042 CAGATACCACTAAACTTTAGATGTATCGTTTACCACTGAACTTTAAATTTTGTCAATTATAGTAC
1 CAGATACCACTAAACTTTAGATGTATCATTTACCACTGAACTTTAAATTTTGTCAATTATAGCAC
62107 TGAACTTTGA-TTTTCGTTTTAAGTATACCACTGAATCG
66 TGAACTTTGATTTTTCGTTTTAAGTATACCACTGAATCG
* *
62145 CAGATACTACTAAACTTTAGATGTATCATTTA-CACTGAACTTTCAATTTTGTCAATTATAGCAC
1 CAGATACCACTAAACTTTAGATGTATCATTTACCACTGAACTTTAAATTTTGTCAATTATAGCAC
*
62209 TGAACTTTGATTTTTCGTTTTAAGTATACCATTGAATCG
66 TGAACTTTGATTTTTCGTTTTAAGTATACCACTGAATCG
62248 TTAAATTGTT
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
102 40 0.41
103 57 0.59
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (104 bp):
CAGATACCACTAAACTTTAGATGTATCATTTACCACTGAACTTTAAATTTTGTCAATTATAGCAC
TGAACTTTGATTTTTCGTTTTAAGTATACCACTGAATCG
Found at i:73850 original size:13 final size:13
Alignment explanation
Indices: 73821--73855 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
73811 ATAACTAATA
*
73821 ATATTAAAT-ATT
1 ATATTAAATAAAT
73833 ATATTAAATAAAT
1 ATATTAAATAAAT
73846 ATATTAAATA
1 ATATTAAATA
73856 TATTATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTAAATAAAT
Found at i:76862 original size:8 final size:8
Alignment explanation
Indices: 76849--76889 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
76839 CTCATTTTCA
76849 GAGAATTT
1 GAGAATTT
76857 GAGAATTT
1 GAGAATTT
*
76865 -AGAGTTT
1 GAGAATTT
*
76872 GGGAATTT
1 GAGAATTT
76880 GAGAATTT
1 GAGAATTT
76888 GA
1 GA
76890 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:77182 original size:126 final size:126
Alignment explanation
Indices: 76957--77561 Score: 1165
Period size: 126 Copynumber: 4.8 Consensus size: 126
76947 CTATAATCGG
*
76957 TTCACTATTCACGTGAAGGCGCATTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
77022 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
77083 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
77148 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
77209 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
77274 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTGTTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
77335 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
77400 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
77461 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
77526 TCATTGCCCTATTATGTCACTCATGTCTCTCGGGGA
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
77562 ATAACTTAAA
Statistics
Matches: 474, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 474 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (126 bp):
TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:78007 original size:33 final size:34
Alignment explanation
Indices: 77946--78045 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
77936 AAATTTAATG
*
77946 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
77980 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
78013 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
78046 AACATTTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.50
34 28 0.50
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:78643 original size:21 final size:21
Alignment explanation
Indices: 78555--78648 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
78545 TATGGTATAA
*
78555 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
78576 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
78597 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
78618 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
78639 AACCCTGCGG
1 AACCCTGCGG
78649 AGATGGCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 3 0.04
21 63 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:78678 original size:21 final size:21
Alignment explanation
Indices: 78652--78699 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
78642 CCTGCGGAGA
*
78652 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
78673 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
78694 GGGCAT
1 TGGCAT
78700 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:80489 original size:32 final size:34
Alignment explanation
Indices: 80419--80495 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 34
80409 TAATAATTCT
*
80419 AAATAAATAATTTATATAAATATTATTTTAATAAAAA
1 AAAT-AAT-ATTTACATAAATATTA-TTTAATAAAAA
*
80456 AAATAATATTTACATAAATA-TA-TTAATATAAA
1 AAATAATATTTACATAAATATTATTTAATAAAAA
80488 AAATAATA
1 AAATAATA
80496 ACTATTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
32 17 0.45
34 2 0.05
35 12 0.32
36 3 0.08
37 4 0.11
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (34 bp):
AAATAATATTTACATAAATATTATTTAATAAAAA
Found at i:80521 original size:34 final size:34
Alignment explanation
Indices: 80449--80528 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 34
80439 TATTATTTTA
* * *
80449 ATAAAAAAAATAATATTTACATAAATATATTAAT
1 ATAAAAAAAATAATATTTACATAAAAATACTAAC
80483 ATAAAAAATAATAACTATTTA-A-AAAAATACTAAC
1 ATAAAAAA-AATAA-TATTTACATAAAAATACTAAC
80517 ATAAAAATAAAT
1 ATAAAAA-AAAT
80529 TTCTTACCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 27 0.68
35 7 0.17
36 6 0.15
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (34 bp):
ATAAAAAAAATAATATTTACATAAAAATACTAAC
Found at i:93127 original size:25 final size:25
Alignment explanation
Indices: 93095--93144 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
93085 TGCCACATAG
93095 ATTTGTCCCGAAGGACCGCGTAGAA
1 ATTTGTCCCGAAGGACCGCGTAGAA
93120 ATTTGTCCCGAAGGACCGCGTAGAA
1 ATTTGTCCCGAAGGACCGCGTAGAA
93145 CCCTGACTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.20
Consensus pattern (25 bp):
ATTTGTCCCGAAGGACCGCGTAGAA
Found at i:93277 original size:14 final size:15
Alignment explanation
Indices: 93254--93287 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
93244 TAGTCACATA
93254 TTCACATAGG-TATT
1 TTCACATAGGATATT
*
93268 TTCACGTAGGATATT
1 TTCACATAGGATATT
93283 TTCAC
1 TTCAC
93288 TTATAACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (15 bp):
TTCACATAGGATATT
Found at i:95078 original size:4 final size:4
Alignment explanation
Indices: 95064--95103 Score: 71
Period size: 4 Copynumber: 9.8 Consensus size: 4
95054 TCTCAATGCT
95064 ATAC TATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC -ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
95104 TACATTTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 31 0.89
5 4 0.11
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.28
Consensus pattern (4 bp):
ATAC
Found at i:107327 original size:21 final size:21
Alignment explanation
Indices: 107257--107329 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
107247 GATTTACATA
*
107257 TTCGCATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
* * * *
107278 TTCGCGTTGTGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCGAAG
107301 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
107320 TTCGCGTTGC
1 TTCGCGTTGC
107330 TTAGTCTAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
19 8 0.21
21 23 0.59
23 8 0.21
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCGAAG
Found at i:108880 original size:17 final size:17
Alignment explanation
Indices: 108858--108893 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
108848 TGAACCTTTA
108858 ATATATAATATTC-AAAT
1 ATATATAAT-TTCTAAAT
108875 ATATATAATTTCTAAAT
1 ATATATAATTTCTAAAT
108892 AT
1 AT
108894 TTAAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATATAATTTCTAAAT
Found at i:108893 original size:15 final size:16
Alignment explanation
Indices: 108857--108905 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
108847 TTGAACCTTT
108857 AATATATAATATTCAA
1 AATATATAATATTCAA
*
108873 ATATATATAAT-TTCTA
1 A-ATATATAATATTCAA
*
108889 AATATTTAA-ATT-AA
1 AATATATAATATTCAA
108903 AAT
1 AAT
108906 TAATTATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 4 0.14
15 9 0.32
16 6 0.21
17 9 0.32
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATAATATTCAA
Found at i:108999 original size:18 final size:17
Alignment explanation
Indices: 108976--109009 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
108966 CTCAATGATA
108976 AAAATAGTATTATTTTTT
1 AAAATA-TATTATTTTTT
*
108994 AAAATATCTTATTTTT
1 AAAATATATTATTTTT
109010 AAGCAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
AAAATATATTATTTTTT
Found at i:110736 original size:12 final size:12
Alignment explanation
Indices: 110719--110756 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
110709 TTTTTAAAGT
110719 TTAAAATAATCA
1 TTAAAATAATCA
*
110731 TTAAAAT-ATAA
1 TTAAAATAATCA
110742 TTAAAA-AATCA
1 TTAAAATAATCA
110753 TTAA
1 TTAA
110757 TTTTATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 16 0.70
12 7 0.30
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (12 bp):
TTAAAATAATCA
Found at i:113240 original size:17 final size:19
Alignment explanation
Indices: 113218--113258 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
113208 AGTGTCATCT
*
113218 AAAATATTTAAAA-ATA-A
1 AAAATATTAAAAACATATA
113235 AAAATATTAAAAACATATA
1 AAAATATTAAAAACATATA
113254 AAAAT
1 AAAAT
113259 TAATTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
18 3 0.14
19 6 0.29
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATATTAAAAACATATA
Found at i:119083 original size:18 final size:17
Alignment explanation
Indices: 119052--119092 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
119042 ATATATATAT
*
119052 ATATATAATATTATTTC
1 ATATATAATATTATTTA
*
119069 ATATCATAATGTTATTTA
1 ATAT-ATAATATTATTTA
119087 ATATAT
1 ATATAT
119093 CAAATATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (17 bp):
ATATATAATATTATTTA
Found at i:119536 original size:159 final size:158
Alignment explanation
Indices: 119352--119685 Score: 499
Period size: 159 Copynumber: 2.1 Consensus size: 158
119342 AGCATGTGGT
* * *
119352 TCAAATTTGGTAAAAAAAAAGAACTTAAAATAAATCACAAATTGAAGGAATAAGGATATTATGAA
1 TCAAATTTGGT-AAAAAAAAGAACTTAAAATAAATCACAAATTGAAGAAATAAGGAGATTATAAA
*
119417 AAATTGAAGGACTAAAGTGAAAAATAAAAATTT-TCTATCAAAAAAGAGGAATTAAAAGTACACA
65 AAATTGAAGGACTAAAGTGAAAAATAAAAATTTGT-TAT-AAAAAAGAGGAATTAAAAGTAAACA
* * * *
119481 TGTATTCTACTATGGTTTAGGAGCACGCGGC
128 CGTATTCTACTAAGGTTTAAGAGCACGAGGC
* *
119512 TCAAATTTGGTAAAAAAAAGAACTTAAAATAAATGACGAATTGAAGAAATAAGGAGATTATAAAA
1 TCAAATTTGGTAAAAAAAAGAACTTAAAATAAATCACAAATTGAAGAAATAAGGAGATTATAAAA
* * *
119577 AATTGAAGGACTAAATTGAAAAATAAAAATTTGTTATAAAAAAGAGGAATTGAATGTAAACACGT
66 AATTGAAGGACTAAAGTGAAAAATAAAAATTTGTTATAAAAAAGAGGAATTAAAAGTAAACACGT
* *
119642 ATTCTACTAAGGTTTAAGAGCATGAGGT
131 ATTCTACTAAGGTTTAAGAGCACGAGGC
119670 TCAAATTTGGTAAAAA
1 TCAAATTTGGTAAAAA
119686 TGGACTTAAA
Statistics
Matches: 158, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
158 63 0.40
159 83 0.53
160 12 0.08
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.26
Consensus pattern (158 bp):
TCAAATTTGGTAAAAAAAAGAACTTAAAATAAATCACAAATTGAAGAAATAAGGAGATTATAAAA
AATTGAAGGACTAAAGTGAAAAATAAAAATTTGTTATAAAAAAGAGGAATTAAAAGTAAACACGT
ATTCTACTAAGGTTTAAGAGCACGAGGC
Found at i:122580 original size:6 final size:6
Alignment explanation
Indices: 122569--123787 Score: 2158
Period size: 6 Copynumber: 205.5 Consensus size: 6
122559 AAGTGAAATG
122569 TATACA TATACA TATAC- -ATACA TATACA TATACA TATACA TATAC-
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
122614 -ATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
122661 TATACA TATACA TATAC- -ATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
122707 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
122755 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
122803 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
122851 TATACA TATACA TATACA TATACA TATACA TATACA TATAC- -ATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
122897 TATACA TATAC- -ATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
122943 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
122991 TATAC- -ATACA TATACA TATACA TATACA TATACA TAT--A TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
123035 TATACA TATACA TATAC- -ATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
123081 TATACA TATAC- -ATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
123127 TATACA TATACA TATACA TATAC- -ATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
123173 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
123221 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
123269 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACATA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATAC--A
123319 TATACA TATACA TATACA TATACATA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATAC--A TATACA TATACA TATACA TATACA
* * * * *
123369 TACACA TACACA TACACA TACATACA CATACA TACACA TATACA TATACA
1 TATACA TATACA TATACA T--ATACA TATACA TATACA TATACA TATACA
123419 TATACA TATACA TATACA TATACA TATACA TATAC- -ATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
123465 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
*
123513 TATACA TACATATA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA T--ATACA TATACA TATACA TATACA TATACA TATACA TATACA
123563 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
123611 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
123659 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
123707 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
123755 TATACA TATACA TATACA TATACA TATACA TAT
1 TATACA TATACA TATACA TATACA TATACA TAT
123788 GTATGCCTTG
Statistics
Matches: 1175, Mismatches: 8, Indels: 60
0.95 0.01 0.05
Matches are distributed among these distances:
4 44 0.04
6 1110 0.94
8 21 0.02
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
TATACA
Done.