Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold148_ERROPOS9177376
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: 99999
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Found at i:409 original size:119 final size:119
Alignment explanation
Indices: 277--512 Score: 311
Period size: 119 Copynumber: 2.0 Consensus size: 119
267 TTACTACTTG
*
277 TGTTTTTTGCTTAGCAAGATTCTCCA-G-TATTCTTAAACCTCT-ATTTTTTGGCT-GAGTAACT
1 TGTTTTTTCCTTAGCAAGATTCT--ATGTTATTCTTAAACCTCTGATTTTTT-G-TAGAGTAACT
* * *
338 ATGCTT-AATAATGTGTATAGTGTCTATTTTTTACTTAGCTCGTAGTTCATATTTATTA
62 A-CCTTCAATAATGAGTATAGTGTCTATTTTTTACTTAACTCGTAGTTCATATTTATTA
* *
396 TGTTTTTTCCTTAGCAGGATTCTATGTTATTCTTAATCCTCTGATTTTTTGTAGAGTAACTACCT
1 TGTTTTTTCCTTAGCAAGATTCTATGTTATTCTTAAACCTCTGATTTTTTGTAGAGTAACTACCT
* * *
461 TCAATAATGAGTATGGTGTTTATTTTTTACTTAACTCGTAGTTCCTATTTAT
66 TCAATAATGAGTATAGTGTCTATTTTTTACTTAACTCGTAGTTCATATTTAT
513 AAGAAAAATT
Statistics
Matches: 103, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
117 1 0.01
118 5 0.05
119 90 0.87
120 7 0.07
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.49
Consensus pattern (119 bp):
TGTTTTTTCCTTAGCAAGATTCTATGTTATTCTTAAACCTCTGATTTTTTGTAGAGTAACTACCT
TCAATAATGAGTATAGTGTCTATTTTTTACTTAACTCGTAGTTCATATTTATTA
Found at i:1029 original size:105 final size:105
Alignment explanation
Indices: 847--1062 Score: 342
Period size: 105 Copynumber: 2.1 Consensus size: 105
837 GCTGTTGATT
* * * * * *
847 TGTTTTGGTGAGTTGGATAATATGATATACCATCTCTCCATCTACCAATTTCACTTTTATACTAA
1 TGTTTTGGTAACTTGGAGAAGATGATATACCATCTCTCCATCCACAAATTTCACTTTTATACTAA
*
912 GACTAGTTTGTTAATTATCCTTAATTTACTTATTTAACTA
66 GACTAGTTTGTTAATTAACCTTAATTTACTTATTTAACTA
* *
952 TGTTTTGGTAACTTGGAGAAGATGATATACCATTTTTCCATCCACAAATTTCACTTTTATACTAA
1 TGTTTTGGTAACTTGGAGAAGATGATATACCATCTCTCCATCCACAAATTTCACTTTTATACTAA
*
1017 GATTAGTTTGTTAATTAACCTTAATTTACTTATTTAACTA
66 GACTAGTTTGTTAATTAACCTTAATTTACTTATTTAACTA
1057 TGTTTT
1 TGTTTT
1063 AATTAAATTA
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 101 1.00
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (105 bp):
TGTTTTGGTAACTTGGAGAAGATGATATACCATCTCTCCATCCACAAATTTCACTTTTATACTAA
GACTAGTTTGTTAATTAACCTTAATTTACTTATTTAACTA
Found at i:8105 original size:33 final size:33
Alignment explanation
Indices: 8024--8174 Score: 167
Period size: 33 Copynumber: 4.5 Consensus size: 33
8014 ACATCATCAG
* ** *
8024 TCCAACCAAACACACCAGATGCTCATTCGAGCCAA
1 TCCAACC-AACACACCA-ATGTTCATAAGAGCTAA
* * *
8059 TCCATCCATCACACCATTGTTCATAAGAGCTAA
1 TCCAACCAACACACCAATGTTCATAAGAGCTAA
* * *
8092 TCCAACTAGCACACCAATGCTCATAAGAGCTAA
1 TCCAACCAACACACCAATGTTCATAAGAGCTAA
* * *
8125 ACCAACCATCATACCAATGTTCATAAGAGCTAA
1 TCCAACCAACACACCAATGTTCATAAGAGCTAA
8158 TCCAACCAACACACCAA
1 TCCAACCAACACACCAA
8175 ATAGAGAGTA
Statistics
Matches: 96, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
33 82 0.85
34 8 0.08
35 6 0.06
ACGTcount: A:0.39, C:0.33, G:0.09, T:0.19
Consensus pattern (33 bp):
TCCAACCAACACACCAATGTTCATAAGAGCTAA
Found at i:8134 original size:66 final size:66
Alignment explanation
Indices: 8024--8174 Score: 203
Period size: 66 Copynumber: 2.3 Consensus size: 66
8014 ACATCATCAG
** * * *
8024 TCCAACCAAACACACCAGATGCTCATTCGAGCCAATCCATCCATCACACCATTGTTCATAAGAGC
1 TCCAACC-AACACACCA-ATGCTCATAAGAGCCAAACCAACCATCACACCAATGTTCATAAGAGC
8089 TAA
64 TAA
* * * *
8092 TCCAACTAGCACACCAATGCTCATAAGAGCTAAACCAACCATCATACCAATGTTCATAAGAGCTA
1 TCCAACCAACACACCAATGCTCATAAGAGCCAAACCAACCATCACACCAATGTTCATAAGAGCTA
8157 A
66 A
8158 TCCAACCAACACACCAA
1 TCCAACCAACACACCAA
8175 ATAGAGAGTA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
66 58 0.81
67 8 0.11
68 6 0.08
ACGTcount: A:0.39, C:0.33, G:0.09, T:0.19
Consensus pattern (66 bp):
TCCAACCAACACACCAATGCTCATAAGAGCCAAACCAACCATCACACCAATGTTCATAAGAGCTA
A
Found at i:11741 original size:46 final size:46
Alignment explanation
Indices: 11674--11802 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
11664 TGTAACCCGC
* * * *
11674 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
11720 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
11766 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
11803 TGCCCAAATA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:20075 original size:15 final size:14
Alignment explanation
Indices: 20053--20096 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 14
20043 CATATTTAAC
20053 TTTTTAAATTAATT
1 TTTTTAAATTAATT
20067 TTATTTAAAATTAATT
1 TT-TTT-AAATTAATT
20083 TTTTTAAATATAAT
1 TTTTTAAAT-TAAT
20097 ACACTAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.22
15 10 0.37
16 11 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTTAAATTAATT
Found at i:20234 original size:38 final size:41
Alignment explanation
Indices: 20165--20241 Score: 124
Period size: 38 Copynumber: 2.0 Consensus size: 41
20155 TAAAAAGTAT
*
20165 TTATATTAAAAAACACTACCATAAATATAATAAATATTTTG
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTTG
20206 TTATATT-AAAAACAC-A-AATAAATATAATAAATATTT
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTT
20242 CATTGTATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
38 19 0.54
39 1 0.03
40 8 0.23
41 7 0.20
ACGTcount: A:0.55, C:0.08, G:0.01, T:0.36
Consensus pattern (41 bp):
TTATATTAAAAAACACTACAATAAATATAATAAATATTTTG
Found at i:20366 original size:18 final size:18
Alignment explanation
Indices: 20343--20387 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
20333 GCATCAGGTG
20343 ATTTAATATATATATA-TT
1 ATTTAATATATATA-AGTT
*
20361 ATTTAACATATATAAGTT
1 ATTTAATATATATAAGTT
20379 ATTTAATAT
1 ATTTAATAT
20388 TGTTCTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
ATTTAATATATATAAGTT
Found at i:22898 original size:23 final size:23
Alignment explanation
Indices: 22869--22912 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
22859 GGTTTTCATA
22869 TTTTTATTTAATATTAATATAGT
1 TTTTTATTTAATATTAATATAGT
22892 TTTTTATTTAATATTAATATA
1 TTTTTATTTAATATTAATATA
22913 AAATTAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTTTATTTAATATTAATATAGT
Found at i:26858 original size:25 final size:25
Alignment explanation
Indices: 26825--26875 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
26815 GAATATCAAG
26825 ATGCCACACCACCTTCTCATGTTAT
1 ATGCCACACCACCTTCTCATGTTAT
*
26850 ATGCTACACCACCTTCTCATGTTAT
1 ATGCCACACCACCTTCTCATGTTAT
26875 A
1 A
26876 CACACAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.33, G:0.08, T:0.33
Consensus pattern (25 bp):
ATGCCACACCACCTTCTCATGTTAT
Found at i:29601 original size:33 final size:33
Alignment explanation
Indices: 29559--29693 Score: 124
Period size: 33 Copynumber: 4.3 Consensus size: 33
29549 TTTGTGCACA
*
29559 TTTCCTTTTCAAATGGTACACGCAAAGTATACC
1 TTTCCTTTTCAAATGGTACACACAAAGTATACC
29592 TTTCCTTTTCAAATGGT--ACACAAAG--TA--
1 TTTCCTTTTCAAATGGTACACACAAAGTATACC
* * * *
29619 -TGCCGTTTCAAGT-GTACACACAAAGTATACA
1 TTTCCTTTTCAAATGGTACACACAAAGTATACC
** ** *
29650 TAGCCTTTTCATGTGGTATACACAAAGTATACC
1 TTTCCTTTTCAAATGGTACACACAAAGTATACC
29683 TTTCCTTTTCA
1 TTTCCTTTTCA
29694 CATTTGATAG
Statistics
Matches: 83, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
25 2 0.02
26 10 0.12
27 8 0.10
29 4 0.05
31 7 0.08
32 10 0.12
33 42 0.51
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (33 bp):
TTTCCTTTTCAAATGGTACACACAAAGTATACC
Found at i:29657 original size:58 final size:60
Alignment explanation
Indices: 29565--29679 Score: 144
Period size: 58 Copynumber: 1.9 Consensus size: 60
29555 CACATTTCCT
* * **
29565 TTTCAAATGGTACACGCAAAGTATACCTTTCCTTTTCAAATGG-TACACAAAGTATGCCG
1 TTTCAAATGGTACACACAAAGTATACATAGCCTTTTCAAATGGATACACAAAGTATGCCG
* **
29624 TTTCAAGT-GTACACACAAAGTATACATAGCCTTTTCATGTGGTATACACAAAGTAT
1 TTTCAAATGGTACACACAAAGTATACATAGCCTTTTCAAATGG-ATACACAAAGTAT
29680 ACCTTTCCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
58 28 0.60
59 7 0.15
60 12 0.26
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (60 bp):
TTTCAAATGGTACACACAAAGTATACATAGCCTTTTCAAATGGATACACAAAGTATGCCG
Found at i:29731 original size:29 final size:29
Alignment explanation
Indices: 29686--29754 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
29676 GTATACCTTT
*
29686 CCTTTTCACATTTGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCAAAGCTATC
* *
29715 CCTTTTCACATTCGATAGTCGAAGCTATC
1 CCTTTTCACATTCGATAGCCAAAGCTATC
29744 CCTTTTCACAT
1 CCTTTTCACAT
29755 GGTACACACA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.25, C:0.29, G:0.10, T:0.36
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCAAAGCTATC
Found at i:30579 original size:20 final size:21
Alignment explanation
Indices: 30546--30586 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
30536 GTGATTTCTC
* *
30546 TATCAATAACCTTTTATTTTA
1 TATCAATAAACTTTTAATTTA
30567 TATC-ATAAACTTTTAATTTA
1 TATCAATAAACTTTTAATTTA
30587 CAACATATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (21 bp):
TATCAATAAACTTTTAATTTA
Found at i:30593 original size:20 final size:20
Alignment explanation
Indices: 30551--30593 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
30541 TTCTCTATCA
* * * *
30551 ATAACCTTTTATTTTATATC
1 ATAAACTTTTAATTTACAAC
30571 ATAAACTTTTAATTTACAAC
1 ATAAACTTTTAATTTACAAC
30591 ATA
1 ATA
30594 TTCATCCATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAACTTTTAATTTACAAC
Found at i:32099 original size:39 final size:39
Alignment explanation
Indices: 31925--32101 Score: 221
Period size: 39 Copynumber: 4.5 Consensus size: 39
31915 ATTCACTTTT
* * * *
31925 AAGCATATATTACATTACACATATAATCACATAACACTT-
1 AAGCATATATCACAATACTCATATAATTACATAACA-TTC
**
31964 AAGCATATATCACAATACTCATATAATTACATAATGTTC
1 AAGCATATATCACAATACTCATATAATTACATAACATTC
* * *
32003 AAGCACATATCGCGATACTCATATAATTACATAACATTC
1 AAGCATATATCACAATACTCATATAATTACATAACATTC
* **
32042 AAGCATACATCGTAATACTCATATAATTACATAACATTC
1 AAGCATATATCACAATACTCATATAATTACATAACATTC
*
32081 AAGCATATGTCACAATACTCA
1 AAGCATATATCACAATACTCA
32102 AAAACATGTT
Statistics
Matches: 118, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
38 2 0.02
39 116 0.98
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.30
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATTACATAACATTC
Found at i:33503 original size:21 final size:21
Alignment explanation
Indices: 33479--33518 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
33469 ACTTGACAAT
33479 TGACACGAAGTAAAATTAACA
1 TGACACGAAGTAAAATTAACA
** *
33500 TGACTTGAAGTCAAATTAA
1 TGACACGAAGTAAAATTAA
33519 AATTGAAATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.25
Consensus pattern (21 bp):
TGACACGAAGTAAAATTAACA
Found at i:38488 original size:13 final size:13
Alignment explanation
Indices: 38470--38501 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
38460 TAGCTGCTAG
38470 AGAAAAAAAAAAA
1 AGAAAAAAAAAAA
*
38483 AGAAAAAAAAAGA
1 AGAAAAAAAAAAA
38496 AGAAAA
1 AGAAAA
38502 CTACACAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAAA
Found at i:47322 original size:14 final size:14
Alignment explanation
Indices: 47303--47332 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47293 TATTTTCAAG
47303 ATAGATTAACGCAT
1 ATAGATTAACGCAT
*
47317 ATAGATTCACGCAT
1 ATAGATTAACGCAT
47331 AT
1 AT
47333 TTATAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (14 bp):
ATAGATTAACGCAT
Found at i:50607 original size:11 final size:10
Alignment explanation
Indices: 50570--50610 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
50560 TCAATACACT
*
50570 GATTAGTTTA
1 GATTATTTTA
50580 GATTATTTTA
1 GATTATTTTA
50590 GATTATTTTA
1 GATTATTTTA
*
50600 TTATTATTTTA
1 -GATTATTTTA
50611 CCTATGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
10 19 0.68
11 9 0.32
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (10 bp):
GATTATTTTA
Found at i:51965 original size:46 final size:46
Alignment explanation
Indices: 51898--51989 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
51888 TGGTATTGGT
51898 ACTGTTAAAATTAAGATGCACGATGGGACGATTAGGACTATAACAA
1 ACTGTTAAAATTAAGATGCACGATGGGACGATTAGGACTATAACAA
*
51944 ACTGTTAAAATTAAGATGCACGATGGGACGATTAGGACTGTAACAA
1 ACTGTTAAAATTAAGATGCACGATGGGACGATTAGGACTATAACAA
51990 CCCATATTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (46 bp):
ACTGTTAAAATTAAGATGCACGATGGGACGATTAGGACTATAACAA
Found at i:52340 original size:3 final size:3
Alignment explanation
Indices: 52332--52365 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
52322 ATATTTACTT
52332 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
52366 ATTGAGATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:52749 original size:20 final size:20
Alignment explanation
Indices: 52724--52793 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
52714 TACCCATGGG
*
52724 CAGGCCACATGGGCATGTTC
1 CAGGCCACACGGGCATGTTC
52744 CAGGCCACACGGGCATGTTC
1 CAGGCCACACGGGCATGTTC
* *
52764 CAGGCCATACGGGCATGTCC
1 CAGGCCACACGGGCATGTTC
52784 CAGGCCACAC
1 CAGGCCACAC
52794 AGGCGTGTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.21, C:0.36, G:0.29, T:0.14
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTTC
Found at i:55051 original size:170 final size:170
Alignment explanation
Indices: 54765--55106 Score: 675
Period size: 170 Copynumber: 2.0 Consensus size: 170
54755 TCATGGGGCC
54765 CCAATATGATCCATTCTATGGCAGTATTAAACACTTGCCAGTGGTACCATAATCATATAGTTTAC
1 CCAATATGATCCATTCTATGGCAGTATTAAACACTTGCCAGTGGTACCATAATCATATAGTTTAC
54830 AAGTATTTAAAATGATTAACTTAAGAGTTTATTTAAGTTCATTGATATTATTTAAGAGTATCTAA
66 AAGTATTTAAAATGATTAACTTAAGAGTTTATTTAAGTTCATTGATATTATTTAAGAGTATCTAA
54895 GCGCAGTAACATAATCATATAGTTTACAAGGGTCACTAAA
131 GCGCAGTAACATAATCATATAGTTTACAAGGGTCACTAAA
54935 CCAATATGATCCATTCTATGGCAGTATTAAACACTTGCCAGTGGTACCATAATCATATAGTTTAC
1 CCAATATGATCCATTCTATGGCAGTATTAAACACTTGCCAGTGGTACCATAATCATATAGTTTAC
*
55000 AAGTATTTAAAATGATTAACTTAAGAGTTTATTTAAGTTCATTGGTATTATTTAAGAGTATCTAA
66 AAGTATTTAAAATGATTAACTTAAGAGTTTATTTAAGTTCATTGATATTATTTAAGAGTATCTAA
55065 GCGCAGTAACATAATCATATAGTTTACAAGGGTCACTAAA
131 GCGCAGTAACATAATCATATAGTTTACAAGGGTCACTAAA
55105 CC
1 CC
55107 TTCCATCTTA
Statistics
Matches: 171, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 171 1.00
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.35
Consensus pattern (170 bp):
CCAATATGATCCATTCTATGGCAGTATTAAACACTTGCCAGTGGTACCATAATCATATAGTTTAC
AAGTATTTAAAATGATTAACTTAAGAGTTTATTTAAGTTCATTGATATTATTTAAGAGTATCTAA
GCGCAGTAACATAATCATATAGTTTACAAGGGTCACTAAA
Found at i:60268 original size:3 final size:3
Alignment explanation
Indices: 60260--60284 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
60250 CGAACTTGCC
60260 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
60285 AAACTCGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:68739 original size:50 final size:50
Alignment explanation
Indices: 68589--68835 Score: 293
Period size: 50 Copynumber: 4.8 Consensus size: 50
68579 GATAATAACA
* ** *
68589 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGG
* * *
68640 TGCCCATGCCATGTCCCAGACAT-GTCTTATA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
68688 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* * *
68738 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TC-T-CGG
*
68793 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
68836 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
47 1 0.01
48 28 0.17
49 11 0.07
50 63 0.37
51 21 0.12
52 1 0.01
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:68766 original size:99 final size:103
Alignment explanation
Indices: 68588--68835 Score: 337
Period size: 99 Copynumber: 2.4 Consensus size: 103
68578 TGATAATAAC
**
68588 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
68653 TCCCAGACATGTCTTATA-GGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
68688 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
68751 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACAT-GTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
68793 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
68836 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
97 1 0.01
98 31 0.24
99 43 0.33
100 10 0.08
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.31
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.26
Consensus pattern (103 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:68950 original size:13 final size:13
Alignment explanation
Indices: 68929--68960 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
68919 GCTTGGATCA
*
68929 TCATCAAATAAAT
1 TCATAAAATAAAT
68942 TCATAAAATAAAT
1 TCATAAAATAAAT
68955 TCATAA
1 TCATAA
68961 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:76322 original size:31 final size:31
Alignment explanation
Indices: 76286--76345 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
76276 CCCTCACTCT
76286 AACTTTTT-CAAAATTACACATTTTGCCCCTA
1 AACTTTTTACAAAATTACA-ATTTTGCCCCTA
* *
76317 AACTTTTTACATAATTACATTTTTGCCCC
1 AACTTTTTACAAAATTACAATTTTGCCCC
76346 AAGGCTCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.42
Consensus pattern (31 bp):
AACTTTTTACAAAATTACAATTTTGCCCCTA
Found at i:81672 original size:19 final size:20
Alignment explanation
Indices: 81645--81689 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
81635 AAATAAATTA
81645 AATACAAAAAATT-ATAAAT
1 AATACAAAAAATTAATAAAT
* *
81664 AATATAAAAAATTAATACAT
1 AATACAAAAAATTAATAAAT
81684 AATACA
1 AATACA
81690 TAAACAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (20 bp):
AATACAAAAAATTAATAAAT
Found at i:83681 original size:21 final size:22
Alignment explanation
Indices: 83657--83713 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
83647 AAAATTTTAA
*
83657 TTAATTTATATAAATT-TAATT
1 TTAATTTATATAAATTCAAATT
* *
83678 TTAA-TCAGTTTAAATTCAAATT
1 TTAATTTA-TATAAATTCAAATT
*
83700 TTATTTTATATAAA
1 TTAATTTATATAAA
83714 AACAAAATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
20 2 0.07
21 11 0.41
22 12 0.44
23 2 0.07
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAATTTATATAAATTCAAATT
Found at i:83689 original size:25 final size:27
Alignment explanation
Indices: 83649--83707 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 27
83639 ATTTTATGAA
* *
83649 AATTTTAATTAATTTATA-T-AAATTT
1 AATTTTAATCAATTTAAATTCAAATTT
*
83674 AATTTTAATCAGTTTAAATTCAAATTT
1 AATTTTAATCAATTTAAATTCAAATTT
*
83701 TATTTTA
1 AATTTTA
83708 TATAAAAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 15 0.54
26 1 0.04
27 12 0.43
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (27 bp):
AATTTTAATCAATTTAAATTCAAATTT
Found at i:85268 original size:32 final size:31
Alignment explanation
Indices: 85232--85295 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 31
85222 CCAGCCTTTG
*
85232 GGGGCAAACAA-TGTAATTATGATAAAAGTTTA
1 GGGGCAAA-AATTGTAATTATGA-AAAAGGTTA
*
85264 GGGGCAAAAATTGTAATTTTGAAAAAGGTTA
1 GGGGCAAAAATTGTAATTATGAAAAAGGTTA
85295 G
1 G
85296 AGTCGAGGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.42, C:0.05, G:0.25, T:0.28
Consensus pattern (31 bp):
GGGGCAAAAATTGTAATTATGAAAAAGGTTA
Found at i:85521 original size:13 final size:13
Alignment explanation
Indices: 85503--85534 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
85493 TTTTCAGCAA
85503 TTATGAATTTATT
1 TTATGAATTTATT
85516 TTATGAATTTATT
1 TTATGAATTTATT
*
85529 TGATGA
1 TTATGA
85535 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:85776 original size:50 final size:50
Alignment explanation
Indices: 85629--85875 Score: 261
Period size: 50 Copynumber: 4.8 Consensus size: 50
85619 ATTTGGGTAA
* *
85629 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAAGATC-
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC---GAGA-CG
*
85683 ATGGAGGTCCC-TGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 A--GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* *
85734 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * *
85784 AGAGGTCCCCTATAAGACCATGTCT-GGACAATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGAC-ATGGCATTGGCACCGA-GACG
** *
85834 AGAACATCCCATGTAAGACCATGTCTGGGACAT-GCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
85876 TGTTATTATC
Statistics
Matches: 167, Mismatches: 18, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
49 13 0.08
50 84 0.50
51 25 0.15
52 4 0.02
54 3 0.02
55 31 0.19
56 7 0.04
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:85874 original size:100 final size:102
Alignment explanation
Indices: 85633--85876 Score: 311
Period size: 100 Copynumber: 2.4 Consensus size: 102
85623 GGGTAAAGAG
*
85633 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAAGATCATGGAGGTCCCTGTA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-T-AAGATCA-GGAGGTCCCTATA
* *
85698 AGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAG
63 AGACCATGTCTGGGACATGGCATGGGCACCGACACGAGAC
* * * *
85738 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAGATGA-GAGGTCCCCTATAAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAAGATCAGGAGGT-CCCTATAAG
85800 ACCATGTCT-GGACAATGGCATGGGCACC-ATCACGAGAAC
65 ACCATGTCTGGGAC-ATGGCATGGGCACCGA-CACGAG-AC
*
85839 ATCCCATGTAAGACCATGTCTGGGACAT-GCTTTGGCAT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
85877 GTTATTATCA
Statistics
Matches: 125, Mismatches: 9, Indels: 14
0.84 0.06 0.09
Matches are distributed among these distances:
99 10 0.08
100 44 0.35
101 33 0.26
104 2 0.02
105 36 0.29
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.21
Consensus pattern (102 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAAGATCAGGAGGTCCCTATAAGA
CCATGTCTGGGACATGGCATGGGCACCGACACGAGAC
Found at i:92966 original size:13 final size:13
Alignment explanation
Indices: 92948--92974 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
92938 TTTTCAGCAA
92948 TTATGAATTTATT
1 TTATGAATTTATT
92961 TTATGAATTTATT
1 TTATGAATTTATT
92974 T
1 T
92975 GACTGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:93271 original size:105 final size:97
Alignment explanation
Indices: 93077--93325 Score: 261
Period size: 105 Copynumber: 2.4 Consensus size: 97
93067 TTTGGGTTAA
93077 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
93142 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAACG
63 CTATAAGACCATGTCTGGGACATGGCA---CCACC--ACG
* * *
93182 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
93244 TAAAGACCATGTCTGGGACATGGCATGGCACCATCACG
66 T-AAGACCATGTCTGGG--A---CATGGCACCACCACG
* * *
93282 AGAACATCCCATGTAGGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
93326 GTATTATCAG
Statistics
Matches: 126, Mismatches: 10, Indels: 19
0.81 0.06 0.12
Matches are distributed among these distances:
99 15 0.12
100 22 0.17
101 36 0.29
102 4 0.03
104 2 0.02
105 47 0.37
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (97 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCACCACCACG
Found at i:93305 original size:50 final size:49
Alignment explanation
Indices: 93077--93317 Score: 261
Period size: 50 Copynumber: 4.7 Consensus size: 49
93067 TTTGGGTTAA
* *
93077 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TGGCA-CC----GA-CACG
*
93133 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-ACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT-GGCACCGACACG
* * *
93182 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC-ATGGCACCGACACG
* *
93232 AGAGGTCCCCTATAAAGACCATGTCTGGGACATGGCATGGCACC-ATCACG
1 AGAGGTCCCATGT-AAGACCATGTCTGGGACATGGCATGGCACCGA-CACG
** *
93282 AGAACATCCCATGTAGGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
93318 TTTGGCATGT
Statistics
Matches: 163, Mismatches: 16, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
49 45 0.28
50 46 0.28
51 31 0.19
55 3 0.02
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (49 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGCACCGACACG
Found at i:95261 original size:23 final size:22
Alignment explanation
Indices: 95231--95309 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 22
95221 GTGGCGTCCC
95231 GAAGAAGAAGAAGAGAAAAAAAA
1 GAAGAAGAA-AAGAGAAAAAAAA
* *
95254 GAAGAAG-AAAG-GGAAGAAAA
1 GAAGAAGAAAAGAGAAAAAAAA
*
95274 GGAGAAAGAAAAAGAGAAAGAAAAA
1 GAAG-AAG-AAAAGAGAAA-AAAAA
*
95299 GAAAAAGAAAA
1 GAAGAAGAAAA
95310 AAAAATTTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
20 10 0.23
21 6 0.14
22 1 0.02
23 15 0.34
24 6 0.14
25 6 0.14
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (22 bp):
GAAGAAGAAAAGAGAAAAAAAA
Found at i:95279 original size:32 final size:33
Alignment explanation
Indices: 95234--95296 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
95224 GCGTCCCGAA
95234 GAAGAAGAAGAGAAA-AAAAAGA-AGAAGAAAGG
1 GAAGAAGAAGAGAAAGAAAAAGAGA-AAGAAAGG
95266 GAAGAA-AAGGAGAAAGAAAAAGAGAAAGAAA
1 GAAGAAGAA-GAGAAAGAAAAAGAGAAAGAAA
95297 AAGAAAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 2 0.07
32 12 0.43
33 13 0.46
34 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (33 bp):
GAAGAAGAAGAGAAAGAAAAAGAGAAAGAAAGG
Found at i:95282 original size:24 final size:24
Alignment explanation
Indices: 95235--95310 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 24
95225 CGTCCCGAAG
* *
95235 AAGAAGAAGAGAAA-AAAAAGAAG
1 AAGAAAAAGAGAAAGAAAAAGAAA
* * *
95258 AAG--AAAG-GGAAGAAAAGGAGA
1 AAGAAAAAGAGAAAGAAAAAGAAA
95279 AAGAAAAAGAGAAAGAAAAAGAAA
1 AAGAAAAAGAGAAAGAAAAAGAAA
95303 AAGAAAAA
1 AAGAAAAA
95311 AAAATTTAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
20 3 0.07
21 12 0.29
23 7 0.17
24 19 0.46
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (24 bp):
AAGAAAAAGAGAAAGAAAAAGAAA
Found at i:95293 original size:6 final size:6
Alignment explanation
Indices: 95235--95314 Score: 65
Period size: 6 Copynumber: 13.2 Consensus size: 6
95225 CGTCCCGAAG
* * * * *
95235 AAGAAG AAGAGA AA-AAA AAGAAG AAGAAA GGGAAGAAA AGGAGA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA ---AAGAAA AAGAAA AAGAAA
*
95285 AAGAGA AAGAAA AAGAAA AAGAAA AA-AAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA A
95315 TTTAAAAGTC
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
5 8 0.14
6 45 0.76
9 6 0.10
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:95633 original size:13 final size:13
Alignment explanation
Indices: 95615--95645 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
95605 CTCAGCAGAG
95615 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
*
95628 AAAAGAAAAAAAG
1 AAAAGAAAAAAAA
95641 AAAAG
1 AAAAG
95646 GGCCCACAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAA
Found at i:96228 original size:15 final size:17
Alignment explanation
Indices: 96189--96229 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
96179 AAAAAAATTA
96189 TGTTTTCAAACTTTCCG
1 TGTTTTCAAACTTTCCG
*
96206 TG-TTTCAAA-TTT-TG
1 TGTTTTCAAACTTTCCG
96220 TGTTTTCAAA
1 TGTTTTCAAA
96230 ATTCATGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 3 0.14
15 10 0.45
16 7 0.32
17 2 0.09
ACGTcount: A:0.22, C:0.15, G:0.12, T:0.51
Consensus pattern (17 bp):
TGTTTTCAAACTTTCCG
Found at i:96276 original size:19 final size:18
Alignment explanation
Indices: 96252--96304 Score: 65
Period size: 17 Copynumber: 2.9 Consensus size: 18
96242 CGTGTTTTCC
96252 AAAAAAATCTCATGTTTTT
1 AAAAAAAT-TCATGTTTTT
*
96271 AAAAAAATT--TCGTGTTT
1 AAAAAAATTCAT-GTTTTT
96288 AAAAAAATTCATGTTTT
1 AAAAAAATTCATGTTTT
96305 CACAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
16 1 0.03
17 14 0.48
18 5 0.17
19 9 0.31
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (18 bp):
AAAAAAATTCATGTTTTT
Found at i:96291 original size:16 final size:16
Alignment explanation
Indices: 96252--96303 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 16
96242 CGTGTTTTCC
96252 AAAAAAATCTCATGTTTTT
1 AAAAAAAT-TCATG--TTT
*
96271 AAAAAAATTTCGTGTTT
1 AAAAAAA-TTCATGTTT
96288 AAAAAAATTCATGTTT
1 AAAAAAATTCATGTTT
96304 TCACAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 8 0.27
17 10 0.33
19 11 0.37
20 1 0.03
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (16 bp):
AAAAAAATTCATGTTT
Done.