Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2450_ERROPOS131173
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: 131173
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:623 original size:11 final size:11
Alignment explanation
Indices: 607--656 Score: 77
Period size: 11 Copynumber: 4.7 Consensus size: 11
597 AGTTTCTCGA
*
607 AAAAAAAACTC
1 AAAAAAAATTC
618 AAAAAAAATT-
1 AAAAAAAATTC
628 -AAAAAAATTC
1 AAAAAAAATTC
638 AAAAAAAATTC
1 AAAAAAAATTC
649 AAAAAAAA
1 AAAAAAAA
657 ATTTTTTTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:633 original size:20 final size:21
Alignment explanation
Indices: 608--655 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
598 GTTTCTCGAA
608 AAAAAAACTCAAAAAAAATT-
1 AAAAAAACTCAAAAAAAATTC
*
628 AAAAAAATTCAAAAAAAATTC
1 AAAAAAACTCAAAAAAAATTC
649 AAAAAAA
1 AAAAAAA
656 AATTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (21 bp):
AAAAAAACTCAAAAAAAATTC
Found at i:725 original size:14 final size:14
Alignment explanation
Indices: 701--754 Score: 94
Period size: 14 Copynumber: 4.0 Consensus size: 14
691 GGATATCAAG
701 TTGTGAAAAAAAAA
1 TTGTGAAAAAAAAA
715 TT-TG-AAAAAAAA
1 TTGTGAAAAAAAAA
727 TTGTGAAAAAAAAA
1 TTGTGAAAAAAAAA
741 TTGTGAAAAAAAAA
1 TTGTGAAAAAAAAA
755 GAGAGCTAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.26
13 4 0.11
14 24 0.63
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.22
Consensus pattern (14 bp):
TTGTGAAAAAAAAA
Found at i:730 original size:26 final size:27
Alignment explanation
Indices: 701--753 Score: 99
Period size: 26 Copynumber: 2.0 Consensus size: 27
691 GGATATCAAG
701 TTGTGAAAAAAAAATT-TGAAAAAAAA
1 TTGTGAAAAAAAAATTGTGAAAAAAAA
727 TTGTGAAAAAAAAATTGTGAAAAAAAA
1 TTGTGAAAAAAAAATTGTGAAAAAAAA
754 AGAGAGCTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.23
Consensus pattern (27 bp):
TTGTGAAAAAAAAATTGTGAAAAAAAA
Found at i:6277 original size:21 final size:23
Alignment explanation
Indices: 6232--6278 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
6222 TCACCTGCAA
* *
6232 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
6255 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
6276 TAA
1 TAA
6279 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:10913 original size:79 final size:79
Alignment explanation
Indices: 10782--10940 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
10772 CATGCTGATA
10782 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
10847 TGTTGTTTGTGTTT
66 TGTTGTTTGTGTTT
10861 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
10926 TGTTGTTTGTGTTT
66 TGTTGTTTGTGTTT
10940 T
1 T
10941 AATGAATAAG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.18, C:0.04, G:0.24, T:0.55
Consensus pattern (79 bp):
TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
TGTTGTTTGTGTTT
Found at i:11227 original size:52 final size:52
Alignment explanation
Indices: 11144--11244 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
11134 TAAGGCAACG
* *
11144 TAATGGACAGCAGCTTAAGATCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
11196 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
11245 TATGTGCATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (52 bp):
TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
Found at i:15478 original size:47 final size:47
Alignment explanation
Indices: 15424--15917 Score: 808
Period size: 47 Copynumber: 10.5 Consensus size: 47
15414 ATTCAGCCAA
15424 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
15471 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
15518 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
15565 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
15614 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
15661 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
15708 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
15755 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
15802 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
15849 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
15896 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
15918 TCCCGAAGGG
Statistics
Matches: 424, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 377 0.89
49 47 0.11
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:16090 original size:37 final size:37
Alignment explanation
Indices: 16034--16112 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
16024 CCGAGCTCTA
* *
16034 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
16071 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
16108 AAGAC
1 AAGAC
16113 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:17816 original size:46 final size:46
Alignment explanation
Indices: 17763--17856 Score: 163
Period size: 46 Copynumber: 2.0 Consensus size: 46
17753 CAAAGAAAAG
*
17763 ACCTCGACCCACTATCAA-GAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATG-ATGATAAGAACCTTGGTATATGATGA
17809 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
17855 AC
1 AC
17857 GCCACACTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 45 0.98
47 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (46 bp):
ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
Found at i:19170 original size:46 final size:46
Alignment explanation
Indices: 19117--19210 Score: 163
Period size: 46 Copynumber: 2.0 Consensus size: 46
19107 CAAAGAAAAG
*
19117 ACCTCGACCCACTATCAA-GAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATG-ATGATAAGAACCTTGGTATATGATGA
19163 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
19209 AC
1 AC
19211 GCCACACTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 45 0.98
47 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (46 bp):
ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
Found at i:22996 original size:15 final size:16
Alignment explanation
Indices: 22976--23016 Score: 75
Period size: 15 Copynumber: 2.6 Consensus size: 16
22966 TAGCTTCTTC
22976 TTTTTTTTCACGAAAT
1 TTTTTTTTCACGAAAT
22992 TTTTTTTTCACG-AAT
1 TTTTTTTTCACGAAAT
23007 TTTTTTTTCA
1 TTTTTTTTCA
23017 ACTTGATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.20, C:0.12, G:0.05, T:0.63
Consensus pattern (16 bp):
TTTTTTTTCACGAAAT
Found at i:23450 original size:46 final size:46
Alignment explanation
Indices: 23397--23489 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
23387 CAAAGAAAAG
*
23397 ACCTCGACCCACTATCAA-GAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATG-ATGATAAGAACCTTGGTATATGATGA
23443 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
23489 A
1 A
23490 TGCCACACTA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 44 0.98
47 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (46 bp):
ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
Found at i:24156 original size:21 final size:22
Alignment explanation
Indices: 24112--24157 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
24102 TCACCTGCAA
* *
24112 TAAACACATTAAAATGATTTAT
1 TAAACACATTAAAATCACTTAT
24134 TAAACACATTAAAA-CACTTAT
1 TAAACACATTAAAATCACTTAT
24155 TAA
1 TAA
24158 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (22 bp):
TAAACACATTAAAATCACTTAT
Found at i:29292 original size:79 final size:79
Alignment explanation
Indices: 29161--29319 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
29151 CATGCTGATA
29161 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
29226 TGTTGTTTGTGTTT
66 TGTTGTTTGTGTTT
29240 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
29305 TGTTGTTTGTGTTT
66 TGTTGTTTGTGTTT
29319 T
1 T
29320 AATGAATAAG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.18, C:0.04, G:0.24, T:0.55
Consensus pattern (79 bp):
TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
TGTTGTTTGTGTTT
Found at i:29636 original size:52 final size:52
Alignment explanation
Indices: 29522--29622 Score: 166
Period size: 52 Copynumber: 1.9 Consensus size: 52
29512 TAAGGCAACG
* * * *
29522 TAATGGACAGCAGCTTAAGATCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
1 TAATAGACAGCAGCTTAAAACCTCATTTCTAGCTCGATTGAAGCTCAAACAA
29574 TAATAGACAGCAGCTTAAAACCTCATTTCTAGCTCGATTGAAGCTCAAA
1 TAATAGACAGCAGCTTAAAACCTCATTTCTAGCTCGATTGAAGCTCAAA
29623 TATGTGCATA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.27
Consensus pattern (52 bp):
TAATAGACAGCAGCTTAAAACCTCATTTCTAGCTCGATTGAAGCTCAAACAA
Found at i:31125 original size:18 final size:18
Alignment explanation
Indices: 31102--31143 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
31092 GTTTTTAAGG
*
31102 AGTTT-TTTAATTTAATA
1 AGTTTATTTAAATTAATA
31119 TAGTTTTATTTAAATTAATA
1 -AG-TTTATTTAAATTAATA
31139 AGTTT
1 AGTTT
31144 GCATATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.24
19 5 0.24
20 11 0.52
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (18 bp):
AGTTTATTTAAATTAATA
Found at i:31389 original size:27 final size:27
Alignment explanation
Indices: 31338--31389 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
31328 CTCATCTTAG
** *
31338 TTTAATTAATAAGTGTTTTTGTTAAAC
1 TTTAATTAATAAGTGTTGCTCTTAAAC
31365 TTTAATTAATAAGTGTTGCTCTTAA
1 TTTAATTAATAAGTGTTGCTCTTAA
31390 TTAATCTAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.50
Consensus pattern (27 bp):
TTTAATTAATAAGTGTTGCTCTTAAAC
Found at i:37759 original size:16 final size:17
Alignment explanation
Indices: 37727--37772 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
37717 CATCCCTTGG
37727 GGTTAGTTCATTCTCTT
1 GGTTAGTTCATTCTCTT
*
37744 GGTTAGTTGA-TCTCTT
1 GGTTAGTTCATTCTCTT
* *
37760 GCTTAGTTTATTC
1 GGTTAGTTCATTC
37773 CATTTACTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.13, C:0.15, G:0.20, T:0.52
Consensus pattern (17 bp):
GGTTAGTTCATTCTCTT
Found at i:42702 original size:126 final size:126
Alignment explanation
Indices: 42477--42728 Score: 495
Period size: 126 Copynumber: 2.0 Consensus size: 126
42467 TACCGAAGGT
*
42477 TTGTGCCTAATTTTTGTTCTGTAGCTGCCCCCTTGACAGGTATAATTAAGAAAAACTCTCCTTTT
1 TTGTGCCTAATTTTAGTTCTGTAGCTGCCCCCTTGACAGGTATAATTAAGAAAAACTCTCCTTTT
42542 ATTTGGACTGATGAACAAGAGAATTCTTTTAACAAGCTTAAAGAATGTCTAACTAATGCAC
66 ATTTGGACTGATGAACAAGAGAATTCTTTTAACAAGCTTAAAGAATGTCTAACTAATGCAC
42603 TTGTGCCTAATTTTAGTTCTGTAGCTGCCCCCTTGACAGGTATAATTAAGAAAAACTCTCCTTTT
1 TTGTGCCTAATTTTAGTTCTGTAGCTGCCCCCTTGACAGGTATAATTAAGAAAAACTCTCCTTTT
42668 ATTTGGACTGATGAACAAGAGAATTCTTTTAACAAGCTTAAAGAATGTCTAACTAATGCAC
66 ATTTGGACTGATGAACAAGAGAATTCTTTTAACAAGCTTAAAGAATGTCTAACTAATGCAC
42729 CATTGTTGTC
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 125 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (126 bp):
TTGTGCCTAATTTTAGTTCTGTAGCTGCCCCCTTGACAGGTATAATTAAGAAAAACTCTCCTTTT
ATTTGGACTGATGAACAAGAGAATTCTTTTAACAAGCTTAAAGAATGTCTAACTAATGCAC
Found at i:43844 original size:21 final size:23
Alignment explanation
Indices: 43799--43845 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
43789 TCACCTGCAA
* *
43799 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
43822 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
43843 TAA
1 TAA
43846 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:55957 original size:12 final size:12
Alignment explanation
Indices: 55940--55990 Score: 77
Period size: 12 Copynumber: 4.2 Consensus size: 12
55930 TAGTAGTTTC
55940 TTCAAAAAAAAT
1 TTCAAAAAAAAT
55952 TTCAAAAAAAA-
1 TTCAAAAAAAAT
*
55963 TTCAAAAAAAAA
1 TTCAAAAAAAAT
55975 TTCAAAAAAAAAT
1 TTC-AAAAAAAAT
55988 TTC
1 TTC
55991 CATTCAAACT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
11 11 0.31
12 14 0.39
13 11 0.31
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (12 bp):
TTCAAAAAAAAT
Found at i:55970 original size:23 final size:23
Alignment explanation
Indices: 55940--55985 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
55930 TAGTAGTTTC
*
55940 TTCAAAAAAAATTTCAAAAAAAA
1 TTCAAAAAAAAATTCAAAAAAAA
55963 TTCAAAAAAAAATTCAAAAAAAA
1 TTCAAAAAAAAATTCAAAAAAAA
55986 ATTTCCATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.20
Consensus pattern (23 bp):
TTCAAAAAAAAATTCAAAAAAAA
Found at i:56041 original size:15 final size:16
Alignment explanation
Indices: 56021--56058 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
56011 GATATCAAGT
56021 TGAAAAAAAAA-TTCG
1 TGAAAAAAAAATTTCG
56036 TGAAAAAAAAATTTCG
1 TGAAAAAAAAATTTCG
56052 TGAAAAA
1 TGAAAAA
56059 GAAGAAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.61, C:0.05, G:0.13, T:0.21
Consensus pattern (16 bp):
TGAAAAAAAAATTTCG
Found at i:56044 original size:16 final size:16
Alignment explanation
Indices: 56023--56058 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
56013 TATCAAGTTG
56023 AAAAAAAAATTCGTGA
1 AAAAAAAAATTCGTGA
*
56039 AAAAAAAATTTCGTGA
1 AAAAAAAAATTCGTGA
56055 AAAA
1 AAAA
56059 GAAGAAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.64, C:0.06, G:0.11, T:0.19
Consensus pattern (16 bp):
AAAAAAAAATTCGTGA
Found at i:74217 original size:21 final size:22
Alignment explanation
Indices: 74169--74210 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
74159 AAAGGAGAAG
74169 AGAAAAATAAAAGTGAAAAAGA
1 AGAAAAATAAAAGTGAAAAAGA
*
74191 AGAAAATTAAAA-TGAAAAAG
1 AGAAAAATAAAAGTGAAAAAG
74211 GCGAAAAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (22 bp):
AGAAAAATAAAAGTGAAAAAGA
Found at i:74321 original size:36 final size:33
Alignment explanation
Indices: 74256--74322 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
74246 GTGAATGAAG
*
74256 TGAGTGAAAAAGAGAGAGAGCTTAAACAAGGAA
1 TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
* *
74289 TGAGTGAAGAAGAAGAGAGTGCTCAAACACAAGG
1 TGAGTGAAAAAG-AGAGAGAGCT-AAA-ACAAGG
74323 GAGGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.39
34 9 0.32
35 2 0.07
36 6 0.21
ACGTcount: A:0.48, C:0.09, G:0.31, T:0.12
Consensus pattern (33 bp):
TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
Found at i:75387 original size:30 final size:30
Alignment explanation
Indices: 75318--75388 Score: 126
Period size: 29 Copynumber: 2.4 Consensus size: 30
75308 TGAAAGAAAG
75318 AGAAAATCAAGATTCACTTTCTTGTTTTCA
1 AGAAAATCAAGATTCACTTTCTTGTTTTCA
*
75348 A-ATAATCAAGATTCACTTTCTTGTTTTCA
1 AGAAAATCAAGATTCACTTTCTTGTTTTCA
75377 AGAAAATCAAGA
1 AGAAAATCAAGA
75389 AACTAAATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 28 0.74
30 10 0.26
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (30 bp):
AGAAAATCAAGATTCACTTTCTTGTTTTCA
Found at i:84165 original size:10 final size:10
Alignment explanation
Indices: 84150--84194 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
84140 CATGTGGTTC
*
84150 AGCTCACTTG
1 AGCTCAATTG
*
84160 AGCTCAATTC
1 AGCTCAATTG
*
84170 AGCTCATTTG
1 AGCTCAATTG
*
84180 AGCTCAATTC
1 AGCTCAATTG
84190 AGCTC
1 AGCTC
84195 TTTAGCTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (10 bp):
AGCTCAATTG
Found at i:84172 original size:20 final size:20
Alignment explanation
Indices: 84147--84194 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
84137 TTTCATGTGG
84147 TTCAGCTCACTTGAGCTCAA
1 TTCAGCTCACTTGAGCTCAA
*
84167 TTCAGCTCATTTGAGCTCAA
1 TTCAGCTCACTTGAGCTCAA
84187 TTCAGCTC
1 TTCAGCTC
84195 TTTAGCTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (20 bp):
TTCAGCTCACTTGAGCTCAA
Found at i:84399 original size:43 final size:43
Alignment explanation
Indices: 84347--84435 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
84337 TATAATTAAT
*
84347 TTGTCTCAATTTAGTTAGTATGATAATTAGTGTTTAATTTGTC
1 TTGTCTCAATTTAGTTACTATGATAATTAGTGTTTAATTTGTC
84390 TTGTCTCAATTTAGTTACTATGATAATTAGTGTTTAATTTGTC
1 TTGTCTCAATTTAGTTACTATGATAATTAGTGTTTAATTTGTC
84433 TTG
1 TTG
84436 AAGCCATTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.52
Consensus pattern (43 bp):
TTGTCTCAATTTAGTTACTATGATAATTAGTGTTTAATTTGTC
Found at i:84445 original size:43 final size:43
Alignment explanation
Indices: 84353--84448 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 43
84343 TAATTTGTCT
* ***
84353 CAATTTAGTTAGTATGATAATTAGTGTTTAATTTGTCTTGTCT
1 CAATTTAGTTACTATGATAATTAGTGTTTAATTTGTCTTGAAG
84396 CAATTTAGTTACTATGATAATTAGTGTTTAATTTGTCTTGAAG
1 CAATTTAGTTACTATGATAATTAGTGTTTAATTTGTCTTGAAG
*
84439 CCATTTAGTT
1 CAATTTAGTT
84449 CAGCCGAACA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.49
Consensus pattern (43 bp):
CAATTTAGTTACTATGATAATTAGTGTTTAATTTGTCTTGAAG
Found at i:99244 original size:24 final size:24
Alignment explanation
Indices: 99212--99265 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
99202 TAGTTTCTTC
99212 AAAAAAATTCAAAAAAAATTCAAA
1 AAAAAAATTCAAAAAAAATTCAAA
99236 AAAAAAATTCAAAAAAAATTCAAA
1 AAAAAAATTCAAAAAAAATTCAAA
99260 AAAAAA
1 AAAAAA
99266 TTGGTTTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (24 bp):
AAAAAAATTCAAAAAAAATTCAAA
Found at i:99265 original size:13 final size:11
Alignment explanation
Indices: 99212--99264 Score: 88
Period size: 11 Copynumber: 4.6 Consensus size: 11
99202 TAGTTTCTTC
99212 AAAAAAATTCA
1 AAAAAAATTCA
99223 AAAAAAATTCAAA
1 AAAAAAATTC--A
99236 AAAAAAATTCA
1 AAAAAAATTCA
99247 AAAAAAATTCA
1 AAAAAAATTCA
99258 AAAAAAA
1 AAAAAAA
99265 ATTGGTTTCC
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
11 29 0.73
13 11 0.28
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:99324 original size:15 final size:16
Alignment explanation
Indices: 99304--99343 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
99294 GATATCAAGT
99304 TGAAAAAAAAA-TTCG
1 TGAAAAAAAAATTTCG
*
99319 TGAAAAAAAAAATTTTG
1 TG-AAAAAAAAATTTCG
99336 TGAAAAAA
1 TGAAAAAA
99344 GAAGAAGCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 15 0.68
17 5 0.23
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.23
Consensus pattern (16 bp):
TGAAAAAAAAATTTCG
Found at i:99327 original size:16 final size:17
Alignment explanation
Indices: 99306--99343 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
99296 TATCAAGTTG
99306 AAAAAAAAA-TTCGTGA
1 AAAAAAAAATTTCGTGA
*
99322 AAAAAAAAATTTTGTGA
1 AAAAAAAAATTTCGTGA
99339 AAAAA
1 AAAAA
99344 GAAGAAGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.21
Consensus pattern (17 bp):
AAAAAAAAATTTCGTGA
Found at i:107206 original size:659 final size:661
Alignment explanation
Indices: 106041--107336 Score: 1725
Period size: 659 Copynumber: 2.0 Consensus size: 661
106031 GATTGTTAAA
* *
106041 ACTACTTCTAAAGAAAACTCAAGAGAAAATTCTTGAAGAACTCAAAGAGAATTTTCACTCGAAGC
1 ACTACTTCTAAAGAAAACTCAAGAGAAAATTCTTGAAGAACTCAAAAAGAATTTTCACTCAAAGC
* *
106106 AAATCTGAAATTTTCAATGTAATTGTAATGTGTATAAGGGTGGCTGGCCAAGCCATACATATAGG
66 AAATCTGAAATTTTCAATGTAATTGTAATGTGTACAAGGGTGGCCGGCCAAGCCATACATATAGG
* * ** *
106171 CCTTCTAACTATTTTCCTAGTCCTAATAGGAAAACTAAAAAACAAAACCTAATTTTTTTTACTTT
131 CCTTATAACTATTTTCCTAATCCTAATAGGAAAACT-AAAAACAAAACCTAA-TTTTAATACATT
* * * *
106236 CAAGGGAATTTCGTCCAAGGCCTTTAATGGGCCTCTTTGGGCTGAATTTTTACATAGAAATTTAT
194 CAAGGGAAATTCGGCCAAGGCCTTTAATGGGCCTCTTTGGGCCGAATTTTTACATAGAAA-TTAA
*
106301 TTATAAAGTCTAAAAATTAAAACTAAGTATTTAACGAATTAAAATTTTACAAATTGGGCCACTTT
258 TCATAAAGTCTAAAAATTAAAACTAAGTATTTAACGAATTAAAATTTTACAAATTGGGCCACTTT
* * * *
106366 GACAATTTAGCCTGATTTTCAACTAAATCTGATTTAAATTTCTGGATTGGGCTTGGAACATCTTA
323 AACAATTTAGCCTGATTTTCAACTAAATATGATTTAAACTTCTGGATTGGGCTGGGAACATCTTA
* * * * * * *
106431 TTGGGCCTTGTCTTTAAGAGCTTGGGCTTGTAATCCGCTCTCTCCCGAAATTGGCTTGTTAATGC
388 TTGAGCCTTGCCTTCAAGAACTTGGGCTTGTAATCCGCTCTCTACCAAAATTGGCTTATTAATGC
* * *
106496 TCATTACTGAGATCCAATGCGCTTTGGCTGCAAGATTCGATTCCTTGGACCAAGATTTCCAAGAT
453 TCATAACGGAGATCCAATGCGCTATGGCTGCAAGATTCGATTCCTTGGACCAAGATTTCCAAGAT
*
106561 TTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTCCAAACAGCAAAATTGGGCCAAGATACGGT
518 TTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTCCAAACAGCAAAATTGGGCCAAGATACAGT
106626 TTCTTGATTTTCTTGAAAACAAGAAAGTAAATCTTGATTTTCTCTTTCTTTCATGTCTAAGGCCT
583 TTCTTGATTTTCTTGAAAACAAGAAAGTAAATCTTGATTTTCTCTTTCTTTCATGTCTAAGGCCT
106691 TTGTGACTCGTATC
648 TTGTGACTCGTATC
106705 ACTACTTCTAAAGAAAACTCAAGAGAAAATTCTTGAAGAACTCAAAAAGAATTTTCACTCAAAGC
1 ACTACTTCTAAAGAAAACTCAAGAGAAAATTCTTGAAGAACTCAAAAAGAATTTTCACTCAAAGC
*
106770 AAATCTGAAATTTTCAATGTAATTGTAATGTGTGTAACAAGGGTGGCCGGCCATGCCTATA-A-A
66 AAATCTGAAATTTTCAATGTAATTGTAA--TGTGT-ACAAGGGTGGCCGGCCAAGCC-ATACATA
* * *
106833 TA-GCCTTATAACTA-TTTCCTAAT-CTCATTAGGAAAACT-TAAA-AAAATCTAA-TTTAATA-
127 TAGGCCTTATAACTATTTTCCTAATCCT-AATAGGAAAACTAAAAACAAAACCTAATTTTAATAC
* *
106891 ATTGAGAGGGAAAATTCGGCCAAGGCAC-TTAATGGG-TTGC-TTGGGCCGAA-TTTTACATATG
191 ATTCA-AGGG-AAATTCGGCCAAGGC-CTTTAATGGGCCT-CTTTGGGCCGAATTTTTACATA-G
* * **
106952 TAA-TAATCCTAAAGTCTAAAAAATT-AAACT-AGATATTTAA-GCAATTAATTGTTTTTACAAA
251 AAATTAATCATAAAGTCT-AAAAATTAAAACTAAG-TATTTAACG-AATTAA--AATTTTACAAA
* * * * * *
107013 TTTGGCCACTTTAACAGTTTGGCCTGATTTTCAACTAAGTAT-AGTTT-GACTTCTTGATTGGGC
311 TTGGGCCACTTTAACAATTTAGCCTGATTTTCAACTAAATATGA-TTTAAACTTCTGGATTGGGC
* * *
107076 TGGGAATCATCTTATTGATCCTTGCCTTCAAGAACTTGGGCTTGTAGTCC-ATCTCCTACCAAAA
375 TGGGAA-CATCTTATTGAGCCTTGCCTTCAAGAACTTGGGCTTGTAATCCGCTCT-CTACCAAAA
* * * * * * *
107140 TTGG-TTCATTGATGTTCGTAACGGAGATCCAATGTGCTATGGCTGCAAGATTTGGTTTCTTGGA
438 TTGGCTT-ATTAATGCTCATAACGGAGATCCAATGCGCTATGGCTGCAAGATTCGATTCCTTGGA
*
107204 CCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTCCAAACAGCAAGAT
502 CCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTCCAAACAGCAAAAT
* *
107269 TGGGCCAAGATTCAGTTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTCTTTCT
567 TGGGCCAAGATACAGTTTCTTGATTTTCTTGAAAACAAGAAAGTAAATCTTGATTTTCTCTTTCT
107334 TTC
632 TTC
107337 GTTTACACAT
Statistics
Matches: 555, Mismatches: 58, Indels: 43
0.85 0.09 0.07
Matches are distributed among these distances:
656 3 0.01
657 29 0.05
658 43 0.08
659 293 0.53
660 22 0.04
661 9 0.02
662 3 0.01
663 2 0.00
664 110 0.20
665 11 0.02
666 8 0.01
667 19 0.03
668 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (661 bp):
ACTACTTCTAAAGAAAACTCAAGAGAAAATTCTTGAAGAACTCAAAAAGAATTTTCACTCAAAGC
AAATCTGAAATTTTCAATGTAATTGTAATGTGTACAAGGGTGGCCGGCCAAGCCATACATATAGG
CCTTATAACTATTTTCCTAATCCTAATAGGAAAACTAAAAACAAAACCTAATTTTAATACATTCA
AGGGAAATTCGGCCAAGGCCTTTAATGGGCCTCTTTGGGCCGAATTTTTACATAGAAATTAATCA
TAAAGTCTAAAAATTAAAACTAAGTATTTAACGAATTAAAATTTTACAAATTGGGCCACTTTAAC
AATTTAGCCTGATTTTCAACTAAATATGATTTAAACTTCTGGATTGGGCTGGGAACATCTTATTG
AGCCTTGCCTTCAAGAACTTGGGCTTGTAATCCGCTCTCTACCAAAATTGGCTTATTAATGCTCA
TAACGGAGATCCAATGCGCTATGGCTGCAAGATTCGATTCCTTGGACCAAGATTTCCAAGATTTG
AAATCTTGATTTTCTTGATTCTTGAAATCGCTCCAAACAGCAAAATTGGGCCAAGATACAGTTTC
TTGATTTTCTTGAAAACAAGAAAGTAAATCTTGATTTTCTCTTTCTTTCATGTCTAAGGCCTTTG
TGACTCGTATC
Found at i:108545 original size:21 final size:22
Alignment explanation
Indices: 108516--108566 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
108506 TCTCTCTCGC
*
108516 TTTCCTTTTCGCCTTTTTCA-T
1 TTTCATTTTCGCCTTTTTCACT
**
108537 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCGCCTTTTTCACT
108559 TTT-ATTTT
1 TTTCATTTT
108567 TCTCTTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.08, C:0.22, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTCATTTTCGCCTTTTTCACT
Found at i:110518 original size:24 final size:23
Alignment explanation
Indices: 110464--110541 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 23
110454 GGATAATTAA
**
110464 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGAATTGGTAC
***
110487 GTTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTT-GGAATTGGTAC
*
110511 GAAATGGTA--TGGAATTGGTAT
1 GAAATGGTATTTGGAATTGGTAC
*
110532 GAAATAGTAT
1 GAAATGGTAT
110542 GGTATTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 18 0.42
22 1 0.02
23 9 0.21
24 15 0.35
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.40
Consensus pattern (23 bp):
GAAATGGTATTTGGAATTGGTAC
Found at i:110526 original size:21 final size:21
Alignment explanation
Indices: 110500--110566 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
110490 TTGGTATTTG
110500 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
110521 GGAATTGGTATGAAATAGTAT
1 GGAATTGGTACGAAATGGTAT
* *
110542 GGTATTTGGTACGAATTGGTTAT
1 GG-AATTGGTACGAAATGG-TAT
110565 GG
1 GG
110567 TTCAAAGAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 21 0.55
22 12 0.32
23 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.34
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:120468 original size:127 final size:126
Alignment explanation
Indices: 120242--120493 Score: 447
Period size: 127 Copynumber: 2.0 Consensus size: 126
120232 AACAGATTTG
120242 AAAATTAAAACAAAGAACAAGATTAAACTAATCAGATCTGAAATTAAATCCCAAATTCAATTAAT
1 AAAATTAAAACAAAGAACAAGATTAAACTAATCAGATCTGAAATTAAATCCCAAATTCAATTAAT
120307 GAGCAGCAAGGCAAAGAACGAATGAATAAATGTATTTGGAGTTCAAGAAGATGAAATCGAAA
66 GAGCAGCAAGGCAAAGAACGAATGAATAAATGTATTTGG-GTTCAAGAAGATGAAATCGAAA
120369 AAAATTAAAACAAAGAACAAGATTAAACT-ATCAGATCTGAAATTAAATCCC-AATTCAATTAAA
1 AAAATTAAAACAAAGAACAAGATTAAACTAATCAGATCTGAAATTAAATCCCAAATTCAATT-AA
120432 TGA-CAGCAAGGAACAAAGAACGAATGAATAAATGTATTTGGGTTCAAGAAGATGAAATCGAA
65 TGAGCAGCAAGG--CAAAGAACGAATGAATAAATGTATTTGGGTTCAAGAAGATGAAATCGAA
120494 CTCCAATAGT
Statistics
Matches: 122, Mismatches: 0, Indels: 7
0.95 0.00 0.05
Matches are distributed among these distances:
125 17 0.14
126 48 0.39
127 57 0.47
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.21
Consensus pattern (126 bp):
AAAATTAAAACAAAGAACAAGATTAAACTAATCAGATCTGAAATTAAATCCCAAATTCAATTAAT
GAGCAGCAAGGCAAAGAACGAATGAATAAATGTATTTGGGTTCAAGAAGATGAAATCGAAA
Found at i:120516 original size:127 final size:125
Alignment explanation
Indices: 120257--120493 Score: 383
Period size: 126 Copynumber: 1.9 Consensus size: 125
120247 TAAAACAAAG
120257 AACAAGATTAAACTAATCAGATCTGAAATTAAATCCCAAATTCAATTAATGAGCAGCAAGGCAAA
1 AACAAGATTAAACTAATCAGATCTGAAATTAAATCCCAAATTCAATTAATGAGCAGCAAGGCAAA
* *
120322 GAACGAATGAATAAATGTATTTGGAGTTCAAGAAGATGAAATCGAAAAAAATTAAAACAAAG
66 GAACGAATGAATAAATGTATTTGGAGTTCAAGAAGATGAAATCGAAAAAAATGAAAAC--AC
120384 AACAAGATTAAACT-ATCAGATCTGAAATTAAATCCC-AATTCAATTAAATGA-CAGCAAGGAAC
1 AACAAGATTAAACTAATCAGATCTGAAATTAAATCCCAAATTCAATT-AATGAGCAGCAAGG--C
120446 AAAGAACGAATGAATAAATGTATTTGG-GTTCAAGAAGATGAAATCGAA
63 AAAGAACGAATGAATAAATGTATTTGGAGTTCAAGAAGATGAAATCGAA
120494 CTCCAATAGT
Statistics
Matches: 107, Mismatches: 0, Indels: 7
0.94 0.00 0.06
Matches are distributed among these distances:
125 17 0.16
126 48 0.45
127 42 0.39
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (125 bp):
AACAAGATTAAACTAATCAGATCTGAAATTAAATCCCAAATTCAATTAATGAGCAGCAAGGCAAA
GAACGAATGAATAAATGTATTTGGAGTTCAAGAAGATGAAATCGAAAAAAATGAAAACAC
Found at i:122407 original size:20 final size:20
Alignment explanation
Indices: 122362--122407 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
122352 GCTCGTTTCT
*
122362 AGCTCACTCGAGCTCAAGTC
1 AGCTCACTCAAGCTCAAGTC
* *
122382 AACTCACTCAAGCTCAATTC
1 AGCTCACTCAAGCTCAAGTC
122402 AGCTCA
1 AGCTCA
122408 ATTTGAACCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.35, G:0.13, T:0.22
Consensus pattern (20 bp):
AGCTCACTCAAGCTCAAGTC
Found at i:123844 original size:13 final size:13
Alignment explanation
Indices: 123828--123888 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 13
123818 CAAAAAAATC
123828 AAAAAAAATTCGA
1 AAAAAAAATTCGA
*
123841 AAAAAAAATTGATTGAA
1 AAAAAAAA-T--TCG-A
123858 AAAAAAAATTC-A
1 AAAAAAAATTCGA
*
123870 AAAAAAAAGT-GA
1 AAAAAAAATTCGA
123882 AAAAAAA
1 AAAAAAA
123889 TCGAGCAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
12 18 0.45
13 8 0.20
14 2 0.05
16 3 0.08
17 9 0.22
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (13 bp):
AAAAAAAATTCGA
Found at i:123919 original size:20 final size:20
Alignment explanation
Indices: 123894--123931 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
123884 AAAAATCGAG
123894 CAAAAAAAAAGAGAAAAGAA
1 CAAAAAAAAAGAGAAAAGAA
*
123914 CAAAAAAAAAGTGAAAAG
1 CAAAAAAAAAGAGAAAAG
123932 TCTTGTGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.76, C:0.05, G:0.16, T:0.03
Consensus pattern (20 bp):
CAAAAAAAAAGAGAAAAGAA
Found at i:126690 original size:20 final size:20
Alignment explanation
Indices: 126644--126690 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
126634 AGCTCGTTTC
*
126644 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
126664 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
126684 CAGCTCA
1 CAGCTCA
126691 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Done.