Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 25 of 310
Found at i:6645956 original size:71 final size:71
Alignment explanation
Indices: 6645815--6645948 Score: 155
Period size: 71 Copynumber: 1.9 Consensus size: 71
6645805 GCCAGAATAG
** * * * * **
6645815 ATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATTTGTGGCA
1 ATATTGTGACAGACCCACCAGAAACAGATAATATGGCAAAGCCACCAGAACAGATATACGTGGCA
*
6645880 TAGCCA
66 AAGCCA
**
6645886 ATATTGTGACAGACCCACCAGAAACAGATAATATGGCAAAGCCA-CTTAACAGA-ATACGTGGCA
1 ATATTGTGACAGACCCACCAGAAACAGATAATATGGCAAAGCCACCAGAACAGATATACGTGGCA
6645949 CAAAGCCATC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
69 8 0.15
70 7 0.13
71 38 0.72
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (71 bp):
ATATTGTGACAGACCCACCAGAAACAGATAATATGGCAAAGCCACCAGAACAGATATACGTGGCA
AAGCCA
Found at i:6646216 original size:20 final size:20
Alignment explanation
Indices: 6646172--6646216 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6646162 AATTGGCATG
* *
6646172 AAGCCCAGAATAACGATACA
1 AAGCCCACAATAACGACACA
*
6646192 AAGCCCACAATAACGGCACA
1 AAGCCCACAATAACGACACA
*
6646212 CAGCC
1 AAGCC
6646217 TTCGGTAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.33, G:0.16, T:0.07
Consensus pattern (20 bp):
AAGCCCACAATAACGACACA
Found at i:6646542 original size:27 final size:27
Alignment explanation
Indices: 6646493--6646878 Score: 380
Period size: 27 Copynumber: 14.3 Consensus size: 27
6646483 AAGGGTAAAA
* * *
6646493 CGGTAATTTTACCCCAACA-GGGTATCT
1 CGGTAATTCTA-CCCTACAGGGGTATTT
* *
6646520 CGGTAATTTTACCCTATAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
** * *
6646547 TAGTATTTCTACCCTACAAGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
*
6646574 CGATAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
** *
6646601 CAATAATTCTACCCTATAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* * *
6646628 CGATAATTCTACCTTATAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* *
6646655 CAGTAATTTTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* * *
6646682 CGGTAATTCTACCTTATAGGGGTATTG
1 CGGTAATTCTACCCTACAGGGGTATTT
* * *
6646709 CAGTTATTCTACCTTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* * *
6646736 CGGAAATTCTACCTTA-TGGGAGTATTT
1 CGGTAATTCTACCCTACAGGG-GTATTT
** * *
6646763 AAGTAATTCTACGCTACAAGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* * * * *
6646790 CGGTAATTTTATCTTATAGGAGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* *
6646817 CAGTAATTCCACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
*
6646844 CGGTAATTCTACCTTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
*
6646871 CAGTAATT
1 CGGTAATT
6646879 TTACAAATTA
Statistics
Matches: 293, Mismatches: 63, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
26 8 0.03
27 283 0.97
28 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
CGGTAATTCTACCCTACAGGGGTATTT
Found at i:6646891 original size:27 final size:26
Alignment explanation
Indices: 6646860--6646934 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
6646850 TTCTACCTTA
*
6646860 CAGGGGTATTTCAGTAATTTTACAAAT
1 CAGGGGTATTT-AGTAATTTTACAAAC
* *
6646887 TAGGGGTATTTTGATAATTTTACAAAC
1 CAGGGGTATTTAG-TAATTTTACAAAC
*
6646914 CAGGGGTATTTTGGTAATTTT
1 CAGGGGTA-TTTAGTAATTTT
6646935 GCTAATCGAG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 36 0.88
28 4 0.10
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (26 bp):
CAGGGGTATTTAGTAATTTTACAAAC
Found at i:6646897 original size:54 final size:54
Alignment explanation
Indices: 6646495--6646878 Score: 493
Period size: 54 Copynumber: 7.1 Consensus size: 54
6646485 GGGTAAAACG
* * * * * *
6646495 GTAATTTTACCCCAACA-GGGTATCTCGGTAATTTTACCCTATAGGGGTATTTTA
1 GTAATTCTA-CCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
* * * * *
6646549 GTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
* * *
6646603 ATAATTCTACCCTATAGGGGTATTTCGATAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
* *
6646657 GTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTGCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
* * * *
6646711 GTTATTCTACCTTACAGGGGTATTTCGGAAATTCTACCTTAT-GGGAGTATTTAA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGG-GTATTTCA
* * * * *
6646765 GTAATTCTACGCTACAAGGGTATTTCGGTAATTTTATCTTATAGGAGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
* *
6646819 GTAATTCCACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
6646873 GTAATT
1 GTAATT
6646879 TTACAAATTA
Statistics
Matches: 286, Mismatches: 41, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
53 9 0.03
54 275 0.96
55 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
Found at i:6646953 original size:27 final size:27
Alignment explanation
Indices: 6646920--6647014 Score: 145
Period size: 27 Copynumber: 3.5 Consensus size: 27
6646910 AAACCAGGGG
*
6646920 TATTTTGGTAATTTTGCTAATCGAGGT
1 TATTTTGGTAATTTTGCTAATCGAGGC
* *
6646947 TACTTTGGTAATTTTGCTAATCGAGGG
1 TATTTTGGTAATTTTGCTAATCGAGGC
*
6646974 TATTTTGGTAATTTTACTAATCGAGGC
1 TATTTTGGTAATTTTGCTAATCGAGGC
*
6647001 TATTTTAGTAATTT
1 TATTTTGGTAATTT
6647015 GGTAAGCTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.47
Consensus pattern (27 bp):
TATTTTGGTAATTTTGCTAATCGAGGC
Found at i:6646959 original size:54 final size:54
Alignment explanation
Indices: 6646896--6647014 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 54
6646886 TTAGGGGTAT
* * *
6646896 TTTGATAATTTTACAAACC-AGGGGTATTTTGGTAATTTTGCTAATCGAGGTTAC
1 TTTGGTAATTTTACAAACCGA-GGGTATTTTGGTAATTTTACTAATCGAGGCTAC
* * * *
6646950 TTTGGTAATTTTGCTAATCGAGGGTATTTTGGTAATTTTACTAATCGAGGCTAT
1 TTTGGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTACTAATCGAGGCTAC
*
6647004 TTTAGTAATTT
1 TTTGGTAATTT
6647015 GGTAAGCTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 55 0.98
55 1 0.02
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (54 bp):
TTTGGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTACTAATCGAGGCTAC
Found at i:6651898 original size:23 final size:23
Alignment explanation
Indices: 6651872--6651916 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6651862 TTATTTAATT
6651872 GATTT-AGGATTAGGATTTTTTAG
1 GATTTAAGG-TTAGGATTTTTTAG
*
6651895 GATTTAAGGTTAGGGTTTTTTA
1 GATTTAAGGTTAGGATTTTTTA
6651917 AGTTAAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (23 bp):
GATTTAAGGTTAGGATTTTTTAG
Found at i:6651926 original size:15 final size:16
Alignment explanation
Indices: 6651897--6651936 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
6651887 TTTTTTAGGA
*
6651897 TTTAAGGTTAGGGTTT
1 TTTAAGGTTAAGGTTT
6651913 TTTAA-GTTAAGGTTT
1 TTTAAGGTTAAGGTTT
*
6651928 TTTAGGGTT
1 TTTAAGGTT
6651937 TTAAGATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.53
Consensus pattern (16 bp):
TTTAAGGTTAAGGTTT
Found at i:6652086 original size:38 final size:39
Alignment explanation
Indices: 6652023--6652101 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 39
6652013 TAAATTAGAG
6652023 TTTAGGGTATTAGGGTTAATCGATTAAA-TTAGGGATTAA
1 TTTAGGGTATTAGGGTTAATCGATTAAATTTAGGG-TTAA
* *
6652062 TTTAGGGT-TTAGGGTTGATTGATTAAATTTAGGGTTAA
1 TTTAGGGTATTAGGGTTAATCGATTAAATTTAGGGTTAA
6652100 TT
1 TT
6652102 GATACATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 23 0.62
39 14 0.38
ACGTcount: A:0.29, C:0.01, G:0.27, T:0.43
Consensus pattern (39 bp):
TTTAGGGTATTAGGGTTAATCGATTAAATTTAGGGTTAA
Found at i:6653032 original size:126 final size:126
Alignment explanation
Indices: 6652642--6653147 Score: 719
Period size: 125 Copynumber: 4.0 Consensus size: 126
6652632 TTTCTGCAAG
* * * *
6652642 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGCCGAAAAAAGCTTCAAGTAGAATGCACTGT
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCG-AAAACGCTTCAAGCAGGATGCACTGT
* * * * *
6652707 CAGCAAAATTTCTAGAAAAAGCTCCCACATGAACGCTCTTTTGCTACAGTAGTTCGTAGAAA
65 CAGCAAAATTTCAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAAAAA
* * *
6652769 AATAATTCTGAGTAGACATTTCTAAACAAATAATGTCGAAAACGCTTCAAGCA-GATCCACTGTC
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* ** * *
6652833 AGCAAATTTTTGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACGGTAGTTCGTAGAAA
66 AGCAAAATTTCAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAAAAA
* * * *
6652894 AATAATTTTGAGTAGACGTTTTTGAACAAATAGTGTCGAAAATGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* * * *
6652959 AGCAAAATTTCAAAAAAAAACTCCCACGTGGACTCTCTTTTGCTACAGCAATTCGTAAAAA
66 AGCAAAATTTCAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAAAAA
* * *
6653020 AACAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCG-AAACGCTTCAAGTAGGATGCACTGTC
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* *
6653084 AGGAAAATTTCAAAAAAAAGCTCCCACGTGGACGTTCTTTTGCTACAGTAGTTCGTAAAAA
66 AGCAAAATTTCAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAAAAA
6653145 AAT
1 AAT
6653148 GAGGCTATAA
Statistics
Matches: 336, Mismatches: 42, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
125 191 0.57
126 110 0.33
127 35 0.10
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (126 bp):
AATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAAAAA
Found at i:6653102 original size:251 final size:252
Alignment explanation
Indices: 6652642--6653147 Score: 728
Period size: 251 Copynumber: 2.0 Consensus size: 252
6652632 TTTCTGCAAG
*
6652642 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGCCGAAAAAAGCTTCAAGTAGAATGCACTGT
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGCCGAAAAAAGCTTCAAGCAGAATGCACTGT
* * * * * * *
6652707 CAGCAAAATTTCTAGAAAAAGCTCCCACATGAACGCTCTTTTGCTACAGTAGTTCGTAGAAAAAT
66 CAGCAAAATTTCAAAAAAAAACTCCCACATGAACGCTCTTTTGCTACAGCAATTCGTAAAAAAAC
6652772 AATTCTGAGTAGACATTTCTAAACAAATAATGTCGAAAACGCTTCAAGCAGATCCACTGTCAGCA
131 AATTCTGAGTAGACATTTCTAAACAAATAATGTCGAAAACGCTTCAAGCAGATCCACTGTCAGCA
* ** * *
6652837 AATTTTTGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACGGTAGTTCGTAGAAA
196 AAATTTCAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAAAAA
* * * * * *
6652894 AATAATTTTGAGTAGACGTTTTTGAACAAATAGTGTCG-AAAATGCTTCAAGCAGGATGCACTGT
1 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGCCGAAAAAAGCTTCAAGCAGAATGCACTGT
* * *
6652958 CAGCAAAATTTCAAAAAAAAACTCCCACGTGGACTCTCTTTTGCTACAGCAATTCGTAAAAAAAC
66 CAGCAAAATTTCAAAAAAAAACTCCCACATGAACGCTCTTTTGCTACAGCAATTCGTAAAAAAAC
* * * * * *
6653023 AATTCTGAGTAGACGTTTCTGAACAAATAGTGTCG-AAACGCTTCAAGTAGGATGCACTGTCAGG
131 AATTCTGAGTAGACATTTCTAAACAAATAATGTCGAAAACGCTTCAAGCA-GATCCACTGTCAGC
*
6653087 AAAATTTCAAAAAAAAGCTCCCACGTGGACGTTCTTTTGCTACAGTAGTTCGTAAAAA
195 AAAATTTCAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAAAAA
6653145 AAT
1 AAT
6653148 GAGGCTATAA
Statistics
Matches: 224, Mismatches: 29, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
250 13 0.06
251 177 0.79
252 34 0.15
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (252 bp):
AATAATTCTGAGTAGACATTTCTGAACAAATAGTGCCGAAAAAAGCTTCAAGCAGAATGCACTGT
CAGCAAAATTTCAAAAAAAAACTCCCACATGAACGCTCTTTTGCTACAGCAATTCGTAAAAAAAC
AATTCTGAGTAGACATTTCTAAACAAATAATGTCGAAAACGCTTCAAGCAGATCCACTGTCAGCA
AAATTTCAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAAAAA
Found at i:6655741 original size:18 final size:18
Alignment explanation
Indices: 6655700--6655742 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
6655690 GACTAGGAAA
* *
6655700 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
*
6655718 AAGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
6655736 AGGATAC
1 AGGATAC
6655743 GTACTTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:6656349 original size:7 final size:7
Alignment explanation
Indices: 6656339--6656363 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6656329 CACAATACAC
6656339 AATACTA
1 AATACTA
6656346 AATACTA
1 AATACTA
6656353 AATACTA
1 AATACTA
6656360 AATA
1 AATA
6656364 TGAAACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:6657394 original size:48 final size:47
Alignment explanation
Indices: 6657341--6657451 Score: 118
Period size: 48 Copynumber: 2.3 Consensus size: 47
6657331 ATGCAAACAT
*
6657341 CATAAATGAAAAAAAAATCAAGCAGTATTG-AAATTGTAATTATAA-TTG
1 CATAAAT-AAAAAAAAATCAAACAGTATTGCAAATT-TAATTA-AATTTG
** **
6657389 CATAAATAAATAAAATGTCAAATTGTATTGCAAATTTAATTAAATTTG
1 CATAAATAAA-AAAAAATCAAACAGTATTGCAAATTTAATTAAATTTG
*
6657437 CATAAATTAAAAAAA
1 CATAAATAAAAAAAA
6657452 TATCGAATGG
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
47 9 0.17
48 39 0.74
49 5 0.09
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (47 bp):
CATAAATAAAAAAAAATCAAACAGTATTGCAAATTTAATTAAATTTG
Found at i:6657452 original size:48 final size:47
Alignment explanation
Indices: 6657365--6657475 Score: 136
Period size: 48 Copynumber: 2.3 Consensus size: 47
6657355 AAATCAAGCA
* *
6657365 GTATTGAAATTGTAATTATAATTGCATAAATAAATAAAATGTCAAATT
1 GTATTGAAATT-TAATTATAATTGCATAAATAAATAAAATATCAAATG
*
6657413 GTATTGCAAATTTAATTA-AATTTGCATAAATTAAA-AAAATATCGAATG
1 GTATTG-AAATTTAATTATAA-TTGCATAAA-TAAATAAAATATCAAATG
6657461 GTATTGATAATTTAA
1 GTATTGA-AATTTAA
6657476 AATTTTCACT
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
47 3 0.05
48 44 0.79
49 9 0.16
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.38
Consensus pattern (47 bp):
GTATTGAAATTTAATTATAATTGCATAAATAAATAAAATATCAAATG
Found at i:6666403 original size:21 final size:21
Alignment explanation
Indices: 6666365--6666404 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6666355 TTAAACAAAC
*
6666365 AAATTTCATAGAATTTTGAGA
1 AAATTTCATAGAAATTTGAGA
6666386 AAATTTCA-ATGAAATTTGA
1 AAATTTCATA-GAAATTTGA
6666405 TAGATTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (21 bp):
AAATTTCATAGAAATTTGAGA
Found at i:6692995 original size:29 final size:29
Alignment explanation
Indices: 6692951--6693060 Score: 150
Period size: 29 Copynumber: 3.8 Consensus size: 29
6692941 GAAGAGGTGG
* * *
6692951 AGAACTTGTTCGTTGAGAGTTCGAGATAA
1 AGAACTTGTTCATTGAGAATTCGAGATGA
*
6692980 AGAACTTGTTCATTGAGAGTTC-ACGATGA
1 AGAACTTGTTCATTGAGAATTCGA-GATGA
*
6693009 AGAACTTGTTCATTGAGAATTCGCGATGA
1 AGAACTTGTTCATTGAGAATTCGAGATGA
*
6693038 AGAAATTGTTCATTGAGAATTCG
1 AGAACTTGTTCATTGAGAATTCG
6693061 TGTCTAGGTG
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
28 1 0.01
29 73 0.99
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.32
Consensus pattern (29 bp):
AGAACTTGTTCATTGAGAATTCGAGATGA
Found at i:6693762 original size:13 final size:13
Alignment explanation
Indices: 6693742--6693790 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
6693732 AACGGCACCA
6693742 ATATTTTTCTTAAT
1 ATATTTTT-TTAAT
6693756 A-ATTTTTTT-AT
1 ATATTTTTTTAAT
*
6693767 ATATTTTTTTAAA
1 ATATTTTTTTAAT
*
6693780 ATATTATTTTA
1 ATATTTTTTTA
6693791 TTTAGTGGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 3 0.10
12 10 0.32
13 17 0.55
14 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (13 bp):
ATATTTTTTTAAT
Found at i:6693770 original size:25 final size:25
Alignment explanation
Indices: 6693742--6693791 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
6693732 AACGGCACCA
6693742 ATATTTTTCTTAATAAT-TT-TTTTAT
1 ATATTTTT-TTAA-AATATTATTTTAT
6693767 ATATTTTTTTAAAATATTATTTTAT
1 ATATTTTTTTAAAATATTATTTTAT
6693792 TTAGTGGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 3 0.13
24 6 0.26
25 14 0.61
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (25 bp):
ATATTTTTTTAAAATATTATTTTAT
Found at i:6696802 original size:25 final size:25
Alignment explanation
Indices: 6696754--6696803 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
6696744 TTTGGCTTGA
**
6696754 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
*
6696779 CATTTACTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
6696804 AAAATTATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:6699535 original size:15 final size:15
Alignment explanation
Indices: 6699515--6699546 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6699505 ATTTATTTAC
*
6699515 TTTAATTAATTAATT
1 TTTAATTAAATAATT
6699530 TTTAATTAAATAATT
1 TTTAATTAAATAATT
6699545 TT
1 TT
6699547 CTCAATCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTAATTAAATAATT
Found at i:6708830 original size:47 final size:47
Alignment explanation
Indices: 6708764--6708893 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
6708754 GTGCGAATAA
* * *
6708764 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCATAA-AGGAGT
1 TACCTTGATTTGGCTACGGGCTATGGTATAGGTACTC-TAAGAGAAGT
* * * *
6708811 TACCTTGATTTAGCCACGGGCTATAGTATAGGTACTCTAAGATAAGT
1 TACCTTGATTTGGCTACGGGCTATGGTATAGGTACTCTAAGAGAAGT
*
6708858 TACCTTGATTTGGCTTCGGGCTATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCTATGGTATAGGTACT
6708894 TATCGATTGA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
46 3 0.04
47 68 0.96
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCTATGGTATAGGTACTCTAAGAGAAGT
Found at i:6711430 original size:55 final size:54
Alignment explanation
Indices: 6711342--6711527 Score: 234
Period size: 55 Copynumber: 3.4 Consensus size: 54
6711332 CATTAGGGTT
6711342 CAAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGGCATGGC-ATTGGTAAGGTCTCTAAGG
* * * * * * *
6711397 CAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGGT-CTCTAAGG
* *
6711452 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGA-GT-TCATAAGG
1 C-AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGGTCTC-TAAGG
6711505 CAAGGATACCATGTAAGACCATG
1 CAAGGATACCATGTAAGACCATG
6711528 TTGATACATG
Statistics
Matches: 110, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
52 5 0.05
53 22 0.20
54 10 0.09
55 69 0.63
56 4 0.04
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (54 bp):
CAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGGTCTCTAAGG
Found at i:6713082 original size:40 final size:40
Alignment explanation
Indices: 6713027--6713214 Score: 229
Period size: 40 Copynumber: 4.7 Consensus size: 40
6713017 TGATAACCGA
* *
6713027 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGG
* *
6713067 GCTAAGTCTCGAAGGCA-TTGTTGCGAGTTACTAATTCCCG
1 GCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAATTCCGG
*
6713107 GCTAAGTCCCGAAGGCATTTGTACGAGTTACT-ATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGG
** **
6713147 GCTAAACCCCGAAGGCATTTGTGCGAACTACTATATT-CGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGG
* *
6713187 GCTAAGTCCCGAAGGCATTCGAGCGAGT
1 GCTAAGTCCCGAAGGCATTTGTGCGAGT
6713215 GGCTATACTC
Statistics
Matches: 125, Mismatches: 18, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
39 5 0.04
40 114 0.91
41 4 0.03
42 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGG
Found at i:6713221 original size:40 final size:40
Alignment explanation
Indices: 6713027--6713240 Score: 213
Period size: 40 Copynumber: 5.4 Consensus size: 40
6713017 TGATAACCGA
*
6713027 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATT-CGG
* * *
6713067 GCTAAGTCTCGAAGGCA-TTGTTGCGAGTTACTA-ATTCCCG
1 GCTAAGTCCCGAAGGCATTTG-TGCGAGTGACTATATT-CGG
* * *
6713107 GCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATTCGG
** *
6713147 GCTAAACCCCGAAGGCATTTGTGCGAACT-ACTATATTCGG
1 GCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTATATTCGG
* * * *
6713187 GCTAAGTCCCGAAGGCATTCGAGCGAGTGGCTATACTC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATTCGG
* *
6713226 GTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
6713241 TACTTGGTTT
Statistics
Matches: 147, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 19 0.13
40 121 0.82
41 7 0.05
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATTCGG
Found at i:6714476 original size:16 final size:16
Alignment explanation
Indices: 6714455--6714488 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6714445 CTGCGTATCC
6714455 TTAGTATTCCAAGTGG
1 TTAGTATTCCAAGTGG
*
6714471 TTAGTATTCCTAGTGG
1 TTAGTATTCCAAGTGG
6714487 TT
1 TT
6714489 CAACGGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.44
Consensus pattern (16 bp):
TTAGTATTCCAAGTGG
Found at i:6714664 original size:16 final size:16
Alignment explanation
Indices: 6714643--6714673 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6714633 ATAAATTTGA
6714643 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
6714659 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
6714674 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:6722167 original size:68 final size:67
Alignment explanation
Indices: 6721955--6722176 Score: 203
Period size: 67 Copynumber: 3.4 Consensus size: 67
6721945 ATAGTTCGGG
* *
6721955 TCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC-CAGT--T-TATCTCGT
1 TCTCTTGTACTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTCA-TCATATATCTCGT
6722015 AGC
65 AGC
* * * * *
6722018 TCTCTTGT-CTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCT-A-CATATATCCC
1 TCTCTTGTACTACATGGTG---TACACTTAGTACCACCCATGCGACCTAGCTCATCATATATCTC
6722080 GTAGC
63 GTAGC
* * * *
6722085 TCTCTTG-CCTACATGGTGTACACATAGTACCACCCATACGACCTAGCTACATCATAATATCTTG
1 TCTCTTGTACTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCT-CATCAT-ATATCTCG
6722149 TAGC
64 TAGC
* *
6722153 TCTCTTGTAC-ACATGATGTGCACT
1 TCTCTTGTACTACATGGTGTACACT
6722177 CAGCACTATA
Statistics
Matches: 126, Mismatches: 19, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
62 1 0.01
63 16 0.13
64 24 0.19
66 26 0.21
67 30 0.24
68 28 0.22
69 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (67 bp):
TCTCTTGTACTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTCATCATATATCTCGTA
GC
Found at i:6722905 original size:30 final size:30
Alignment explanation
Indices: 6722871--6722931 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
6722861 TCCTTAACTC
6722871 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
6722901 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
6722931 A
1 A
6722932 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:6725424 original size:30 final size:30
Alignment explanation
Indices: 6725389--6725451 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
6725379 TTTTATTTTA
6725389 TTGTTAATTTTCTTATTATTTTAAAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
* *
6725419 TTGTTAATTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
6725449 TTG
1 TTG
6725452 CTTGTTACGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAGGCAT
Found at i:6728307 original size:18 final size:18
Alignment explanation
Indices: 6728284--6728318 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6728274 TTAGTAGCTT
*
6728284 TTCCTTTTGTTTTTATTG
1 TTCCTTTTATTTTTATTG
6728302 TTCCTTTTATTTTTATT
1 TTCCTTTTATTTTTATT
6728319 TCTTTTTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.11, G:0.06, T:0.74
Consensus pattern (18 bp):
TTCCTTTTATTTTTATTG
Found at i:6732485 original size:28 final size:28
Alignment explanation
Indices: 6732417--6732519 Score: 145
Period size: 28 Copynumber: 3.6 Consensus size: 28
6732407 CATGAGATTG
* * *
6732417 GCACTAAGTGTGCGGGTTTAAAT-TGCTCA
1 GCACTAAGTGTGCGAGTTTGATTATG-T-A
6732446 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
6732474 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
6732502 GCACTAAGTGTGCGAGTT
1 GCACTAAGTGTGCGAGTT
6732520 NNNNNNNNNN
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
28 45 0.66
29 21 0.31
30 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATGTA
Found at i:6740568 original size:27 final size:28
Alignment explanation
Indices: 6740459--6740581 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
6740449 GGGATTGGCG
* * * *
6740459 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
* *
6740488 CTAACTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
6740516 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
6740544 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
6740571 CTGAGTGTGCG
1 CTAAGTGTGCG
6740582 GACTTAATAT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 24 0.28
28 47 0.55
29 14 0.16
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:6740592 original size:27 final size:27
Alignment explanation
Indices: 6740484--6740594 Score: 107
Period size: 28 Copynumber: 4.0 Consensus size: 27
6740474 TAAATTGTAC
* * * *
6740484 AGCACTAACTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
6740512 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
6740540 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
6740567 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
6740594 A
1 A
6740595 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 30 0.39
28 46 0.61
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:6745979 original size:93 final size:93
Alignment explanation
Indices: 6745872--6746042 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
6745862 GCCCCTAAGT
* *
6745872 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
6745937 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
6745965 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
6746030 CGAGTTCGGATGC
66 CGAGTTCGGATGC
6746043 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:6746039 original size:46 final size:46
Alignment explanation
Indices: 6745867--6746039 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
6745857 AACCCGCCCC
* * *
6745867 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
6745913 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
6745961 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
6746006 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
6746040 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:6746496 original size:30 final size:30
Alignment explanation
Indices: 6746462--6746521 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
6746452 ATTTAATACG
6746462 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
6746492 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
6746522 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:6753088 original size:15 final size:15
Alignment explanation
Indices: 6753064--6753093 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6753054 AATCACTGTT
6753064 GAAGAAAAAGAAAAA
1 GAAGAAAAAGAAAAA
*
6753079 GAAGATAAAGAAAAA
1 GAAGAAAAAGAAAAA
6753094 TTAGGGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (15 bp):
GAAGAAAAAGAAAAA
Found at i:6753221 original size:18 final size:17
Alignment explanation
Indices: 6753182--6753265 Score: 80
Period size: 18 Copynumber: 4.6 Consensus size: 17
6753172 AATGAGCATA
*
6753182 TTAATTTTTAAAGTTTTAT
1 TTAATTTTT-AA-TTTTTT
6753201 TTAATTTTTAATTTATTT
1 TTAATTTTTAATTT-TTT
*
6753219 TTATTTTTTGAATTTTTT
1 TTAATTTTT-AATTTTTT
*
6753237 TTAAATTTT-ATGTTTTT
1 TTAATTTTTAAT-TTTTT
6753254 TTAATTTATTAA
1 TTAATTT-TTAA
6753266 AACTTTTTCC
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
16 2 0.04
17 14 0.25
18 24 0.44
19 15 0.27
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (17 bp):
TTAATTTTTAATTTTTT
Found at i:6753273 original size:46 final size:48
Alignment explanation
Indices: 6753186--6753284 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 48
6753176 AGCATATTAA
*** **
6753186 TTTTTAAAGTTTTATTTAATTTTTAATTTATTTTTA-TTTTTTGAATTT
1 TTTTTAAAGTTTTATTT-ATTTTTAATTTATTAAAACTTTTTCCAATTT
6753234 TTTTTAAA-TTTTATGTT-TTTTTAATTTATTAAAACTTTTTCCAATTT
1 TTTTTAAAGTTTTAT-TTATTTTTAATTTATTAAAACTTTTTCCAATTT
6753281 TTTT
1 TTTT
6753285 AAAAAGTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
46 14 0.32
47 20 0.45
48 10 0.23
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (48 bp):
TTTTTAAAGTTTTATTTATTTTTAATTTATTAAAACTTTTTCCAATTT
Found at i:6755060 original size:20 final size:20
Alignment explanation
Indices: 6755035--6755077 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
6755025 TTGTTATACC
6755035 TAAATTTATACTCTAATTTT
1 TAAATTTATACTCTAATTTT
6755055 TAAATTTATACTCTAATTTT
1 TAAATTTATACTCTAATTTT
6755075 TAA
1 TAA
6755078 CATAATTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (20 bp):
TAAATTTATACTCTAATTTT
Found at i:6757960 original size:26 final size:26
Alignment explanation
Indices: 6757921--6757973 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
6757911 CTGTCGTAGT
6757921 AAGTCTGCACTTAAGTAGCAGCTGCA
1 AAGTCTGCACTTAAGTAGCAGCTGCA
*
6757947 AAGTCTGCATTTAAGTAGCAGCTGCA
1 AAGTCTGCACTTAAGTAGCAGCTGCA
6757973 A
1 A
6757974 CGCGATGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (26 bp):
AAGTCTGCACTTAAGTAGCAGCTGCA
Found at i:6764205 original size:142 final size:142
Alignment explanation
Indices: 6763949--6764217 Score: 389
Period size: 142 Copynumber: 1.9 Consensus size: 142
6763939 ATAGACAAGA
** * * * *
6763949 GGAAAACTTGGGCATCTAAAGCAAAACTGATTTAAAAGGGAATAACAGTCTTTCACTCTCATCAC
1 GGAAAACCAGGGCATCTAAAACAAAACTCATTTAAAAGGGAACAACAGTCTATCACTCTCATCAC
** * *
6764014 CTACCATCTCCTTCGAGACTCGATTACGTTAGGAAACAGAAGATATATGAATGAAAATTGATACA
66 CTACCATCTCCCCCGAGACTCAATTACGTTAGGAAACAGAAGATATATGAATGAAAACTGATACA
6764079 AAACAAATATGT
131 AAACAAATATGT
*
6764091 GGAAAACCAGGGCATCTAAAACAAAAC-CATTTTAAAAGGGAACAACAGTCTATCATTCTCATCA
1 GGAAAACCAGGGCATCTAAAACAAAACTCA-TTTAAAAGGGAACAACAGTCTATCACTCTCATCA
* *
6764155 CCTACCATCTCCCCCGAGACTCAATTA-TTATATGAAACAGAAGATATATGAATGAAAACTGAT
65 CCTACCATCTCCCCCGAGACTCAATTACGT-TAGGAAACAGAAGATATATGAATGAAAACTGAT
6764218 TAAAAAAAAA
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
141 2 0.02
142 110 0.98
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (142 bp):
GGAAAACCAGGGCATCTAAAACAAAACTCATTTAAAAGGGAACAACAGTCTATCACTCTCATCAC
CTACCATCTCCCCCGAGACTCAATTACGTTAGGAAACAGAAGATATATGAATGAAAACTGATACA
AAACAAATATGT
Found at i:6773755 original size:10 final size:10
Alignment explanation
Indices: 6773721--6773768 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
6773711 AATTTAGGAT
*
6773721 TTATTTTTAA
1 TTATCTTTAA
*
6773731 TTATATTTAA
1 TTATCTTTAA
6773741 TTATCTTTAA
1 TTATCTTTAA
* *
6773751 TTATCTGTAT
1 TTATCTTTAA
6773761 TTATCTTT
1 TTATCTTT
6773769 TAGAATTTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:6777500 original size:25 final size:26
Alignment explanation
Indices: 6777446--6777529 Score: 86
Period size: 25 Copynumber: 3.3 Consensus size: 26
6777436 GCAACCCAAT
*
6777446 TTTTATTTTATTTTATTTATTGT-TTTC
1 TTTTATTTTATTTTA-TTATT-TATTAC
* *
6777473 TTTTGTTTTCTTTT-TTATTTATTAC
1 TTTTATTTTATTTTATTATTTATTAC
*
6777498 -TTTATTTTATTTTATTATTTGTTAC
1 TTTTATTTTATTTTATTATTTATTAC
6777523 -TTTATTT
1 TTTTATTT
6777530 GGATATTAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
24 12 0.24
25 25 0.51
27 12 0.24
ACGTcount: A:0.15, C:0.05, G:0.04, T:0.76
Consensus pattern (26 bp):
TTTTATTTTATTTTATTATTTATTAC
Found at i:6778735 original size:92 final size:92
Alignment explanation
Indices: 6778560--6778735 Score: 253
Period size: 92 Copynumber: 1.9 Consensus size: 92
6778550 TTTTTAAGAA
* * **
6778560 TGTGTTAGGATGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTTTTCGTGTCAAAAGGTTTG
1 TGTGTTAGGATGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCA
* *
6778625 ATATGTTCTTAAGAAAAAAATTAGTAG
66 ATATATTCCTAAGAAAAAAATTAGTAG
* * * *
6778652 TGTGTTGGGTTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTGTCTTCGCGTCAAAAGGTTCA
1 TGTGTTAGGATGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCA
*
6778717 ATATATTCCTAAGTAAAAA
66 ATATATTCCTAAGAAAAAA
6778736 TAAATTAATA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 73 1.00
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (92 bp):
TGTGTTAGGATGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCA
ATATATTCCTAAGAAAAAAATTAGTAG
Found at i:6782544 original size:14 final size:15
Alignment explanation
Indices: 6782518--6782547 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
6782508 TGTTAAAAGG
6782518 AGCAATCTGGGCATC
1 AGCAATCTGGGCATC
6782533 AGCAAT-TGGGCATC
1 AGCAATCTGGGCATC
6782547 A
1 A
6782548 ATGGCTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (15 bp):
AGCAATCTGGGCATC
Found at i:6786771 original size:12 final size:13
Alignment explanation
Indices: 6786754--6786786 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
6786744 TTTAAAAAAT
6786754 AATTAAAATTA-A
1 AATTAAAATTATA
*
6786766 AATTAAAATTATT
1 AATTAAAATTATA
6786779 AATTAAAA
1 AATTAAAA
6786787 AATTTGTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTAAAATTATA
Found at i:6791336 original size:118 final size:118
Alignment explanation
Indices: 6791014--6791317 Score: 563
Period size: 118 Copynumber: 2.6 Consensus size: 118
6791004 CGGAGTTTTA
6791014 ACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAGTCAGTCAC
1 ACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAGTCAGTCAC
6791079 GATTTGAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGTCACGTCAC
66 GATTTGAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGTCACGTCAC
* * *
6791132 ACAACCTTTTGACGCGAAGTAGAATGACAACCCAAACTCCCCACCCCGGTTACTCAGTCAGTCAC
1 ACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAGTCAGTCAC
6791197 GATTTGAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGTCACGTCAC
66 GATTTGAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGTCACGTCAC
* *
6791250 ACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCTGGTTACCCAGTCAGTCAC
1 ACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAGTCAGTCAC
6791315 GAT
66 GAT
6791318 CCAAGCTGTA
Statistics
Matches: 178, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 178 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
ACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAGTCAGTCAC
GATTTGAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGTCACGTCAC
Found at i:6792360 original size:7 final size:6
Alignment explanation
Indices: 6792333--6792394 Score: 60
Period size: 5 Copynumber: 10.5 Consensus size: 6
6792323 ATTAATATTT
*
6792333 AAAT-A AAAT-A AAAT-A AAATAA TAAATAAA AAATTAA AAA-AT AAATAA
1 AAATAA AAATAA AAATAA AAATAA -AAAT-AA AAA-TAA AAATAA AAATAA
6792380 AAATAA AAATAA AAA
1 AAATAA AAATAA AAA
6792395 GAAAGATTGG
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
5 18 0.36
6 17 0.34
7 12 0.24
8 3 0.06
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:6792374 original size:19 final size:18
Alignment explanation
Indices: 6792333--6792392 Score: 72
Period size: 19 Copynumber: 3.4 Consensus size: 18
6792323 ATTAATATTT
*
6792333 AAATAAA-ATAAAATAAA
1 AAATAAATAAAAAATAAA
6792350 ATAATAAATAAAAAATTAAA
1 A-AATAAATAAAAAA-TAAA
6792370 AAATAAAT-AAAAAT-AA
1 AAATAAATAAAAAATAAA
6792386 AAATAAA
1 AAATAAA
6792393 AAGAAAGATT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
16 9 0.23
17 2 0.05
18 11 0.28
19 12 0.31
20 5 0.13
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (18 bp):
AAATAAATAAAAAATAAA
Found at i:6792394 original size:12 final size:12
Alignment explanation
Indices: 6792333--6792394 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
6792323 ATTAATATTT
6792333 AAAT-AAAAT-A
1 AAATAAAAATAA
6792343 AAAT-AAAATAA
1 AAATAAAAATAA
6792354 TAAATAAAAAATTAA
1 -AAAT-AAAAA-TAA
*
6792369 AAA-ATAAATAA
1 AAATAAAAATAA
6792380 AAATAAAAATAA
1 AAATAAAAATAA
6792392 AAA
1 AAA
6792395 GAAAGATTGG
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
10 9 0.20
11 7 0.16
12 18 0.41
14 7 0.16
15 3 0.07
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
AAATAAAAATAA
Found at i:6795506 original size:397 final size:397
Alignment explanation
Indices: 6794761--6795544 Score: 1356
Period size: 397 Copynumber: 2.0 Consensus size: 397
6794751 TGGTCTTCTG
6794761 GCACAACAGGGATCTGGAAGAAACCTAAATATCCATCAAGACAACAAAAGTGAGTTTTACCAGCT
1 GCACAACAGGGATCTGGAAGAAACCTAAATATCCATCAAGACAACAAAAGTGAGTTTTACCAGCT
6794826 AAACGTTCAAGCATTTGATCTATAAAAGAAAGAGGGAAATGATCTTTTCTAGTATAAGCGTTCAA
66 AAACGTTCAAGCATTTGATCTATAAAAGAAAGAGGGAAATGATCTTTTCTAGTATAAGCGTTCAA
*
6794891 CTTCCTGTAATCGATGTAGACACGCCACCCGTTCTACACTCGGACTAGTACTAAGTCGCCCTCAG
131 CTTCCTGTAATCGATGTAGACACGCCACCCGTTCTACACTCGGACCAGTACTAAGTCGCCCTCAG
* * * * *
6794956 CATTTTTCTTTACTGTCACGCCCGTTTTCTTGGGTACGACTTGTACCGGATTTACCCATCTGCTG
196 CATTTTTCTTTACTGTCACGCCCGATTTCTTAGGCACGACTTGTACCGGACTTAACCATCTGCTG
* * * * *
6795021 TCAGAAATGGGGAAAATGATGTCAGCATCCAGTAGCTTAATTATTTCTTTTTTTAGCACCTCCAT
261 TCAGAAATGGGGAAAATAATGTCAGCATCCAGCAACTTAATTATTTCTCTTTTTACCACCTCCAT
* *
6795086 CATATTCGAGTTTAAACGTCTTTGTGCCTCTCTCCTTGGTTTCGTGTTCTTCTCCAAGTAAATCT
326 CATATTCGAGTTTAAACGTCTTTGTACCTCTCTCCTTGGTTTCGTGTTCTCCTCCAAGTAAATCT
6795151 TGTGGGA
391 TGTGGGA
6795158 GCACAACAGGGATCTGGAAGAAACCTAAATATCCATCAAGACAACAAAAGTGAGTTTTACCAGCT
1 GCACAACAGGGATCTGGAAGAAACCTAAATATCCATCAAGACAACAAAAGTGAGTTTTACCAGCT
6795223 AAACGTTCAAGCATTTGATCTATAAAAGAAAGAGGGAAATGATCTTTTCTAGTATAAGCGTTCAA
66 AAACGTTCAAGCATTTGATCTATAAAAGAAAGAGGGAAATGATCTTTTCTAGTATAAGCGTTCAA
* * *
6795288 CTTCCTGTAATCGATGTAGACACGCCACCCGTTTTGCACTCGGACCGGTACTAAGTC-CCCTCAG
131 CTTCCTGTAATCGATGTAGACACGCCACCCGTTCTACACTCGGACCAGTACTAAGTCGCCCTCAG
*
6795352 TATTTTTCTTTACTGTCACGCCCGATTTCTTAGGCACGACTTGTACCGGACTTAACCATCTGCTG
196 CATTTTTCTTTACTGTCACGCCCGATTTCTTAGGCACGACTTGTACCGGACTTAACCATCTGCTG
*
6795417 TCAGAAATGGGGAAGATAATGTCAGCATCCAGCAACTTAATTATTTC-CTTTTTACCACCTCCAT
261 TCAGAAATGGGGAAAATAATGTCAGCATCCAGCAACTTAATTATTTCTCTTTTTACCACCTCCAT
* *
6795481 CATATTCGGGTTTAAACATGTCTTTGTACCTCTCTCTTTGGTTTCGTGTTCTCCTCCAAGTAAA
326 CATATTCGAGTTTAAAC--GTCTTTGTACCTCTCTCCTTGGTTTCGTGTTCTCCTCCAAGTAAA
6795545 ATTTTTGAGT
Statistics
Matches: 365, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
395 31 0.08
396 109 0.30
397 225 0.62
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (397 bp):
GCACAACAGGGATCTGGAAGAAACCTAAATATCCATCAAGACAACAAAAGTGAGTTTTACCAGCT
AAACGTTCAAGCATTTGATCTATAAAAGAAAGAGGGAAATGATCTTTTCTAGTATAAGCGTTCAA
CTTCCTGTAATCGATGTAGACACGCCACCCGTTCTACACTCGGACCAGTACTAAGTCGCCCTCAG
CATTTTTCTTTACTGTCACGCCCGATTTCTTAGGCACGACTTGTACCGGACTTAACCATCTGCTG
TCAGAAATGGGGAAAATAATGTCAGCATCCAGCAACTTAATTATTTCTCTTTTTACCACCTCCAT
CATATTCGAGTTTAAACGTCTTTGTACCTCTCTCCTTGGTTTCGTGTTCTCCTCCAAGTAAATCT
TGTGGGA
Found at i:6799113 original size:19 final size:19
Alignment explanation
Indices: 6799089--6799127 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
6799079 CCAATGTAAT
6799089 TTTTTTTACTGTTTTGCTA
1 TTTTTTTACTGTTTTGCTA
*
6799108 TTTTTTTATTGTTTTGCTA
1 TTTTTTTACTGTTTTGCTA
6799127 T
1 T
6799128 CATTTCATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.10, C:0.08, G:0.10, T:0.72
Consensus pattern (19 bp):
TTTTTTTACTGTTTTGCTA
Found at i:6799855 original size:538 final size:533
Alignment explanation
Indices: 6798843--6799912 Score: 1646
Period size: 538 Copynumber: 2.0 Consensus size: 533
6798833 GTCAAACCTA
* *
6798843 AACCTAAAATTACATTAATTGAACTCAGAAAATTTTCATTCATGAATACTTTTAACTACACTTGT
1 AACCTAAAATTACATGAATTAAACTCAGAAAATTTTCATTCATGAATACTTTTAACTACACTTGT
** * *
6798908 ACATGGTTAAGCCGAAGGTCTGCTTGAAAAGTGAGAGGATTTGAACAAAAATATAAGCTCAAAAA
66 ACATGGTTAAGCCGAAGGTCCACTCGAAAAGTGAGAGGATCTGAACAAAAATATAAGCTCAAAAA
* * * * *
6798973 ATAGGCTTAGACAAAAAATAAGGCCTGTTTTTTAAACGGATCAAGCCTAGGATAAGCTTTTTTGG
131 ATAGACTTAGACAAAAAACAAGGCCCGTTTTCTAAACGGATCAAGCCTAGGATAAGCTTCTTTGG
* **
6799038 TCAGAGCTTGACCCAACCTGGCCTAATTTGTAAATAAAAAACCAATGTAATTTTTTTTACTGTTT
196 TCAGAGCCTGACCCAACCTGGCCTAATTTGTAAATAAAAAAAAAATGTAATTTTTTTTACTGTTT
* *
6799103 TGCTATTTTTTTATTGTTTTGCTATCATTTCATTATTATAATGCTGATATTTTATTGTTATTGTT
261 TGCTATTTTTTAATTGTTTTGCTATCATTTCATTATTATAATGATGATATTTTATTGTTATTGTT
* *
6799168 TGGATATTGTATAACTCTTATTTTATTATTAATTTTGCTATTATTTTAGAGATATTTGCCTGTTA
326 TGGATATTGTATAACTCTTATTTTATTATTAATTTTGCTACTATTTTAGAGATATTTGCCTGCTA
*
6799233 AGTTACACTTATCTTAGTGTTATTTAAGTATTTTTTTAATTTTTTATTTGTTGGGAAACATTTAT
391 AGTTACACTTATCTTAGTCTTATTTAAGTATTTTTTTAATTTTTTATTTGTTGGGAAACATTTAT
6799298 TTTAATATTTTTAGTGTATTTGATATATTATATTTTTAAAATTTATTTCTATATAAAAATAATAA
456 TTTAATATTTTTAGTGTATTTGATATATTATATTTTTAAAATTTATTTCTATATAAAAATAATAA
6799363 TATAAAAAATTTT
521 TATAAAAAATTTT
* *
6799376 AACCTAAAATTACATGAATTAAACTCAGAAAATTTTCATTCATGAATACTTTTAATTGCACTTGT
1 AACCTAAAATTACATGAATTAAACTCAGAAAATTTTCATTCATGAATACTTTTAACTACACTTGT
* * * *
6799441 ACATGGTTAGGCCGAAGGTCCACTCGAAAAGTGAGAGGATCTGGATAAAAATATAGGCTCAAAAA
66 ACATGGTTAAGCCGAAGGTCCACTCGAAAAGTGAGAGGATCTGAACAAAAATATAAGCTCAAAAA
* *
6799506 ATAGATTTAGAC-AAAAACAAGGCCCGTTTTCTAAACGGATCAAGCCTAGGGTAAG-TTCTTTGG
131 ATAGACTTAGACAAAAAACAAGGCCCGTTTTCTAAACGGATCAAGCCTAGGATAAGCTTCTTTGG
* * *
6799569 TC-GAGGCCTGACCTAACTTGGCCTGAATTTGTAAA-AAAAAAAAAATTGATGCTATTTTTTTTA
196 TCAGA-GCCTGACCCAACCTGGCCT-AATTTGTAAATAAAAAAAAAA-TG-T--AATTTTTTTTA
* * *
6799632 CTGTTTTGCTACTGCTTTTTAATTGTTTTGCTATTATTTCATTATTATATTGAT-ACTATTTTGT
255 CTGTTTTGCTA-T--TTTTTAATTGTTTTGCTATCATTTCATTATTATAATGATGA-TATTTTAT
*
6799696 TGTTATTGTTTGGATATTGTATAACTCTTATTTTATTATTAATTTTGCTACTATTTTAGAGGTAT
316 TGTTATTGTTTGGATATTGTATAACTCTTATTTTATTATTAATTTTGCTACTATTTTAGAGATAT
* *
6799761 TTGCTTGCTAAGTTACATTTATCTTAGTCTTATTTAAGTATTTTTTTAATTTTTTATTTGTTGGG
381 TTGCCTGCTAAGTTACACTTATCTTAGTCTTATTTAAGTATTTTTTTAATTTTTTATTTGTTGGG
* * * * *
6799826 AAATATTTATTTTAATTTTTTTAGTGTATTTGATGTATTATATTTTTTAAATTTATTTTTATATA
446 AAACATTTATTTTAATATTTTTAGTGTATTTGATATATTATATTTTTAAAATTTATTTCTATATA
6799891 AAAATAATAATATAAAAAATTT
511 AAAATAATAATATAAAAAATTT
6799913 AATATGGGCG
Statistics
Matches: 486, Mismatches: 41, Indels: 15
0.90 0.08 0.03
Matches are distributed among these distances:
530 2 0.00
531 33 0.07
532 51 0.10
533 129 0.27
535 21 0.04
536 1 0.00
537 1 0.00
538 248 0.51
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (533 bp):
AACCTAAAATTACATGAATTAAACTCAGAAAATTTTCATTCATGAATACTTTTAACTACACTTGT
ACATGGTTAAGCCGAAGGTCCACTCGAAAAGTGAGAGGATCTGAACAAAAATATAAGCTCAAAAA
ATAGACTTAGACAAAAAACAAGGCCCGTTTTCTAAACGGATCAAGCCTAGGATAAGCTTCTTTGG
TCAGAGCCTGACCCAACCTGGCCTAATTTGTAAATAAAAAAAAAATGTAATTTTTTTTACTGTTT
TGCTATTTTTTAATTGTTTTGCTATCATTTCATTATTATAATGATGATATTTTATTGTTATTGTT
TGGATATTGTATAACTCTTATTTTATTATTAATTTTGCTACTATTTTAGAGATATTTGCCTGCTA
AGTTACACTTATCTTAGTCTTATTTAAGTATTTTTTTAATTTTTTATTTGTTGGGAAACATTTAT
TTTAATATTTTTAGTGTATTTGATATATTATATTTTTAAAATTTATTTCTATATAAAAATAATAA
TATAAAAAATTTT
Found at i:6802951 original size:21 final size:21
Alignment explanation
Indices: 6802922--6802974 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
6802912 TTTTGGATAT
6802922 TTTCC-CCCA-TAATCCCCTAA
1 TTTCCTCCCACTAAT-CCCTAA
*
6802942 TTTCCTCCCACTTATCCCTAA
1 TTTCCTCCCACTAATCCCTAA
*
6802963 CTTCGCTCCCAC
1 TTTC-CTCCCAC
6802975 ACCTCCTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.18
21 13 0.46
22 10 0.36
ACGTcount: A:0.19, C:0.47, G:0.02, T:0.32
Consensus pattern (21 bp):
TTTCCTCCCACTAATCCCTAA
Found at i:6812522 original size:18 final size:18
Alignment explanation
Indices: 6812499--6812564 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
6812489 GTAGGATTTG
6812499 TTTTGATTTGATATGACA
1 TTTTGATTTGATATGACA
* **
6812517 TTTTGATATGATAT-ATG
1 TTTTGATTTGATATGACA
* *
6812534 TTTT--TGGTAATATGACA
1 TTTTGAT-TTGATATGACA
6812551 TTTTGATTTGATAT
1 TTTTGATTTGATAT
6812565 TTGTATATGT
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
15 1 0.03
16 5 0.14
17 10 0.29
18 18 0.51
19 1 0.03
ACGTcount: A:0.27, C:0.03, G:0.17, T:0.53
Consensus pattern (18 bp):
TTTTGATTTGATATGACA
Found at i:6814155 original size:60 final size:60
Alignment explanation
Indices: 6814088--6814220 Score: 203
Period size: 60 Copynumber: 2.2 Consensus size: 60
6814078 ATCTCGGGTT
* ** *
6814088 ACATTTTAGTCATTTATATTTGAAATGTTACGTTTTAGTCATTTACATTAACGTGTTGTA
1 ACATTTTAGTCACTTATATTTGAAACATTACGTTTTAGTCACTTACATTAACGTGTTGTA
* * *
6814148 ACATTTTAGTCACTTATATTTGAAACATTATGTTTTAGTCACTTGCATTAATGTGTTGTA
1 ACATTTTAGTCACTTATATTTGAAACATTACGTTTTAGTCACTTACATTAACGTGTTGTA
6814208 ACATTTTAGTCAC
1 ACATTTTAGTCAC
6814221 CGAGCTGTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.47
Consensus pattern (60 bp):
ACATTTTAGTCACTTATATTTGAAACATTACGTTTTAGTCACTTACATTAACGTGTTGTA
Found at i:6814657 original size:14 final size:14
Alignment explanation
Indices: 6814640--6814687 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
6814630 GAAAAGAATG
6814640 AAAAATAAAGAAAA
1 AAAAATAAAGAAAA
*
6814654 AAAAAGAAAGTTAAAA
1 AAAAATAAAG--AAAA
*
6814670 AAACATAAAAGAAAA
1 AAAAAT-AAAGAAAA
6814685 AAA
1 AAA
6814688 TTAAATTGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 9 0.32
15 7 0.25
16 8 0.29
17 4 0.14
ACGTcount: A:0.81, C:0.02, G:0.08, T:0.08
Consensus pattern (14 bp):
AAAAATAAAGAAAA
Found at i:6820419 original size:30 final size:31
Alignment explanation
Indices: 6820385--6820448 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
6820375 ATTTATTTTA
*
6820385 TTGTTAA-TTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTTATTATTATTTTAGAA-GCAT
6820415 TTGTTAATTTTTATTATTATTTTAGAAGCAT
1 TTGTTAATTTTTATTATTATTTTAGAAGCAT
6820446 TTG
1 TTG
6820449 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 7 0.23
31 22 0.71
32 2 0.06
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.58
Consensus pattern (31 bp):
TTGTTAATTTTTATTATTATTTTAGAAGCAT
Found at i:6825368 original size:30 final size:30
Alignment explanation
Indices: 6825334--6825394 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
6825324 CATAATAAGG
6825334 AATGCAATCAATAAAGTTGGTTAGAATTCC
1 AATGCAATCAATAAAGTTGGTTAGAATTCC
6825364 AATGCAATCAATAAAGTTGGTTAGAATTCC
1 AATGCAATCAATAAAGTTGGTTAGAATTCC
6825394 A
1 A
6825395 GTCCTAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (30 bp):
AATGCAATCAATAAAGTTGGTTAGAATTCC
Found at i:6831425 original size:21 final size:21
Alignment explanation
Indices: 6831402--6831571 Score: 128
Period size: 21 Copynumber: 8.2 Consensus size: 21
6831392 GTGTTTTACT
* *
6831402 TTCTGTTTAGCTCTTACGAGT
1 TTCTGTTCAGCTCTTACGAGC
* * * * *
6831423 TTCTGTTTAACTCCTATGAGT
1 TTCTGTTCAGCTCTTACGAGC
*
6831444 TTCTGTTCAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTACGAGC
* ** *
6831465 TTCTATTCAATTCTTATGAGC
1 TTCTGTTCAGCTCTTACGAGC
** * * *
6831486 TTCTGTTCAATTATTAAGAGT
1 TTCTGTTCAGCTCTTACGAGC
*
6831507 TTCTATTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTACGAGC
*
6831528 TTCTGTTAAGCT-TT-CGAGC
1 TTCTGTTCAGCTCTTACGAGC
* **
6831547 TTCTGTTAAGCTCTTTTGAGC
1 TTCTGTTCAGCTCTTACGAGC
6831568 TTCT
1 TTCT
6831572 ATTAACCCTT
Statistics
Matches: 124, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.14
20 4 0.03
21 103 0.83
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTACGAGC
Found at i:6831617 original size:21 final size:21
Alignment explanation
Indices: 6831557--6831619 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
6831547 TTCTGTTAAG
*
6831557 CTCTTTTGAGCTTCTATT-AA
1 CTCTTTTGAGCTTTTATTCAA
* * * *
6831577 CCCTTATG-GGTTTTCGTTCAA
1 CTCTTTTGAGCTTTT-ATTCAA
6831598 CTCTTTTGAGCTTTTATTCAA
1 CTCTTTTGAGCTTTTATTCAA
6831619 C
1 C
6831620 CCTTATGGGT
Statistics
Matches: 31, Mismatches: 9, Indels: 5
0.69 0.20 0.11
Matches are distributed among these distances:
19 4 0.13
20 8 0.26
21 14 0.45
22 5 0.16
ACGTcount: A:0.17, C:0.22, G:0.13, T:0.48
Consensus pattern (21 bp):
CTCTTTTGAGCTTTTATTCAA
Found at i:6831636 original size:21 final size:20
Alignment explanation
Indices: 6831571--6831636 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
6831561 TTTGAGCTTC
6831571 TATT-AACCCTTATGGGTTT
1 TATTCAACCCTTATGGGTTT
* * * *
6831590 TCGTTCAACTCTTTTGAGCTTT
1 T-ATTCAACCCTTATG-GGTTT
6831612 TATTCAACCCTTATGGGTTT
1 TATTCAACCCTTATGGGTTT
6831632 CTATT
1 -TATT
6831637 TAGCTTTCAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 1 0.03
20 6 0.17
21 23 0.66
22 5 0.14
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (20 bp):
TATTCAACCCTTATGGGTTT
Found at i:6834015 original size:50 final size:50
Alignment explanation
Indices: 6833943--6834133 Score: 185
Period size: 50 Copynumber: 3.8 Consensus size: 50
6833933 GGTCACATAG
* * *
6833943 GTATGTACATATATGATGTTATATTGGATCTTGTATATTCG-GATATAAA
1 GTATGCACATATGTGATATTATATTGGATCTTGTATATTCGAGATATAAA
* *
6833992 GCTATGCACAAATGTGATATTATATTTGAAT-TTGTATATTC-AGCCATAT-AA
1 G-TATGCACATATGTGATATTATA-TTGGATCTTGTATATTCGAG--ATATAAA
* * * * * *
6834043 GTAAGCACATATGTGATATTATATTTGATCTTGCATATTTGAGA-ACATAG
1 GTATGCACATATGTGATATTATATTGGATCTTGTATATTCGAGATATA-AA
* *
6834093 GTATGCATATATGTGATATTATATTTGATCTTGTATATTCG
1 GTATGCACATATGTGATATTATATTGGATCTTGTATATTCG
6834134 GCCAAATGAA
Statistics
Matches: 116, Mismatches: 17, Indels: 17
0.77 0.11 0.11
Matches are distributed among these distances:
48 1 0.01
49 6 0.05
50 95 0.82
51 10 0.09
52 4 0.03
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (50 bp):
GTATGCACATATGTGATATTATATTGGATCTTGTATATTCGAGATATAAA
Found at i:6834107 original size:100 final size:100
Alignment explanation
Indices: 6833949--6834137 Score: 247
Period size: 100 Copynumber: 1.9 Consensus size: 100
6833939 ATAGGTATGT
* * *
6833949 ACATATATGATGTTATATTGGATCTTGTATATTCGGATATAAAGCTATGCACAAATGTGATATTA
1 ACATATATGATATTATATTGGATCTTGCATATTCGGATACAAAGCTATGCACAAATGTGATATTA
6834014 TATTTGAAT-TTGTATATTCAGCCATATAAGTAAGC
66 TATTTG-ATCTTGTATATTCAGCCATATAAGTAAGC
* * * * * * *
6834049 ACATATGTGATATTATATTTGATCTTGCATATTTGAGA-ACATAGGTATGCATATATGTGATATT
1 ACATATATGATATTATATTGGATCTTGCATATTCG-GATACAAAGCTATGCACAAATGTGATATT
*
6834113 ATATTTGATCTTGTATATTCGGCCA
65 ATATTTGATCTTGTATATTCAGCCA
6834138 AATGAATGAT
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
99 2 0.03
100 72 0.95
101 2 0.03
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (100 bp):
ACATATATGATATTATATTGGATCTTGCATATTCGGATACAAAGCTATGCACAAATGTGATATTA
TATTTGATCTTGTATATTCAGCCATATAAGTAAGC
Found at i:6837615 original size:50 final size:51
Alignment explanation
Indices: 6837538--6837666 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
6837528 GACCATGGCA
6837538 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
6837589 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
6837639 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
6837667 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:6837680 original size:31 final size:31
Alignment explanation
Indices: 6837642--6837790 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
6837632 ACAAATGACA
*
6837642 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
6837673 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
6837704 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* **
6837735 AGTGAAAAATGGTAGCACCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
6837766 AGTGAATAGTGGTAGCTTTGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
6837791 AAGTGACAAG
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:6837885 original size:47 final size:46
Alignment explanation
Indices: 6837815--6837980 Score: 162
Period size: 47 Copynumber: 3.7 Consensus size: 46
6837805 AAGTGATTTC
* * *
6837815 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* *
6837861 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * * *
6837908 CGTGTAAGACCATAGCTGCGCTATGGCAT---T--GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG-ATA
* * * *
6837950 TGTGTAAGACCATAGCTGGGCTATGGCATCA
1 CGTATAAGACCATATCTGGGATATGGCATCA
6837981 TTATGTGAAG
Statistics
Matches: 103, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
41 7 0.07
42 29 0.28
43 1 0.01
46 25 0.24
47 41 0.40
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
Found at i:6837967 original size:42 final size:43
Alignment explanation
Indices: 6837909--6838020 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 43
6837899 TATGTGATTC
* * *
6837909 GTGTAAGACCATAGCTGCGCTATGGCATTGA-TATATGAATAT
1 GTGTAAGACCATAGCTGAGCTATGGCATTCATTATATGAAGAT
* *
6837951 GTGTAAGACCATAGCTGGGCTATGGCA-TCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGAGCTATGGCATTCATTATATGAAGAT
* *
6837993 GTGTAAGACCATAGTTGAACTATGGCAT
1 GTGTAAGACCATAGCTGAGCTATGGCAT
6838021 CGAGAAAACG
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 2 0.03
42 59 0.97
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGAGCTATGGCATTCATTATATGAAGAT
Found at i:6838279 original size:27 final size:27
Alignment explanation
Indices: 6838249--6838313 Score: 112
Period size: 29 Copynumber: 2.3 Consensus size: 27
6838239 GATATGGAAT
6838249 AAATTGAACACAAGACAAATAATTATG
1 AAATTGAACACAAGACAAATAATTATG
6838276 AAATTGAAAACACAAGACAAATAATTATG
1 AAATTG--AACACAAGACAAATAATTATG
6838305 AAATTGAAC
1 AAATTGAAC
6838314 TCGGAATACG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
27 9 0.25
29 27 0.75
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.22
Consensus pattern (27 bp):
AAATTGAACACAAGACAAATAATTATG
Found at i:6838291 original size:29 final size:29
Alignment explanation
Indices: 6838255--6838312 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
6838245 GAATAAATTG
6838255 AACACAAGACAAATAATTATGAAATTGAA
1 AACACAAGACAAATAATTATGAAATTGAA
6838284 AACACAAGACAAATAATTATGAAATTGAA
1 AACACAAGACAAATAATTATGAAATTGAA
6838313 CTCGGAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.21
Consensus pattern (29 bp):
AACACAAGACAAATAATTATGAAATTGAA
Found at i:6838459 original size:21 final size:22
Alignment explanation
Indices: 6838434--6838481 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
6838424 CGAAAGAATG
6838434 AAAAATAAAT-AAATTA-GTATA
1 AAAAATAAATAAAATTAGGTA-A
*
6838455 AAAAA-ATATAAAATTAGGTAA
1 AAAAATAAATAAAATTAGGTAA
6838476 AAAAAT
1 AAAAAT
6838482 GAACAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 3 0.13
21 17 0.74
22 3 0.13
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (22 bp):
AAAAATAAATAAAATTAGGTAA
Found at i:6838465 original size:20 final size:20
Alignment explanation
Indices: 6838434--6838481 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
6838424 CGAAAGAATG
*
6838434 AAAAATAAATAAATTAGTATAA
1 AAAAATATA-AAATTAG-ATAA
*
6838456 AAAAATATAAAATTAGGTAA
1 AAAAATATAAAATTAGATAA
6838476 AAAAAT
1 AAAAAT
6838482 GAACAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
21 7 0.29
22 8 0.33
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAAATATAAAATTAGATAA
Found at i:6838699 original size:3 final size:3
Alignment explanation
Indices: 6838691--6838721 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
6838681 ATTTAATAGT
*
6838691 ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6838722 CGATGTGAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6838850 original size:3 final size:3
Alignment explanation
Indices: 6838844--6839006 Score: 129
Period size: 3 Copynumber: 54.3 Consensus size: 3
6838834 TATTAATAGG
* * * *
6838844 AAT AAT AAT -AT AGACT AAT AAT AAC AAT AAC AAT AA- CAG AAT AAT
1 AAT AAT AAT AAT A-A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
6838889 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * * * *
6838934 AAT AGA- AA- AAC GAT AAT AGT AAT AAC AAT GAT AAT AAT AAAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * *
6838979 AAG AGT AAT AGT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6839007 CTCTAAATGT
Statistics
Matches: 127, Mismatches: 24, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
2 8 0.06
3 109 0.86
4 8 0.06
5 2 0.02
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:6840135 original size:25 final size:25
Alignment explanation
Indices: 6840101--6840152 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
6840091 CTTTTGCAGG
6840101 GATGGCAGAGGAGTTGGTGGTGACA
1 GATGGCAGAGGAGTTGGTGGTGACA
6840126 GATGGCAGAGGAGTTGGTGGTGACA
1 GATGGCAGAGGAGTTGGTGGTGACA
6840151 GA
1 GA
6840153 CCTTGGGCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.08, G:0.48, T:0.19
Consensus pattern (25 bp):
GATGGCAGAGGAGTTGGTGGTGACA
Found at i:6842709 original size:15 final size:15
Alignment explanation
Indices: 6842689--6842730 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
6842679 AAATTTAAAT
*
6842689 AGAATGTAATT-CTTG
1 AGAATGTAATTAC-TA
6842704 AGAATGTAATTACTA
1 AGAATGTAATTACTA
6842719 AGAATGTAATTA
1 AGAATGTAATTA
6842731 TCAAGAGTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 24 0.96
16 1 0.04
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.36
Consensus pattern (15 bp):
AGAATGTAATTACTA
Found at i:6842736 original size:15 final size:15
Alignment explanation
Indices: 6842689--6842736 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
6842679 AAATTTAAAT
* **
6842689 AGAATGTAATTCTTG
1 AGAATGTAATTATCA
6842704 AGAATGTAATTA-CTA
1 AGAATGTAATTATC-A
6842719 AGAATGTAATTATCA
1 AGAATGTAATTATCA
6842734 AGA
1 AGA
6842737 GTACATAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 27 0.96
16 1 0.04
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (15 bp):
AGAATGTAATTATCA
Found at i:6842968 original size:17 final size:18
Alignment explanation
Indices: 6842946--6842980 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6842936 AACAAGTAAT
6842946 TTAATATT-TTTATTTTA
1 TTAATATTATTTATTTTA
6842963 TTAATATTATTTATTTTA
1 TTAATATTATTTATTTTA
6842981 AATAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTAATATTATTTATTTTA
Found at i:6843084 original size:28 final size:27
Alignment explanation
Indices: 6843044--6843119 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 27
6843034 ACTCTATAAA
6843044 TAAGATCAAGGGTTGACAAGTATCCTAT
1 TAAGA-CAAGGGTTGACAAGTATCCTAT
*
6843072 TAAGACAATGGGTTGACAAGTGTCCTAT
1 TAAGACAA-GGGTTGACAAGTATCCTAT
*
6843100 TAAGACTAAGAGTTGACAAG
1 TAAGAC-AAGGGTTGACAAG
6843120 GGTCTAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 3 0.07
28 39 0.89
29 2 0.05
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (27 bp):
TAAGACAAGGGTTGACAAGTATCCTAT
Found at i:6843311 original size:15 final size:15
Alignment explanation
Indices: 6843275--6843316 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
6843265 ATTAAACTAG
**
6843275 TATAAATTTTAAATTT
1 TATAAA-TTTAAATCA
6843291 TA-AAATTTAAATCA
1 TATAAATTTAAATCA
6843305 TATAAATTTAAA
1 TATAAATTTAAA
6843317 AATAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 9 0.39
15 12 0.52
16 2 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TATAAATTTAAATCA
Found at i:6852659 original size:47 final size:47
Alignment explanation
Indices: 6852605--6852752 Score: 116
Period size: 47 Copynumber: 3.3 Consensus size: 47
6852595 TCAGGCAGGG
*
6852605 AGCAGATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATCGAAGACATAGATGATTTGGCTTTCACGTGTTTACGTTGA
* * * * * *
6852652 AGTAGATC-----CA-AGATGATTTGGC-ATCTC-TGTATCAGGCG-GGG
1 AGCAGATCGAAGACATAGATGATTTGGCTTTCACGTGT-TTA--CGTTGA
*
6852693 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATCGAAGACATAGATGATTTGGCTTTCACGTGTTTACGTTGA
* *
6852740 AGCAAATCCAAGA
1 AGCAGATCGAAGA
6852753 TGATTTGGCG
Statistics
Matches: 73, Mismatches: 16, Indels: 24
0.65 0.14 0.21
Matches are distributed among these distances:
39 3 0.04
40 5 0.07
41 19 0.26
42 4 0.05
46 4 0.05
47 30 0.41
48 5 0.07
49 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (47 bp):
AGCAGATCGAAGACATAGATGATTTGGCTTTCACGTGTTTACGTTGA
Found at i:6852718 original size:88 final size:88
Alignment explanation
Indices: 6852569--6852792 Score: 360
Period size: 88 Copynumber: 2.6 Consensus size: 88
6852559 AGCTGAAGAT
* *
6852569 ATCCAAGATGATTTGGCATTTCTGTATCAGGCAGGGAGCAGATCGAAGACATAGTTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
* *
6852634 TTCACGTGTTTACGTTGAAGTAG
66 TTCACGTGTTTACGTTGAAGCAA
*
6852657 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
6852722 TTCACGTGTTTACGTTGAAGCAA
66 TTCACGTGTTTACGTTGAAGCAA
* * * *
6852745 ATCCAAGATGATTTGGCGTCTCTGTAGC-GGCAGAGAGCAAATCGAAGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGA
6852793 TGATTTGGCA
Statistics
Matches: 126, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
87 17 0.13
88 109 0.87
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
TTCACGTGTTTACGTTGAAGCAA
Found at i:6852856 original size:44 final size:44
Alignment explanation
Indices: 6852754--6852986 Score: 323
Period size: 44 Copynumber: 5.4 Consensus size: 44
6852744 AATCCAAGAT
*
6852754 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAAATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* *
6852794 GATTTGGCATCTCTGTAGCGGC-GAACAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAG-AGAGCAGATCGAAGATAACA
* *
6852838 GATTTGGCGTCTCCGTAGCGGCAGAGAGCAGATCGAACATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
*
6852882 GATTTGGCGTCTTTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
* * * *
6852926 AATTTGGTGTCTCCGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
*
6852970 GATTTGGCATCTCTGTA
1 GATTTGGCGTCTCTGTA
6852987 TTAGACGGGG
Statistics
Matches: 168, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 35 0.21
44 131 0.78
45 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
Found at i:6853296 original size:9 final size:9
Alignment explanation
Indices: 6853282--6853323 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
6853272 AACCCAAAAT
6853282 AAAAAATAA
1 AAAAAATAA
6853291 AAAAAATAA
1 AAAAAATAA
6853300 AAAAAATGAA
1 AAAAAAT-AA
* *
6853310 GAAAAAGAA
1 AAAAAATAA
6853319 AAAAA
1 AAAAA
6853324 CCTAACCTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 22 0.76
10 7 0.24
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (9 bp):
AAAAAATAA
Found at i:6853305 original size:18 final size:19
Alignment explanation
Indices: 6853282--6853323 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
6853272 AACCCAAAAT
*
6853282 AAAAAAT-AAAAAAAATAA
1 AAAAAATGAAAAAAAAGAA
*
6853300 AAAAAATGAAGAAAAAGAA
1 AAAAAATGAAAAAAAAGAA
6853319 AAAAA
1 AAAAA
6853324 CCTAACCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (19 bp):
AAAAAATGAAAAAAAAGAA
Found at i:6854519 original size:19 final size:19
Alignment explanation
Indices: 6854495--6854532 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6854485 TTGAGATTGC
*
6854495 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
6854514 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
6854533 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:6860680 original size:21 final size:19
Alignment explanation
Indices: 6860630--6860666 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
6860620 ATGTATTTCC
6860630 ATCTAATTTATATATTTTT
1 ATCTAATTTATATATTTTT
6860649 ATCTAATTTATATATTTT
1 ATCTAATTTATATATTTT
6860667 GTCTTTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
ATCTAATTTATATATTTTT
Found at i:6872650 original size:25 final size:25
Alignment explanation
Indices: 6872622--6872671 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
6872612 GAAACTAACT
6872622 AGGAGAGTTTCAAGTTGGAACTCGA
1 AGGAGAGTTTCAAGTTGGAACTCGA
6872647 AGGAGAGTTTCAAGTTGGAACTCGA
1 AGGAGAGTTTCAAGTTGGAACTCGA
6872672 GATTACTTTC
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:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (25 bp):
AGGAGAGTTTCAAGTTGGAACTCGA
Found at i:6877754 original size:25 final size:25
Alignment explanation
Indices: 6877726--6877778 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
6877716 GTGACCCTAC
6877726 TTATCTTAAT-TAAAAATCTAAATTA
1 TTAT-TTAATCTAAAAATCTAAATTA
**
6877751 TTATTTAATCTATTAATCTAAATTA
1 TTATTTAATCTAAAAATCTAAATTA
6877776 TTA
1 TTA
6877779 ATTATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (25 bp):
TTATTTAATCTAAAAATCTAAATTA
Found at i:6877779 original size:13 final size:13
Alignment explanation
Indices: 6877740--6877780 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
6877730 CTTAATTAAA
6877740 AATCTAAATTATT
1 AATCTAAATTATT
*
6877753 -AT-TTAATCTATT
1 AATCTAAAT-TATT
6877765 AATCTAAATTATT
1 AATCTAAATTATT
6877778 AAT
1 AAT
6877781 TATTTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
11 4 0.17
12 6 0.26
13 9 0.39
14 4 0.17
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (13 bp):
AATCTAAATTATT
Found at i:6881305 original size:16 final size:17
Alignment explanation
Indices: 6881266--6881314 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 17
6881256 CGTCTGGTTC
6881266 ACTGTAATGGAATAG-G
1 ACTGTAATGGAATAGAG
* *
6881282 ACTATAATTGAATAGAG
1 ACTGTAATGGAATAGAG
6881299 -CTGTAATGGAATAGAG
1 ACTGTAATGGAATAGAG
6881315 TTATAATCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 27 0.96
17 1 0.04
ACGTcount: A:0.41, C:0.06, G:0.27, T:0.27
Consensus pattern (17 bp):
ACTGTAATGGAATAGAG
Found at i:6881321 original size:16 final size:16
Alignment explanation
Indices: 6881270--6881321 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
6881260 TGGTTCACTG
6881270 TAATGGAATAG-GACTA
1 TAATGGAATAGAG-CTA
* *
6881286 TAATTGAATAGAGCTG
1 TAATGGAATAGAGCTA
*
6881302 TAATGGAATAGAGTTA
1 TAATGGAATAGAGCTA
6881318 TAAT
1 TAAT
6881322 CAGTAATTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 29 0.97
17 1 0.03
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAGCTA
Found at i:6881537 original size:20 final size:20
Alignment explanation
Indices: 6881512--6881556 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
6881502 ATTATTATTA
6881512 AAAATAATAAATAATTTAAT
1 AAAATAATAAATAATTTAAT
*
6881532 AAAATAATATATAATTTAAT
1 AAAATAATAAATAATTTAAT
6881552 AAAAT
1 AAAAT
6881557 TCTTAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATAATAAATAATTTAAT
Found at i:6887954 original size:6 final size:6
Alignment explanation
Indices: 6887943--6887968 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6887933 AGGAGCAGAG
6887943 AGCTCA AGCTCA AGCTCA AGCTCA AG
1 AGCTCA AGCTCA AGCTCA AGCTCA AG
6887969 TTACAAAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.15
Consensus pattern (6 bp):
AGCTCA
Found at i:6890896 original size:14 final size:14
Alignment explanation
Indices: 6890873--6890902 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6890863 TTGAAATTAT
6890873 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
6890887 GTTGATTTGGATTG
1 GTTGAATTGGATTG
6890901 GT
1 GT
6890903 CTCGATATAA
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:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:6898645 original size:14 final size:14
Alignment explanation
Indices: 6898622--6898651 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6898612 TTGAAATTAT
6898622 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
6898636 GTTGATTTGGATTG
1 GTTGAATTGGATTG
6898650 GT
1 GT
6898652 CTCGATATAA
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:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:6904834 original size:35 final size:35
Alignment explanation
Indices: 6904795--6904865 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
6904785 CGTCGTGCCC
* *
6904795 AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACAACTCCAACCGTGACAGAATA
6904830 AGCGTCGTGCCCACAACTCCAACCGTGACAGAATA
1 AGCGTCGTGCCCACAACTCCAACCGTGACAGAATA
6904865 A
1 A
6904866 AAAGAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.34, G:0.23, T:0.14
Consensus pattern (35 bp):
AGCGTCGTGCCCACAACTCCAACCGTGACAGAATA
Found at i:6905674 original size:11 final size:11
Alignment explanation
Indices: 6905625--6905703 Score: 50
Period size: 11 Copynumber: 6.5 Consensus size: 11
6905615 TTTTGAACTC
* *
6905625 TTTTTTATTTA
1 TTTTTTCTTTT
*
6905636 TTTTTTCTTTC
1 TTTTTTCTTTT
*
6905647 TTTTTTCGAATTAT
1 TTTTTTC---TTTT
6905661 TTTTTTCTTTTT
1 TTTTTTC-TTTT
6905673 TTTTTGTGCTTTT
1 TTTTT-T-CTTTT
*
6905686 TTTGTCTCTTTT
1 TTT-TTTCTTTT
6905698 TTTTTT
1 TTTTTT
6905704 GTTGAACATG
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
11 18 0.33
12 16 0.30
13 9 0.17
14 11 0.20
ACGTcount: A:0.06, C:0.09, G:0.05, T:0.80
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:6913912 original size:24 final size:23
Alignment explanation
Indices: 6913856--6913912 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 23
6913846 CAAATCATCA
6913856 ATTT-TTTTTTTGAATTATATAT
1 ATTTATTTTTTTGAATTATATAT
* * *
6913878 ATATATATTTTTGAACTCT-TATTT
1 ATTTATTTTTTTGAA-T-TATATAT
6913902 ATTTATTTTTT
1 ATTTATTTTTT
6913913 CTTTCTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
22 3 0.11
23 9 0.33
24 14 0.52
25 1 0.04
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.67
Consensus pattern (23 bp):
ATTTATTTTTTTGAATTATATAT
Found at i:6915870 original size:134 final size:134
Alignment explanation
Indices: 6915630--6915897 Score: 536
Period size: 134 Copynumber: 2.0 Consensus size: 134
6915620 CCTCTACCCA
6915630 TTTTGAAACGTAATCAACGGCCAAAATAATGTATAAATTTCCAAATGATGAGGTAAATGGCCCCA
1 TTTTGAAACGTAATCAACGGCCAAAATAATGTATAAATTTCCAAATGATGAGGTAAATGGCCCCA
6915695 TATAATTGAGCCCACACACATCGAAGATTTCACAGATGTGTATAGGATTTAATGGCATCTCACTC
66 TATAATTGAGCCCACACACATCGAAGATTTCACAGATGTGTATAGGATTTAATGGCATCTCACTC
6915760 CTTC
131 CTTC
6915764 TTTTGAAACGTAATCAACGGCCAAAATAATGTATAAATTTCCAAATGATGAGGTAAATGGCCCCA
1 TTTTGAAACGTAATCAACGGCCAAAATAATGTATAAATTTCCAAATGATGAGGTAAATGGCCCCA
6915829 TATAATTGAGCCCACACACATCGAAGATTTCACAGATGTGTATAGGATTTAATGGCATCTCACTC
66 TATAATTGAGCCCACACACATCGAAGATTTCACAGATGTGTATAGGATTTAATGGCATCTCACTC
6915894 CTTC
131 CTTC
6915898 GACTTAGATT
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
134 134 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (134 bp):
TTTTGAAACGTAATCAACGGCCAAAATAATGTATAAATTTCCAAATGATGAGGTAAATGGCCCCA
TATAATTGAGCCCACACACATCGAAGATTTCACAGATGTGTATAGGATTTAATGGCATCTCACTC
CTTC
Found at i:6919129 original size:20 final size:20
Alignment explanation
Indices: 6919104--6919164 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
6919094 AAGTGAACCC
6919104 TTAATCGAAAAAACTCCCCT
1 TTAATCGAAAAAACTCCCCT
* **
6919124 TTAATCCAAGTGAA---CCC-
1 TTAATCGAA-AAAACTCCCCT
6919141 TTAATCGAAAAAACTCCCCT
1 TTAATCGAAAAAACTCCCCT
6919161 TTAA
1 TTAA
6919165 CTTCTAATCT
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
16 2 0.07
17 8 0.27
18 3 0.10
19 3 0.10
20 12 0.40
21 2 0.07
ACGTcount: A:0.39, C:0.28, G:0.07, T:0.26
Consensus pattern (20 bp):
TTAATCGAAAAAACTCCCCT
Found at i:6919140 original size:37 final size:37
Alignment explanation
Indices: 6919090--6919164 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
6919080 GTTTCTAAGC
6919090 ATCCAAGTGAACCCTTAATCGAAAAAACTCCCCTTTA
1 ATCCAAGTGAACCCTTAATCGAAAAAACTCCCCTTTA
6919127 ATCCAAGTGAACCCTTAATCGAAAAAACTCCCCTTTA
1 ATCCAAGTGAACCCTTAATCGAAAAAACTCCCCTTTA
6919164 A
1 A
6919165 CTTCTAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.39, C:0.29, G:0.08, T:0.24
Consensus pattern (37 bp):
ATCCAAGTGAACCCTTAATCGAAAAAACTCCCCTTTA
Found at i:6919686 original size:42 final size:43
Alignment explanation
Indices: 6919512--6919746 Score: 305
Period size: 43 Copynumber: 5.5 Consensus size: 43
6919502 GCTTATGAAA
* *
6919512 AAAAACGCCGCTATAGAACATGACCTTTAGCGGTGCTTTTCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
* *
6919555 AAAAAGCGCCGCTAAAGAACATGGCCTTTAGTGGCGCTTTTCCC
1 AAAAA-CGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
* *
6919599 AAAAACGCCGCTAAAGAACATGGCCTTTAGCGACGCTTTTCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
* * *
6919642 ACAAACACCGCTAAAGAACAT-ACCTTTAGCGGCGCTTTTTCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
* * * * *
6919684 ACAAACGCCACT--ATAATATAGACCTTTAGCGGCGCTTTTCTC
1 AAAAACGCCGCTAAAGAACAT-GACCTTTAGCGGCGCTTTTCCC
6919726 AAAAACGCCGCTAAAGAACAT
1 AAAAACGCCGCTAAAGAACAT
6919747 TTAAAATTAT
Statistics
Matches: 166, Mismatches: 21, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
40 5 0.03
42 57 0.34
43 60 0.36
44 44 0.27
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
Found at i:6923406 original size:53 final size:51
Alignment explanation
Indices: 6923303--6923406 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 51
6923293 CCAACCATAT
*
6923303 ACCTCTTCTTTTTTCCCCACAAGAAACTAGAGTAATCGAACAAATGAAATA
1 ACCTCTTCTTTTTTCCCCACAAGAAACTAGAGTAATCGAACAAATAAAATA
* * *
6923354 ACCTCTTCCCTTTTTTCCCCTCAA-AAACTAAGAGTAATGGAACAAGTAAAATA
1 ACCTCTT--CTTTTTTCCCCACAAGAAACT-AGAGTAATCGAACAAATAAAATA
6923407 TCATTATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
51 7 0.15
52 5 0.11
53 34 0.74
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (51 bp):
ACCTCTTCTTTTTTCCCCACAAGAAACTAGAGTAATCGAACAAATAAAATA
Found at i:6924297 original size:15 final size:15
Alignment explanation
Indices: 6924279--6924364 Score: 66
Period size: 15 Copynumber: 5.5 Consensus size: 15
6924269 GACTAAAATA
*
6924279 TTAAATATTAAATTT
1 TTAAATTTTAAATTT
* **
6924294 TTAAGTTTTTTATTT
1 TTAAATTTTAAATTT
*
6924309 TT-AATTTTTAATTT
1 TTAAATTTTAAATTT
*
6924323 TTAGATTTTAAATTTT
1 TTAAATTTTAAA-TTT
6924339 TTGAAGATTTTTATAATTT
1 TT-AA-A-TTTTA-AATTT
6924358 TTAAATT
1 TTAAATT
6924365 AACATATAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
14 12 0.21
15 20 0.36
16 7 0.12
17 2 0.04
18 3 0.05
19 10 0.18
20 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:6924314 original size:22 final size:22
Alignment explanation
Indices: 6924286--6924339 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
6924276 ATATTAAATA
*
6924286 TTAAATTTTTAAGTTTTT-TATT
1 TTAAATTTTTAA-TTTTTAGATT
*
6924308 TTTAATTTTTAATTTTTAGATT
1 TTAAATTTTTAATTTTTAGATT
6924330 TTAAATTTTT
1 TTAAATTTTT
6924340 TGAAGATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (22 bp):
TTAAATTTTTAATTTTTAGATT
Found at i:6924357 original size:9 final size:8
Alignment explanation
Indices: 6924286--6924364 Score: 67
Period size: 7 Copynumber: 9.9 Consensus size: 8
6924276 ATATTAAATA
6924286 TTAAATTT
1 TTAAATTT
*
6924294 TTAAGTTT
1 TTAAATTT
*
6924302 TT-TATTT
1 TTAAATTT
6924309 TT-AATTT
1 TTAAATTT
6924316 TT-AATTT
1 TTAAATTT
*
6924323 TTAGA-TT
1 TTAAATTT
6924330 TTAAATTTT
1 TTAAA-TTT
6924339 TTGAAGATTT
1 TT-AA-ATTT
6924349 TTATAATTT
1 TTA-AATTT
6924358 TTAAATT
1 TTAAATT
6924365 AACATATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
7 24 0.41
8 14 0.24
9 12 0.20
10 8 0.14
11 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (8 bp):
TTAAATTT
Found at i:6925243 original size:21 final size:21
Alignment explanation
Indices: 6925197--6925243 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
6925187 TATAAAACAA
* *
6925197 AAAATCATAAACCCTAAACTC
1 AAAACCATAAACCCTAAAATC
*
6925218 TAAACCATAAACCCTAAAATC
1 AAAACCATAAACCCTAAAATC
6925239 AAAAC
1 AAAAC
6925244 TCTAATCACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.55, C:0.28, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAACCATAAACCCTAAAATC
Found at i:6925916 original size:39 final size:40
Alignment explanation
Indices: 6925810--6925920 Score: 136
Period size: 41 Copynumber: 2.8 Consensus size: 40
6925800 AGATCGAGCA
* *
6925810 TTAGCGGCGTTTTTTAAAAAGCGCCACTAAAGGTGTACCT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAAACGTGTACCT
* * *
6925850 ATAGCGGCGTTTTTTAAAAAAGCGCCGCTAATACTTG-ATCT
1 TTAGCGGCGTTTTTT-AAAAAGCGCCGCTAA-ACGTGTACCT
*
6925891 TTAGTGGCG-TTTTTAAAAAGCGCCGCTAAA
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAAA
6925921 GCCACTAAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
38 1 0.02
39 15 0.24
40 19 0.31
41 24 0.39
42 3 0.05
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.31
Consensus pattern (40 bp):
TTAGCGGCGTTTTTTAAAAAGCGCCGCTAAACGTGTACCT
Found at i:6926166 original size:40 final size:40
Alignment explanation
Indices: 6926083--6926167 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
6926073 CCTATAGGCA
* * *
6926083 TTTTTTGAAAAGCGCCACTAATGTTTATTCTTTAGCAGTG
1 TTTTTTGAAAAGCGCCACTAATGCTCATTCTTTAGCAGCG
* * *
6926123 TTTTTTGAAAAGCGCCACTAATGCTCGTTCTTTTGCGGCG
1 TTTTTTGAAAAGCGCCACTAATGCTCATTCTTTAGCAGCG
6926163 TTTTT
1 TTTTT
6926168 CATTCAAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.44
Consensus pattern (40 bp):
TTTTTTGAAAAGCGCCACTAATGCTCATTCTTTAGCAGCG
Found at i:6926648 original size:12 final size:13
Alignment explanation
Indices: 6926616--6926654 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
6926606 CAAAATTTTC
*
6926616 AAATTAATAATTGT
1 AAATT-ATAATTAT
6926630 AAATTATAATTAT
1 AAATTATAATTAT
6926643 -AATTATAATTAT
1 AAATTATAATTAT
6926655 CACAACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.50
13 7 0.29
14 5 0.21
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (13 bp):
AAATTATAATTAT
Found at i:6929264 original size:19 final size:19
Alignment explanation
Indices: 6929240--6929375 Score: 147
Period size: 19 Copynumber: 6.9 Consensus size: 19
6929230 AATTATATCT
6929240 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
6929259 TCTAAGATTGCCA-ATCATA
1 TCTAAGATTG-CATATCATA
6929278 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
6929295 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
6929314 TCTAAGATTATGATTATTGCAATCATA
1 TCTAAGA-T-TG--CA-T---ATCATA
6929341 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
6929358 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
6929376 TGAATATTAT
Statistics
Matches: 102, Mismatches: 1, Indels: 28
0.78 0.01 0.21
Matches are distributed among these distances:
17 32 0.31
19 46 0.45
20 4 0.04
21 2 0.02
23 1 0.01
24 1 0.01
25 2 0.02
26 1 0.01
27 13 0.13
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:6929310 original size:14 final size:15
Alignment explanation
Indices: 6929254--6929310 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
6929244 AGATTGCATA
6929254 TCATATCTAAGATTG
1 TCATATCTAAGATTG
6929269 CCAATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
6929288 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
6929305 -CATATC
1 TCATATC
6929311 ATATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
19 15 0.41
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.37
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:6929373 original size:14 final size:15
Alignment explanation
Indices: 6929336--6929373 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
6929326 ATTATTGCAA
6929336 TCATATCTAAGATTG
1 TCATATCTAAGATTG
6929351 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
6929368 -CATATC
1 TCATATC
6929374 ATTGAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
17 15 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:6930680 original size:22 final size:21
Alignment explanation
Indices: 6930637--6930680 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
6930627 AACCATTTAA
* * *
6930637 AATCGAGTTTTGGAAAATGGG
1 AATCGACTTTAGGAAAACGGG
6930658 AATCGACTTTAGGAAAAACGGG
1 AATCGACTTTAGG-AAAACGGG
6930680 A
1 A
6930681 GTCGCCACCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.23
Consensus pattern (21 bp):
AATCGACTTTAGGAAAACGGG
Found at i:6931656 original size:12 final size:13
Alignment explanation
Indices: 6931638--6931692 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
6931628 TAAAAATATG
6931638 ATATTTAATAATA
1 ATATTTAATAATA
6931651 AT-TTTAA-AATA
1 ATATTTAATAATA
* *
6931662 GTATTTAATATACA
1 ATATTTAATA-ATA
*
6931676 ATATGTAATATATA
1 ATATTTAATA-ATA
6931690 ATA
1 ATA
6931693 ACAAAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
11 5 0.15
12 10 0.29
13 3 0.09
14 16 0.47
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:6931740 original size:24 final size:26
Alignment explanation
Indices: 6931687--6931740 Score: 67
Period size: 24 Copynumber: 2.1 Consensus size: 26
6931677 TATGTAATAT
* *
6931687 ATAATAACAAAAAATATTTATGAAAGA
1 ATAATAACAAAAAATA-TTATAAAAAA
6931714 ATAATAA-AAAAAATA-TATAAAAAA
1 ATAATAACAAAAAATATTATAAAAAA
6931738 ATA
1 ATA
6931741 TGTAAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.40
26 8 0.32
27 7 0.28
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (26 bp):
ATAATAACAAAAAATATTATAAAAAA
Done.