Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 151 of 362
Found at i:49981250 original size:24 final size:23
Alignment explanation
Indices: 49981214--49981267 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
49981204 ATTAAGACCT
*
49981214 AATTAACTAATTTAACTAACAGCA
1 AATTAAATAATTTAA-TAACAGCA
* * **
49981238 AATTAAATGATTTTATTCCAGCA
1 AATTAAATAATTTAATAACAGCA
49981261 AATTAAA
1 AATTAAA
49981268 CGTAAAAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (23 bp):
AATTAAATAATTTAATAACAGCA
Found at i:49981335 original size:10 final size:10
Alignment explanation
Indices: 49981320--49981346 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
49981310 TAAGTTGAAG
49981320 TTGAGCTGAT
1 TTGAGCTGAT
49981330 TTGAGCTGAT
1 TTGAGCTGAT
49981340 TTGAGCT
1 TTGAGCT
49981347 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:49981671 original size:13 final size:13
Alignment explanation
Indices: 49981653--49981687 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
49981643 CGGCTAACCT
49981653 ACATAATTAAATA
1 ACATAATTAAATA
49981666 ACATAATTAAATA
1 ACATAATTAAATA
*
49981679 AAATAATTA
1 ACATAATTA
49981688 TTCATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:49983314 original size:30 final size:30
Alignment explanation
Indices: 49983280--49983369 Score: 81
Period size: 30 Copynumber: 3.0 Consensus size: 30
49983270 CTAACTTATT
49983280 TTCAGCTCACGAGCTAAACCTTAGCTCATC
1 TTCAGCTCACGAGCTAAACCTTAGCTCATC
* * * * * * *
49983310 TTCAGCTTAGGAGTTTAGCCTCAGCTCAAC
1 TTCAGCTCACGAGCTAAACCTTAGCTCATC
* * *
49983340 TTTAGCTCACAAGCTAAAGCTTTAGCTCAT
1 TTCAGCTCACGAGCTAAA-CCTTAGCTCAT
49983370 TTTAGTTTAA
Statistics
Matches: 42, Mismatches: 17, Indels: 1
0.70 0.28 0.02
Matches are distributed among these distances:
30 34 0.81
31 8 0.19
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (30 bp):
TTCAGCTCACGAGCTAAACCTTAGCTCATC
Found at i:49983794 original size:13 final size:13
Alignment explanation
Indices: 49983776--49983800 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49983766 GTATTGATCA
49983776 TGTGTTCACACCT
1 TGTGTTCACACCT
49983789 TGTGTTCACACC
1 TGTGTTCACACC
49983801 ATAATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:49984360 original size:32 final size:32
Alignment explanation
Indices: 49984324--49984388 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
49984314 CATCATAGAT
*
49984324 AGTGGGTCGCGGTTTTATCGTTTTTACCATCC
1 AGTGGGTCGCGGTTTTATCATTTTTACCATCC
49984356 AGTGGGTCGCGGTTTTATCATTTTTACCATCC
1 AGTGGGTCGCGGTTTTATCATTTTTACCATCC
49984388 A
1 A
49984389 CCTTAAGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.15, C:0.22, G:0.23, T:0.40
Consensus pattern (32 bp):
AGTGGGTCGCGGTTTTATCATTTTTACCATCC
Found at i:49985926 original size:10 final size:10
Alignment explanation
Indices: 49985913--49985963 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
49985903 AGCTCACTTG
*
49985913 AGCTTGTTTC
1 AGCTCGTTTC
*
49985923 AGCTCGTTTT
1 AGCTCGTTTC
*
49985933 AGCTCGTTTT
1 AGCTCGTTTC
49985943 AGCTTC-TTTC
1 AGC-TCGTTTC
49985953 TAGCTCGTTTC
1 -AGCTCGTTTC
49985964 TTTTCCCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 26 0.74
11 9 0.26
ACGTcount: A:0.10, C:0.24, G:0.18, T:0.49
Consensus pattern (10 bp):
AGCTCGTTTC
Found at i:49990057 original size:30 final size:31
Alignment explanation
Indices: 49989999--49990058 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
49989989 ATAGCAAAAG
* * *
49989999 AAACGAGTTGGAAAGAAGCTAAATTGAGCTC
1 AAACGAGCTGGAAACAAGCTAAAGTGAGCTC
*
49990030 AAACGAGCT-GAAACAAGCTCAAGTGAGCT
1 AAACGAGCTGGAAACAAGCTAAAGTGAGCT
49990059 AATTGGAGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (31 bp):
AAACGAGCTGGAAACAAGCTAAAGTGAGCTC
Found at i:49993598 original size:15 final size:16
Alignment explanation
Indices: 49993559--49993599 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
49993549 AACAACACTC
49993559 CTTTCTTTTTCACTTT
1 CTTTCTTTTTCACTTT
* *
49993575 C-ATCCTTTTCA-TTT
1 CTTTCTTTTTCACTTT
49993589 CTTTCTTTTTC
1 CTTTCTTTTTC
49993600 CAACTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
14 4 0.20
15 15 0.75
16 1 0.05
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (16 bp):
CTTTCTTTTTCACTTT
Found at i:49993792 original size:17 final size:15
Alignment explanation
Indices: 49993755--49993793 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
49993745 TATCTCCCAC
49993755 TCATCTTCTTTTTCTT
1 TCAT-TTCTTTTTCTT
49993771 TCATTTCTTTTTCATGT
1 TCATTTCTTTTTC-T-T
49993788 TCATTT
1 TCATTT
49993794 TCTCGCTCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.10, C:0.21, G:0.03, T:0.67
Consensus pattern (15 bp):
TCATTTCTTTTTCTT
Found at i:49994763 original size:32 final size:31
Alignment explanation
Indices: 49994689--49994771 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 31
49994679 TTTCAATCAC
49994689 TCTTTTTTTTTTTCAATTTCGATTTTTCTTT
1 TCTTTTTTTTTTTCAATTTCGATTTTTCTTT
* *
49994720 TCTTTTCTTTTTTTTAA-TTCTGAATTTTTTTTGT
1 TCTTTT-TTTTTTTCAATTTC-G-ATTTTTCTT-T
49994754 TCTTTTTTTTTCTTCAAT
1 TCTTTTTTTTT-TTCAAT
49994772 ACTAAATACA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
31 9 0.21
32 10 0.23
33 13 0.30
34 11 0.26
ACGTcount: A:0.11, C:0.12, G:0.04, T:0.73
Consensus pattern (31 bp):
TCTTTTTTTTTTTCAATTTCGATTTTTCTTT
Found at i:49994827 original size:13 final size:13
Alignment explanation
Indices: 49994809--49994865 Score: 98
Period size: 13 Copynumber: 4.5 Consensus size: 13
49994799 GAATACAAAA
49994809 TTTTTTTTGAATT
1 TTTTTTTTGAATT
49994822 TTTTTTTTGAA-T
1 TTTTTTTTGAATT
*
49994834 TTTTTTTCGAATT
1 TTTTTTTTGAATT
49994847 TTTTTTTTGAATT
1 TTTTTTTTGAATT
49994860 TTTTTT
1 TTTTTT
49994866 ACAATACCGA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
12 11 0.27
13 30 0.73
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.77
Consensus pattern (13 bp):
TTTTTTTTGAATT
Found at i:49994845 original size:25 final size:24
Alignment explanation
Indices: 49994807--49994865 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 24
49994797 TTGAATACAA
49994807 AATTTTTTTTGAATTTTTTTTTTG
1 AATTTTTTTTGAATTTTTTTTTTG
49994831 AATTTTTTTTCGAATTTTTTTTTTG
1 AATTTTTTTT-GAATTTTTTTTTTG
49994856 AATTTTTTTT
1 AATTTTTTTT
49994866 ACAATACCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 10 0.29
25 24 0.71
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.75
Consensus pattern (24 bp):
AATTTTTTTTGAATTTTTTTTTTG
Found at i:49996831 original size:10 final size:10
Alignment explanation
Indices: 49996816--49996853 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
49996806 TTGTAGATTC
49996816 AAAAAAATCG
1 AAAAAAATCG
49996826 AAAAAAATCG
1 AAAAAAATCG
*
49996836 AAAAAAAATTG
1 -AAAAAAATCG
49996847 AAAAAAA
1 AAAAAAA
49996854 AAATTTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.76, C:0.05, G:0.08, T:0.11
Consensus pattern (10 bp):
AAAAAAATCG
Found at i:49996832 original size:11 final size:11
Alignment explanation
Indices: 49996816--49996854 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
49996806 TTGTAGATTC
49996816 AAAAAAATCG-
1 AAAAAAATCGA
49996826 AAAAAAATCGA
1 AAAAAAATCGA
*
49996837 AAAAAAATTGA
1 AAAAAAATCGA
49996848 AAAAAAA
1 AAAAAAA
49996855 AATTTGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.77, C:0.05, G:0.08, T:0.10
Consensus pattern (11 bp):
AAAAAAATCGA
Found at i:49996853 original size:14 final size:14
Alignment explanation
Indices: 49996836--49996873 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
49996826 AAAAAAATCG
49996836 AAAAAAAATTGAAA
1 AAAAAAAATTGAAA
*
49996850 AAAAAAATTTGAAA
1 AAAAAAAATTGAAA
49996864 AAAAAAAATT
1 AAAAAAAATT
49996874 TGCATACGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (14 bp):
AAAAAAAATTGAAA
Found at i:49996872 original size:15 final size:14
Alignment explanation
Indices: 49996836--49996875 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 14
49996826 AAAAAAATCG
49996836 AAAAAAAA-TTGAA
1 AAAAAAAATTTGAA
49996849 AAAAAAAATTTGAAA
1 AAAAAAAATTTG-AA
49996864 AAAAAAAATTTG
1 AAAAAAAATTTG
49996876 CATACGGTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 8 0.32
14 3 0.12
15 14 0.56
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (14 bp):
AAAAAAAATTTGAA
Found at i:50004227 original size:30 final size:30
Alignment explanation
Indices: 50004193--50004293 Score: 78
Period size: 30 Copynumber: 3.4 Consensus size: 30
50004183 AGCTCACTCC
50004193 TAGCTCATTTTCAACTCACGAGCTAAACCT
1 TAGCTCATTTTCAACTCACGAGCTAAACCT
** * * * * *
50004223 TAGCTCAAATTCAACTTAGGAGTTTAGCCT
1 TAGCTCATTTTCAACTCACGAGCTAAACCT
* * * * *
50004253 CAGCTCAACTTT-AGCTCATGAGCTAAAGCT
1 TAGCTC-ATTTTCAACTCACGAGCTAAACCT
50004283 TAGCTCATTTT
1 TAGCTCATTTT
50004294 AGTTTAAACT
Statistics
Matches: 51, Mismatches: 19, Indels: 3
0.70 0.26 0.04
Matches are distributed among these distances:
29 4 0.08
30 44 0.86
31 3 0.06
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (30 bp):
TAGCTCATTTTCAACTCACGAGCTAAACCT
Found at i:50004713 original size:13 final size:13
Alignment explanation
Indices: 50004695--50004719 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50004685 GTATTGATCA
50004695 TGTGTTCACACCT
1 TGTGTTCACACCT
50004708 TGTGTTCACACC
1 TGTGTTCACACC
50004720 ATGATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:50017365 original size:14 final size:14
Alignment explanation
Indices: 50017346--50017389 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
50017336 AAACTTTATA
50017346 TCCATAAACCCATC
1 TCCATAAACCCATC
* *
50017360 TCCATAAACTTCATA
1 TCCATAAAC-CCATC
50017375 TCCATAAACCCATC
1 TCCATAAACCCATC
50017389 T
1 T
50017390 TTGAATCCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.27
Consensus pattern (14 bp):
TCCATAAACCCATC
Found at i:50017380 original size:15 final size:15
Alignment explanation
Indices: 50017336--50017383 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
50017326 AAACCTACAA
*
50017336 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* *
50017351 AAAC-CCATCTCCAT
1 AAACTTCATATCCAT
50017365 AAACTTCATATCCAT
1 AAACTTCATATCCAT
50017380 AAAC
1 AAAC
50017384 CCATCTTTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:50017863 original size:14 final size:14
Alignment explanation
Indices: 50017846--50017887 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
50017836 CCTTTGTTCA
50017846 TACCATTTCATTCT
1 TACCATTTCATTCT
*
50017860 TACCATTTCATTCG
1 TACCATTTCATTCT
*
50017874 TACC-TTTCTTTCT
1 TACCATTTCATTCT
50017887 T
1 T
50017888 CTTCGGACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.17, C:0.29, G:0.02, T:0.52
Consensus pattern (14 bp):
TACCATTTCATTCT
Found at i:50019604 original size:30 final size:30
Alignment explanation
Indices: 50019570--50019657 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
50019560 CTAGCTTATA
* *
50019570 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTTAAGAGCTAAACCTTAGCTCAAC
* * *
50019600 TTCAGCTTAGGAGC-ATAATCTCAGCTCAAC
1 TTCAGCTTAAGAGCTA-AACCTTAGCTCAAC
* * *
50019630 TTTAGCTTAAGGGCTAAAGCTTAGCTCA
1 TTCAGCTTAAGAGCTAAACCTTAGCTCA
50019658 TTTTAGCTCA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 1 0.02
30 45 0.96
31 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (30 bp):
TTCAGCTTAAGAGCTAAACCTTAGCTCAAC
Found at i:50020153 original size:30 final size:30
Alignment explanation
Indices: 50020131--50020216 Score: 84
Period size: 30 Copynumber: 2.9 Consensus size: 30
50020121 AGCTCACTCC
50020131 TAGCTCATA-TTCAGCTCACGAGCTAATCCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAATCCT
* * * * *
50020161 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAATCCT
* * *
50020191 CAACTCAACTTTAGCTCACGAGCTAA
1 TAGCTCAACTTCAGCTCACGAGCTAA
50020217 AAGCTTAGCT
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
29 1 0.02
30 42 0.98
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAATCCT
Found at i:50021733 original size:30 final size:30
Alignment explanation
Indices: 50021711--50021807 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
50021701 AGCTCACTCC
50021711 TAGCTCATA-TTCAGCTCACGAGCTAATCCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAATCCT
* * * * *
50021741 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAATCCT
* * * **
50021771 CAGCTTAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAATCCT
50021801 TAGCTCA
1 TAGCTCA
50021808 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAATCCT
Found at i:50024842 original size:30 final size:30
Alignment explanation
Indices: 50024757--50024853 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
50024747 TAAACTAAAA
* *
50024757 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
50024787 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
*
50024817 TGAGCTCAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
50024846 ATGAGCTA
1 -TGAGCTA
50024854 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:50027031 original size:30 final size:30
Alignment explanation
Indices: 50026960--50027042 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
50026950 CTTTTGTTTC
* *
50026960 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
50026991 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
50027020 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
50027043 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:50027042 original size:18 final size:18
Alignment explanation
Indices: 50026993--50027048 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
50026983 CACTCTCAAA
* *
50026993 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
50027010 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
50027028 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
50027047 TT
1 TT
50027049 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:50027049 original size:12 final size:12
Alignment explanation
Indices: 50027018--50027042 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50027008 TTTTTCAATC
50027018 TCATTTTCTTTT
1 TCATTTTCTTTT
50027030 TCATTTTCTTTT
1 TCATTTTCTTTT
50027042 T
1 T
50027043 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:50027137 original size:21 final size:21
Alignment explanation
Indices: 50027113--50027175 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
50027103 CTTGCCTCTC
50027113 TTTTCTTTTTATTTCATTTTCT
1 TTTTCTTTTT-TTTCATTTTCT
* *
50027135 TTTTCTTCTTTTTCTTTTTCT
1 TTTTCTTTTTTTTCATTTTCT
*
50027156 TTTTCTTTTCTTT-ATTTTCT
1 TTTTCTTTTTTTTCATTTTCT
50027176 CTTTACAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
20 6 0.17
21 21 0.58
22 9 0.25
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTCTTTTTTTTCATTTTCT
Found at i:50027140 original size:6 final size:6
Alignment explanation
Indices: 50027124--50027168 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
50027114 TTTCTTTTTA
*
50027124 TTTCAT TTTCTT TTTC-- -TTCTT TTTCTT TTTCTT TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
50027168 T
1 T
50027169 ATTTTCTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
3 3 0.09
5 5 0.15
6 26 0.76
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTCTT
Found at i:50027147 original size:15 final size:15
Alignment explanation
Indices: 50027113--50027175 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
50027103 CTTGCCTCTC
*
50027113 TTTTCTTTTTATTTCA
1 TTTTCTTTTT-CTTCA
*
50027129 TTTTCTTTTTCTTCT
1 TTTTCTTTTTCTTCA
50027144 TTTTCTTTTTC-T--
1 TTTTCTTTTTCTTCA
*
50027156 TTTTC-TTTTCTTTA
1 TTTTCTTTTTCTTCA
50027170 TTTTCT
1 TTTTCT
50027176 CTTTACAAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
11 5 0.12
12 6 0.15
14 6 0.15
15 14 0.34
16 10 0.24
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTCTTTTTCTTCA
Found at i:50029793 original size:30 final size:30
Alignment explanation
Indices: 50029708--50029804 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
50029698 TAAACTAAAA
* *
50029708 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
50029738 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
50029768 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
50029797 ATGAGCTA
1 -TGAGCTA
50029805 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:50030050 original size:15 final size:14
Alignment explanation
Indices: 50030010--50030055 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
50030000 CTCTTGCCTC
*
50030010 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
50030025 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
50030040 TCTTTTGCTTTTTCT
1 TCTTTT-CTTTTTCT
50030055 T
1 T
50030056 TTCTATTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 4 0.14
15 14 0.50
16 10 0.36
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.76
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:50040717 original size:403 final size:402
Alignment explanation
Indices: 50040122--50040915 Score: 1346
Period size: 403 Copynumber: 2.0 Consensus size: 402
50040112 TGAATTAACT
*
50040122 CAATAATTCAAACATTGATTGAATTAAGTGTATGCACAAAGGGGAGAACGAATTTACTAGGTTCA
1 CAATAATTCAAACATTGATTGAATTAAGTGCATGCACAAAGGGGAGAACGAATTTACTAGGTTCA
* *
50040187 TGCTGCCATTTATGAACCTACATGCTATAAAGAGTTTAATTATGAGGATACATGTTCCATACAAG
66 TGCTGCCATTTATGAACCTACATGCCATAAAGAGTTTAATTATGAAGATACATGTTCCATACAAG
50040252 TGCATGAACGTCCCAAGGAGATGAATGCAACCTTTGGTGCACATACAAGTCACTTGAAGCCTTTC
131 TGCATGAACGTCCCAAGGAGATGAATGCAACCTTTGGTGCACATACAAGTCACTTGAAGCCTTTC
* ** *
50040317 TTTATGATTAAGCATTCATGCAC-ACTTA-GGGGAAGAAAGTGTCCATTCAACTAGTTCATGAAT
196 TTTATGACTAAGCATTCATGCACAACCAAGGGGGAAGAAAGTGTCCATTCAACTAGTGCATGAAT
50040380 CTGCCAAATTTATGAACTATTTTAATACATTACTGTGAACGTTTTTTATTATT-GTGAACACCTA
261 CTGCCAAATTTATGAACTATTTTAATACATTACTGTGAACG-TTTTTATTATTGGTGAACACCTA
*
50040444 GATG-CCAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTGTAAGGGAC
325 GATGTCCAATTTGAATGGTCATCTATGTGCCTAT-A--ATTTGTTTTCTTTCAATTGTAAAGGAC
50040508 TTTTTGCTACGATCCG
387 TTTTTGCTACGATCCG
50040524 CAATAATTCAACACATTGATTGAA-TAAGTGCATGCACAAAGGGGAGAACGAATTTACTAGGTTC
1 CAATAATTCAA-ACATTGATTGAATTAAGTGCATGCACAAAGGGGAGAACGAATTTACTAGGTTC
* *
50040588 ATGCTGCCATTTATGAACTTACATGCCATTAAAGTGTTTAATTATGAAGATACATGTTCCATACA
65 ATGCTGCCATTTATGAACCTACATGCCA-TAAAGAGTTTAATTATGAAGATACATGTTCCATACA
50040653 AGTGCATGAACGTCCCAAGGAGATGAATGCAACCTTTGGTGCACATACAAGTCACTTGAAGCCTT
129 AGTGCATGAACGTCCCAAGGAGATGAATGCAACCTTTGGTGCACATACAAGTCACTTGAAGCCTT
*
50040718 TCTTTATGACTAAGCATTCATGCACAAACCAAGGGGGAAGAAAGTGTCCATTCAGCTAGTGCATG
194 TCTTTATGACTAAGCATTCATGCAC-AACCAAGGGGGAAGAAAGTGTCCATTCAACTAGTGCATG
* *
50040783 AATCTGCCGAATTTATGAACTATTTTAATACATTAGTGTGAACGTTTTTATTATTGGGTGAACAC
258 AATCTGCCAAATTTATGAACTATTTTAATACATTACTGTGAACGTTTTTATTATT-GGTGAACAC
* *
50040848 CTAGATGTCGAATTTGAATGGTCATCTATGTGCCTATAATTTGTTTTCTTTCATTTGTAAAGGAC
322 CTAGATGTCCAATTTGAATGGTCATCTATGTGCCTATAATTTGTTTTCTTTCAATTGTAAAGGAC
50040913 TTT
387 TTT
50040916 GCCAAAATTG
Statistics
Matches: 369, Mismatches: 15, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
402 76 0.21
403 135 0.37
405 42 0.11
406 72 0.20
407 16 0.04
408 28 0.08
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (402 bp):
CAATAATTCAAACATTGATTGAATTAAGTGCATGCACAAAGGGGAGAACGAATTTACTAGGTTCA
TGCTGCCATTTATGAACCTACATGCCATAAAGAGTTTAATTATGAAGATACATGTTCCATACAAG
TGCATGAACGTCCCAAGGAGATGAATGCAACCTTTGGTGCACATACAAGTCACTTGAAGCCTTTC
TTTATGACTAAGCATTCATGCACAACCAAGGGGGAAGAAAGTGTCCATTCAACTAGTGCATGAAT
CTGCCAAATTTATGAACTATTTTAATACATTACTGTGAACGTTTTTATTATTGGTGAACACCTAG
ATGTCCAATTTGAATGGTCATCTATGTGCCTATAATTTGTTTTCTTTCAATTGTAAAGGACTTTT
TGCTACGATCCG
Found at i:50042587 original size:15 final size:16
Alignment explanation
Indices: 50042567--50042596 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50042557 AGTTGTAAAG
50042567 TTTTATTTT-TATTTA
1 TTTTATTTTATATTTA
50042582 TTTTATTTTATATTT
1 TTTTATTTTATATTT
50042597 TACTTAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATTTTATATTTA
Found at i:50042607 original size:21 final size:22
Alignment explanation
Indices: 50042567--50042618 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
50042557 AGTTGTAAAG
* *
50042567 TTTTAT-TTTTATTTA-TTTTA
1 TTTTATATTTTACTTAGTTTAA
50042587 TTTTATATTTTACTTAGTTTAAA
1 TTTTATATTTTACTTAGTTT-AA
50042610 TTTTATATT
1 TTTTATATT
50042619 CAGTCCAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 6 0.22
21 8 0.30
22 3 0.11
23 10 0.37
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTATATTTTACTTAGTTTAA
Found at i:50043643 original size:9 final size:9
Alignment explanation
Indices: 50043629--50043663 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
50043619 AAAAAGAATC
50043629 AGTCAAAAA
1 AGTCAAAAA
50043638 AGTCAAAAA
1 AGTCAAAAA
*
50043647 AATCAAAAA
1 AGTCAAAAA
*
50043656 AGACAAAA
1 AGTCAAAA
50043664 TTCAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.71, C:0.11, G:0.09, T:0.09
Consensus pattern (9 bp):
AGTCAAAAA
Found at i:50052635 original size:29 final size:29
Alignment explanation
Indices: 50052592--50052651 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
50052582 AAGGATTCAA
* *
50052592 AGATGGATTTTTGGATATGAAGTTTATGT
1 AGATGGATTTATGGATATAAAGTTTATGT
*
50052621 AGATGGATTTATGGATATAAAGTTTTTGT
1 AGATGGATTTATGGATATAAAGTTTATGT
50052650 AG
1 AG
50052652 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (29 bp):
AGATGGATTTATGGATATAAAGTTTATGT
Found at i:50054121 original size:22 final size:22
Alignment explanation
Indices: 50054093--50054136 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
50054083 TTTTGAACCA
50054093 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
50054115 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
50054137 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:50056684 original size:22 final size:22
Alignment explanation
Indices: 50056657--50056704 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
50056647 CAATCTTTGG
*
50056657 AGAATTTGAAAGA-ACTGAAAA
1 AGAAATTGAAAGAGACTGAAAA
* *
50056678 AGAAATTGAGAGAGAGTGAAAA
1 AGAAATTGAAAGAGACTGAAAA
50056700 AGAAA
1 AGAAA
50056705 AGAAAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.58, C:0.02, G:0.25, T:0.15
Consensus pattern (22 bp):
AGAAATTGAAAGAGACTGAAAA
Found at i:50059087 original size:22 final size:22
Alignment explanation
Indices: 50059059--50059102 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
50059049 TTTTGAACCA
50059059 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
50059081 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
50059103 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:50059779 original size:14 final size:14
Alignment explanation
Indices: 50059757--50059801 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
50059747 TTAAAGAAGC
50059757 AACTCATTAAATTA
1 AACTCATTAAATTA
*
50059771 AATTCATTAAA-TA
1 AACTCATTAAATTA
*
50059784 AACTCATTTAATTA
1 AACTCATTAAATTA
50059798 AACT
1 AACT
50059802 AAGATGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:50059845 original size:42 final size:42
Alignment explanation
Indices: 50059784--50059889 Score: 185
Period size: 42 Copynumber: 2.5 Consensus size: 42
50059774 TCATTAAATA
50059784 AACTCATTTAATTAAACTAAGATGAATTGTATTAATGACCAGC
1 AACTCATTT-ATTAAACTAAGATGAATTGTATTAATGACCAGC
* *
50059827 AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCATC
1 AACTCATTTATTAAACTAAGATGAATTGTATTAATGACCAGC
50059869 AACTCATTTATTAAACTAAGA
1 AACTCATTTATTAAACTAAGA
50059890 GGCTTAAATG
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
42 52 0.85
43 9 0.15
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (42 bp):
AACTCATTTATTAAACTAAGATGAATTGTATTAATGACCAGC
Found at i:50063389 original size:15 final size:16
Alignment explanation
Indices: 50063350--50063390 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
50063340 AACAACACTC
50063350 CTTTCTTTTTCACTTT
1 CTTTCTTTTTCACTTT
* *
50063366 C-ATCCTTTTCA-TTT
1 CTTTCTTTTTCACTTT
50063380 CTTTCTTTTTC
1 CTTTCTTTTTC
50063391 CAACTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
14 4 0.20
15 15 0.75
16 1 0.05
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (16 bp):
CTTTCTTTTTCACTTT
Found at i:50063583 original size:17 final size:15
Alignment explanation
Indices: 50063546--50063584 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
50063536 TATCTCCCAC
50063546 TCATCTTCTTTTTCTT
1 TCAT-TTCTTTTTCTT
50063562 TCATTTCTTTTTCATGT
1 TCATTTCTTTTTC-T-T
50063579 TCATTT
1 TCATTT
50063585 TCTCGCTCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.10, C:0.21, G:0.03, T:0.67
Consensus pattern (15 bp):
TCATTTCTTTTTCTT
Found at i:50064528 original size:25 final size:27
Alignment explanation
Indices: 50064490--50064551 Score: 101
Period size: 26 Copynumber: 2.3 Consensus size: 27
50064480 AATCACTCTT
50064490 TTTTTTTTTCAATTTCG-ATTTTTTTC
1 TTTTTTTTTCAATTTCGAATTTTTTTC
50064516 TTTTTTTTT-AATTTCGAATTTTTTTC
1 TTTTTTTTTCAATTTCGAATTTTTTTC
50064542 TTATTTTTTT
1 TT-TTTTTTT
50064552 TCTTCAATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
25 7 0.21
26 20 0.59
27 7 0.21
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.76
Consensus pattern (27 bp):
TTTTTTTTTCAATTTCGAATTTTTTTC
Found at i:50064616 original size:14 final size:14
Alignment explanation
Indices: 50064597--50064646 Score: 82
Period size: 14 Copynumber: 3.6 Consensus size: 14
50064587 GAATACAAAC
50064597 TTTTTTTTTGAATT
1 TTTTTTTTTGAATT
* *
50064611 TTTTTTTTTCAAAT
1 TTTTTTTTTGAATT
50064625 TTTTTTTTTGAATT
1 TTTTTTTTTGAATT
50064639 TTTTTTTT
1 TTTTTTTT
50064647 ACAATACCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.14, C:0.02, G:0.04, T:0.80
Consensus pattern (14 bp):
TTTTTTTTTGAATT
Found at i:50064632 original size:28 final size:28
Alignment explanation
Indices: 50064592--50064646 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
50064582 AAATTGAATA
50064592 CAAACTTTTTTTTTGAATTTTTTTTTTT
1 CAAACTTTTTTTTTGAATTTTTTTTTTT
*
50064620 CAAATTTTTTTTTTGAATTTTTTTTTT
1 CAAACTTTTTTTTTGAATTTTTTTTTT
50064647 ACAATACCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.18, C:0.05, G:0.04, T:0.73
Consensus pattern (28 bp):
CAAACTTTTTTTTTGAATTTTTTTTTTT
Found at i:50067616 original size:22 final size:22
Alignment explanation
Indices: 50067588--50067631 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
50067578 TTTGGTATTT
50067588 GGGATTTGGTACGAAATGGTAA
1 GGGATTTGGTACGAAATGGTAA
50067610 GGGATTTGGTACGAAATGGTAA
1 GGGATTTGGTACGAAATGGTAA
50067632 TGGTTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.36, T:0.27
Consensus pattern (22 bp):
GGGATTTGGTACGAAATGGTAA
Found at i:50070002 original size:10 final size:10
Alignment explanation
Indices: 50069979--50070026 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
50069969 GCTCGTTTCT
* *
50069979 AGCTCACTTG
1 AGCTCAATTC
*
50069989 AGCTCAAGTC
1 AGCTCAATTC
50069999 AGCTC-ATTC
1 AGCTCAATTC
50070008 GAGCTCAATTC
1 -AGCTCAATTC
50070019 AGCTCAAT
1 AGCTCAAT
50070027 CTTAACCCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 3 0.09
10 25 0.78
11 4 0.12
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:50070004 original size:20 final size:20
Alignment explanation
Indices: 50069979--50070024 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
50069969 GCTCGTTTCT
50069979 AGCTCACTT-GAGCTCAAGTC
1 AGCTCA-TTCGAGCTCAAGTC
*
50069999 AGCTCATTCGAGCTCAATTC
1 AGCTCATTCGAGCTCAAGTC
50070019 AGCTCA
1 AGCTCA
50070025 ATCTTAACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (20 bp):
AGCTCATTCGAGCTCAAGTC
Found at i:50071696 original size:20 final size:20
Alignment explanation
Indices: 50071673--50071719 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
50071663 GGGTTAAAAT
*
50071673 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
50071693 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
50071713 TGAGCTG
1 TGAGCTG
50071720 GAAACGAGCT
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:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:50072458 original size:31 final size:32
Alignment explanation
Indices: 50072391--50072458 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
50072381 TAATGTCCAA
* *
50072391 TTGATATTGAGCTGAATCGTAAGTATTTGAGC
1 TTGAAATTGAGCTGAATCGTAACTATTTGAGC
*
50072423 -TGAAATTGAGCTGATTCG-AACTCA-TTGAGC
1 TTGAAATTGAGCTGAATCGTAACT-ATTTGAGC
50072453 TTGAAA
1 TTGAAA
50072459 GGAGCTGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.34
Consensus pattern (32 bp):
TTGAAATTGAGCTGAATCGTAACTATTTGAGC
Found at i:50075808 original size:12 final size:12
Alignment explanation
Indices: 50075791--50075829 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 12
50075781 AAACCGTATG
50075791 CAATTTTTTTTT
1 CAATTTTTTTTT
50075803 CAATTTTTTTTT
1 CAATTTTTTTTT
50075815 CGAACTCTTTTTTTT
1 C-AA-T-TTTTTTTT
50075830 ACGTACCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 13 0.54
13 2 0.08
14 1 0.04
15 8 0.33
ACGTcount: A:0.15, C:0.13, G:0.03, T:0.69
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:50076146 original size:23 final size:23
Alignment explanation
Indices: 50076093--50076169 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 23
50076083 GATTAATTAA
**
50076093 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGGATTGGTAC
***
50076116 GTTTTGGTATTTGGGATTGGTAC
1 GAAATGGTATTTGGGATTGGTAC
*
50076139 GAAATGGTA--AGGGATTTGGTAC
1 GAAATGGTATTTGGGA-TTGGTAC
50076161 GAAATGGTA
1 GAAATGGTA
50076170 ATGGTTCAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 4 0.09
22 16 0.36
23 24 0.55
ACGTcount: A:0.25, C:0.04, G:0.34, T:0.38
Consensus pattern (23 bp):
GAAATGGTATTTGGGATTGGTAC
Found at i:50076154 original size:21 final size:22
Alignment explanation
Indices: 50076128--50076170 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
50076118 TTTGGTATTT
50076128 GGGA-TTGGTACGAAATGGTAA
1 GGGATTTGGTACGAAATGGTAA
50076149 GGGATTTGGTACGAAATGGTAA
1 GGGATTTGGTACGAAATGGTAA
50076171 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.33, C:0.05, G:0.37, T:0.26
Consensus pattern (22 bp):
GGGATTTGGTACGAAATGGTAA
Found at i:50077414 original size:31 final size:32
Alignment explanation
Indices: 50077347--50077414 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
50077337 TAATGTCCAA
* *
50077347 TTGATATTGAGCTGAATCGTAAGTATTTGAGC
1 TTGAAATTGAGCTGAATCGTAACTATTTGAGC
*
50077379 -TGAAATTGAGCTGATTCG-AACTCA-TTGAGC
1 TTGAAATTGAGCTGAATCGTAACT-ATTTGAGC
50077409 TTGAAA
1 TTGAAA
50077415 GGAGCTGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.34
Consensus pattern (32 bp):
TTGAAATTGAGCTGAATCGTAACTATTTGAGC
Found at i:50078507 original size:14 final size:14
Alignment explanation
Indices: 50078465--50078509 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
50078455 TTAATGAAGC
50078465 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
50078479 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
50078492 AACTCATTTAATTA
1 AACTCATTAAATTA
50078506 AACT
1 AACT
50078510 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:50081017 original size:18 final size:18
Alignment explanation
Indices: 50080990--50081039 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
50080980 AAACTCTTTT
50080990 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
50081008 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
50081026 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
50081040 TTTTTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:50082451 original size:20 final size:19
Alignment explanation
Indices: 50082426--50082473 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
50082416 ATGAAAATAC
50082426 AAAAGAAAAGAAAAATGAGA
1 AAAAGAAAAGAAAAATGA-A
* * *
50082446 AAAAGAGAGGAAAAATGAT
1 AAAAGAAAAGAAAAATGAA
50082465 AAAAGAAAA
1 AAAAGAAAA
50082474 TCAGAAAAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (19 bp):
AAAAGAAAAGAAAAATGAA
Found at i:50082492 original size:33 final size:31
Alignment explanation
Indices: 50082431--50082515 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 31
50082421 AATACAAAAG
* *
50082431 AAAAGAAAAATGAGAAAAAGAGAGGAAAA-ATGA
1 AAAAG-AAAAT-AGAAAAAGACAAGAAAAGA-GA
50082464 TAAAAGAAAATCAGAAAAAGACAAGAAAAGAGA
1 -AAAAGAAAAT-AGAAAAAGACAAGAAAAGAGA
50082497 AAGAAGAAAA-AGAAAAAGA
1 AA-AAGAAAATAGAAAAAGA
50082516 TTGTGAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
31 9 0.20
32 2 0.04
33 29 0.63
34 6 0.13
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.05
Consensus pattern (31 bp):
AAAAGAAAATAGAAAAAGACAAGAAAAGAGA
Found at i:50082509 original size:6 final size:6
Alignment explanation
Indices: 50082455--50082515 Score: 52
Period size: 6 Copynumber: 9.3 Consensus size: 6
50082445 AAAAAGAGAG
*
50082455 GAAAAA TGATAAAA GAAAATCA GAAAAA G-ACAA GAAAAGA GAAAGAA
1 GAAAAA -GA-AAAA GAAAA--A GAAAAA GAAAAA GAAAA-A GAAA-AA
50082502 GAAAAA GAAAAA GA
1 GAAAAA GAAAAA GA
50082516 TTGTGAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
5 4 0.09
6 17 0.37
7 14 0.30
8 11 0.24
ACGTcount: A:0.72, C:0.03, G:0.20, T:0.05
Consensus pattern (6 bp):
GAAAAA
Found at i:50082511 original size:20 final size:19
Alignment explanation
Indices: 50082426--50082512 Score: 65
Period size: 19 Copynumber: 4.5 Consensus size: 19
50082416 ATGAAAATAC
50082426 AAAAGAAAAGA-AAAATGAGA
1 AAAAGAAAAGAGAAAA--AGA
*
50082446 AAAAG-AGAG-GAAAAATGA
1 AAAAGAAAAGAGAAAAA-GA
*
50082464 TAAAAGAAAATCAGAAAAAG-
1 -AAAAGAAAA-GAGAAAAAGA
*
50082484 ACAAGAAAAGAGAAAGAAGA
1 AAAAGAAAAGAGAAA-AAGA
50082504 AAAAGAAAA
1 AAAAGAAAA
50082513 AGATTGTGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
17 1 0.02
18 7 0.13
19 23 0.43
20 15 0.28
21 1 0.02
22 6 0.11
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.05
Consensus pattern (19 bp):
AAAAGAAAAGAGAAAAAGA
Found at i:50084794 original size:11 final size:11
Alignment explanation
Indices: 50084780--50084807 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
50084770 AACAAGCTCA
50084780 TGAGCTGGAGT
1 TGAGCTGGAGT
50084791 TGAGCTGGAGT
1 TGAGCTGGAGT
50084802 TGAGCT
1 TGAGCT
50084808 CGTTGAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.11, G:0.43, T:0.29
Consensus pattern (11 bp):
TGAGCTGGAGT
Found at i:50087199 original size:43 final size:43
Alignment explanation
Indices: 50087136--50087222 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
50087126 AATGCCACAA
50087136 GTTAGCTTCTTGATGAAGGAATTCGGCTGAATATATTTGGATT
1 GTTAGCTTCTTGATGAAGGAATTCGGCTGAATATATTTGGATT
* *
50087179 GTTAGCTTCTTGATGGAGGAATTCGGCTGAATGTATTTGGATT
1 GTTAGCTTCTTGATGAAGGAATTCGGCTGAATATATTTGGATT
50087222 G
1 G
50087223 CATGAGGAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.23, C:0.09, G:0.29, T:0.39
Consensus pattern (43 bp):
GTTAGCTTCTTGATGAAGGAATTCGGCTGAATATATTTGGATT
Found at i:50087594 original size:33 final size:33
Alignment explanation
Indices: 50087552--50087623 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
50087542 TAACAAGCCA
*
50087552 TGCATGAATCCTCCTAAGCC-TTGAACCT-AGTCG
1 TGCATGAATCCTCCCAA-CCATTGAA-CTAAGTCG
50087585 TGCATGAATCCTCCCAACCATTGAACTAAGTCG
1 TGCATGAATCCTCCCAACCATTGAACTAAGTCG
50087618 TGCATG
1 TGCATG
50087624 CACTTAGCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
32 4 0.11
33 32 0.89
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (33 bp):
TGCATGAATCCTCCCAACCATTGAACTAAGTCG
Found at i:50088854 original size:30 final size:30
Alignment explanation
Indices: 50088820--50088916 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
50088810 AGCTCACTCC
50088820 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
50088850 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
50088880 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
50088910 TAGCTCA
1 TAGCTCA
50088917 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:50090494 original size:16 final size:16
Alignment explanation
Indices: 50090473--50090503 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50090463 GTTCGTAGTT
50090473 AAAAAAATTCAAATTA
1 AAAAAAATTCAAATTA
50090489 AAAAAAATTCAAATT
1 AAAAAAATTCAAATT
50090504 GTAATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAAATTCAAATTA
Found at i:50092319 original size:12 final size:12
Alignment explanation
Indices: 50092298--50092328 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
50092288 GGAAATTTGA
50092298 AAAAAAAAATTC
1 AAAAAAAAATTC
*
50092310 AAAAAGAAATTC
1 AAAAAAAAATTC
50092322 AAAAAAA
1 AAAAAAA
50092329 TTCAATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.77, C:0.06, G:0.03, T:0.13
Consensus pattern (12 bp):
AAAAAAAAATTC
Found at i:50092329 original size:10 final size:10
Alignment explanation
Indices: 50092300--50092333 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
50092290 AAATTTGAAA
50092300 AAAAAAATTC
1 AAAAAAATTC
50092310 AAAAAGAAATTC
1 -AAAA-AAATTC
50092322 AAAAAAATTC
1 AAAAAAATTC
50092332 AA
1 AA
50092334 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.36
11 8 0.36
12 6 0.27
ACGTcount: A:0.71, C:0.09, G:0.03, T:0.18
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:50097618 original size:9 final size:10
Alignment explanation
Indices: 50097611--50097667 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
50097601 AAGAGAAAAT
50097611 AAAGAAAAGA
1 AAAGAAAAGA
50097621 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
50097633 AAAGAAGA-A
1 AAAGAAAAGA
50097642 AAAGAAAATGA
1 AAAGAAAA-GA
50097653 AATA-AAAAGA
1 AA-AGAAAAGA
50097663 AAAGA
1 AAAGA
50097668 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:50097635 original size:6 final size:5
Alignment explanation
Indices: 50097611--50097667 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
50097601 AAGAGAAAAT
*
50097611 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
50097658 AAAGA AAAGA
1 AAAGA AAAGA
50097668 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:50097642 original size:15 final size:14
Alignment explanation
Indices: 50097611--50097667 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
50097601 AAGAGAAAAT
50097611 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
50097627 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
50097642 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
50097658 AAAGAAAAGA
1 AAAGAAAAGA
50097668 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:50097746 original size:13 final size:12
Alignment explanation
Indices: 50097715--50097746 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
50097705 TTGAGGGAAC
50097715 TTGAAAAAGCCT
1 TTGAAAAAGCCT
*
50097727 TTGAAAAATCCT
1 TTGAAAAAGCCT
50097739 TTGAAAAA
1 TTGAAAAA
50097747 CAAAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:50100112 original size:14 final size:14
Alignment explanation
Indices: 50100093--50100137 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
50100083 AACTCATCTT
*
50100093 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
50100107 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
50100120 AATTTAATTTAATG
1 AGTTTAATTTAATG
50100134 AGTT
1 AGTT
50100138 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:50101144 original size:29 final size:29
Alignment explanation
Indices: 50101111--50101170 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
50101101 ATAACCAAAC
*
50101111 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
50101140 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
50101169 CT
1 CT
50101171 TTGAATCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:50101163 original size:15 final size:15
Alignment explanation
Indices: 50101117--50101164 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
50101107 AAACCTACAA
*
50101117 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
50101132 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
50101146 AAACTTCATATCCAT
1 AAACTTCATATCCAT
50101161 AAAC
1 AAAC
50101165 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:50103365 original size:15 final size:15
Alignment explanation
Indices: 50103345--50103394 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
50103335 AAACAAAACA
50103345 AATTAATTTGAGCTG
1 AATTAATTTGAGCTG
*
50103360 AATTAATTT-A-CTA
1 AATTAATTTGAGCTG
50103373 ACACTT-ATTTGAGCTG
1 A-A-TTAATTTGAGCTG
50103389 AATTAA
1 AATTAA
50103395 ATAAATAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
13 3 0.11
14 8 0.29
15 14 0.50
16 3 0.11
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (15 bp):
AATTAATTTGAGCTG
Found at i:50104794 original size:15 final size:16
Alignment explanation
Indices: 50104755--50104795 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
50104745 AACAACACTC
50104755 CTTTCTTTTTCACTTT
1 CTTTCTTTTTCACTTT
* *
50104771 C-ATCCTTTTCA-TTT
1 CTTTCTTTTTCACTTT
50104785 CTTTCTTTTTC
1 CTTTCTTTTTC
50104796 CAACTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
14 4 0.20
15 15 0.75
16 1 0.05
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (16 bp):
CTTTCTTTTTCACTTT
Found at i:50105943 original size:29 final size:32
Alignment explanation
Indices: 50105898--50105973 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 32
50105888 TTTCAATCAC
*
50105898 TCTTTTTTTTTTCAATTTCG-A-TTTTTTTCT
1 TCTTTTTTTTTTTAATTTCGAATTTTTTTTCT
50105928 T-TTTTTTTTTTTAATTTCGAATTTTTTTTCT
1 TCTTTTTTTTTTTAATTTCGAATTTTTTTTCT
50105959 TCTTCTTCTTTTTTT
1 TCTT-TT-TTTTTTT
50105974 TCTTCAATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
29 17 0.43
30 2 0.05
31 10 0.25
32 2 0.05
33 2 0.05
34 7 0.17
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.76
Consensus pattern (32 bp):
TCTTTTTTTTTTTAATTTCGAATTTTTTTTCT
Found at i:50106037 original size:12 final size:11
Alignment explanation
Indices: 50106020--50106063 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
50106010 AATACAAACT
50106020 TTTTTTTTTGAA
1 TTTTTTTTT-AA
50106032 TTTTTTTTTCAA
1 TTTTTTTTT-AA
*
50106044 GTTTTTTTTTTA
1 -TTTTTTTTTAA
50106056 TTTTTTTT
1 TTTTTTTT
50106064 ACAATACCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 8 0.28
12 12 0.41
13 9 0.31
ACGTcount: A:0.11, C:0.02, G:0.05, T:0.82
Consensus pattern (11 bp):
TTTTTTTTTAA
Found at i:50106037 original size:13 final size:12
Alignment explanation
Indices: 50106019--50106063 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
50106009 GAATACAAAC
50106019 TTTTTTTTTTGAA
1 TTTTTTTTTT-AA
*
50106032 TTTTTTTTTCAA
1 TTTTTTTTTTAA
50106044 GTTTTTTTTTT-A
1 -TTTTTTTTTTAA
50106056 TTTTTTTT
1 TTTTTTTT
50106064 ACAATACCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 8 0.28
12 3 0.10
13 18 0.62
ACGTcount: A:0.11, C:0.02, G:0.04, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTTAA
Found at i:50108266 original size:18 final size:19
Alignment explanation
Indices: 50108223--50108268 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
50108213 CGAGAGAAGC
*
50108223 GAAAAAG-AGAAAGAATGT
1 GAAAAAGAAAAAAGAATGT
* *
50108241 GAACAAGAAAAAAGAGTG-
1 GAAAAAGAAAAAAGAATGT
50108259 GAAAAAGAAA
1 GAAAAAGAAA
50108269 TTGAGATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.65, C:0.02, G:0.26, T:0.07
Consensus pattern (19 bp):
GAAAAAGAAAAAAGAATGT
Found at i:50111924 original size:33 final size:33
Alignment explanation
Indices: 50111886--50111948 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
50111876 GATTACTCAC
50111886 TTCACTCG-TTTCTTTT-ACAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
50111919 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
50111949 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.27, G:0.06, T:0.54
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:50111971 original size:15 final size:13
Alignment explanation
Indices: 50111945--50112001 Score: 62
Period size: 14 Copynumber: 4.2 Consensus size: 13
50111935 TCAAGCTCTC
*
50111945 TTTCAATTTCTTT
1 TTTCATTTTCTTT
50111958 TTTCACTTTT-TCTT
1 TTTCA-TTTTCT-TT
50111972 TTTCAATTTTCTTT
1 TTTC-ATTTTCTTT
50111986 TCTTCATTTTCTTT
1 T-TTCATTTTCTTT
50112000 TT
1 TT
50112002 CTCTCACTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 7 0.18
14 26 0.68
15 5 0.13
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCATTTTCTTT
Found at i:50111975 original size:27 final size:27
Alignment explanation
Indices: 50111945--50112002 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 27
50111935 TCAAGCTCTC
50111945 TTTCAA-TTTCTTTT-TTCACTTTTTCTT
1 TTTCAATTTTCTTTTCTTCA--TTTTCTT
50111972 TTTCAATTTTCTTTTCTTCATTTTCTT
1 TTTCAATTTTCTTTTCTTCATTTTCTT
50111999 TTTC
1 TTTC
50112003 TCTCACTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 17 0.59
28 8 0.28
29 4 0.14
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTCAATTTTCTTTTCTTCATTTTCTT
Found at i:50112061 original size:18 final size:18
Alignment explanation
Indices: 50111963--50112066 Score: 84
Period size: 18 Copynumber: 5.6 Consensus size: 18
50111953 TCTTTTTTCA
50111963 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTC-ATTTT
* *
50111982 CTTTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCATTTT
* **
50112002 CTCTCACTTTTTCGA-TTT
1 CTTTTTCTTTTTC-ATTTT
* *
50112020 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCATTTT
*
50112038 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCATTTT
*
50112056 CTTTTTGTTTT
1 CTTTTTCTTTT
50112067 CTTTCAATTT
Statistics
Matches: 66, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
17 1 0.02
18 46 0.70
19 3 0.05
20 8 0.12
21 8 0.12
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.71
Consensus pattern (18 bp):
CTTTTTCTTTTTCATTTT
Found at i:50112083 original size:6 final size:6
Alignment explanation
Indices: 50111963--50112070 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
50111953 TCTTTTTTCA
* * * **
50111963 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
50112014 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
50112062 -GTTTT CTTT
1 CTTTTT CTTT
50112071 CAATTTCTTT
Statistics
Matches: 74, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
5 4 0.05
6 58 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:50112102 original size:81 final size:83
Alignment explanation
Indices: 50111948--50112102 Score: 181
Period size: 81 Copynumber: 1.9 Consensus size: 83
50111938 AGCTCTCTTT
* * ** *
50111948 CAATTTCTTTTTTCACTTTTTCTTTTTCAATTTTCTTTTCTTCATTTTCTTTTTCTCTCACTTTT
1 CAATTTCTTTTTT-ACTTTTTCGTTTTCAATTTTCTTTTCTTCAATTTCTTTTTCAATCACTTTC
*
50112013 TCGATTTCTTTTTCTTTTG
65 TCCATTTCTTTTTCTTTTG
* * *
50112032 CAATTTC-TTTTT-CTTTTTCGTTTTC-TTTTTGTTTTCTTTCAATTTCTTTTTCAATCTCTTTC
1 CAATTTCTTTTTTACTTTTTCGTTTTCAATTTTCTTTTC-TTCAATTTCTTTTTCAATCACTTTC
*
50112094 TCCTTTTCT
65 TCCATTTCT
50112103 CGCTCAATGG
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
80 9 0.15
81 39 0.65
83 5 0.08
84 7 0.12
ACGTcount: A:0.09, C:0.21, G:0.03, T:0.68
Consensus pattern (83 bp):
CAATTTCTTTTTTACTTTTTCGTTTTCAATTTTCTTTTCTTCAATTTCTTTTTCAATCACTTTCT
CCATTTCTTTTTCTTTTG
Found at i:50113208 original size:11 final size:11
Alignment explanation
Indices: 50113192--50113216 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
50113182 CAATCAAATT
50113192 TTTTTTTTCGA
1 TTTTTTTTCGA
50113203 TTTTTTTTCGA
1 TTTTTTTTCGA
50113214 TTT
1 TTT
50113217 CTTTGTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTTTTTCGA
Found at i:50118104 original size:30 final size:30
Alignment explanation
Indices: 50118070--50118166 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
50118060 TAAACTAAAA
*
50118070 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
50118100 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
50118130 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
50118159 ATGAGCTA
1 -TGAGCTA
50118167 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:50119799 original size:37 final size:37
Alignment explanation
Indices: 50119749--50119827 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
50119739 TTATTATGAA
* * *
50119749 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
50119786 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
50119823 GTCTT
1 GTCTT
50119828 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:50120022 original size:49 final size:49
Alignment explanation
Indices: 50119945--50120102 Score: 284
Period size: 49 Copynumber: 3.2 Consensus size: 49
50119935 GCCCTTCGGG
50119945 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
50119995 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
50120044 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
50120091 ACTTTCACATTC
1 ACTTTCACATTC
50120103 TCAAAGTAAG
Statistics
Matches: 107, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
47 20 0.19
49 83 0.78
50 4 0.04
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
Found at i:50120421 original size:24 final size:23
Alignment explanation
Indices: 50120373--50120430 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
50120363 TAATCAAACA
50120373 TTATTATATATATATCATATCATT
1 TTATTAT-TATATATCATATCATT
*
50120397 TTATTATTAT-TATCATTATTTATT
1 TTATTATTATATATCA-TA-TCATT
50120421 TTATT-TTATA
1 TTATTATTATA
50120431 CTTTTCAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.17
23 9 0.30
24 16 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTATTATATATCATATCATT
Found at i:50124533 original size:22 final size:22
Alignment explanation
Indices: 50124482--50124547 Score: 89
Period size: 21 Copynumber: 3.0 Consensus size: 22
50124472 GGTATTTGGG
* *
50124482 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
50124503 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
*
50124525 ATTTGGTACGAAATGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
50124548 TCAAAGAGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 19 0.47
22 16 0.40
23 5 0.12
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.33
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:50125906 original size:14 final size:14
Alignment explanation
Indices: 50125887--50125931 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
50125877 AACTCATCTT
*
50125887 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
50125901 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
50125914 AATTTAATTTAATG
1 AGTTTAATTTAATG
50125928 AGTT
1 AGTT
50125932 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:50126742 original size:4 final size:4
Alignment explanation
Indices: 50126733--50126766 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
50126723 AAGTTTTATT
50126733 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
50126767 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:50126774 original size:22 final size:22
Alignment explanation
Indices: 50126716--50126775 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
50126706 AAGTGGCCCA
*
50126716 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
50126740 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
50126761 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
50126776 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:50130551 original size:4 final size:4
Alignment explanation
Indices: 50130542--50130574 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
50130532 AAGTTTTATT
50130542 TTTA TTTA TTTA TTTA TTTA TTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA
50130575 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:50131739 original size:29 final size:29
Alignment explanation
Indices: 50131706--50131765 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
50131696 ATAACCAAAC
*
50131706 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
50131735 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
50131764 CT
1 CT
50131766 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:50131758 original size:15 final size:15
Alignment explanation
Indices: 50131712--50131759 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
50131702 AAACCTACAA
*
50131712 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
50131727 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
50131741 AAACTTCATATCCAT
1 AAACTTCATATCCAT
50131756 AAAC
1 AAAC
50131760 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:50134159 original size:44 final size:44
Alignment explanation
Indices: 50134120--50134209 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
50134110 GAGCTACAAT
50134120 TTTCTCTAAGATAGATCTTCGGTCTGGGTATCATCAGCTAAAGG
1 TTTCTCTAAGATAGATCTTCGGTCTGGGTATCATCAGCTAAAGG
50134164 TTTCTCTAAGATAGATCTTCGGTCTGGGTATCATCAGCTAAAGG
1 TTTCTCTAAGATAGATCTTCGGTCTGGGTATCATCAGCTAAAGG
50134208 TT
1 TT
50134210 AAGGAGGCTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (44 bp):
TTTCTCTAAGATAGATCTTCGGTCTGGGTATCATCAGCTAAAGG
Found at i:50136681 original size:49 final size:49
Alignment explanation
Indices: 50136616--50136853 Score: 296
Period size: 49 Copynumber: 4.8 Consensus size: 49
50136606 TAGCCAAAGC
* * * * *
50136616 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
50136665 TGTCCGGTACACATAGTAGCCTGCACTTAGTAATACACACGTGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
50136714 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * *
50136764 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * **
50136815 TTTCGGGTATGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
50136854 TGCGACCTCA
Statistics
Matches: 164, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 85 0.52
50 43 0.26
51 35 0.21
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:50136861 original size:101 final size:99
Alignment explanation
Indices: 50136616--50136861 Score: 323
Period size: 101 Copynumber: 2.5 Consensus size: 99
50136606 TAGCCAAAGC
* * *** *
50136616 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTGTCCGGTACACATA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACATA
50136680 GTAGCCTGCACTTAGTAATACACACGTGACCAAT
66 GTAGCCTGCACTTAGTAATACACACGTGACCAAT
* * * * * *
50136714 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACATA
*
50136779 GTAGCCTGCACTTAGTACTACACACGTGATCACAAT
66 GTAGCCTGCACTTAGTAATACACACGTGA-C-CAAT
* * *
50136815 TTTCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
50136862 CACAATAGAT
Statistics
Matches: 125, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 40 0.32
99 40 0.32
100 1 0.01
101 44 0.35
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACATA
GTAGCCTGCACTTAGTAATACACACGTGACCAAT
Found at i:50140156 original size:47 final size:47
Alignment explanation
Indices: 50140035--50140167 Score: 189
Period size: 46 Copynumber: 2.9 Consensus size: 47
50140025 ATAGTCTCAC
* * *
50140035 CCATAATGAACTTGGAACGCAACTCAACGAGCTCGGGTG-TTCGCAT
1 CCATAATGAACTTGGAACGCAACTCAACGAGTTTGGATGCTTCGCAT
* * *
50140081 CCATAATGAACTCGAAACACAACTCAACGAGTTTGGATGCTT-GCAT
1 CCATAATGAACTTGGAACGCAACTCAACGAGTTTGGATGCTTCGCAT
50140127 CCATAAGTGAACTTGGAACGCAACTCAACGAGTTTGGATGC
1 CCATAA-TGAACTTGGAACGCAACTCAACGAGTTTGGATGC
50140168 CTCATAATTC
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
46 43 0.57
47 33 0.43
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (47 bp):
CCATAATGAACTTGGAACGCAACTCAACGAGTTTGGATGCTTCGCAT
Found at i:50143845 original size:30 final size:30
Alignment explanation
Indices: 50143811--50143909 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 30
50143801 CTACCTTATA
*
50143811 TTTAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTTAGCTCAAGAGCTAAACCTTAGCTCAAC
* * * *
50143841 TTTAGCTTAGGAG-TATAATCTCAGCTCAAC
1 TTTAGCTCAAGAGCTA-AACCTTAGCTCAAC
* * * *
50143871 TTTAGCTTAAGGGCTAAAGCTTAGCTC-AT
1 TTTAGCTCAAGAGCTAAACCTTAGCTCAAC
50143900 TTTAGCTCAA
1 TTTAGCTCAA
50143910 ACCCGATTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
29 12 0.21
30 43 0.75
31 2 0.04
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (30 bp):
TTTAGCTCAAGAGCTAAACCTTAGCTCAAC
Found at i:50150168 original size:18 final size:18
Alignment explanation
Indices: 50150147--50150181 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
50150137 TTTTTCTTTT
50150147 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
50150165 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
50150182 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:50150178 original size:6 final size:6
Alignment explanation
Indices: 50150169--50150273 Score: 52
Period size: 6 Copynumber: 17.2 Consensus size: 6
50150159 TCAATCTCAA
* * * ** **
50150169 TTTCTT TTTCAAT TTTCTTT TCTTCAT TTTCTT TTTCTC TCACTAT TTTGAT
1 TTTCTT TTTC-TT TTTC-TT T-TTCTT TTTCTT TTTCTT TTTCT-T TTTCTT
* ** * *
50150221 TT-CTT TTTCTT TTGCAA TTTCTT TTTCTT TTTCAT TTTCTT TTT-GT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
50150267 TTTCTT T
1 TTTCTT T
50150274 CAATTTTTTT
Statistics
Matches: 69, Mismatches: 25, Indels: 10
0.66 0.24 0.10
Matches are distributed among these distances:
5 7 0.10
6 49 0.71
7 10 0.14
8 3 0.04
ACGTcount: A:0.09, C:0.17, G:0.03, T:0.71
Consensus pattern (6 bp):
TTTCTT
Found at i:50150240 original size:18 final size:18
Alignment explanation
Indices: 50150219--50150269 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
50150209 CACTATTTTG
50150219 ATTTCTTTTTCTTTTGCA
1 ATTTCTTTTTCTTTTGCA
*
50150237 ATTTCTTTTTCTTTTTCA
1 ATTTCTTTTTCTTTTGCA
* *
50150255 TTTTCTTTTTGTTTT
1 ATTTCTTTTTCTTTT
50150270 CTTTCAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.08, C:0.14, G:0.04, T:0.75
Consensus pattern (18 bp):
ATTTCTTTTTCTTTTGCA
Found at i:50150258 original size:7 final size:6
Alignment explanation
Indices: 50150220--50150273 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
50150210 ACTATTTTGA
* ** * *
50150220 TTTCTT TTTCTT TTGCAA TTTCTT TTTCTT TTTCAT TTTCTT TTT-GT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
50150267 TTTCTT T
1 TTTCTT T
50150274 CAATTTTTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
5 4 0.11
6 33 0.89
ACGTcount: A:0.06, C:0.15, G:0.04, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:50150269 original size:11 final size:12
Alignment explanation
Indices: 50150169--50150273 Score: 65
Period size: 12 Copynumber: 8.6 Consensus size: 12
50150159 TCAATCTCAA
50150169 TTTCTTTTTCAAT
1 TTTCTTTTTC-AT
50150182 TTTCTTTTCTTCAT
1 TTTC-TTT-TTCAT
50150196 TTTCTTTTTC-T
1 TTTCTTTTTCAT
** *
50150207 CTCACTATTTTGA-
1 -TTTCT-TTTTCAT
50150220 TTTCTTTTTC-T
1 TTTCTTTTTCAT
** *
50150231 TTTGCAATTTCTT
1 TTT-CTTTTTCAT
50150244 TTTCTTTTTCAT
1 TTTCTTTTTCAT
*
50150256 TTTCTTTTT-GT
1 TTTCTTTTTCAT
50150267 TTTCTTT
1 TTTCTTT
50150274 CAATTTTTTT
Statistics
Matches: 72, Mismatches: 12, Indels: 18
0.71 0.12 0.18
Matches are distributed among these distances:
11 16 0.22
12 29 0.40
13 15 0.21
14 9 0.12
15 3 0.04
ACGTcount: A:0.09, C:0.17, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTCTTTTTCAT
Found at i:50151378 original size:13 final size:13
Alignment explanation
Indices: 50151362--50151421 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
50151352 TTTTTTTCAC
50151362 TTTTTTTTGAATT
1 TTTTTTTTGAATT
*
50151375 TTTTTTTTCAATCAAT
1 TTTTTTTTGAAT---T
50151391 TTTTTTTTCGAA-T
1 TTTTTTTT-GAATT
50151404 TTTTTTTTG-ATT
1 TTTTTTTTGAATT
50151416 TTTTTT
1 TTTTTT
50151422 GTTACTCCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
11 1 0.03
12 8 0.20
13 20 0.50
16 9 0.22
17 2 0.05
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.75
Consensus pattern (13 bp):
TTTTTTTTGAATT
Found at i:50159052 original size:11 final size:12
Alignment explanation
Indices: 50159023--50159080 Score: 68
Period size: 11 Copynumber: 5.0 Consensus size: 12
50159013 AGACCGTATG
50159023 CAATTTTTTTTT
1 CAATTTTTTTTT
50159035 CAAATTTTTTTTT
1 C-AATTTTTTTTT
50159048 C-A-TTTTTTTT
1 CAATTTTTTTTT
*
50159058 CGATTTTTTTTT
1 CAATTTTTTTTT
*
50159070 -GATTTTTTTTT
1 CAATTTTTTTTT
50159081 TGAATCTACA
Statistics
Matches: 43, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
10 9 0.21
11 13 0.30
12 9 0.21
13 12 0.28
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.76
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:50159053 original size:10 final size:10
Alignment explanation
Indices: 50159040--50159079 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
50159030 TTTTTCAAAT
50159040 TTTTTTTTCA
1 TTTTTTTTCA
50159050 TTTTTTTTCGA
1 TTTTTTTTC-A
*
50159061 TTTTTTTTTGA
1 -TTTTTTTTCA
50159072 TTTTTTTT
1 TTTTTTTT
50159080 TTGAATCTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 17 0.63
11 2 0.07
12 8 0.30
ACGTcount: A:0.07, C:0.05, G:0.05, T:0.82
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:50159055 original size:22 final size:22
Alignment explanation
Indices: 50159027--50159079 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
50159017 CGTATGCAAT
50159027 TTTTTTTTCAAATTTTTTTTTCA
1 TTTTTTTTC-AATTTTTTTTTCA
* *
50159050 TTTTTTTTCGATTTTTTTTTGA
1 TTTTTTTTCAATTTTTTTTTCA
50159072 TTTTTTTT
1 TTTTTTTT
50159080 TTGAATCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.11, C:0.06, G:0.04, T:0.79
Consensus pattern (22 bp):
TTTTTTTTCAATTTTTTTTTCA
Found at i:50160775 original size:10 final size:10
Alignment explanation
Indices: 50160760--50160821 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
50160750 TTTGAACCGT
*
50160760 TACCAATTCG
1 TACCAATTCA
*
50160770 TACCAAATACCA
1 TACC-AAT-TCA
*
50160782 TACCATTTCA
1 TACCAATTCA
50160792 TACCAATTCCA
1 TACCAATT-CA
* *
50160803 TACCATTTCG
1 TACCAATTCA
50160813 TACCAATTC
1 TACCAATTC
50160822 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:50160805 original size:21 final size:21
Alignment explanation
Indices: 50160760--50160822 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
50160750 TTTGAACCGT
* *
50160760 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
50160782 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
50160803 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
50160823 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:50166046 original size:30 final size:30
Alignment explanation
Indices: 50165961--50166056 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
50165951 TAAACTAAAA
* * * *
50165961 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTGAGATTTAGCTCATGAGCTGAAGT
* * * *
50165991 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTGAGATTTAGCTCATGAGCTGAAGT
*
50166021 TGAGCTGAGGTTTAGCTCATGAGCTGAA-T
1 TGAGCTGAGATTTAGCTCATGAGCTGAAGT
50166050 ATGAGCT
1 -TGAGCT
50166057 AGGAGTGAGC
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTGAGATTTAGCTCATGAGCTGAAGT
Found at i:50168267 original size:21 final size:20
Alignment explanation
Indices: 50168241--50168283 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
50168231 GAATGAGCTG
50168241 AAACGAGCTAAATTTGAACTC
1 AAACGAGCTAAA-TTGAACTC
* *
50168262 AAACGAGCTGAATTGAGCTC
1 AAACGAGCTAAATTGAACTC
50168282 AA
1 AA
50168284 GTGAGCTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (20 bp):
AAACGAGCTAAATTGAACTC
Done.