Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 30 of 109
Found at i:9827627 original size:27 final size:28
Alignment explanation
Indices: 9827567--9827627 Score: 65
Period size: 27 Copynumber: 2.2 Consensus size: 28
9827557 GTCCAAAATA
*
9827567 TAATTTAATTATAAAATAATTAAATTGT
1 TAATTAAATTATAAAATAATTAAATTGT
* *
9827595 T-CTTAAATTATTAAAAT-ATTTAATT-T
1 TAATTAAATTA-TAAAATAATTAAATTGT
9827621 TAATTAA
1 TAATTAA
9827628 TTTTATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
26 2 0.07
27 18 0.67
28 7 0.26
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (28 bp):
TAATTAAATTATAAAATAATTAAATTGT
Found at i:9835202 original size:17 final size:16
Alignment explanation
Indices: 9835152--9835203 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
9835142 AGAAATGTAA
9835152 TATATAATTATATTAAT
1 TATAT-ATTATATTAAT
* * *
9835169 TATAAAGTAATAATAAT
1 TATATA-TTATATTAAT
9835186 TAATATATTATATTAAT
1 T-ATATATTATATTAAT
9835203 T
1 T
9835204 TTTAATAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 1 0.04
17 22 0.81
18 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
TATATATTATATTAAT
Found at i:9835260 original size:16 final size:15
Alignment explanation
Indices: 9835228--9835266 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
9835218 TGATAATAAG
9835228 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
9835244 TTATTATAATGTATAT
1 TAATTATAAT-TATAT
9835260 TAATTAT
1 TAATTAT
9835267 TATCAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:9835868 original size:13 final size:13
Alignment explanation
Indices: 9835850--9835874 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9835840 AAATTATCCA
9835850 ACCCAACCCAATT
1 ACCCAACCCAATT
9835863 ACCCAACCCAAT
1 ACCCAACCCAAT
9835875 AAAACTAAAA
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:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:9835961 original size:38 final size:39
Alignment explanation
Indices: 9835855--9835971 Score: 191
Period size: 39 Copynumber: 3.0 Consensus size: 39
9835845 ATCCAACCCA
9835855 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
* * *
9835894 ACCAAATTACCCAACCCAATAGAACTAAAACTAAGGTCT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
*
9835933 ACCCAATTA-CCAACCCAATAAAAATAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
9835971 A
1 A
9835972 ACTCTTAAGT
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 27 0.38
39 44 0.62
ACGTcount: A:0.50, C:0.28, G:0.04, T:0.18
Consensus pattern (39 bp):
ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
Found at i:9836147 original size:9 final size:9
Alignment explanation
Indices: 9836133--9836172 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
9836123 GTAGTGATTC
9836133 AATTCGGGT
1 AATTCGGGT
9836142 AATTCGGGT
1 AATTCGGGT
*
9836151 AATTCGGTT
1 AATTCGGGT
*
9836160 AATTCGGTT
1 AATTCGGGT
9836169 AATT
1 AATT
9836173 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (9 bp):
AATTCGGGT
Found at i:9842093 original size:16 final size:16
Alignment explanation
Indices: 9842060--9842114 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
9842050 TATTTTGGAC
9842060 ATAGTTATTCTCAAACA
1 ATAGTTATTCT-AAACA
*
9842077 ATAGTTGTTCTAAACA
1 ATAGTTATTCTAAACA
* **
9842093 ACAACTATTCTAAACA
1 ATAGTTATTCTAAACA
9842109 ATAGTT
1 ATAGTT
9842115 GTTGCTCCAG
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
16 20 0.67
17 10 0.33
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (16 bp):
ATAGTTATTCTAAACA
Found at i:9846534 original size:27 final size:27
Alignment explanation
Indices: 9846494--9846545 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
9846484 GACTTACTTA
* *
9846494 GGTATAAATTAAAATTGTGGATATTAT
1 GGTATAAATGAAAATTGTGAATATTAT
*
9846521 GGTATAAATGAAAATTTTGAATATT
1 GGTATAAATGAAAATTGTGAATATT
9846546 TATATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (27 bp):
GGTATAAATGAAAATTGTGAATATTAT
Found at i:9846761 original size:17 final size:17
Alignment explanation
Indices: 9846739--9846772 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
9846729 AGTTGAACTA
9846739 GTTTTT-TTATTTTTAAT
1 GTTTTTATT-TTTTTAAT
9846756 GTTTTTATTTTTTTAAT
1 GTTTTTATTTTTTTAAT
9846773 AATTTATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (17 bp):
GTTTTTATTTTTTTAAT
Found at i:9846963 original size:17 final size:18
Alignment explanation
Indices: 9846941--9846982 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
9846931 TCTCATATTT
*
9846941 ATTTTAATCAATTTTAG-
1 ATTTTAATAAATTTTAGA
9846958 ATTTTAA-AAATTTTAGA
1 ATTTTAATAAATTTTAGA
9846975 ATTTTAAT
1 ATTTTAAT
9846983 TTTAACTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.52
Consensus pattern (18 bp):
ATTTTAATAAATTTTAGA
Found at i:9846971 original size:16 final size:17
Alignment explanation
Indices: 9846950--9846981 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9846940 TATTTTAATC
9846950 AATTTTAG-ATTTTAAA
1 AATTTTAGAATTTTAAA
9846966 AATTTTAGAATTTTAA
1 AATTTTAGAATTTTAA
9846982 TTTTAACTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
AATTTTAGAATTTTAAA
Found at i:9850414 original size:21 final size:21
Alignment explanation
Indices: 9850390--9850436 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
9850380 GAAAATATTT
**
9850390 TTTTAGGGGGTTGAAATGAAA
1 TTTTAGGGGGTCAAAATGAAA
*
9850411 TTTTAGGGGGTCAAAATGTAA
1 TTTTAGGGGGTCAAAATGAAA
9850432 TTTTA
1 TTTTA
9850437 TATTTACTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.28, T:0.38
Consensus pattern (21 bp):
TTTTAGGGGGTCAAAATGAAA
Found at i:9850769 original size:5 final size:5
Alignment explanation
Indices: 9850759--9850788 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
9850749 AAAATGGTGG
9850759 TGGTA TGGTA TGGTA TGGTA TGGTA TGGTA
1 TGGTA TGGTA TGGTA TGGTA TGGTA TGGTA
9850789 AGAGGTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (5 bp):
TGGTA
Found at i:9851396 original size:5 final size:5
Alignment explanation
Indices: 9851386--9851430 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
9851376 GAAGCCATTT
* *
9851386 TTTTC TTTTC TTTTC TTTTC TTTTC CTCTC TTTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTT
9851431 GTGTTGTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 32 0.91
6 3 0.09
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:9853244 original size:14 final size:14
Alignment explanation
Indices: 9853225--9853257 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9853215 AATTATTTAC
9853225 ATATTTTTCAAAAA-
1 ATATTTTT-AAAAAG
9853239 ATATTTTTAAAAAG
1 ATATTTTTAAAAAG
9853253 ATATT
1 ATATT
9853258 GGAAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (14 bp):
ATATTTTTAAAAAG
Found at i:9853649 original size:20 final size:21
Alignment explanation
Indices: 9853600--9853649 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
9853590 AAAATTTAAG
*
9853600 TATATCAAAT-TTCAAATTTT
1 TATATCAAATAATCAAATTTT
*
9853620 TAT-TCCAATAATC-AATTTT
1 TATATCAAATAATCAAATTTT
9853639 TATATCAAATA
1 TATATCAAATA
9853650 TAGTCTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (21 bp):
TATATCAAATAATCAAATTTT
Found at i:9869135 original size:20 final size:20
Alignment explanation
Indices: 9869098--9869136 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9869088 TAACGATTGA
*
9869098 TATCAAGATTTTGACAAGAT
1 TATCAAGATTTAGACAAGAT
9869118 TATCAAAGATTTAG-CAAGA
1 TATC-AAGATTTAGACAAGA
9869137 ACAGTAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (20 bp):
TATCAAGATTTAGACAAGAT
Found at i:9874163 original size:18 final size:18
Alignment explanation
Indices: 9874127--9874173 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
9874117 TTTAGAATTA
9874127 TGGGCCCACATGTCTGTG
1 TGGGCCCACATGTCTGTG
*
9874145 TGGGCTCACATG-CTCGTG
1 TGGGCCCACATGTCT-GTG
*
9874163 T-AGCCCACATG
1 TGGGCCCACATG
9874174 CACGTGTAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.26
Consensus pattern (18 bp):
TGGGCCCACATGTCTGTG
Found at i:9874173 original size:17 final size:17
Alignment explanation
Indices: 9874151--9874188 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
9874141 TGTGTGGGCT
*
9874151 CACATGCTCGTGTAGCC
1 CACATGCACGTGTAGCC
9874168 CACATGCACGTGTAGCC
1 CACATGCACGTGTAGCC
9874185 CACA
1 CACA
9874189 CGCCCAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.37, G:0.21, T:0.18
Consensus pattern (17 bp):
CACATGCACGTGTAGCC
Found at i:9874209 original size:18 final size:18
Alignment explanation
Indices: 9874182--9874220 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
9874172 TGCACGTGTA
9874182 GCCCACACGCCCAACTTG
1 GCCCACACGCCCAACTTG
* *
9874200 GCCCATACGCCTAACTTG
1 GCCCACACGCCCAACTTG
9874218 GCC
1 GCC
9874221 TAGCCCGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.46, G:0.18, T:0.15
Consensus pattern (18 bp):
GCCCACACGCCCAACTTG
Found at i:9875309 original size:21 final size:21
Alignment explanation
Indices: 9875279--9875320 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9875269 ATAAGGACGA
*
9875279 AATTGTAAAAATGTGAAAGTT
1 AATTGCAAAAATGTGAAAGTT
9875300 AATTGCAAAAATGTGAAAGTT
1 AATTGCAAAAATGTGAAAGTT
9875321 TAGGGGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.02, G:0.19, T:0.31
Consensus pattern (21 bp):
AATTGCAAAAATGTGAAAGTT
Found at i:9875330 original size:21 final size:21
Alignment explanation
Indices: 9875285--9875331 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9875275 ACGAAATTGT
**
9875285 AAAAATGTGAAAGTTAATTGC
1 AAAAATGTGAAAGTTAAGGGC
* *
9875306 AAAAATGTGAAAGTTTAGGGG
1 AAAAATGTGAAAGTTAAGGGC
9875327 AAAAA
1 AAAAA
9875332 GTATAAAATT
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:0.51, C:0.02, G:0.23, T:0.23
Consensus pattern (21 bp):
AAAAATGTGAAAGTTAAGGGC
Found at i:9875742 original size:42 final size:41
Alignment explanation
Indices: 9875662--9875812 Score: 144
Period size: 42 Copynumber: 3.6 Consensus size: 41
9875652 ACTGCGATGT
9875662 GATTTGTGTAAGACCATTCTGGGACATTGACATCGATATAA
1 GATTTGTGTAAGACCATTCTGGGACATTGACATCGATATAA
* * * * * *
9875703 GATTCGTGTAAAACCATGTTTGGGACATTGGCATTGATATGA
1 GATTTGTGTAAGACCAT-TCTGGGACATTGACATCGATATAA
* * *
9875745 GATTTGTGTAAGACCATAGCTGGG-CTATTGGCATCGATATAT
1 GATTTGTGTAAGACCAT-TCTGGGAC-ATTGACATCGATATAA
*
9875787 GA-TAGCATGTAAGACCATATCTGGGA
1 GATTTG--TGTAAGACCAT-TCTGGGA
9875813 TATGGCATTG
Statistics
Matches: 89, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
41 18 0.20
42 54 0.61
43 17 0.19
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (41 bp):
GATTTGTGTAAGACCATTCTGGGACATTGACATCGATATAA
Found at i:9875819 original size:84 final size:83
Alignment explanation
Indices: 9875662--9875822 Score: 200
Period size: 84 Copynumber: 1.9 Consensus size: 83
9875652 ACTGCGATGT
* * * * *
9875662 GATTTGTGTAAGACCATTCTGGGACATTGACATCGATATAAGATTCGTGTAAAACCATGTTTGGG
1 GATTTGTGTAAGACCATGCTGGGACATTGACATCGATATAAGATGCATGTAAAACCATATCTGGG
9875727 ACATTGGCATTGATATGA
66 ACATTGGCATTGATATGA
* * *
9875745 GATTTGTGTAAGACCATAGCTGGG-CTATTGGCATCGATATATGATAGCATGTAAGACCATATCT
1 GATTTGTGTAAGACCAT-GCTGGGAC-ATTGACATCGATATAAGAT-GCATGTAAAACCATATCT
*
9875809 GGGATA-TGGCATTG
63 GGGACATTGGCATTG
9875823 TGCGAGTTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
83 18 0.27
84 30 0.45
85 18 0.27
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (83 bp):
GATTTGTGTAAGACCATGCTGGGACATTGACATCGATATAAGATGCATGTAAAACCATATCTGGG
ACATTGGCATTGATATGA
Found at i:9880512 original size:14 final size:15
Alignment explanation
Indices: 9880481--9880512 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9880471 ATAACTTAAA
9880481 TTCAATACTTACATT
1 TTCAATACTTACATT
9880496 TTCAATACTTA-ATT
1 TTCAATACTTACATT
9880510 TTC
1 TTC
9880513 CAACCGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (15 bp):
TTCAATACTTACATT
Found at i:9880948 original size:21 final size:21
Alignment explanation
Indices: 9880924--9880966 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9880914 ATACAATAAT
9880924 AATAGTATTTTAATTTTAAAA
1 AATAGTATTTTAATTTTAAAA
* * * *
9880945 AATATTGTTTTATTTTTTAAA
1 AATAGTATTTTAATTTTAAAA
9880966 A
1 A
9880967 TATACTTATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
AATAGTATTTTAATTTTAAAA
Found at i:9883052 original size:52 final size:52
Alignment explanation
Indices: 9882990--9883090 Score: 193
Period size: 52 Copynumber: 1.9 Consensus size: 52
9882980 CCCCATGTGA
*
9882990 TGCGTTGGGATGGTCGGAGTTGGTGTGTAGAGGATAGGGGTAGGACTTTTGG
1 TGCGTTGGGATGATCGGAGTTGGTGTGTAGAGGATAGGGGTAGGACTTTTGG
9883042 TGCGTTGGGATGATCGGAGTTGGTGTGTAGAGGATAGGGGTAGGACTTT
1 TGCGTTGGGATGATCGGAGTTGGTGTGTAGAGGATAGGGGTAGGACTTT
9883091 GCATATCTAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.17, C:0.06, G:0.47, T:0.31
Consensus pattern (52 bp):
TGCGTTGGGATGATCGGAGTTGGTGTGTAGAGGATAGGGGTAGGACTTTTGG
Found at i:9888924 original size:38 final size:38
Alignment explanation
Indices: 9888796--9888920 Score: 142
Period size: 38 Copynumber: 3.3 Consensus size: 38
9888786 TGACATGCTT
* * *
9888796 GTAACAGTAGACATGTTTTATCATGTATTTAGTTCAATA
1 GTAACAGTAGACATG-CTTAACATGTATTAAGTTCAATA
* * * * *
9888835 ATAGCATTAGACATGCGTAACATGTATTAAGTTCAACA
1 GTAACAGTAGACATGCTTAACATGTATTAAGTTCAATA
* * *
9888873 GTAATAGTAGGCATGCTTAACATGTATTCAGTTCAATA
1 GTAACAGTAGACATGCTTAACATGTATTAAGTTCAATA
9888911 GTAACAGTAG
1 GTAACAGTAG
9888921 GCATATTGAA
Statistics
Matches: 69, Mismatches: 17, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
38 57 0.83
39 12 0.17
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.34
Consensus pattern (38 bp):
GTAACAGTAGACATGCTTAACATGTATTAAGTTCAATA
Found at i:9888933 original size:38 final size:38
Alignment explanation
Indices: 9888796--9888934 Score: 118
Period size: 38 Copynumber: 3.6 Consensus size: 38
9888786 TGACATGCTT
* * * * *
9888796 GTAACAGTAGACATGTTTTATCATGTATTTAGTTCAATA
1 GTAACAGTAGGCATG-ATTAACATGTATTAAGTTCAACA
* * * * **
9888835 ATAGCATTAGACATGCGTAACATGTATTAAGTTCAACA
1 GTAACAGTAGGCATGATTAACATGTATTAAGTTCAACA
* * * *
9888873 GTAATAGTAGGCATGCTTAACATGTATTCAGTTCAATA
1 GTAACAGTAGGCATGATTAACATGTATTAAGTTCAACA
9888911 GTAACAGTAGGCAT-ATTGAACATG
1 GTAACAGTAGGCATGATT-AACATG
9888935 CAATCAGTAA
Statistics
Matches: 81, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
37 2 0.02
38 67 0.83
39 12 0.15
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (38 bp):
GTAACAGTAGGCATGATTAACATGTATTAAGTTCAACA
Found at i:9888942 original size:38 final size:38
Alignment explanation
Indices: 9888864--9888942 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
9888854 ACATGTATTA
* * * *
9888864 AGTTCAACAGTAATAGTAGGCATGCTTAACATGTATTC
1 AGTTCAACAGTAACAGTAGGCATGATTAACATGCAATC
*
9888902 AGTTCAATAGTAACAGTAGGCAT-ATTGAACATGCAATC
1 AGTTCAACAGTAACAGTAGGCATGATT-AACATGCAATC
9888940 AGT
1 AGT
9888943 AATACAGTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 2 0.06
38 33 0.94
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (38 bp):
AGTTCAACAGTAACAGTAGGCATGATTAACATGCAATC
Found at i:9892191 original size:129 final size:129
Alignment explanation
Indices: 9892052--9892301 Score: 320
Period size: 129 Copynumber: 1.9 Consensus size: 129
9892042 AAGATCAAGG
* ** * * ** *
9892052 TCTTTAGCGGCGTTTTTGCGACAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCGCTTTTCCCAC
1 TCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTTTCCCAC
* * *
9892117 AAACGCCGCAAAAGACTCTGATCTATAGCGGCGCTTAGACCACAAACGCCACTAAAGAACCTAA
66 AAACGCCGCAAAAGACCCTGATATATAGCGGCGCTTAGACCAAAAACGCCACTAAAGAACCTAA
* * * *
9892181 TCTTTAGCGGCGCTTTCCCCATAAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCAC
1 TCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTTTCCCAC
* * * **
9892246 AAACGCCGCTAAAGACCCTTATATTTAGCGGCGCTTTTACCAAAAACGCCACTAAA
66 AAACGCCGCAAAAGACCCTGATATATAGCGGCGCTTAGACCAAAAACGCCACTAAA
9892302 TTTGGCAGAT
Statistics
Matches: 101, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
129 101 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (129 bp):
TCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTTTCCCAC
AAACGCCGCAAAAGACCCTGATATATAGCGGCGCTTAGACCAAAAACGCCACTAAAGAACCTAA
Found at i:9892261 original size:43 final size:43
Alignment explanation
Indices: 9892005--9892301 Score: 258
Period size: 43 Copynumber: 6.9 Consensus size: 43
9891995 CTAAAAGTGT
* * * * *
9892005 TGATCTTTAGCGGCGTTTTTTGCTAGAAGCGCCGCTAAAGATCA
1 TGATCTTTAGCGGCGCTTTTT-CCACAAACGCCGCTAAAGACCA
* * * * **
9892049 AGGTCTTTAGCGGCG-TTTTTGCGACAAGCGCCGCTAAAGATTA
1 TGATCTTTAGCGGCGCTTTTT-CCACAAACGCCGCTAAAGACCA
* * * *
9892092 GGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACTC-
1 TGATCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAC-CA
* *** *
9892135 TGATCTATAGCGGCGCTTAGACCACAAACGCCACTAAAGAACC-
1 TGATCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAG-ACCA
* ** *
9892178 TAATCTTTAGCGGCGCTTTCCCCATAAACGCCGCTAAAGACCA
1 TGATCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCA
* *
9892221 TGATCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCC
1 TGATCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCA
* * * * *
9892264 TTATATTTAGCGGCGCTTTTACCAAAAACGCCACTAAA
1 TGATCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAA
9892302 TTTGGCAGAT
Statistics
Matches: 210, Mismatches: 39, Indels: 9
0.81 0.15 0.03
Matches are distributed among these distances:
42 3 0.01
43 188 0.90
44 19 0.09
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (43 bp):
TGATCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCA
Found at i:9892638 original size:21 final size:21
Alignment explanation
Indices: 9892609--9892721 Score: 100
Period size: 21 Copynumber: 5.4 Consensus size: 21
9892599 TTTGACGCTG
9892609 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* **
9892630 CTCTACTTCCCTCGCTATAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
9892651 TTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * * *
9892672 CTGTACTTCTCTCGCTACCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
9892693 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
9892714 ATCTGCTT
1 CTCTGCTT
9892722 TAAGCTGCTG
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 74 1.00
ACGTcount: A:0.07, C:0.42, G:0.16, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:9892698 original size:42 final size:42
Alignment explanation
Indices: 9892609--9892710 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
9892599 TTTGACGCTG
*
9892609 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTATAGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTACAGC
* * * * *
9892651 TTCTGCTTCCCTCGCTGTAGCCTGTACTTCTCTCGCTACCGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTACAGC
* *
9892693 CTCTGCTTCTCTTGCTGC
1 CTCTGCTTCCCTCGCTGC
9892711 CGCATCTGCT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.07, C:0.42, G:0.16, T:0.35
Consensus pattern (42 bp):
CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTACAGC
Found at i:9892782 original size:66 final size:66
Alignment explanation
Indices: 9892692--9892857 Score: 210
Period size: 66 Copynumber: 2.5 Consensus size: 66
9892682 CTCGCTACCG
* * * *
9892692 CCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGATTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTG-TAGCTGGAATTCTTCATATCTTT-GTT
9892755 GAA
64 GAA
* *
9892758 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAATTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAATTCTTCATATCTTTGTTGA
9892823 A
66 A
* * * *
9892824 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAG
9892858 TTGTGTAACT
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
65 1 0.01
66 83 0.94
67 4 0.05
ACGTcount: A:0.14, C:0.28, G:0.17, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAATTCTTCATATCTTTGTTGA
A
Found at i:9894536 original size:41 final size:41
Alignment explanation
Indices: 9894479--9894568 Score: 155
Period size: 41 Copynumber: 2.2 Consensus size: 41
9894469 NNNNNNNNNC
9894479 CCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCA-AAAACG
1 CCGCTAAAGACCTGAGCATTAGCGGCGCTT-TTCAGAAAACG
*
9894520 CCGCTAAAGACCTGAGCATTAGCGGCGCTTTTCAGAAAATG
1 CCGCTAAAGACCTGAGCATTAGCGGCGCTTTTCAGAAAACG
9894561 CCGCTAAA
1 CCGCTAAA
9894569 TACCCCAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 4 0.09
41 43 0.91
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (41 bp):
CCGCTAAAGACCTGAGCATTAGCGGCGCTTTTCAGAAAACG
Found at i:9894666 original size:40 final size:39
Alignment explanation
Indices: 9894621--9894744 Score: 113
Period size: 40 Copynumber: 3.1 Consensus size: 39
9894611 TTTGCGGTGC
* *
9894621 TTTTAAAAAAACGCCGCTAAAGCTTATTTTTAGCGGCGT
1 TTTTTAAAAAACGCCGCTAATGCTTATTTTTAGCGGCGT
* * * * **
9894660 TTTTTAAAAATCGCTGCTAATGATCAACCTTTAGCGGCGT
1 TTTTTAAAAAACGCCGCTAATGCT-TATTTTTAGCGGCGT
** * * *
9894700 TTTTCCAAAAGCGCCGCTACTGCTTGATTTTTAGTGGCGT
1 TTTTTAAAAAACGCCGCTAATGCTT-ATTTTTAGCGGCGT
9894740 TTTTT
1 TTTTT
9894745 GTCCAAAAGC
Statistics
Matches: 64, Mismatches: 19, Indels: 3
0.74 0.22 0.03
Matches are distributed among these distances:
39 19 0.30
40 45 0.70
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (39 bp):
TTTTTAAAAAACGCCGCTAATGCTTATTTTTAGCGGCGT
Found at i:9897881 original size:28 final size:27
Alignment explanation
Indices: 9897830--9897928 Score: 85
Period size: 28 Copynumber: 3.6 Consensus size: 27
9897820 ATAATTTTAT
*
9897830 TTTCAATTAAAATAATAATT-TTAAAAA
1 TTTCAATTAAAAT-ATTATTATTAAAAA
*
9897857 TTATCAATTAAAATATTATTATTAAATA
1 TT-TCAATTAAAATATTATTATTAAAAA
* * *
9897885 CTT-AATTAAAATTTTATTACTAATAAA
1 TTTCAATTAAAATATTATTATTAA-AAA
* *
9897912 TTTTATTGTAAAATATT
1 TTTCAAT-TAAAATATT
9897929 GAATACATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
26 18 0.31
27 12 0.21
28 20 0.34
29 8 0.14
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (27 bp):
TTTCAATTAAAATATTATTATTAAAAA
Found at i:9898111 original size:15 final size:15
Alignment explanation
Indices: 9898091--9898122 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9898081 TTTTTCCAAT
9898091 AATCACATTCAATTA
1 AATCACATTCAATTA
*
9898106 AATCACATTCCATTA
1 AATCACATTCAATTA
9898121 AA
1 AA
9898123 ATTATGACAT
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:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (15 bp):
AATCACATTCAATTA
Found at i:9899923 original size:25 final size:24
Alignment explanation
Indices: 9899895--9900016 Score: 113
Period size: 25 Copynumber: 5.0 Consensus size: 24
9899885 TCTCGTTATA
* *
9899895 TGGCTCTCATGAGCTTTCCGATATT
1 TGGCTCTCACGAGCTTCCCGAT-TT
* *
9899920 TGGCTCTCACGATCTTCCCGATTAA
1 TGGCTCTCACGAGCTTCCCGATT-T
*
9899945 TGGCTCTCACGAGCTTCTCG-TTT
1 TGGCTCTCACGAGCTTCCCGATTT
*
9899968 AATGGCTCTC-CGGAGCTTCCCGATAT
1 --TGGCTCTCAC-GAGCTTCCCGATTT
* *
9899994 TGGCTCGCATGAGCTTCCCGATT
1 TGGCTCTCACGAGCTTCCCGATT
9900017 ACAACTCTCA
Statistics
Matches: 79, Mismatches: 12, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
24 23 0.29
25 54 0.68
26 2 0.03
ACGTcount: A:0.16, C:0.30, G:0.21, T:0.34
Consensus pattern (24 bp):
TGGCTCTCACGAGCTTCCCGATTT
Found at i:9899948 original size:50 final size:49
Alignment explanation
Indices: 9899894--9900016 Score: 128
Period size: 50 Copynumber: 2.5 Consensus size: 49
9899884 ATCTCGTTAT
*
9899894 ATGGCTCTCATGAGCTTTCCGATATT-TGGCTCTCAC-GATCTTCCCGATTA
1 ATGGCTCTCATGAGCTTTCCGAT-TTATGGCTCTC-CGGAGCTTCCCGA-TA
*
9899944 ATGGCTCTCACGAGC-TTCTCG-TTTAATGGCTCTCCGGAGCTTCCCGATA
1 ATGGCTCTCATGAGCTTTC-CGATTT-ATGGCTCTCCGGAGCTTCCCGATA
* * *
9899993 TTGGCTCGCATGAGCTTCCCGATT
1 ATGGCTCTCATGAGCTTTCCGATT
9900017 ACAACTCTCA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
48 2 0.03
49 21 0.34
50 38 0.62
ACGTcount: A:0.16, C:0.29, G:0.21, T:0.33
Consensus pattern (49 bp):
ATGGCTCTCATGAGCTTTCCGATTTATGGCTCTCCGGAGCTTCCCGATA
Found at i:9906723 original size:21 final size:21
Alignment explanation
Indices: 9906693--9906734 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9906683 TTTGCCAAAG
* *
9906693 ATATGTATTGGATTGAATTGA
1 ATATGAATTGGATTAAATTGA
*
9906714 ATATGAATTGTATTAAATTGA
1 ATATGAATTGGATTAAATTGA
9906735 GCTAAATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (21 bp):
ATATGAATTGGATTAAATTGA
Found at i:9907112 original size:25 final size:25
Alignment explanation
Indices: 9907084--9907165 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
9907074 TAGCTCTTAT
*
9907084 GAGCATCTCATTATATGGCTCTCAC
1 GAGCTTCTCATTATATGGCTCTCAC
* * *
9907109 GAGCTTCCTGA-TATTTGGCTCTCAT
1 GAGCTT-CTCATTATATGGCTCTCAC
*
9907134 GAGCTTCCCGATTA-ATGGCTCTC-C
1 GAGCTTCTC-ATTATATGGCTCTCAC
9907158 GGAGCTTC
1 -GAGCTTC
9907166 CTGTCGCATA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
24 1 0.02
25 39 0.87
26 5 0.11
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.33
Consensus pattern (25 bp):
GAGCTTCTCATTATATGGCTCTCAC
Found at i:9907152 original size:50 final size:50
Alignment explanation
Indices: 9907070--9907168 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 50
9907060 AGCATCCCGT
* *
9907070 TATTTAGCTCTTATGAGCATCTCATTATATGGCTCTCAC-GAGCTTCCTGA
1 TATTTAGCTCTCATGAGCATCCCATTATATGGCTCTC-CGGAGCTTCCTGA
* *
9907120 TATTTGGCTCTCATGAGCTTCCCGATTA-ATGGCTCTCCGGAGCTTCCTG
1 TATTTAGCTCTCATGAGCATCCC-ATTATATGGCTCTCCGGAGCTTCCTG
9907169 TCGCATAAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
49 1 0.02
50 38 0.88
51 4 0.09
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.36
Consensus pattern (50 bp):
TATTTAGCTCTCATGAGCATCCCATTATATGGCTCTCCGGAGCTTCCTGA
Found at i:9907166 original size:25 final size:25
Alignment explanation
Indices: 9907093--9907166 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 25
9907083 TGAGCATCTC
*
9907093 ATTATATGGCTCTCACGAGCTTCCTG
1 ATTATATGGCTCTC-CGAGCTTCCCG
* *
9907119 A-TATTTGGCTCTCATGAGCTTCCCG
1 ATTATATGGCTCTC-CGAGCTTCCCG
9907144 ATTA-ATGGCTCTCCGGAGCTTCC
1 ATTATATGGCTCTCC-GAGCTTCC
9907167 TGTCGCATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 38 0.93
26 3 0.07
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (25 bp):
ATTATATGGCTCTCCGAGCTTCCCG
Found at i:9909163 original size:20 final size:21
Alignment explanation
Indices: 9909138--9909187 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
9909128 TTTAAACTCT
9909138 ACAAATAAATT-TAAAATATA
1 ACAAATAAATTATAAAATATA
*
9909158 ACAAATATATTATAAAATATA
1 ACAAATAAATTATAAAATATA
*
9909179 ATAAA-AAAT
1 ACAAATAAAT
9909188 AGAAATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (21 bp):
ACAAATAAATTATAAAATATA
Found at i:9912259 original size:21 final size:20
Alignment explanation
Indices: 9912217--9912260 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
9912207 CTTATTTGTT
* *
9912217 TTATTATATTTACTTTATTA
1 TTATTATATTTACTTAAATA
9912237 TTATATATATTTACTTAAATA
1 TTAT-TATATTTACTTAAATA
9912258 TTA
1 TTA
9912261 AGTAAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATTATATTTACTTAAATA
Found at i:9931872 original size:5 final size:5
Alignment explanation
Indices: 9931862--9931886 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9931852 CAGTTTTCTC
9931862 CCTCT CCTCT CCTCT CCTCT CCTCT
1 CCTCT CCTCT CCTCT CCTCT CCTCT
9931887 TTTCATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (5 bp):
CCTCT
Found at i:9934541 original size:35 final size:36
Alignment explanation
Indices: 9934488--9934568 Score: 137
Period size: 35 Copynumber: 2.3 Consensus size: 36
9934478 GTAATGTTGT
*
9934488 TGCTGGTATATTGTTGCTTATGTTGTTATACAT-GC
1 TGCTAGTATATTGTTGCTTATGTTGTTATACATGGC
*
9934523 TGCTAGTATTTTGTTGCTTATGTTGTTATACATGGC
1 TGCTAGTATATTGTTGCTTATGTTGTTATACATGGC
9934559 TGCTAGTATA
1 TGCTAGTATA
9934569 CATGGCTAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 31 0.74
36 11 0.26
ACGTcount: A:0.19, C:0.11, G:0.22, T:0.48
Consensus pattern (36 bp):
TGCTAGTATATTGTTGCTTATGTTGTTATACATGGC
Found at i:9935969 original size:40 final size:40
Alignment explanation
Indices: 9935909--9935988 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
9935899 CCTCCCATCT
9935909 TATACATGGGTTGATTAAGTATCAAACCCAATATTCCTTC
1 TATACATGGGTTGATTAAGTATCAAACCCAATATTCCTTC
*
9935949 TATATATGGGTTGATTAAGTATCAAACCCAATATTCCTTC
1 TATACATGGGTTGATTAAGTATCAAACCCAATATTCCTTC
9935989 CATAAACTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (40 bp):
TATACATGGGTTGATTAAGTATCAAACCCAATATTCCTTC
Found at i:9939430 original size:59 final size:58
Alignment explanation
Indices: 9939358--9939472 Score: 203
Period size: 59 Copynumber: 2.0 Consensus size: 58
9939348 GACAATAACC
9939358 AATACAAAATAATTTAATACAAACACAACCATTTCTGCCATGCACATGGCAGACAACT
1 AATACAAAATAATTTAATACAAACACAACCATTTCTGCCATGCACATGGCAGACAACT
* *
9939416 AATACAAAAATAATTTAATACAAACACAACCATTTTTGTCATGCACATGGCAGACAA
1 AATAC-AAAATAATTTAATACAAACACAACCATTTCTGCCATGCACATGGCAGACAA
9939473 TAACATACAA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
58 5 0.09
59 49 0.91
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.23
Consensus pattern (58 bp):
AATACAAAATAATTTAATACAAACACAACCATTTCTGCCATGCACATGGCAGACAACT
Found at i:9939754 original size:6 final size:6
Alignment explanation
Indices: 9939739--9939792 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
9939729 CCCTAGATCA
* * *
9939739 AAATCT AAATCG AAATCA AAATCA AAATCG AAATCG AAATCG AAATCG
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG
9939787 AAATCG
1 AAATCG
9939793 GGTATTCATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.54, C:0.17, G:0.11, T:0.19
Consensus pattern (6 bp):
AAATCG
Found at i:9939937 original size:201 final size:201
Alignment explanation
Indices: 9939592--9939992 Score: 784
Period size: 201 Copynumber: 2.0 Consensus size: 201
9939582 GTTTGATAAT
9939592 GGTATTCATACAATGGCAGATAAAACAATAAACATCATGCACATGGCATATAATACACATTATAT
1 GGTATTCATACAATGGCAGATAAAACAATAAACATCATGCACATGGCATATAATACACATTATAT
9939657 GTCATTCACTTTAATAACCAAAACCTAATCTGTCATGCACATTAATAACAAATAAAACCAAAATC
66 GTCATTCACTTTAATAACCAAAACCTAATCTGTCATGCACATTAATAACAAATAAAACCAAAATC
* *
9939722 GAAATAACCCTAGATCAAAATCTAAATCGAAATCAAAATCAAAATCGAAATCGAAATCGAAATCG
131 GAAATAACCCTAGATCAAAATCTAAATCGAAATCAAAATCAAAATCGAAATCGAAATCAAAATCA
9939787 AAATCG
196 AAATCG
9939793 GGTATTCATACAATGGCAGATAAAACAATAAACATCATGCACATGGCATATAATACACATTATAT
1 GGTATTCATACAATGGCAGATAAAACAATAAACATCATGCACATGGCATATAATACACATTATAT
9939858 GTCATTCACTTTAATAACCAAAACCTAATCTGTCATGCACATTAATAACAAATAAAACCAAAATC
66 GTCATTCACTTTAATAACCAAAACCTAATCTGTCATGCACATTAATAACAAATAAAACCAAAATC
9939923 GAAATAACCCTAGATCAAAATCTAAATCGAAATCAAAATCAAAATCGAAATCGAAATCAAAATCA
131 GAAATAACCCTAGATCAAAATCTAAATCGAAATCAAAATCAAAATCGAAATCGAAATCAAAATCA
9939988 AAATC
196 AAATC
9939993 AAAATCAAAA
Statistics
Matches: 198, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
201 198 1.00
ACGTcount: A:0.48, C:0.19, G:0.09, T:0.23
Consensus pattern (201 bp):
GGTATTCATACAATGGCAGATAAAACAATAAACATCATGCACATGGCATATAATACACATTATAT
GTCATTCACTTTAATAACCAAAACCTAATCTGTCATGCACATTAATAACAAATAAAACCAAAATC
GAAATAACCCTAGATCAAAATCTAAATCGAAATCAAAATCAAAATCGAAATCGAAATCAAAATCA
AAATCG
Found at i:9939955 original size:6 final size:6
Alignment explanation
Indices: 9939936--9940021 Score: 136
Period size: 6 Copynumber: 14.3 Consensus size: 6
9939926 ATAACCCTAG
* * * *
9939936 ATCAAA ATCTAA ATCGAA ATCAAA ATCAAA ATCGAA ATCGAA ATCAAA
1 ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA
9939984 ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA AT
1 ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA AT
9940022 TGAAATCGAA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.62, C:0.16, G:0.03, T:0.19
Consensus pattern (6 bp):
ATCAAA
Found at i:9939959 original size:18 final size:18
Alignment explanation
Indices: 9939936--9940033 Score: 142
Period size: 18 Copynumber: 5.4 Consensus size: 18
9939926 ATAACCCTAG
*
9939936 ATCAAAATCTAAATCGAA
1 ATCAAAATCAAAATCGAA
9939954 ATCAAAATCAAAATCGAA
1 ATCAAAATCAAAATCGAA
* *
9939972 ATCGAAATCAAAATCAAA
1 ATCAAAATCAAAATCGAA
*
9939990 ATCAAAATCAAAATCAAA
1 ATCAAAATCAAAATCGAA
*
9940008 ATCAAAATCAAAATTGAA
1 ATCAAAATCAAAATCGAA
*
9940026 ATCGAAAT
1 ATCAAAAT
9940034 AACCCTAAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 73 1.00
ACGTcount: A:0.60, C:0.15, G:0.05, T:0.19
Consensus pattern (18 bp):
ATCAAAATCAAAATCGAA
Found at i:9940027 original size:6 final size:6
Alignment explanation
Indices: 9939940--9940033 Score: 89
Period size: 6 Copynumber: 15.7 Consensus size: 6
9939930 CCCTAGATCA
* * * * *
9939940 AAATCT AAATCG AAATCA AAATCA AAATCG AAATCG AAATCA AAATCA
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG
* * * * * *
9939988 AAATCA AAATCA AAATCA AAATCA AAATCA AAATTG AAATCG AAAT
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAAT
9940034 AACCCTAAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 81 1.00
ACGTcount: A:0.61, C:0.15, G:0.05, T:0.19
Consensus pattern (6 bp):
AAATCG
Found at i:9940296 original size:39 final size:40
Alignment explanation
Indices: 9940218--9940297 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
9940208 AACCCTTATA
* *
9940218 CCTTGTTAATCGATTATTGAAACAATTTCTAACCCTAAAC
1 CCTTCTTAATCGATTACTGAAACAATTTCTAACCCTAAAC
* * *
9940258 CCTTCTTAATCGATTCCTGAATCAGTTTC-AACCCTAAAC
1 CCTTCTTAATCGATTACTGAAACAATTTCTAACCCTAAAC
9940297 C
1 C
9940298 AACCCAAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
39 11 0.31
40 24 0.69
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (40 bp):
CCTTCTTAATCGATTACTGAAACAATTTCTAACCCTAAAC
Found at i:9941087 original size:126 final size:126
Alignment explanation
Indices: 9940862--9941115 Score: 499
Period size: 126 Copynumber: 2.0 Consensus size: 126
9940852 AAACCATAAT
*
9940862 TTTAGCTTCATTGATTTGTACTATTTCACGCTTGATTTTCAAGCTTAAAGACTGTTTTTGAGGTC
1 TTTAGCTTCATTGATTTCTACTATTTCACGCTTGATTTTCAAGCTTAAAGACTGTTTTTGAGGTC
9940927 TGCCGACCATCGCGGCCATGACAACACTATTTGAAACCCAATTATTGGTATTTTATTTGCC
66 TGCCGACCATCGCGGCCATGACAACACTATTTGAAACCCAATTATTGGTATTTTATTTGCC
9940988 TTTAGCTTCATTGATTTCTACTATTTCACGCTTGATTTTCAAGCTTAAAGACTGTTTTTGAGGTC
1 TTTAGCTTCATTGATTTCTACTATTTCACGCTTGATTTTCAAGCTTAAAGACTGTTTTTGAGGTC
9941053 TGCCGACCATCGCGGCCATGACAACACTATTTGAAACCCAATTATTGGTATTTTATTTGCC
66 TGCCGACCATCGCGGCCATGACAACACTATTTGAAACCCAATTATTGGTATTTTATTTGCC
9941114 TT
1 TT
9941116 GTTGCTCATA
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 127 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (126 bp):
TTTAGCTTCATTGATTTCTACTATTTCACGCTTGATTTTCAAGCTTAAAGACTGTTTTTGAGGTC
TGCCGACCATCGCGGCCATGACAACACTATTTGAAACCCAATTATTGGTATTTTATTTGCC
Found at i:9943211 original size:27 final size:27
Alignment explanation
Indices: 9943181--9943238 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
9943171 CAGTGTGTAA
9943181 CTTAACGAAAACATACATACATATATT
1 CTTAACGAAAACATACATACATATATT
9943208 CTTAACGAAAACATACATACATATATT
1 CTTAACGAAAACATACATACATATATT
9943235 CTTA
1 CTTA
9943239 GATTTCCCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (27 bp):
CTTAACGAAAACATACATACATATATT
Found at i:9945312 original size:3 final size:3
Alignment explanation
Indices: 9945306--9945355 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
9945296 AATCGAATTC
*
9945306 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9945354 TA
1 TA
9945356 GAATTTAATG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:9951761 original size:16 final size:17
Alignment explanation
Indices: 9951721--9951770 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 17
9951711 TAGAATATTA
9951721 ATTCTATTATATATTTATCT
1 ATTCTATTATATA--TA-CT
9951741 ATTCTATTATATATA-T
1 ATTCTATTATATATACT
*
9951757 ATTCTAATATATAT
1 ATTCTATTATATAT
9951771 TAGTATTAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 14 0.48
18 2 0.07
20 13 0.45
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTCTATTATATATACT
Found at i:9951800 original size:13 final size:13
Alignment explanation
Indices: 9951782--9951824 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
9951772 AGTATTAGAA
9951782 TTTATTTATCTAT
1 TTTATTTATCTAT
9951795 TTTA-TTA---A-
1 TTTATTTATCTAT
9951803 TTTATTTATCTAT
1 TTTATTTATCTAT
9951816 TTTATTTAT
1 TTTATTTAT
9951825 AATATATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
8 4 0.16
9 4 0.16
12 4 0.16
13 13 0.52
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTATTTATCTAT
Found at i:9951805 original size:21 final size:21
Alignment explanation
Indices: 9951780--9951821 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9951770 TTAGTATTAG
9951780 AATTTATTTATCTATTTTATT
1 AATTTATTTATCTATTTTATT
9951801 AATTTATTTATCTATTTTATT
1 AATTTATTTATCTATTTTATT
9951822 TATAATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (21 bp):
AATTTATTTATCTATTTTATT
Found at i:9951883 original size:19 final size:19
Alignment explanation
Indices: 9951851--9951887 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9951841 ATATTAATAT
*
9951851 TATTTTTATATTATTTATC
1 TATTTCTATATTATTTATC
*
9951870 TATTTCTATTTTATTTAT
1 TATTTCTATATTATTTAT
9951888 TTCATTTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
TATTTCTATATTATTTATC
Found at i:9957135 original size:12 final size:12
Alignment explanation
Indices: 9957118--9957142 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9957108 ATTTTATAAC
9957118 ATAAATATTGTT
1 ATAAATATTGTT
9957130 ATAAATATTGTT
1 ATAAATATTGTT
9957142 A
1 A
9957143 ACAGCCTCTG
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:9960785 original size:41 final size:43
Alignment explanation
Indices: 9960729--9960845 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 43
9960719 AACGCATATT
* * * *
9960729 GATGCCACTATCCCAGACAGGGTCTTATACGAATCAT-A-TAC
1 GATGCCAATGTCCCAGACATGGTCTTACACGAATCATCACTAC
** * *
9960770 GATGCCAATGTCCCAGACATGGTCTTACACGTTTCCTCACTTC
1 GATGCCAATGTCCCAGACATGGTCTTACACGAATCATCACTAC
9960813 GATGCCAATGTCCCAGACATGGTCTTACACGAA
1 GATGCCAATGTCCCAGACATGGTCTTACACGAA
9960846 ATCACAGCTC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 30 0.47
42 1 0.02
43 33 0.52
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (43 bp):
GATGCCAATGTCCCAGACATGGTCTTACACGAATCATCACTAC
Found at i:9961007 original size:31 final size:31
Alignment explanation
Indices: 9960966--9961038 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
9960956 ATCCAATGTT
*
9960966 CAAATC-AATTCGATAATATATATCCATATA
1 CAAATCAAATTCGACAATATATATCCATATA
* * * *
9960996 CGAATCAAATTCGACAATGTATGTCTATATA
1 CAAATCAAATTCGACAATATATATCCATATA
9961027 CAAATCAAATTC
1 CAAATCAAATTC
9961039 AGCAATGTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 5 0.14
31 31 0.86
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.32
Consensus pattern (31 bp):
CAAATCAAATTCGACAATATATATCCATATA
Found at i:9964533 original size:7 final size:7
Alignment explanation
Indices: 9964521--9964558 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
9964511 ATGAACAGAT
9964521 CAAAAAC
1 CAAAAAC
9964528 CAAAAAC
1 CAAAAAC
9964535 CAAAAAC
1 CAAAAAC
9964542 CAAAAA-
1 CAAAAAC
9964548 CAAAAAC
1 CAAAAAC
9964555 CAAA
1 CAAA
9964559 TCTGAAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.74, C:0.26, G:0.00, T:0.00
Consensus pattern (7 bp):
CAAAAAC
Found at i:9965515 original size:41 final size:41
Alignment explanation
Indices: 9965413--9965518 Score: 153
Period size: 41 Copynumber: 2.6 Consensus size: 41
9965403 GCTCGTGTGA
** *
9965413 TCACACACGCCTGTGTGCCCCACACAGCCTACCACATGGCC
1 TCACACATACCTGTGTGCCCTACACAGCCTACCACATGGCC
9965454 TCACACATACCTGTGTGCCCTACAC-GACCTACCACATGGCC
1 TCACACATACCTGTGTGCCCTACACAG-CCTACCACATGGCC
9965495 TCACACATA-CTAGTGTGCCCTACA
1 TCACACATACCT-GTGTGCCCTACA
9965519 TATCCCAATT
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
40 3 0.05
41 57 0.95
ACGTcount: A:0.25, C:0.42, G:0.15, T:0.19
Consensus pattern (41 bp):
TCACACATACCTGTGTGCCCTACACAGCCTACCACATGGCC
Found at i:9968312 original size:18 final size:18
Alignment explanation
Indices: 9968289--9968326 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
9968279 TCATGCGTAG
9968289 AACTTACTCATTTTACGA
1 AACTTACTCATTTTACGA
9968307 AACTTACTCATTTTACGA
1 AACTTACTCATTTTACGA
9968325 AA
1 AA
9968327 AAACATTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (18 bp):
AACTTACTCATTTTACGA
Found at i:9971551 original size:20 final size:19
Alignment explanation
Indices: 9971516--9971562 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
9971506 GTTCATCGGG
*
9971516 TGGAAAATGAATATATGAAA
1 TGGAAAA-GGATATATGAAA
*
9971536 TGGCAAAAGGATATATGTAA
1 TGG-AAAAGGATATATGAAA
9971556 TGGAAAA
1 TGGAAAA
9971563 TGGTTATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.17
20 16 0.67
21 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.23, T:0.23
Consensus pattern (19 bp):
TGGAAAAGGATATATGAAA
Found at i:9973820 original size:40 final size:41
Alignment explanation
Indices: 9973776--9973860 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 41
9973766 AAACAATTAA
*
9973776 TTTATTAATTTATTGT-ATATAAATTATTG-AATTGTTAATT
1 TTTATTAATTTATT-TCATATAAATTATTGTAATTATTAATT
* *
9973816 TTTATTAATTTATTTCATATAAATTGTTGTAATTATTGATT
1 TTTATTAATTTATTTCATATAAATTATTGTAATTATTAATT
9973857 TTTA
1 TTTA
9973861 AGGGTTTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
39 1 0.03
40 26 0.65
41 13 0.32
ACGTcount: A:0.33, C:0.01, G:0.07, T:0.59
Consensus pattern (41 bp):
TTTATTAATTTATTTCATATAAATTATTGTAATTATTAATT
Found at i:9978687 original size:17 final size:18
Alignment explanation
Indices: 9978652--9978689 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
9978642 TTTGAGCCAA
* *
9978652 TTATATTTGTGTACTATG
1 TTATATTTGTGAACCATG
9978670 TTATA-TTGTGAACCATG
1 TTATATTTGTGAACCATG
9978687 TTA
1 TTA
9978690 ACTTGGTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (18 bp):
TTATATTTGTGAACCATG
Found at i:9978732 original size:36 final size:36
Alignment explanation
Indices: 9978685--9978765 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
9978675 TTGTGAACCA
* * *
9978685 TGTTAACTTGGTGAAT-TATATTATTATGGCGAACTG
1 TGTTAATTTGGTG-ATCTATATTAATATGACGAACTG
*
9978721 TGTTAATTTGGTGATCTGTATTAATATGACGAACTG
1 TGTTAATTTGGTGATCTATATTAATATGACGAACTG
*
9978757 TATTAATTT
1 TGTTAATTT
9978766 CCAAATTGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 2 0.05
36 37 0.95
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.44
Consensus pattern (36 bp):
TGTTAATTTGGTGATCTATATTAATATGACGAACTG
Found at i:9978744 original size:18 final size:18
Alignment explanation
Indices: 9978714--9978765 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
9978704 ATTATTATGG
* *
9978714 CGAACTGTGTTAATTTGG
1 CGAACTGTATTAATTTGA
* * *
9978732 TGATCTGTATTAATATGA
1 CGAACTGTATTAATTTGA
9978750 CGAACTGTATTAATTT
1 CGAACTGTATTAATTT
9978766 CCAAATTGTA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (18 bp):
CGAACTGTATTAATTTGA
Found at i:9981275 original size:49 final size:49
Alignment explanation
Indices: 9981222--9981327 Score: 126
Period size: 49 Copynumber: 2.2 Consensus size: 49
9981212 AAAAATGATG
* * * *
9981222 GGTTTTCACTATTTTCACGTTTTACCATC-CTTGG-TGGCCTAGCAACGAT
1 GGTTTTCACTATTTGCACATTCTACCATCAC--GGATGGCCTAACAACGAT
* *
9981271 GGTTTCCACTATTTGCATATTCTACCATCACGGATGGCCTAACAACGAT
1 GGTTTTCACTATTTGCACATTCTACCATCACGGATGGCCTAACAACGAT
9981320 GGTTTTCA
1 GGTTTTCA
9981328 TCCTAAGGCA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
48 2 0.04
49 45 0.94
50 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (49 bp):
GGTTTTCACTATTTGCACATTCTACCATCACGGATGGCCTAACAACGAT
Found at i:9990424 original size:237 final size:237
Alignment explanation
Indices: 9990009--9990483 Score: 923
Period size: 237 Copynumber: 2.0 Consensus size: 237
9989999 ATCCTAATTT
9990009 AAACTTGTAAAGGATGTGGTAACTAATTCTATTTTAGACATGTTTTGGTTTGCCTTGAGCCACTA
1 AAACTTGTAAAGGATGTGGTAACTAATTCTATTTTAGACATGTTTTGGTTTGCCTTGAGCCACTA
9990074 ATGTTATAGATTTTTCATAGGTTGCATGCATGCACATGGCTCACCTTGTTATGAGCTTACATTAG
66 ATGTTATAGATTTTTCATAGGTTGCATGCATGCACATGGCTCACCTTGTTATGAGCTTACATTAG
*
9990139 TGAAAGATGAAACTTGTTTTGAATGGTTTGCGAATGTTTTTATCATCATTTCTTTAATTATAATG
131 TAAAAGATGAAACTTGTTTTGAATGGTTTGCGAATGTTTTTATCATCATTTCTTTAATTATAATG
9990204 GTTTGATGAATATTGGTTTATTTTGAGTACGTTTTATGAGTA
196 GTTTGATGAATATTGGTTTATTTTGAGTACGTTTTATGAGTA
9990246 AAACTTGTAAAGGATGTGGTAACTAATTCTATTTTAGACATGTTTTGGTTTGCCTTGAGCCACTA
1 AAACTTGTAAAGGATGTGGTAACTAATTCTATTTTAGACATGTTTTGGTTTGCCTTGAGCCACTA
* *
9990311 ATGTTGTAGATTTTTCATAGGTTGCATGCATGCACATGGCTCACCTTGTTATGAGCTTATATTAG
66 ATGTTATAGATTTTTCATAGGTTGCATGCATGCACATGGCTCACCTTGTTATGAGCTTACATTAG
9990376 TAAAAGATGAAACTTGTTTTGAATGGTTTGCGAATGTTTTTATCATCATTTCTTTAATTATAATG
131 TAAAAGATGAAACTTGTTTTGAATGGTTTGCGAATGTTTTTATCATCATTTCTTTAATTATAATG
9990441 GTTTGATGAATATTGGTTTATTTTGAGTACGTTTTATGAGTA
196 GTTTGATGAATATTGGTTTATTTTGAGTACGTTTTATGAGTA
9990483 A
1 A
9990484 GTTTTATGAG
Statistics
Matches: 235, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
237 235 1.00
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.43
Consensus pattern (237 bp):
AAACTTGTAAAGGATGTGGTAACTAATTCTATTTTAGACATGTTTTGGTTTGCCTTGAGCCACTA
ATGTTATAGATTTTTCATAGGTTGCATGCATGCACATGGCTCACCTTGTTATGAGCTTACATTAG
TAAAAGATGAAACTTGTTTTGAATGGTTTGCGAATGTTTTTATCATCATTTCTTTAATTATAATG
GTTTGATGAATATTGGTTTATTTTGAGTACGTTTTATGAGTA
Found at i:9990499 original size:12 final size:13
Alignment explanation
Indices: 9990464--9990501 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
9990454 TGGTTTATTT
*
9990464 TGAGTACGTTTTA
1 TGAGTAAGTTTTA
9990477 TGAGTAAGTTTTA
1 TGAGTAAGTTTTA
9990490 TGAG-AAGTTTTA
1 TGAGTAAGTTTTA
9990502 CATGTACATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.29, C:0.03, G:0.24, T:0.45
Consensus pattern (13 bp):
TGAGTAAGTTTTA
Found at i:9990723 original size:22 final size:22
Alignment explanation
Indices: 9990698--9990743 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
9990688 ACCCCTGAAC
*
9990698 TAGGTATCCT-TACCTAGGGCCT
1 TAGGTA-CCTATACCTAGGCCCT
9990720 TAGGTACCTATACCTAGGCCCT
1 TAGGTACCTATACCTAGGCCCT
9990742 TA
1 TA
9990744 ATGGTGCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (22 bp):
TAGGTACCTATACCTAGGCCCT
Found at i:9992444 original size:30 final size:30
Alignment explanation
Indices: 9992410--9992502 Score: 159
Period size: 30 Copynumber: 3.1 Consensus size: 30
9992400 ACTTACTTTA
*
9992410 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
*
9992440 TTGTTAATTTTGTTATTATTTTAGATGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
*
9992470 TTGCTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
9992500 TTG
1 TTG
9992503 CTTGTTAAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.24, C:0.04, G:0.15, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGGCAT
Found at i:9992655 original size:13 final size:13
Alignment explanation
Indices: 9992622--9992656 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
9992612 ATATATATTT
9992622 AAAAATT-ATATA
1 AAAAATTAATATA
9992634 AAAAA-TAATATA
1 AAAAATTAATATA
9992646 AAAAATTAATA
1 AAAAATTAATA
9992657 CTGATGGACC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.05
12 15 0.71
13 5 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAAATTAATATA
Found at i:9995140 original size:18 final size:18
Alignment explanation
Indices: 9995119--9995162 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9995109 TAATCGGATA
* * *
9995119 CAGATGCATATTCAGATT
1 CAGATACATAATCAAATT
*
9995137 CAGACACATAATCAAATT
1 CAGATACATAATCAAATT
9995155 CAGATACA
1 CAGATACA
9995163 AATGCAATCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.25
Consensus pattern (18 bp):
CAGATACATAATCAAATT
Found at i:9997591 original size:14 final size:14
Alignment explanation
Indices: 9997572--9997599 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9997562 TAAATCATGA
9997572 TTAGATTAATTAAG
1 TTAGATTAATTAAG
9997586 TTAGATTAATTAAG
1 TTAGATTAATTAAG
9997600 CCTTAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
TTAGATTAATTAAG
Found at i:10000614 original size:57 final size:57
Alignment explanation
Indices: 10000526--10000706 Score: 229
Period size: 57 Copynumber: 3.1 Consensus size: 57
10000516 ATAGAAATAG
* *
10000526 TGAAAATAGAGAAATGAGAAATCATTTGGAAATAATTATGGTTTTGTCCAAAATGAAAA
1 TGAAAATGGAGAAATG-G-AATCATTTGGAAATAATTATGGTTTTCTCCAAAATGAAAA
* *
10000585 TAAAAATGGAGAAATGGAATCATTTGGAAATGATTATGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATGGAATCATTTGGAAATAATTATGGTTTTCTCCAAAATGAAAA
* * * * * * *
10000642 TGATAATGGAGAAGTAGAAACATTTGAAAATGAA-TGTGGTTTTCTCCAAAACGAAAA
1 TGAAAATGGAGAAATGGAATCATTTGGAAAT-AATTATGGTTTTCTCCAAAATGAAAA
10000699 TGAAAATG
1 TGAAAATG
10000707 ACCTAAAAAA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
57 91 0.85
58 2 0.02
59 14 0.13
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (57 bp):
TGAAAATGGAGAAATGGAATCATTTGGAAATAATTATGGTTTTCTCCAAAATGAAAA
Found at i:10003720 original size:27 final size:27
Alignment explanation
Indices: 10003671--10003731 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
10003661 AACTACCCCA
* *
10003671 TGTTTAGTGTCCCGTTAGACTATCTCG
1 TGTTTAATGTCCCCTTAGACTATCTCG
10003698 TGTTTAATGTCCCCTT-GAGCTATCTCG
1 TGTTTAATGTCCCCTTAGA-CTATCTCG
10003725 TGTTTAA
1 TGTTTAA
10003732 CATCCCATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.43
Consensus pattern (27 bp):
TGTTTAATGTCCCCTTAGACTATCTCG
Found at i:10003869 original size:73 final size:73
Alignment explanation
Indices: 10003725--10003878 Score: 200
Period size: 73 Copynumber: 2.1 Consensus size: 73
10003715 AGCTATCTCG
* * * ** *
10003725 TGTTTAACATCCCATCGGACTAAATATGATGTCATAATTTTTTTTAGCTATGGTCTTACACCATA
1 TGTTTACCATCACAACGGACTAAATATGATGTCATAACATTTTTCAGCTATGGTCTTACACCATA
10003790 TAACCCCA
66 TAACCCCA
* * * *
10003798 TTTTTACCATCACAACGGATTAACTATGATGTCATAGCATTTTTCAGCTATGGTCTTACACCATA
1 TGTTTACCATCACAACGGACTAAATATGATGTCATAACATTTTTCAGCTATGGTCTTACACCATA
* *
10003863 TGACCCCG
66 TAACCCCA
10003871 TGTTTACC
1 TGTTTACC
10003879 GTTCCGGTAG
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (73 bp):
TGTTTACCATCACAACGGACTAAATATGATGTCATAACATTTTTCAGCTATGGTCTTACACCATA
TAACCCCA
Found at i:10004071 original size:44 final size:44
Alignment explanation
Indices: 10003964--10004135 Score: 218
Period size: 44 Copynumber: 3.9 Consensus size: 44
10003954 CTTTCTCATT
* * * * **
10003964 ATGCCATAACATCTTTCATCCATGGTCTTACTTATTTCAGTCATG
1 ATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTA-TCCCG
* * * *
10004009 ATGTCATAACATCTTTCAGTTACGATCTTACTCATTTTATCCCG
1 ATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTATCCCG
*
10004053 ATGCCATAATATCTTTCAGCTATGGTCTTACTCATTTTATCCCG
1 ATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTATCCCG
* *
10004097 ATACCATAACATCTTTCAGCTATGGTCTTACCCATTTTA
1 ATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTA
10004136 GGTGTATAGC
Statistics
Matches: 109, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 78 0.72
45 31 0.28
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (44 bp):
ATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTATCCCG
Found at i:10007620 original size:23 final size:24
Alignment explanation
Indices: 10007569--10007614 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
10007559 GTCTTAGTTA
10007569 CTATTCATGGTTTAACAGGTTAGG
1 CTATTCATGGTTTAACAGGTTAGG
*
10007593 CTATT-ATGGTTTAA-GGGTTAGG
1 CTATTCATGGTTTAACAGGTTAGG
10007615 GTTATTGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 9 0.43
24 5 0.24
ACGTcount: A:0.24, C:0.09, G:0.28, T:0.39
Consensus pattern (24 bp):
CTATTCATGGTTTAACAGGTTAGG
Found at i:10007717 original size:14 final size:13
Alignment explanation
Indices: 10007700--10007745 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
10007690 TAGTGTTTAC
10007700 GTTTTATGGTGTA
1 GTTTTATGGTGTA
* *
10007713 GGTTTATGGTTTA
1 GTTTTATGGTGTA
10007726 GTGTTTATGGTGTA
1 GT-TTTATGGTGTA
10007740 TGTTTT
1 -GTTTT
10007746 CAATTTACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 12 0.44
14 13 0.48
15 2 0.07
ACGTcount: A:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (13 bp):
GTTTTATGGTGTA
Found at i:10007720 original size:13 final size:13
Alignment explanation
Indices: 10007702--10007744 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
10007692 GTGTTTACGT
10007702 TTTATGGTGTAGG
1 TTTATGGTGTAGG
*
10007715 TTTATGGTTTAGTG
1 TTTATGGTGTAG-G
*
10007729 TTTATGGTGTATG
1 TTTATGGTGTAGG
10007742 TTT
1 TTT
10007745 TCAATTTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.56
Consensus pattern (13 bp):
TTTATGGTGTAGG
Found at i:10007791 original size:7 final size:7
Alignment explanation
Indices: 10007779--10007916 Score: 64
Period size: 7 Copynumber: 18.9 Consensus size: 7
10007769 GGGTGAGAGC
10007779 TTAGGGT
1 TTAGGGT
10007786 TTAGGGGT
1 TTA-GGGT
*
10007794 TATA-GGC
1 T-TAGGGT
*
10007801 TTAGAGT
1 TTAGGGT
* *
10007808 CTAGGGG
1 TTAGGGT
10007815 TTAGTGGT
1 TTAG-GGT
*
10007823 TTAAGG-
1 TTAGGGT
10007829 TTACGGGT
1 TTA-GGGT
10007837 TTAAGGGT
1 TT-AGGGT
10007845 TTAGGGT
1 TTAGGGT
*
10007852 TTAAGGT
1 TTAGGGT
* *
10007859 ATATGGT
1 TTAGGGT
* **
10007866 ATAAAAGT
1 -TTAGGGT
10007874 TTAAGGGTT
1 TT-AGGG-T
10007883 TTAGGGT
1 TTAGGGT
10007890 TTAGGGT
1 TTAGGGT
* *
10007897 TTAGAGC
1 TTAGGGT
10007904 TTAGGGT
1 TTAGGGT
*
10007911 CTAGGG
1 TTAGGG
10007917 GTTATTGGAT
Statistics
Matches: 96, Mismatches: 25, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
6 5 0.05
7 58 0.60
8 27 0.28
9 6 0.06
ACGTcount: A:0.22, C:0.04, G:0.37, T:0.37
Consensus pattern (7 bp):
TTAGGGT
Found at i:10008055 original size:7 final size:7
Alignment explanation
Indices: 10008002--10008064 Score: 56
Period size: 7 Copynumber: 9.1 Consensus size: 7
10007992 AGTTTTAAGA
10008002 GTTTAGG
1 GTTTAGG
*
10008009 GTTTATG
1 GTTTAGG
10008016 GTTTAGG
1 GTTTAGG
* *
10008023 GTGTA-T
1 GTTTAGG
*
10008029 GTTTATG
1 GTTTAGG
* *
10008036 GTTAAGT
1 GTTTAGG
10008043 GTTTAGG
1 GTTTAGG
10008050 GTTTAGG
1 GTTTAGG
*
10008057 GGTTAGG
1 GTTTAGG
10008064 G
1 G
10008065 GATTATGGTC
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
6 4 0.09
7 39 0.91
ACGTcount: A:0.16, C:0.00, G:0.40, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:10008133 original size:21 final size:22
Alignment explanation
Indices: 10008087--10008133 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
10008077 AGGGATAGGG
* *
10008087 GTTTATGTTTTAGGGTTTAAAT
1 GTTTATATTTTAGAGTTTAAAT
10008109 -TTTATATTTTAGAGTTT-AAT
1 GTTTATATTTTAGAGTTTAAAT
10008129 GTTTA
1 GTTTA
10008134 GGGTTTAGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (22 bp):
GTTTATATTTTAGAGTTTAAAT
Found at i:10010339 original size:45 final size:45
Alignment explanation
Indices: 10010286--10010376 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
10010276 AAGAACTGTT
* *
10010286 TCTAGTGTACAATCTGTCAACAATATGCCACCAACTAGATCAGGG
1 TCTAGTGTACAATCTGTCAACAATATGCCACCAAATAAATCAGGG
*
10010331 TCTAGTGTACAATCTGTCAATAATATGCCACCAAATAAATCAGGG
1 TCTAGTGTACAATCTGTCAACAATATGCCACCAAATAAATCAGGG
10010376 T
1 T
10010377 TCAAAACTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (45 bp):
TCTAGTGTACAATCTGTCAACAATATGCCACCAAATAAATCAGGG
Found at i:10015550 original size:30 final size:31
Alignment explanation
Indices: 10015499--10015557 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
10015489 TTATTTTAAA
*
10015499 GTTCAAATTTACATAACTTACATAATTTATG
1 GTTCAAATTTACATAAATTACATAATTTATG
10015530 GTTCAAATTT-CATAAATTACATAATTTA
1 GTTCAAATTTACATAAATTACATAATTTA
10015558 AATATAATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 17 0.63
31 10 0.37
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.42
Consensus pattern (31 bp):
GTTCAAATTTACATAAATTACATAATTTATG
Found at i:10015711 original size:18 final size:18
Alignment explanation
Indices: 10015682--10016122 Score: 250
Period size: 18 Copynumber: 26.6 Consensus size: 18
10015672 TTAAAGATAA
10015682 AATTT-CATAACTTACAT
1 AATTTACATAACTTACAT
*
10015699 AATTTATATAACTTACAT
1 AATTTACATAACTTACAT
*
10015717 AA-TT-CA-AACAT-CA-
1 AATTTACATAACTTACAT
*
10015730 AATATT--TTAACTTACAT
1 AAT-TTACATAACTTACAT
*
10015747 AATTTACATAATTTACAT
1 AATTTACATAACTTACAT
10015765 AA--TACATAACTTACAT
1 AATTTACATAACTTACAT
10015781 AATTTA-A-AGA--T-CA-
1 AATTTACATA-ACTTACAT
*
10015794 AATTT-CATAACTAACAT
1 AATTTACATAACTTACAT
10015811 AATTTACATAACTTACAT
1 AATTTACATAACTTACAT
* *
10015829 AAGTTACA-AGAGTTACAT
1 AATTTACATA-ACTTACAT
10015847 AATTTA-A-AGA--T-CA-
1 AATTTACATA-ACTTACAT
*
10015860 AATTT-CTTAACTTACAT
1 AATTTACATAACTTACAT
10015877 AATTTACATAACTTACAT
1 AATTTACATAACTTACAT
10015895 AATTTA-A-AGA--T-CA-
1 AATTTACATA-ACTTACAT
*
10015908 AATTT-CATAAACTTATAT
1 AATTTACAT-AACTTACAT
10015926 AATTTACATAACTTACAT
1 AATTTACATAACTTACAT
*
10015944 AACTTACATAACTTACAT
1 AATTTACATAACTTACAT
*
10015962 AAACTTACATAA--TACAT
1 -AATTTACATAACTTACAT
* * *
10015979 TACTTACATAACTTCCAT
1 AATTTACATAACTTACAT
** *
10015997 AA--TACCCAAATTACAT
1 AATTTACATAACTTACAT
* * *
10016013 AAATTACATTA-TT-CAC
1 AATTTACATAACTTACAT
*
10016029 AACTTACATAACTTACAT
1 AATTTACATAACTTACAT
* * *
10016047 CA--TACAGAACTTACAC
1 AATTTACATAACTTACAT
*
10016063 AACTTACATAACTTACAT
1 AATTTACATAACTTACAT
*
10016081 AA--TACACAACTTACAT
1 AATTTACATAACTTACAT
* *
10016097 TACTTACATAA--TACAT
1 AATTTACATAACTTACAT
*
10016113 AACTTACATA
1 AATTTACATA
10016123 CATAAACATA
Statistics
Matches: 336, Mismatches: 42, Indels: 93
0.71 0.09 0.20
Matches are distributed among these distances:
13 21 0.06
14 11 0.03
15 15 0.04
16 101 0.30
17 39 0.12
18 135 0.40
19 14 0.04
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.35
Consensus pattern (18 bp):
AATTTACATAACTTACAT
Found at i:10015715 original size:48 final size:48
Alignment explanation
Indices: 10015655--10015989 Score: 239
Period size: 48 Copynumber: 7.3 Consensus size: 48
10015645 CTTCGCTTAA
* *
10015655 TACACAACTTACATAATTTAAAGATAAAATTTCATAACTTACATAATT
1 TACATAACTTACATAATTTAAACATAAAATTTCATAACTTACATAATT
* *
10015703 TATATAACTTACATAATTCAAACATCAAATATTT--TAACTTACATAATT
1 TACATAACTTACATAATTTAAACAT-AAA-ATTTCATAACTTACATAATT
* * * *
10015751 TACATAATTTACATAA--T--ACAT-AACTTACATAATTTA-A-AGA--
1 TACATAACTTACATAATTTAAACATAAAATTTCATAACTTACATA-ATT
* * * * *
10015791 T-CA-AA-TTTCATAA-CT-AACAT-AATTTACATAACTTACATAAGT
1 TACATAACTTACATAATTTAAACATAAAATTTCATAACTTACATAATT
* * * *
10015833 TACA-AGAGTTACATAATTTAAAGATCAAATTTCTTAACTTACATAATT
1 TACATA-ACTTACATAATTTAAACATAAAATTTCATAACTTACATAATT
* * *
10015881 TACATAACTTACATAATTTAAAGATCAAATTTCATAAACTTATATAATT
1 TACATAACTTACATAATTTAAACATAAAATTTCAT-AACTTACATAATT
* * *
10015930 TACATAACTTACATAACTT--ACAT-AACTTACATAAACTTACATAA--
1 TACATAACTTACATAATTTAAACATAAAATTTCAT-AACTTACATAATT
*
10015974 TACATTACTTACATAA
1 TACATAACTTACATAA
10015990 CTTCCATAAT
Statistics
Matches: 239, Mismatches: 29, Indels: 42
0.77 0.09 0.14
Matches are distributed among these distances:
37 7 0.03
38 3 0.01
39 19 0.08
40 3 0.01
41 4 0.02
42 5 0.02
43 9 0.04
44 20 0.08
45 7 0.03
46 19 0.08
47 7 0.03
48 98 0.41
49 34 0.14
50 4 0.02
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (48 bp):
TACATAACTTACATAATTTAAACATAAAATTTCATAACTTACATAATT
Found at i:10015755 original size:9 final size:9
Alignment explanation
Indices: 10015737--10016122 Score: 244
Period size: 9 Copynumber: 43.2 Consensus size: 9
10015727 TCAAATATTT
10015737 TAACTTACA
1 TAACTTACA
*
10015746 TAATTTACA
1 TAACTTACA
*
10015755 TAATTTACA
1 TAACTTACA
10015764 TAA--TACA
1 TAACTTACA
10015771 TAACTTACA
1 TAACTTACA
* *
10015780 TAATTTAAAGA
1 TAACTT--ACA
* *
10015791 TCAAATTTCA
1 T-AACTTACA
*
10015801 TAACTAACA
1 TAACTTACA
*
10015810 TAATTTACA
1 TAACTTACA
10015819 TAACTTACA
1 TAACTTACA
*
10015828 TAAGTTACA
1 TAACTTACA
*
10015837 -AGAGTTACA
1 TA-ACTTACA
* *
10015846 TAATTTAAAGA
1 TAACTT--ACA
* * *
10015857 TCAAATTTCT
1 T-AACTTACA
10015867 TAACTTACA
1 TAACTTACA
*
10015876 TAATTTACA
1 TAACTTACA
10015885 TAACTTACA
1 TAACTTACA
* *
10015894 TAATTTAAAGA
1 TAACTT--ACA
* *
10015905 TCAAATTTCA
1 T-AACTTACA
*
10015915 TAAACTTATA
1 T-AACTTACA
*
10015925 TAATTTACA
1 TAACTTACA
10015934 TAACTTACA
1 TAACTTACA
10015943 TAACTTACA
1 TAACTTACA
10015952 TAACTTACA
1 TAACTTACA
10015961 TAAACTTACA
1 T-AACTTACA
10015971 TAA--TACA
1 TAACTTACA
*
10015978 TTACTTACA
1 TAACTTACA
*
10015987 TAACTTCCA
1 TAACTTACA
*
10015996 TAA--TACC
1 TAACTTACA
* *
10016003 CAAATTACA
1 TAACTTACA
*
10016012 TAAATTACA
1 TAACTTACA
*
10016021 TTA-TT-CA
1 TAACTTACA
*
10016028 CAACTTACA
1 TAACTTACA
10016037 TAACTTACA
1 TAACTTACA
*
10016046 T--CATACA
1 TAACTTACA
*
10016053 GAACTTACA
1 TAACTTACA
*
10016062 CAACTTACA
1 TAACTTACA
10016071 TAACTTACA
1 TAACTTACA
10016080 TAA--TACA
1 TAACTTACA
*
10016087 CAACTTACA
1 TAACTTACA
*
10016096 TTACTTACA
1 TAACTTACA
10016105 TAA--TACA
1 TAACTTACA
10016112 TAACTTACA
1 TAACTTACA
10016121 TA
1 TA
10016123 CATAAACATA
Statistics
Matches: 294, Mismatches: 57, Indels: 52
0.73 0.14 0.13
Matches are distributed among these distances:
7 38 0.13
8 5 0.02
9 209 0.71
10 21 0.07
11 9 0.03
12 12 0.04
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (9 bp):
TAACTTACA
Found at i:10015871 original size:66 final size:66
Alignment explanation
Indices: 10015682--10015900 Score: 313
Period size: 66 Copynumber: 3.4 Consensus size: 66
10015672 TTAAAGATAA
* * *
10015682 AATTT-CATAACTTACATAATTTATATAACTTACATAATTCAAACATCAAATATT-TTAACTTAC
1 AATTTACATAACTTACATAATTTACATAACTTACATAATTTAAAGATCAAAT-TTCTTAACTTAC
10015745 AT
65 AT
* * *
10015747 AATTTACATAATTTACATAA--TACATAACTTACATAATTTAAAGATCAAATTTCATAACTAACA
1 AATTTACATAACTTACATAATTTACATAACTTACATAATTTAAAGATCAAATTTCTTAACTTACA
10015810 T
66 T
* *
10015811 AATTTACATAACTTACATAAGTTACA-AGAGTTACATAATTTAAAGATCAAATTTCTTAACTTAC
1 AATTTACATAACTTACATAATTTACATA-ACTTACATAATTTAAAGATCAAATTTCTTAACTTAC
10015875 AT
65 AT
10015877 AATTTACATAACTTACATAATTTA
1 AATTTACATAACTTACATAATTTA
10015901 AAGATCAAAT
Statistics
Matches: 138, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
63 2 0.01
64 55 0.40
65 6 0.04
66 75 0.54
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (66 bp):
AATTTACATAACTTACATAATTTACATAACTTACATAATTTAAAGATCAAATTTCTTAACTTACA
T
Found at i:10016039 original size:50 final size:51
Alignment explanation
Indices: 10015929--10016122 Score: 167
Period size: 50 Copynumber: 3.6 Consensus size: 51
10015919 CTTATATAAT
* * **
10015929 TTACATAACTTACATAACTTACATAACTTACATAAACTTACATAATACATTAC
1 TTACATAACTTACATAA--TACACAAATTACATAAACTTACATAATACACAAC
* * * *
10015982 TTACATAACTTCCATAATACCCAAATTACATAAA-TTACATTATTCACAAC
1 TTACATAACTTACATAATACACAAATTACATAAACTTACATAATACACAAC
*
10016032 TTACATAACTTACATCATACAGAACTTACACAACTTACAT-AACTTACATAATACACAAC
1 TTACATAACTT--A-CAT----AA--TACACAAATTACATAAACTTACATAATACACAAC
* * *
10016091 TTACATTACTTACATAATACATAACTTACATA
1 TTACATAACTTACATAATACACAAATTACATA
10016123 CATAAACATA
Statistics
Matches: 115, Mismatches: 15, Indels: 24
0.75 0.10 0.16
Matches are distributed among these distances:
50 36 0.31
51 14 0.12
52 2 0.02
53 19 0.17
56 3 0.03
57 3 0.03
58 2 0.02
59 36 0.31
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.32
Consensus pattern (51 bp):
TTACATAACTTACATAATACACAAATTACATAAACTTACATAATACACAAC
Found at i:10016086 original size:25 final size:25
Alignment explanation
Indices: 10016058--10016122 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
10016048 ATACAGAACT
10016058 TACACAACTTACATAACTTACATAA
1 TACACAACTTACATAACTTACATAA
*
10016083 TACACAACTTACATTACTTACATAA
1 TACACAACTTACATAACTTACATAA
*
10016108 TACATAACTTACATA
1 TACACAACTTACATA
10016123 CATAAACATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (25 bp):
TACACAACTTACATAACTTACATAA
Found at i:10016124 original size:20 final size:19
Alignment explanation
Indices: 10016068--10016132 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
10016058 TACACAACTT
*
10016068 ACATAACTTACATA-ATAC
1 ACATAACTTACATACATAA
* *
10016086 ACAACTTACATTACTTACATAA
1 AC-A-TAAC-TTACATACATAA
10016108 TACATAACTTACATACATAA
1 -ACATAACTTACATACATAA
10016128 ACATA
1 ACATA
10016133 TATCACATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
18 2 0.05
19 6 0.16
20 14 0.38
21 9 0.24
22 4 0.11
23 2 0.05
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (19 bp):
ACATAACTTACATACATAA
Found at i:10020732 original size:23 final size:23
Alignment explanation
Indices: 10020701--10020899 Score: 173
Period size: 23 Copynumber: 8.5 Consensus size: 23
10020691 ACACCAAAAT
* *
10020701 TTGGACAGCATATATACAACAAT
1 TTGGGCAGCATATATACAACAAA
10020724 TTGGGCAGCATATATACAACAAAA
1 TTGGGCAGCATATATACAAC-AAA
* * * *
10020748 TTGAGCAGCATTTTTACACCAAAAA
1 TTGGGCAGCATATATACA--ACAAA
*
10020773 TTGGACAGCATATATACAACAAA
1 TTGGGCAGCATATATACAACAAA
* *
10020796 TTGGGCAGCATATATATACCAAA
1 TTGGGCAGCATATATACAACAAA
* * * * *
10020819 TTGAGCAACATTTTTACATCAAAA
1 TTGGGCAGCATATATACAAC-AAA
** *
10020843 TTGGATAGCATATATACAACAAT
1 TTGGGCAGCATATATACAACAAA
* * * *
10020866 TTAGGCTGCATAAATACAGCAAA
1 TTGGGCAGCATATATACAACAAA
10020889 TTGGGCAGCAT
1 TTGGGCAGCAT
10020900 CTAAGCATCA
Statistics
Matches: 135, Mismatches: 37, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
23 84 0.62
24 33 0.24
25 17 0.13
26 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (23 bp):
TTGGGCAGCATATATACAACAAA
Found at i:10020778 original size:72 final size:71
Alignment explanation
Indices: 10020681--10020899 Score: 305
Period size: 72 Copynumber: 3.1 Consensus size: 71
10020671 CCAAACTAGA
* *
10020681 CAGCATTTTCACACCAAAATTTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAA
1 CAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAAC-A
10020746 AATTGAG
65 AATTGAG
* * *
10020753 CAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAAATTGGGCAGCATATATATACCAA
1 CAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAA
10020818 ATTGAG
66 ATTGAG
* * * * * * *
10020824 CAACATTTTTACATC-AAAATTGGATAGCATATATACAACAATTTAGGCTGCATAAATACAGCAA
1 CAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAA
*
10020888 ATTGGG
66 ATTGAG
10020894 CAGCAT
1 CAGCAT
10020900 CTAAGCATCA
Statistics
Matches: 131, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
70 52 0.40
71 21 0.16
72 58 0.44
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (71 bp):
CAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAA
ATTGAG
Found at i:10021652 original size:28 final size:28
Alignment explanation
Indices: 10021617--10021745 Score: 197
Period size: 28 Copynumber: 4.6 Consensus size: 28
10021607 TAATAAGTTT
10021617 GCACACTTAGTGCTTAATAATCAATCTC
1 GCACACTTAGTGCTTAATAATCAATCTC
*
10021645 GCGCACTTAGTGCTTAATAATCAATCTC
1 GCACACTTAGTGCTTAATAATCAATCTC
*
10021673 GCGCACTTAGTGCTTAATAATCAATCTC
1 GCACACTTAGTGCTTAATAATCAATCTC
* * * *
10021701 GCACACTTAGTGCTTTACAATTAAACTC
1 GCACACTTAGTGCTTAATAATCAATCTC
10021729 GCACACTTAGTG-TTAAT
1 GCACACTTAGTGCTTAAT
10021746 CTCATTATCA
Statistics
Matches: 93, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
27 3 0.03
28 90 0.97
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (28 bp):
GCACACTTAGTGCTTAATAATCAATCTC
Found at i:10024713 original size:43 final size:43
Alignment explanation
Indices: 10024613--10024849 Score: 318
Period size: 43 Copynumber: 5.6 Consensus size: 43
10024603 CAAACAATAA
*
10024613 CGGCGTTTGTGGAAAAAGCGCCGCTAAAAGTCATGATCTATAG
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAG
* * * * *
10024656 CAGCGTTTGT-GGAAAAGCGCTGTTAAAAGTCATGACCTTTAG
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAG
*
10024698 CGGCGTTTGTGGGAAAAGCGCCGCTAAAACTCATGATCTATAG
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAG
* * *
10024741 CAGTGTTT-TAGGGAAAA-TGCCGCTAAAAGTCATGATCTATAG
1 CGGCGTTTGT-GGGAAAAGCGCCGCTAAAAGTCATGATCTATAG
* *
10024783 CGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATGATCTATAG
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAG
**
10024826 CGGCGTTTGTGGGGTAAGCGCCGC
1 CGGCGTTTGTGGGAAAAGCGCCGC
10024850 AAATACTTTT
Statistics
Matches: 166, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
42 73 0.44
43 93 0.56
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (43 bp):
CGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAG
Found at i:10024726 original size:85 final size:84
Alignment explanation
Indices: 10024613--10024837 Score: 319
Period size: 85 Copynumber: 2.7 Consensus size: 84
10024603 CAAACAATAA
*
10024613 CGGCGTTTGTGGAAAAAGCGCCGCTAAAAGTCATGATCTATAGCAGCGTTTGTGGAAAA-GCGCT
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAGCAGCGTTTGTGGAAAATGC-C-
* *
10024677 GTTAAAAGTCATGACCTTTAG
64 GCTAAAAGTCATGACCTATAG
* *
10024698 CGGCGTTTGTGGGAAAAGCGCCGCTAAAACTCATGATCTATAGCAGTGTTT-TAGGGAAAATGCC
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAGCAGCGTTTGT--GGAAAATGCC
*
10024762 GCTAAAAGTCATGATCTATAG
64 GCTAAAAGTCATGACCTATAG
* * *
10024783 CGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATGATCTATAGCGGCGTTTGTGG
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAGCAGCGTTTGTGG
10024838 GGTAAGCGCC
Statistics
Matches: 125, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
84 3 0.02
85 112 0.90
86 8 0.06
87 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (84 bp):
CGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAGCAGCGTTTGTGGAAAATGCCGC
TAAAAGTCATGACCTATAG
Found at i:10025209 original size:36 final size:36
Alignment explanation
Indices: 10025154--10025223 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 36
10025144 CGAGTTATAG
10025154 AAAAGCCAACACCTAAAAACAAACAC-AAGTCATCAA
1 AAAAGCCAACACCTAAAAACAAACACTAA-TCATCAA
10025190 AAAAGACCAACACCT-AAAACAAACACTAATCATC
1 AAAAG-CCAACACCTAAAAACAAACACTAATCATC
10025224 GAGCTCCACA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
36 21 0.66
37 11 0.34
ACGTcount: A:0.57, C:0.29, G:0.04, T:0.10
Consensus pattern (36 bp):
AAAAGCCAACACCTAAAAACAAACACTAATCATCAA
Found at i:10027156 original size:21 final size:21
Alignment explanation
Indices: 10027123--10027163 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10027113 ATATTTCAAT
*
10027123 TTTTATGTATATTATAATTTA
1 TTTTAAGTATATTATAATTTA
*
10027144 TTTTAAGTTTATTATAATTT
1 TTTTAAGTATATTATAATTT
10027164 TAGTTAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (21 bp):
TTTTAAGTATATTATAATTTA
Found at i:10029526 original size:19 final size:19
Alignment explanation
Indices: 10029502--10029559 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
10029492 TTCATGTTCC
10029502 TAAATTGTTCTATAAAGAA
1 TAAATTGTTCTATAAAGAA
*
10029521 TAAATTCTT-TAT--AG--
1 TAAATTGTTCTATAAAGAA
10029535 -AAATTGTTCTATAAAGAA
1 TAAATTGTTCTATAAAGAA
10029553 TAAATTG
1 TAAATTG
10029560 AGAAATTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
13 7 0.23
14 3 0.10
16 4 0.13
18 3 0.10
19 14 0.45
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (19 bp):
TAAATTGTTCTATAAAGAA
Found at i:10032365 original size:561 final size:561
Alignment explanation
Indices: 10031303--10032414 Score: 2224
Period size: 561 Copynumber: 2.0 Consensus size: 561
10031293 ATTTATAAGG
10031303 CTAGAACAAGGTAACCGAATGGTTAAGAACATCCAACTTATTGTGCCATAAAAACTCATGTCTTT
1 CTAGAACAAGGTAACCGAATGGTTAAGAACATCCAACTTATTGTGCCATAAAAACTCATGTCTTT
10031368 TCTTATGCTTGAACCAAATAACTCCTTCCATAAAATCACTTCAATTCAGCTGATTTGAATGTCTT
66 TCTTATGCTTGAACCAAATAACTCCTTCCATAAAATCACTTCAATTCAGCTGATTTGAATGTCTT
10031433 TAATTGCTTAAAAATGACTCTTGAGTTGTCCTTGGCCAGCTGAATAGACAACATCTTTTAACCAG
131 TAATTGCTTAAAAATGACTCTTGAGTTGTCCTTGGCCAGCTGAATAGACAACATCTTTTAACCAG
10031498 CTCCTTAATGACATTTTAAAGGCTTGATTAAATTCTCTTGAAAGCTCCAAAAACTGTTGGAAGAA
196 CTCCTTAATGACATTTTAAAGGCTTGATTAAATTCTCTTGAAAGCTCCAAAAACTGTTGGAAGAA
10031563 GAAGGGTTGCTGCTGAATTTTAAAGGGCATAAAATGCTCTTTAAAAACTTCTTTAATGATGTTTA
261 GAAGGGTTGCTGCTGAATTTTAAAGGGCATAAAATGCTCTTTAAAAACTTCTTTAATGATGTTTA
10031628 ATCTTCCTTTATAACAGCCTTGAATTGTAACAACTATGAGCTGAAAAGTCACCTGCAATAAACAA
326 ATCTTCCTTTATAACAGCCTTGAATTGTAACAACTATGAGCTGAAAAGTCACCTGCAATAAACAA
10031693 ATTAAAATGAGTTTATTAAACACATGAAAACACTTATTAATCATAACACACATTATGACTTACTT
391 ATTAAAATGAGTTTATTAAACACATGAAAACACTTATTAATCATAACACACATTATGACTTACTT
10031758 AAATAAATGAACTAAAGCATATATGCAATAATTATTCCAGCAACTAGTTTAATTAAAGAAGCATA
456 AAATAAATGAACTAAAGCATATATGCAATAATTATTCCAGCAACTAGTTTAATTAAAGAAGCATA
10031823 ATTAAATGAACTTAATTCATGCATCAATAAACATAGGAACT
521 ATTAAATGAACTTAATTCATGCATCAATAAACATAGGAACT
10031864 CTAGAACAAGGTAACCGAATGGTTAAGAACATCCAACTTATTGTGCCATAAAAACTCATGTCTTT
1 CTAGAACAAGGTAACCGAATGGTTAAGAACATCCAACTTATTGTGCCATAAAAACTCATGTCTTT
10031929 TCTTATGCTTGAACCAAATAACTCCTTCCATAAAATCACTTCAATTCAGCTGATTTGAATGTCTT
66 TCTTATGCTTGAACCAAATAACTCCTTCCATAAAATCACTTCAATTCAGCTGATTTGAATGTCTT
10031994 TAATTGCTTAAAAATGACTCTTGAGTTGTCCTTGGCCAGCTGAATAGACAACATCTTTTAACCAG
131 TAATTGCTTAAAAATGACTCTTGAGTTGTCCTTGGCCAGCTGAATAGACAACATCTTTTAACCAG
10032059 CTCCTTAATGACATTTTAAAGGCTTGATTAAATTCTCTTGAAAGCTCCAAAAACTGTTGGAAGAA
196 CTCCTTAATGACATTTTAAAGGCTTGATTAAATTCTCTTGAAAGCTCCAAAAACTGTTGGAAGAA
10032124 GAAGGGTTGCTGCTGAATTTTAAAGGGCATAAAATGCTCTTTAAAAACTTCTTTAATGATGTTTA
261 GAAGGGTTGCTGCTGAATTTTAAAGGGCATAAAATGCTCTTTAAAAACTTCTTTAATGATGTTTA
10032189 ATCTTCCTTTATAACAGCCTTGAATTGTAACAACTATGAGCTGAAAAGTCACCTGCAATAAACAA
326 ATCTTCCTTTATAACAGCCTTGAATTGTAACAACTATGAGCTGAAAAGTCACCTGCAATAAACAA
10032254 ATTAAAATGAGTTTATTAAACACATGAAAACACTTATTAATCATAACACACATTATGACTTACTT
391 ATTAAAATGAGTTTATTAAACACATGAAAACACTTATTAATCATAACACACATTATGACTTACTT
10032319 AAATAAATGAACTAAAGCATATATGCAATAATTATTCCAGCAACTAGTTTAATTAAAGAAGCATA
456 AAATAAATGAACTAAAGCATATATGCAATAATTATTCCAGCAACTAGTTTAATTAAAGAAGCATA
10032384 ATTAAATGAACTTAATTCATGCATCAATAAA
521 ATTAAATGAACTTAATTCATGCATCAATAAA
10032415 TAATCATAGG
Statistics
Matches: 551, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
561 551 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (561 bp):
CTAGAACAAGGTAACCGAATGGTTAAGAACATCCAACTTATTGTGCCATAAAAACTCATGTCTTT
TCTTATGCTTGAACCAAATAACTCCTTCCATAAAATCACTTCAATTCAGCTGATTTGAATGTCTT
TAATTGCTTAAAAATGACTCTTGAGTTGTCCTTGGCCAGCTGAATAGACAACATCTTTTAACCAG
CTCCTTAATGACATTTTAAAGGCTTGATTAAATTCTCTTGAAAGCTCCAAAAACTGTTGGAAGAA
GAAGGGTTGCTGCTGAATTTTAAAGGGCATAAAATGCTCTTTAAAAACTTCTTTAATGATGTTTA
ATCTTCCTTTATAACAGCCTTGAATTGTAACAACTATGAGCTGAAAAGTCACCTGCAATAAACAA
ATTAAAATGAGTTTATTAAACACATGAAAACACTTATTAATCATAACACACATTATGACTTACTT
AAATAAATGAACTAAAGCATATATGCAATAATTATTCCAGCAACTAGTTTAATTAAAGAAGCATA
ATTAAATGAACTTAATTCATGCATCAATAAACATAGGAACT
Found at i:10034388 original size:16 final size:17
Alignment explanation
Indices: 10034369--10034413 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
10034359 GGATTTTATC
10034369 TAAATTTATTATA-ATT
1 TAAATTTATTATATATT
*
10034385 TAAATCTA-TATATATT
1 TAAATTTATTATATATT
*
10034401 TTAATTT-TTATAT
1 TAAATTTATTATAT
10034414 CTATTAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (17 bp):
TAAATTTATTATATATT
Found at i:10034400 original size:22 final size:22
Alignment explanation
Indices: 10034366--10034407 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10034356 ATTGGATTTT
*
10034366 ATCTAAATTTATTATAATTTAA
1 ATCTAAATATATTATAATTTAA
* *
10034388 ATCTATATATATTTTAATTT
1 ATCTAAATATATTATAATTT
10034408 TTATATCTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
ATCTAAATATATTATAATTTAA
Found at i:10034418 original size:18 final size:16
Alignment explanation
Indices: 10034393--10034426 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10034383 TTTAAATCTA
*
10034393 TATATATTTTAATTTT
1 TATATATATTAATTTT
*
10034409 TATATCTATTAATTTT
1 TATATATATTAATTTT
10034425 TA
1 TA
10034427 AAAAATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TATATATATTAATTTT
Found at i:10036531 original size:2 final size:2
Alignment explanation
Indices: 10036488--10036512 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10036478 TCATAATCTA
10036488 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10036513 ATTGTTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10037781 original size:2 final size:2
Alignment explanation
Indices: 10037738--10037762 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10037728 TCATAATCTA
10037738 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10037763 ATTGTTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10039602 original size:22 final size:24
Alignment explanation
Indices: 10039567--10039617 Score: 88
Period size: 23 Copynumber: 2.2 Consensus size: 24
10039557 ATTTAAAAAA
10039567 TTAAAAAATGTAAAAA-AATATTT
1 TTAAAAAATGTAAAAATAATATTT
10039590 TTAAAAAAT-TAAAAATAATATTT
1 TTAAAAAATGTAAAAATAATATTT
10039613 TTAAA
1 TTAAA
10039618 TTTTTAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 6 0.22
23 21 0.78
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (24 bp):
TTAAAAAATGTAAAAATAATATTT
Found at i:10040455 original size:2 final size:2
Alignment explanation
Indices: 10040450--10040474 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10040440 CTGTCCCCCC
10040450 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
10040475 AAGCTCACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:10043821 original size:24 final size:24
Alignment explanation
Indices: 10043794--10043862 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
10043784 ATTTTAAATT
10043794 TTTACTCTAATAATATTTTTATAA
1 TTTACTCTAATAATATTTTTATAA
* * *
10043818 TTTA-TGT--T--TA--TGTATAT
1 TTTACTCTAATAATATTTTTATAA
10043835 TTTACTCTAATAATATTTTTATAA
1 TTTACTCTAATAATATTTTTATAA
10043859 TTTA
1 TTTA
10043863 AAGTAAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 14
0.62 0.12 0.27
Matches are distributed among these distances:
17 9 0.28
18 2 0.06
19 2 0.06
20 1 0.03
21 1 0.03
22 2 0.06
23 2 0.06
24 13 0.41
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (24 bp):
TTTACTCTAATAATATTTTTATAA
Found at i:10052312 original size:44 final size:46
Alignment explanation
Indices: 10052259--10052350 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
10052249 TTCTCTATTC
*
10052259 CATTCAACCAAACACAAGAA-TACC-ATTACGCATCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCATCTATTCCATTA
*
10052303 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCATCTATTCCATTA
10052349 CA
1 CA
10052351 ACGAACCAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 19 0.43
45 4 0.09
46 21 0.48
ACGTcount: A:0.40, C:0.29, G:0.04, T:0.26
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCATCTATTCCATTA
Done.