Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 7 of 144
Found at i:1615846 original size:85 final size:85
Alignment explanation
Indices: 1615692--1616016 Score: 359
Period size: 85 Copynumber: 3.8 Consensus size: 85
1615682 CATTGAATAA
* * * * * * *
1615692 AAAGGGGTTGCTAAGTGCTGATTGCCCGAATTATTGACTCTAAAGGTAGTTGCTAAGTGCTG-AT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAAGGTAGTAGCTAAGTGCTGAAT
* *
1615756 CCCACCGTATTTTTAACTATG
66 -CCACCGTATTTTTAATTGTG
* * ** * * *
1615777 AAAGGGGTTGCTAAGTGTTGATTCCCCGTAGCGTTGAATATAAAGGTGGTAGCTATGTGATGAAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAAGGTAGTAGCTAAGTGCTGAAT
1615842 CCACCGTATTTTTAATTGTG
66 CCACCGTATTTTTAATTGTG
* * * * *
1615862 AATGGGGTTGCTAAGTGTTGATTTCCCGTATCACTGAATATAAAGGTGGTTA-CTAAGTGCTGAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAAGGTAG-TAGCTAAGTGCTGAA
* **
1615926 TCCACCGAATCCTTAATTGTG
65 TCCACCGTATTTTTAATTGTG
* * * *
1615947 AAAGGGATTGCTATGTGCTGATTCCCCGTATCACTGAAT-TTATGGTAGTAGCTAAGTGCTGAAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAAGGTAGTAGCTAAGTGCTGAAT
1616011 CCACCG
66 CCACCG
1616017 AGTAACGGAT
Statistics
Matches: 203, Mismatches: 34, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
83 2 0.01
84 24 0.12
85 173 0.85
86 4 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.33
Consensus pattern (85 bp):
AAAGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAAGGTAGTAGCTAAGTGCTGAAT
CCACCGTATTTTTAATTGTG
Found at i:1619995 original size:16 final size:16
Alignment explanation
Indices: 1619970--1620003 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1619960 TTTAATTGTT
1619970 TTTATGTCTTTAGGAA
1 TTTATGTCTTTAGGAA
* *
1619986 TTTATTTCTTTAGTAA
1 TTTATGTCTTTAGGAA
1620002 TT
1 TT
1620004 AGGATTTAAT
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:0.24, C:0.06, G:0.12, T:0.59
Consensus pattern (16 bp):
TTTATGTCTTTAGGAA
Found at i:1621719 original size:11 final size:14
Alignment explanation
Indices: 1621679--1621713 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
1621669 ATAAAATATA
1621679 AATTTATATTTAAT
1 AATTTATATTTAAT
1621693 AATTTATATTTAAT
1 AATTTATATTTAAT
1621707 AATTTAT
1 AATTTAT
1621714 TAATAAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTTATATTTAAT
Found at i:1622185 original size:19 final size:19
Alignment explanation
Indices: 1622163--1622200 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1622153 TCAATCATCC
1622163 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
1622182 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
1622201 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:1628756 original size:45 final size:45
Alignment explanation
Indices: 1628625--1629373 Score: 1056
Period size: 45 Copynumber: 16.7 Consensus size: 45
1628615 AAAGAACAGG
* * *
1628625 TCTTGTCTTCCTATATTGGAAGTGAAGTAGATCAAATATAGCAGA
1 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
* *
1628670 TCTTGTCTTCCTATATT-GC---GAAGTAGATTAAAGATAGCAGA
1 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
* * * * * * * *
1628711 TCTCGTCTTTCTATATGGGTAGCGAAGTAGATCGAAGATAACAGA
1 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
* *
1628756 TCTTGTCTTCTTTTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
1 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
* * *
1628801 TCTTGTCTTCCTGTACTGGCAGTGAAATAGATCAAAGATAACAGA
1 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
*
1628846 TCTTGTCTTCTTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
1 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
* * *
1628891 TCTTGTCTTCCTGTACTGGCAGTGAAATAGATCAAAGATAACAGA
1 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
*
1628936 TCTTGTCTTCTTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
1 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
* * *
1628981 TCTTGTCTTCCTGTACTGGCAGTGAAATAGATCAAAGATAACAGA
1 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
*
1629026 TCTTGTCTTCTTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
1 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
* * *
1629071 TCTTGTCTTCCTGTACTGGCAGTGAAATAGATCAAAGATAACAGA
1 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
*
1629116 TCTTGTCTTCTTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
1 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
* * * * *
1629161 TCTTTTCTGCCTGTACTGGCAGTGAATTAGATCAAAGATAACAGA
1 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
*
1629206 TCTTGTCTTCTTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
1 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
* * *
1629251 TCTTGTCTTCCTGTACTGGCAGTGAAATAGATCAAAGATAACAGA
1 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
* *
1629296 TCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGA
1 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
* * * *
1629341 TCTTTTCTACCTGTACTGGTAGTGAAGTAGATC
1 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
1629374 GAAGCCCTGA
Statistics
Matches: 621, Mismatches: 79, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
41 34 0.05
42 1 0.00
44 1 0.00
45 585 0.94
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (45 bp):
TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAGCAGA
Found at i:1628832 original size:90 final size:90
Alignment explanation
Indices: 1628625--1629373 Score: 1229
Period size: 90 Copynumber: 8.4 Consensus size: 90
1628615 AAAGAACAGG
* * * * * * * *
1628625 TCTTGTCTTCCTATATTGGAAGTGAAGTAGATCAAATATAGCAGATCTTGTCTTCCTATATT-GC
1 TCTTGTCTTCCTGTACTGGCAGTGAAATAGATCAAAGATAACAGATCTTGTCTTCTTGTATTGGC
*
1628689 ---GAAGTAGATTAAAGATAGCAGA
66 AGTGAAGTAGATCAAAGATAGCAGA
* * * * * * * *
1628711 TCTCGTCTTTCTATA-TGGGTAGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCTTTTATTGG
1 TCTTGTCTTCCTGTACT-GGCAGTGAAATAGATCAAAGATAACAGATCTTGTCTTCTTGTATTGG
1628775 CAGTGAAGTAGATCAAAGATAGCAGA
65 CAGTGAAGTAGATCAAAGATAGCAGA
1628801 TCTTGTCTTCCTGTACTGGCAGTGAAATAGATCAAAGATAACAGATCTTGTCTTCTTGTATTGGC
1 TCTTGTCTTCCTGTACTGGCAGTGAAATAGATCAAAGATAACAGATCTTGTCTTCTTGTATTGGC
1628866 AGTGAAGTAGATCAAAGATAGCAGA
66 AGTGAAGTAGATCAAAGATAGCAGA
1628891 TCTTGTCTTCCTGTACTGGCAGTGAAATAGATCAAAGATAACAGATCTTGTCTTCTTGTATTGGC
1 TCTTGTCTTCCTGTACTGGCAGTGAAATAGATCAAAGATAACAGATCTTGTCTTCTTGTATTGGC
1628956 AGTGAAGTAGATCAAAGATAGCAGA
66 AGTGAAGTAGATCAAAGATAGCAGA
1628981 TCTTGTCTTCCTGTACTGGCAGTGAAATAGATCAAAGATAACAGATCTTGTCTTCTTGTATTGGC
1 TCTTGTCTTCCTGTACTGGCAGTGAAATAGATCAAAGATAACAGATCTTGTCTTCTTGTATTGGC
1629046 AGTGAAGTAGATCAAAGATAGCAGA
66 AGTGAAGTAGATCAAAGATAGCAGA
1629071 TCTTGTCTTCCTGTACTGGCAGTGAAATAGATCAAAGATAACAGATCTTGTCTTCTTGTATTGGC
1 TCTTGTCTTCCTGTACTGGCAGTGAAATAGATCAAAGATAACAGATCTTGTCTTCTTGTATTGGC
1629136 AGTGAAGTAGATCAAAGATAGCAGA
66 AGTGAAGTAGATCAAAGATAGCAGA
* * *
1629161 TCTTTTCTGCCTGTACTGGCAGTGAATTAGATCAAAGATAACAGATCTTGTCTTCTTGTATTGGC
1 TCTTGTCTTCCTGTACTGGCAGTGAAATAGATCAAAGATAACAGATCTTGTCTTCTTGTATTGGC
1629226 AGTGAAGTAGATCAAAGATAGCAGA
66 AGTGAAGTAGATCAAAGATAGCAGA
1629251 TCTTGTCTTCCTGTACTGGCAGTGAAATAGATCAAAGATAACAGATCTTGTCTTCTTGTATTGGC
1 TCTTGTCTTCCTGTACTGGCAGTGAAATAGATCAAAGATAACAGATCTTGTCTTCTTGTATTGGC
*
1629316 AGCGAAGTAGATCAAAGATAGCAGA
66 AGTGAAGTAGATCAAAGATAGCAGA
* * * *
1629341 TCTTTTCTACCTGTACTGGTAGTGAAGTAGATC
1 TCTTGTCTTCCTGTACTGGCAGTGAAATAGATC
1629374 GAAGCCCTGA
Statistics
Matches: 628, Mismatches: 29, Indels: 8
0.94 0.04 0.01
Matches are distributed among these distances:
85 1 0.00
86 51 0.08
87 2 0.00
90 573 0.91
91 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (90 bp):
TCTTGTCTTCCTGTACTGGCAGTGAAATAGATCAAAGATAACAGATCTTGTCTTCTTGTATTGGC
AGTGAAGTAGATCAAAGATAGCAGA
Found at i:1656311 original size:30 final size:27
Alignment explanation
Indices: 1656256--1656312 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
1656246 TAAAACAATT
*
1656256 ATAGAAAAATAATTAAATTAAAATTAA
1 ATAGAAAAATAATAAAATTAAAATTAA
1656283 ATAGAAAAATAATCCAAAATTCAAAATTAA
1 ATAGAAAAATAAT--AAAATT-AAAATTAA
1656313 CAATTTCACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 13 0.50
29 5 0.19
30 8 0.31
ACGTcount: A:0.65, C:0.05, G:0.04, T:0.26
Consensus pattern (27 bp):
ATAGAAAAATAATAAAATTAAAATTAA
Found at i:1659329 original size:35 final size:35
Alignment explanation
Indices: 1659181--1659330 Score: 142
Period size: 35 Copynumber: 4.3 Consensus size: 35
1659171 GCTTGTTTTA
* * *
1659181 AAGGCAAAGCTTTTTGATAAACCAAGCTCACCTTG
1 AAGGCAAAGCTTTTTGATAATCCGAGCTTACCTTG
* * * * ** **
1659216 AAGGTAGAG--TTGTCATAAAACGAAGCTCGCCTTG
1 AAGGCAAAGCTTTTTGATAATCCG-AGCTTACCTTG
* * *
1659250 AAGGCAAAGATTTTTTATAATCCGAGCTTACATTG
1 AAGGCAAAGCTTTTTGATAATCCGAGCTTACCTTG
*
1659285 AAGGCAAAGCTTTTTGATAATCTGAGCTTACCTTG
1 AAGGCAAAGCTTTTTGATAATCCGAGCTTACCTTG
1659320 AAGGCAAAGCT
1 AAGGCAAAGCT
1659331 GTAATAGAAC
Statistics
Matches: 92, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
33 9 0.10
34 17 0.18
35 57 0.62
36 9 0.10
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (35 bp):
AAGGCAAAGCTTTTTGATAATCCGAGCTTACCTTG
Found at i:1661131 original size:34 final size:34
Alignment explanation
Indices: 1661084--1661174 Score: 112
Period size: 34 Copynumber: 2.7 Consensus size: 34
1661074 TTTAAGCTCG
* *
1661084 CCTTGAAGATAAAGCTGTAATAGAACAAAG-TTAA
1 CCTTGAAGATAAAGTTGTAATAAAACAAAGCTT-A
* *
1661118 CCTTGAAGTTAAAGTTGTAATAAAACAAAGCTTG
1 CCTTGAAGATAAAGTTGTAATAAAACAAAGCTTA
**
1661152 CCTTGAAGGCAAAGTTGTAATAA
1 CCTTGAAGATAAAGTTGTAATAA
1661175 TAAAAAGTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
34 48 0.96
35 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (34 bp):
CCTTGAAGATAAAGTTGTAATAAAACAAAGCTTA
Found at i:1670801 original size:14 final size:14
Alignment explanation
Indices: 1670782--1670811 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1670772 ATTGCGTTCG
1670782 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
*
1670796 TAGTTAATTTAGAT
1 TAGTTAAATTAGAT
1670810 TA
1 TA
1670812 AAAATAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:1677828 original size:27 final size:28
Alignment explanation
Indices: 1677768--1677829 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
1677758 GCCCTTTCCT
*
1677768 TTTCTTTA--TTTTATTTTATTTCTTTA
1 TTTCTTTATCTTTTATTATATTTCTTTA
*
1677794 TTTCTTTATCTTTTATTAT-TTTGTTTA
1 TTTCTTTATCTTTTATTATATTTCTTTA
*
1677821 TTTGTTTAT
1 TTTCTTTAT
1677830 TTTATTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.26
27 15 0.48
28 8 0.26
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (28 bp):
TTTCTTTATCTTTTATTATATTTCTTTA
Found at i:1682073 original size:14 final size:14
Alignment explanation
Indices: 1682054--1682083 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1682044 ATTGCGTTTG
1682054 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
*
1682068 TAGTTAATTTAGAT
1 TAGTTAAATTAGAT
1682082 TA
1 TA
1682084 AAATCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:1684666 original size:21 final size:20
Alignment explanation
Indices: 1684625--1684663 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1684615 TAGGAGTTCA
1684625 TTTTTCTAGTAGAAATAAAT
1 TTTTTCTAGTAGAAATAAAT
1684645 TTTTTCTAGTAGAAATAAA
1 TTTTTCTAGTAGAAATAAA
1684664 ATTCTACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (20 bp):
TTTTTCTAGTAGAAATAAAT
Found at i:1698982 original size:72 final size:72
Alignment explanation
Indices: 1698861--1698994 Score: 205
Period size: 72 Copynumber: 1.9 Consensus size: 72
1698851 AAAAGTTTTT
* * *
1698861 TCAAAATGTCAAAGTAATATTATCTTTCATTAAACATTGCATCACAGTGTCATACAATCATATCA
1 TCAAAATGCCAAAGTAACATTATCTTTCAATAAACATTGCATCACAGTGTCATACAATCATATCA
1698926 AATACTA
66 AATACTA
* * * *
1698933 TCAAAATGCCAATGTAACATTATCTTTCAATAAACATTGCATCATAGTGTTATACCATCATA
1 TCAAAATGCCAAAGTAACATTATCTTTCAATAAACATTGCATCACAGTGTCATACAATCATA
1698995 CCATGGATTA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (72 bp):
TCAAAATGCCAAAGTAACATTATCTTTCAATAAACATTGCATCACAGTGTCATACAATCATATCA
AATACTA
Found at i:1702116 original size:11 final size:11
Alignment explanation
Indices: 1702100--1702142 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
1702090 TTTGCAAATT
1702100 TTTTTTTTCAA
1 TTTTTTTTCAA
1702111 TTTTTTTTCAAA
1 TTTTTTTTC-AA
* *
1702123 TTTTTTTTTAT
1 TTTTTTTTCAA
1702134 TTTTTTTTC
1 TTTTTTTTC
1702143 GAACTCTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:1702116 original size:12 final size:13
Alignment explanation
Indices: 1702094--1702156 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 13
1702084 ACTTAGTTTG
1702094 CAAATTTTTTTTTT
1 CAAA-TTTTTTTTT
1702108 C-AA-TTTTTTTT
1 CAAATTTTTTTTT
1702119 CAAATTTTTTTTT
1 CAAATTTTTTTTT
1702132 ---ATTTTTTTTT
1 CAAATTTTTTTTT
*
1702142 CGAACTCTTTTTTTT
1 C-AAAT-TTTTTTTT
1702157 ACGTACCTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
10 10 0.24
11 9 0.22
12 2 0.05
13 10 0.24
14 2 0.05
15 8 0.20
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (13 bp):
CAAATTTTTTTTT
Found at i:1702128 original size:25 final size:24
Alignment explanation
Indices: 1702094--1702157 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 24
1702084 ACTTAGTTTG
1702094 CAAATTTTTTTTTTCAATTTTTTTT
1 CAAATTTTTTTTTT-AATTTTTTTT
*
1702119 CAAA-TTTTTTTTTATTTTTTTTT
1 CAAATTTTTTTTTTAATTTTTTTT
* *
1702142 CGAACTCTTTTTTTTA
1 C-AAATTTTTTTTTTA
1702158 CGTACCTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.29
24 11 0.32
25 13 0.38
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (24 bp):
CAAATTTTTTTTTTAATTTTTTTT
Found at i:1702152 original size:23 final size:24
Alignment explanation
Indices: 1702102--1702154 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
1702092 TGCAAATTTT
*
1702102 TTTTTTCAATTTTTTTTCAAA-TT
1 TTTTTTCAATTTTTTTTCAAACTC
* * *
1702125 TTTTTTTATTTTTTTTTCGAACTC
1 TTTTTTCAATTTTTTTTCAAACTC
1702149 TTTTTT
1 TTTTTT
1702155 TTACGTACCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.74
Consensus pattern (24 bp):
TTTTTTCAATTTTTTTTCAAACTC
Found at i:1702473 original size:24 final size:23
Alignment explanation
Indices: 1702419--1702496 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 23
1702409 GGATAATTAA
**
1702419 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGAATTGGTAC
***
1702442 GTTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTT-GGAATTGGTAC
*
1702466 GAAATGGTA--TGGAATTGGTAT
1 GAAATGGTATTTGGAATTGGTAC
*
1702487 GAAATAGTAT
1 GAAATGGTAT
1702497 GGTATTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 18 0.42
22 1 0.02
23 9 0.21
24 15 0.35
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.40
Consensus pattern (23 bp):
GAAATGGTATTTGGAATTGGTAC
Found at i:1702481 original size:21 final size:21
Alignment explanation
Indices: 1702455--1702521 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
1702445 TTGGTATTTG
1702455 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
1702476 GGAATTGGTATGAAATAGTAT
1 GGAATTGGTACGAAATGGTAT
* *
1702497 GGTATTTGGTACGAATTGGTTAT
1 GG-AATTGGTACGAAATGG-TAT
1702520 GG
1 GG
1702522 TTCAAAGAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 21 0.55
22 12 0.32
23 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.34
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:1708985 original size:30 final size:31
Alignment explanation
Indices: 1708937--1709056 Score: 134
Period size: 33 Copynumber: 3.8 Consensus size: 31
1708927 GTAGGTTTAA
1708937 GGTTTAGGGTTTTTTTAAAAATAATTAAATTAG
1 GGTTTAGGG--TTTTTAAAAATAATTAAATTAG
* * *
1708970 GTTTTGGGGTTTTAAATAAATTAATTAAATTAG
1 GGTTTAGGGTTTTTAA-AAA-TAATTAAATTAG
* *
1709003 GGTTTAGGGTTTTTAAGAA-AATTAAATTAT
1 GGTTTAGGGTTTTTAAAAATAATTAAATTAG
**
1709033 GGTTTAGTTTTTTTAAAAATAATT
1 GGTTTAGGGTTTTTAAAAATAATT
1709057 TTGTATTTAG
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
30 26 0.36
31 10 0.14
32 5 0.07
33 32 0.44
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (31 bp):
GGTTTAGGGTTTTTAAAAATAATTAAATTAG
Found at i:1709017 original size:34 final size:32
Alignment explanation
Indices: 1708936--1709051 Score: 114
Period size: 30 Copynumber: 3.6 Consensus size: 32
1708926 GGTAGGTTTA
*
1708936 AGGTTTAGGGTTTTTTTAAAAA-TAATTAAATT
1 AGGTTTAGGG-TTTTTAAAAAATTAATTAAATT
* *
1708968 AGGTTTTGGGGTTTTAAATAAATTAATTAAATT
1 AGGTTTAGGGTTTTTAAA-AAATTAATTAAATT
*
1709001 AGGGTTTAGGGTTTTT-AAGAA--AATTAAATT
1 A-GGTTTAGGGTTTTTAAAAAATTAATTAAATT
**
1709031 ATGGTTTAGTTTTTTTAAAAA
1 A-GGTTTAGGGTTTTTAAAAA
1709052 TAATTTTGTA
Statistics
Matches: 70, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
30 22 0.31
31 9 0.13
32 14 0.20
33 13 0.19
34 12 0.17
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (32 bp):
AGGTTTAGGGTTTTTAAAAAATTAATTAAATT
Found at i:1709355 original size:125 final size:126
Alignment explanation
Indices: 1709110--1709377 Score: 362
Period size: 125 Copynumber: 2.1 Consensus size: 126
1709100 CTTTTGTCTT
* *
1709110 TTTTTCTACAGTAGTTTCTGGAAAAATAATTTTGAGAAGACGGTTCTAAAAAGATAATGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAGATAATGTAAAAA
* * *
1709175 ACGCTTCAACCAGAATGCGCTGTCAGTAAAATTACTGAAAAAAGCTCCCATGTGGACGCTC
66 ACGCTTCAACCAGAAGGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * *
1709236 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGAGGGTTCTGAACAA-AT-GTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCT-AAAAAGATAATGTAAAA
* * * * *
1709299 AACGCTTCAAGCAGGAGGCACTGTCAGTAAAATTGA-TGAAACAAGCTTCCACGTGGATGCTC
65 AACGCTTCAACCAGAAGGCACTGTCAGTAAAATT-ACTGAAAAAAGCTCCCACGTGGACGCTC
1709361 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
1709378 TTATTTGACA
Statistics
Matches: 124, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
125 74 0.60
126 46 0.37
127 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAGATAATGTAAAAA
ACGCTTCAACCAGAAGGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:1712583 original size:21 final size:21
Alignment explanation
Indices: 1712545--1712616 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
1712535 AAAGAGGCCA
* *
1712545 GCCCATGTGGCTACCCCACAC
1 GCCCGTGTGGATACCCCACAC
* *
1712566 GCTCGTGTGGATATCCCACAC
1 GCCCGTGTGGATACCCCACAC
* * * * *
1712587 TCCCGTGTGGCTAACCTATAC
1 GCCCGTGTGGATACCCCACAC
1712608 GCCCGTGTG
1 GCCCGTGTG
1712617 CTCAGGCCGT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.17, C:0.38, G:0.24, T:0.22
Consensus pattern (21 bp):
GCCCGTGTGGATACCCCACAC
Found at i:1717062 original size:23 final size:22
Alignment explanation
Indices: 1717022--1717075 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
1717012 AAGCAAACTA
*
1717022 AAAATAAA-AAAATAAAAACCG
1 AAAATAAACAAAATAAAAACAG
*
1717043 AAAATAAACTAAAATGAAAACAG
1 AAAATAAAC-AAAATAAAAACAG
*
1717066 GAAATAAACA
1 AAAATAAACA
1717076 TACAAGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.29
22 1 0.04
23 19 0.68
ACGTcount: A:0.72, C:0.09, G:0.07, T:0.11
Consensus pattern (22 bp):
AAAATAAACAAAATAAAAACAG
Found at i:1719599 original size:37 final size:37
Alignment explanation
Indices: 1719549--1719619 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
1719539 TTTAAATTAC
1719549 AAGTATATGGTTATTTGATATGTGAATGAAAATGATT
1 AAGTATATGGTTATTTGATATGTGAATGAAAATGATT
*
1719586 AAGTATATGGTTATTTGATATGTGTATGAAAATG
1 AAGTATATGGTTATTTGATATGTGAATGAAAATG
1719620 TTCAAAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.41
Consensus pattern (37 bp):
AAGTATATGGTTATTTGATATGTGAATGAAAATGATT
Found at i:1723033 original size:14 final size:14
Alignment explanation
Indices: 1723014--1723040 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1723004 TAAACATAGG
1723014 ATATGTGTAATTAA
1 ATATGTGTAATTAA
1723028 ATATGTGTAATTA
1 ATATGTGTAATTA
1723041 TGGATATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (14 bp):
ATATGTGTAATTAA
Found at i:1726549 original size:19 final size:19
Alignment explanation
Indices: 1726525--1726568 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1726515 TGTCACATAT
*
1726525 TAAATTTCA-ATATCATTTA
1 TAAATTT-AGATATAATTTA
1726544 TAAATTTAGATATAATTTA
1 TAAATTTAGATATAATTTA
*
1726563 TCAATT
1 TAAATT
1726569 CTCATGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (19 bp):
TAAATTTAGATATAATTTA
Found at i:1727325 original size:9 final size:9
Alignment explanation
Indices: 1727313--1727345 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
1727303 CATATTTTAC
1727313 AATTTATTT
1 AATTTATTT
*
1727322 AATTGATTT
1 AATTTATTT
1727331 AATTTATTT
1 AATTTATTT
1727340 AATTTA
1 AATTTA
1727346 GTCCCTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (9 bp):
AATTTATTT
Found at i:1728657 original size:30 final size:30
Alignment explanation
Indices: 1728623--1728687 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
1728613 TGACAAACTT
* *
1728623 TTTTTTGTTCATATTATATTTGACTT-TAAA
1 TTTTTTATTCATATTATATCTGACTTCT-AA
*
1728653 TTTTTTATTCGTATTATATCTGACTTCTAA
1 TTTTTTATTCATATTATATCTGACTTCTAA
1728683 TTTTT
1 TTTTT
1728688 GTTTTTGTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.62
Consensus pattern (30 bp):
TTTTTTATTCATATTATATCTGACTTCTAA
Found at i:1728838 original size:13 final size:13
Alignment explanation
Indices: 1728801--1728896 Score: 88
Period size: 13 Copynumber: 7.4 Consensus size: 13
1728791 ATGTGTATTA
1728801 CTGTTATGTATGT
1 CTGTTATGTATGT
*
1728814 -TATTAT-TATGT
1 CTGTTATGTATGT
*
1728825 CTGCTATGTATGT
1 CTGTTATGTATGT
*
1728838 CTGTTACGTATGTT
1 CTGTTATGTATG-T
* * *
1728852 ATGAATATGTATGC
1 CTG-TTATGTATGT
1728866 CTGTTATGTATGT
1 CTGTTATGTATGT
*
1728879 CTATTATGTATGT
1 CTGTTATGTATGT
*
1728892 ATGTT
1 CTGTT
1728897 GTGAATATGT
Statistics
Matches: 64, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
11 5 0.08
12 9 0.14
13 38 0.59
14 5 0.08
15 7 0.11
ACGTcount: A:0.21, C:0.08, G:0.20, T:0.51
Consensus pattern (13 bp):
CTGTTATGTATGT
Found at i:1728874 original size:41 final size:37
Alignment explanation
Indices: 1728801--1728891 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 37
1728791 ATGTGTATTA
*
1728801 CTGTTATGTATGTTATTATTATGTCTGCTATGTATGT
1 CTGTTATGTATGTTATTATTATGCCTGCTATGTATGT
* *
1728838 CTGTTACGTATGTTATGAATATGTATGCCTGTTATGTATGT
1 CTGTTATGTATGTTAT---TAT-TATGCCTGCTATGTATGT
*
1728879 CTATTATGTATGT
1 CTGTTATGTATGT
1728892 ATGTTGTGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
37 15 0.33
40 3 0.07
41 27 0.60
ACGTcount: A:0.21, C:0.09, G:0.20, T:0.51
Consensus pattern (37 bp):
CTGTTATGTATGTTATTATTATGCCTGCTATGTATGT
Found at i:1728896 original size:45 final size:45
Alignment explanation
Indices: 1728845--1728949 Score: 156
Period size: 45 Copynumber: 2.3 Consensus size: 45
1728835 TGTCTGTTAC
* * *
1728845 GTATGTTATGAATATGTATGCCTGTTATGTATGTCTATTATGTAT
1 GTATGTTGTGAATATGTATGCCTGTGATGTATCTCTATTATGTAT
**
1728890 GTATGTTGTGAATATGTATGTTTGTGATGTATCTCTATTATGTAT
1 GTATGTTGTGAATATGTATGCCTGTGATGTATCTCTATTATGTAT
*
1728935 ATATGTTGTGAATAT
1 GTATGTTGTGAATAT
1728950 TACTACATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.25, C:0.05, G:0.21, T:0.50
Consensus pattern (45 bp):
GTATGTTGTGAATATGTATGCCTGTGATGTATCTCTATTATGTAT
Found at i:1728907 original size:15 final size:16
Alignment explanation
Indices: 1728887--1728916 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1728877 GTCTATTATG
1728887 TATGTATG-TTGTGAA
1 TATGTATGTTTGTGAA
1728902 TATGTATGTTTGTGA
1 TATGTATGTTTGTGA
1728917 TGTATCTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (16 bp):
TATGTATGTTTGTGAA
Found at i:1729078 original size:69 final size:69
Alignment explanation
Indices: 1729001--1729185 Score: 255
Period size: 69 Copynumber: 2.7 Consensus size: 69
1728991 ATATTACTGT
* * * *
1729001 TTATGTATACTATTGTTATGTATGTATGTTATGTGGTATATTATTGTTTATTATTGTATATCATG
1 TTATGTATATTACTATTATGTATGTTTGTTATGTGGTATATTATTGTTTATTATTGTATATCATG
1729066 TATG
66 TATG
* * * * * * *
1729070 TTATGTATATTACTATTATATATGTTTGTTATATGGAATATTACTATTTATTATTTTATATTATG
1 TTATGTATATTACTATTATGTATGTTTGTTATGTGGTATATTATTGTTTATTATTGTATATCATG
1729135 TATG
66 TATG
*
1729139 CTATGTATATTACTATTATGTATGTTTGTTATGT-GTATATTATTGTT
1 TTATGTATATTACTATTATGTATGTTTGTTATGTGGTATATTATTGTT
1729186 ATTTATGTAT
Statistics
Matches: 99, Mismatches: 17, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
68 10 0.10
69 89 0.90
ACGTcount: A:0.26, C:0.03, G:0.14, T:0.56
Consensus pattern (69 bp):
TTATGTATATTACTATTATGTATGTTTGTTATGTGGTATATTATTGTTTATTATTGTATATCATG
TATG
Found at i:1729093 original size:24 final size:24
Alignment explanation
Indices: 1729063--1729164 Score: 97
Period size: 24 Copynumber: 4.4 Consensus size: 24
1729053 ATTGTATATC
1729063 ATGTATGTTATGTATATTACTATT
1 ATGTATGTTATGTATATTACTATT
* * *
1729087 ATATATGTT-TGTTATATGGAATATT
1 ATGTATGTTATG-TATAT-TACTATT
* *
1729112 A-CTAT-TTAT-TATTTTA-TATT
1 ATGTATGTTATGTATATTACTATT
*
1729132 ATGTATGCTATGTATATTACTATT
1 ATGTATGTTATGTATATTACTATT
1729156 ATGTATGTT
1 ATGTATGTT
1729165 TGTTATGTGT
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
20 5 0.08
21 4 0.07
22 7 0.11
23 10 0.16
24 29 0.48
25 6 0.10
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.55
Consensus pattern (24 bp):
ATGTATGTTATGTATATTACTATT
Found at i:1729238 original size:13 final size:13
Alignment explanation
Indices: 1729220--1729244 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1729210 TATTTAAGAT
1729220 ATGTATGTATATC
1 ATGTATGTATATC
1729233 ATGTATGTATAT
1 ATGTATGTATAT
1729245 TACAATTTAT
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:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (13 bp):
ATGTATGTATATC
Found at i:1732179 original size:20 final size:20
Alignment explanation
Indices: 1732135--1732173 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1732125 CTCAAACGAG
*
1732135 CTGAATTAAGCTCATGTGAA
1 CTGAATTAAACTCATGTGAA
1732155 CTGAATTAAACTCATGTGA
1 CTGAATTAAACTCATGTGA
1732174 GTTGAACCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (20 bp):
CTGAATTAAACTCATGTGAA
Found at i:1733937 original size:15 final size:15
Alignment explanation
Indices: 1733902--1733940 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1733892 TCTTTTCAGG
1733902 CTCTCTTTCTTTTCC
1 CTCTCTTTCTTTTCC
* *
1733917 CACTCTTTCTTTTTC
1 CTCTCTTTCTTTTCC
*
1733932 TTCTCTTTC
1 CTCTCTTTC
1733941 AATTTCTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.62
Consensus pattern (15 bp):
CTCTCTTTCTTTTCC
Found at i:1733958 original size:22 final size:21
Alignment explanation
Indices: 1733922--1733962 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1733912 TTTCCCACTC
*
1733922 TTTCTTTTTCTTCTCTTTCAA
1 TTTCTTTTTCATCTCTTTCAA
1733943 TTTCTTTTTCAATCTCTTTC
1 TTTCTTTTTC-ATCTCTTTC
1733963 TCCTTTTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.10, C:0.24, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTCTTTTTCATCTCTTTCAA
Found at i:1733997 original size:18 final size:18
Alignment explanation
Indices: 1733976--1734033 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
1733966 TTTTCACTCA
*
1733976 CTTTTTCAATTTCCTTTT
1 CTTTTTCAATTTCTTTTT
*
1733994 CTTTTGCAATTTCTTTTT
1 CTTTTTCAATTTCTTTTT
*
1734012 CTTTTTCAATGTCTTTTT
1 CTTTTTCAATTTCTTTTT
1734030 CTTT
1 CTTT
1734034 CATTTCTCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.10, C:0.19, G:0.03, T:0.67
Consensus pattern (18 bp):
CTTTTTCAATTTCTTTTT
Found at i:1734010 original size:30 final size:28
Alignment explanation
Indices: 1733932--1734012 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 28
1733922 TTTCTTTTTC
1733932 TTCTCTTTCAATTTCTTTTTCAATCTCTT
1 TTCT-TTTCAATTTCTTTTTCAATCTCTT
* ** *
1733961 TCTCCTTTTCACTCACTTTTTCAATTTCCTT
1 T-T-CTTTTCAATTTCTTTTTCAATCT-CTT
1733992 TTCTTTTGCAATTTCTTTTTC
1 TTCTTTT-CAATTTCTTTTTC
1734013 TTTTTCAATG
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
29 6 0.15
30 29 0.71
31 6 0.15
ACGTcount: A:0.12, C:0.26, G:0.01, T:0.60
Consensus pattern (28 bp):
TTCTTTTCAATTTCTTTTTCAATCTCTT
Found at i:1736735 original size:20 final size:20
Alignment explanation
Indices: 1736712--1736758 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1736702 AGCTCAAACA
*
1736712 AGCTGAATTAAGCTCATGCG
1 AGCTGAATTAAACTCATGCG
* *
1736732 AGCTAAATTAAACTCATGTG
1 AGCTGAATTAAACTCATGCG
1736752 AGCTGAA
1 AGCTGAA
1736759 CCGAGCTAAA
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:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (20 bp):
AGCTGAATTAAACTCATGCG
Found at i:1738195 original size:20 final size:20
Alignment explanation
Indices: 1738170--1738267 Score: 108
Period size: 20 Copynumber: 4.8 Consensus size: 20
1738160 TTGTATGGGA
1738170 TTGCACTTCGATGCCTCTGT
1 TTGCACTTCGATGCCTCTGT
* *
1738190 TTGCACTTCGGTGCCTCTGA
1 TTGCACTTCGATGCCTCTGT
* *
1738210 TTGCACATTTG-TGCCTCTGC
1 TTGCAC-TTCGATGCCTCTGT
*
1738230 CTGCACTTCGATGCCTCTGT
1 TTGCACTTCGATGCCTCTGT
*
1738250 TATGCAACTTTGATGCCT
1 T-TGC-ACTTCGATGCCT
1738268 TTGGTGTGGT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
19 3 0.05
20 45 0.69
21 6 0.09
22 11 0.17
ACGTcount: A:0.12, C:0.30, G:0.20, T:0.38
Consensus pattern (20 bp):
TTGCACTTCGATGCCTCTGT
Found at i:1738685 original size:13 final size:13
Alignment explanation
Indices: 1738659--1738715 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
1738649 ATTATGAGTT
1738659 AAATGTGTAA-ATG
1 AAATG-GTAAGATG
1738672 AAATGGTAAGATG
1 AAATGGTAAGATG
** *
1738685 AAATATTTAGATG
1 AAATGGTAAGATG
* *
1738698 AAATGGTTATATG
1 AAATGGTAAGATG
1738711 AAATG
1 AAATG
1738716 CTTATATGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
12 4 0.11
13 33 0.89
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.32
Consensus pattern (13 bp):
AAATGGTAAGATG
Found at i:1739717 original size:21 final size:21
Alignment explanation
Indices: 1739693--1739763 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
1739683 ACATGGTTTG
* *
1739693 GCCACAAGGCCATGTTTTTGA
1 GCCACACGGCCATGTTTCTGA
* *
1739714 GCCACACGACCACGTTTCTGA
1 GCCACACGGCCATGTTTCTGA
1739735 GCCACACGGCCATGTTTCTGA
1 GCCACACGGCCATGTTTCTGA
1739756 GCCACACG
1 GCCACACG
1739764 ATCTAGGCTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.21
Consensus pattern (21 bp):
GCCACACGGCCATGTTTCTGA
Found at i:1740826 original size:31 final size:31
Alignment explanation
Indices: 1740780--1740842 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
1740770 ACATACGATT
* * * * *
1740780 GATGGTTTTATTTTTTTGGATCATTTTGATG
1 GATGATTTAATTTTTTCGAATCATTATGATG
1740811 GATGATTTAATTTTTTCGAATCATTATGATG
1 GATGATTTAATTTTTTCGAATCATTATGATG
1740842 G
1 G
1740843 TTGTATTTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.22, C:0.05, G:0.21, T:0.52
Consensus pattern (31 bp):
GATGATTTAATTTTTTCGAATCATTATGATG
Found at i:1740850 original size:27 final size:27
Alignment explanation
Indices: 1740779--1740851 Score: 74
Period size: 31 Copynumber: 2.6 Consensus size: 27
1740769 AACATACGAT
* * *
1740779 TGATGGTTTTATTTTTTTGGATCATTT
1 TGATGGTTTTATTTTTTCGAATCATTA
1740806 TGATGGATGATTTAATTTTTTCGAATCATTA
1 TGATGG-T--TTT-ATTTTTTCGAATCATTA
*
1740837 TGATGGTTGTATTTT
1 TGATGGTTTTATTTT
1740852 GATGGAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
27 11 0.29
28 3 0.08
30 4 0.11
31 20 0.53
ACGTcount: A:0.21, C:0.04, G:0.19, T:0.56
Consensus pattern (27 bp):
TGATGGTTTTATTTTTTCGAATCATTA
Found at i:1740874 original size:29 final size:29
Alignment explanation
Indices: 1740837--1740905 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
1740827 CGAATCATTA
*
1740837 TGATGGTTGTATTTTGATGGAAAATTTAT
1 TGATGGTTGTATTTTGATAGAAAATTTAT
* *
1740866 TGATAGTTGTATTTTGATAGACAATTTAT
1 TGATGGTTGTATTTTGATAGAAAATTTAT
*
1740895 TAATGGTTGTA
1 TGATGGTTGTA
1740906 ATGGATGGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.01, G:0.22, T:0.48
Consensus pattern (29 bp):
TGATGGTTGTATTTTGATAGAAAATTTAT
Found at i:1760057 original size:28 final size:28
Alignment explanation
Indices: 1760017--1760070 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
1760007 CATCACTACT
1760017 TTCGTCGGTCAAATTAGCACCAGTTACA
1 TTCGTCGGTCAAATTAGCACCAGTTACA
1760045 TTCGTCGGTCAAATTAGCACCAGTTA
1 TTCGTCGGTCAAATTAGCACCAGTTA
1760071 TATTTTCCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (28 bp):
TTCGTCGGTCAAATTAGCACCAGTTACA
Found at i:1763051 original size:45 final size:45
Alignment explanation
Indices: 1762982--1763099 Score: 132
Period size: 45 Copynumber: 2.6 Consensus size: 45
1762972 TTGCTTGAAT
* *
1762982 GAAACGAATAAGATCATAGTTGAAAGACACTATAGC-TCTATACC-
1 GAAATGAATAAGACCATAGTTGAAAGACACTATAGCATC-ATACCG
* * *
1763026 GAAATTGAATAATACCATAGTTGAAAGAAACTATGGCATCATACCG
1 GAAA-TGAATAAGACCATAGTTGAAAGACACTATAGCATCATACCG
* * *
1763072 GAAATGAGTAAGACCATAGCTAAAAGAC
1 GAAATGAATAAGACCATAGTTGAAAGAC
1763100 GTTATGGCAT
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
44 4 0.07
45 51 0.84
46 6 0.10
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (45 bp):
GAAATGAATAAGACCATAGTTGAAAGACACTATAGCATCATACCG
Found at i:1765450 original size:16 final size:16
Alignment explanation
Indices: 1765429--1765464 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
1765419 CCCATAGCCA
1765429 CTTACCATTCAAATCT
1 CTTACCATTCAAATCT
1765445 CTTACCATTCAAATCT
1 CTTACCATTCAAATCT
1765461 CTTA
1 CTTA
1765465 TAACACCAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.39
Consensus pattern (16 bp):
CTTACCATTCAAATCT
Found at i:1770768 original size:10 final size:10
Alignment explanation
Indices: 1770716--1770770 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
1770706 TTAGTTTTCA
* *
1770716 ATAAAAATAA
1 ATAAAAAGAT
1770726 ATAAAAA-AT
1 ATAAAAAGAT
1770735 ATAAAAATGAT
1 ATAAAAA-GAT
* *
1770746 A-AAATACAT
1 ATAAAAAGAT
1770755 ATAAAAAGAT
1 ATAAAAAGAT
1770765 ATAAAA
1 ATAAAA
1770771 GTATTTATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
9 11 0.30
10 23 0.62
11 3 0.08
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (10 bp):
ATAAAAAGAT
Found at i:1772328 original size:132 final size:132
Alignment explanation
Indices: 1772091--1772597 Score: 739
Period size: 132 Copynumber: 3.8 Consensus size: 132
1772081 GAGTTAATGA
* * * *
1772091 CTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTGGTGGTTTAAATTTGCTTCC
1 CTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAGGACTGGTGGCTTAAATCTGCTTCC
* * * *
1772156 CTACTACCTTGGGAAGATAAGATTCACTGTATTTGATCTGCTTCACTACTGCTTAGGGAGAC-GA
66 CTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAG-
*
1772220 AAT
130 GAT
*
1772223 CTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAGGACTGGTGGCTTAAACCTGCTTCC
1 CTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAGGACTGGTGGCTTAAATCTGCTTCC
*
1772288 CTACTACCTTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGG
66 CTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGG
1772353 AT
131 AT
* * * *
1772355 CCACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGGCAGGACTAGTGGCTTAAATCTGTTTCC
1 CTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAGGACTGGTGGCTTAAATCTGCTTCC
* * *
1772420 CTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATTTGCTCCACTACTACTTAGGGAGACAGG
66 CTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGG
1772485 AT
131 AT
* * * * *
1772487 CTACAATCTTCAACCTACTCCACTACTGCTCAGGAAGATAGGACTGGTGGATTAAATCTGC-CCC
1 CTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAGGACTGGTGGCTTAAATCTGCTTCC
** * * *
1772551 CTACTACCTTGGGAAGATAAGATTTGCCATCTTCGATTTGCTTCACT
66 CTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACT
1772598 GTCAGTACAG
Statistics
Matches: 344, Mismatches: 30, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
131 46 0.13
132 297 0.86
133 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (132 bp):
CTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAGGACTGGTGGCTTAAATCTGCTTCC
CTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGG
AT
Found at i:1772818 original size:89 final size:89
Alignment explanation
Indices: 1772580--1772981 Score: 482
Period size: 89 Copynumber: 4.5 Consensus size: 89
1772570 AGATTTGCCA
* * * * *
1772580 TCTTCGATTTGCTTCACTGTCAGTACAGGAAGGCAAGATCTACTATCTTCAGTCTGCTCCACCGC
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGC
* * *
1772645 AAACCTAGGGAGACAAGACTAGTG
66 AAACCTAGGGAGGCAAGGCTAATG
** * * *
1772669 TCTTCGATCTAATTCGCTGTCAGTACAGGAAGGCAAGATTTACTATCTCCAGTCTGCTCCGCTGC
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGC
***
1772734 AAACCTAGGGAGGCAAGGCCGGTG
66 AAACCTAGGGAGGCAAGGCTAATG
* * * * *
1772758 TCTTCAATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATTTGCTATCTTTAGTCTGCTCCGATGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGC
*
1772823 AAA-CTCAAGGAGGCAAGGCTAATG
66 AAACCT-AGGGAGGCAAGGCTAATG
* * * * * * *
1772847 TCTTCGATCTGCTTCGCTGCCAATACTGGAAGGCAAGATCTGCTATCTTAATTCTGCTTCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGC
** *
1772912 AAAATTAGAGAGGCAAGGCTAATG
66 AAACCTAGGGAGGCAAGGCTAATG
* *
1772936 TCTTCGATCTGCTTCGCTGCCAGTATAGGAAGGCAAGATCTGCTAT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTAT
1772982 TTTTGATCTA
Statistics
Matches: 272, Mismatches: 39, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
88 2 0.01
89 269 0.99
90 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (89 bp):
TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGC
AAACCTAGGGAGGCAAGGCTAATG
Found at i:1772881 original size:44 final size:43
Alignment explanation
Indices: 1772833--1772972 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 43
1772823 AAACTCAAGG
1772833 AGGCAAGGCTAATGTCTTCGATCTGCTTCGCTGCCAATACTGGA
1 AGGCAAGGCTAATGTCTTCGATCTGCTTCGCTGCCAATA-TGGA
* ** * * * * *
1772877 AGGCAAGATCTGCTATCTT-AATTCTGCTTCGCTG-TAAAATTAGA
1 AGGCAAG-GCTAATGTCTTCGA-TCTGCTTCGCTGCCAATA-TGGA
*
1772921 GAGGCAAGGCTAATGTCTTCGATCTGCTTCGCTGCCAGTATAGGA
1 -AGGCAAGGCTAATGTCTTCGATCTGCTTCGCTGCCAATAT-GGA
1772966 AGGCAAG
1 AGGCAAG
1772973 ATCTGCTATT
Statistics
Matches: 72, Mismatches: 18, Indels: 12
0.71 0.18 0.12
Matches are distributed among these distances:
44 41 0.57
45 31 0.43
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (43 bp):
AGGCAAGGCTAATGTCTTCGATCTGCTTCGCTGCCAATATGGA
Found at i:1773002 original size:45 final size:45
Alignment explanation
Indices: 1772936--1773519 Score: 682
Period size: 45 Copynumber: 13.0 Consensus size: 45
1772926 AAGGCTAATG
* * *
1772936 TCTTCGATCTGCTTCGCTGCCAGTATAGGAAGGCAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* * * *
1772981 TTTTTGATCTACTTCGATGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* *
1773026 TCTTCGATCTACTTTGCTGCCAGTACAGGAAGACAAGATCTGCCA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* * *
1773071 TCTTCGATCTACTTTGCTACCAGTACAGGAAGACAAGATCTACTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* *
1773116 TCTTCGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
** * *
1773161 TCTTCGATCTACTTCATTGCCAGTACTA-GAAGACAATATCTGTTA
1 TCTTCGATCTACTTCGCTGCCAGTAC-AGGAAGACAAGATCTGCTA
*
1773206 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* * *
1773251 TCTTCGATCTACTTCGCTGCCAGTACAAGAAGATAAGATCTACTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* *
1773296 T-TATCGATCTACTTTGCTGCCAGTACAGGAAGACAAGATCTACTA
1 TCT-TCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* * * *
1773341 TATTCAATCTACTTCACTGCCACTACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* * * * *
1773386 TCTTCGATCTATTTTGCTGCCAGTACAGAAAGATAAGATTTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* * * * *
1773431 TTTTC-AACTTACTCTACTGCTG-C--T-CAAGG-AGATAAG-GCTGGTA
1 TCTTCGATC-TACT-T-C-GCTGCCAGTAC-AGGAAGACAAGATCTGCTA
* *
1773474 TCTTCGATTTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
1773519 T
1 T
1773520 TTTCAACCAA
Statistics
Matches: 456, Mismatches: 67, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
40 4 0.01
41 2 0.00
42 1 0.00
43 16 0.04
44 20 0.04
45 405 0.89
46 3 0.01
47 1 0.00
48 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (45 bp):
TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
Found at i:1775800 original size:6 final size:6
Alignment explanation
Indices: 1775784--1775824 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
1775774 TTGGCTTCTC
* *
1775784 CTTTTT C-TTTT CTTTTT CTTTTT C-CTTT CCTTTT CTTTTT C
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C
1775825 CATCATTTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
5 9 0.30
6 21 0.70
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (6 bp):
CTTTTT
Found at i:1775806 original size:17 final size:17
Alignment explanation
Indices: 1775784--1775825 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
1775774 TTGGCTTCTC
* *
1775784 CTTTTTCTTTTCTTTTT
1 CTTTTTCCTTTCCTTTT
1775801 CTTTTTCCTTTCCTTTT
1 CTTTTTCCTTTCCTTTT
1775818 CTTTTTCC
1 CTTTTTCC
1775826 ATCATTTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
CTTTTTCCTTTCCTTTT
Found at i:1776717 original size:25 final size:25
Alignment explanation
Indices: 1776664--1776717 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
1776654 AAGAAAATCC
* *
1776664 AAAAGAATGAAAGAATAATTATTCG
1 AAAAGAATGAAAGAATAATTACTCA
1776689 AAAAGAATGAAAGAAT-ATTGACTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
1776714 AAAA
1 AAAA
1776718 TAAATGCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.59, C:0.06, G:0.15, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:1778931 original size:50 final size:51
Alignment explanation
Indices: 1778872--1778968 Score: 187
Period size: 51 Copynumber: 1.9 Consensus size: 51
1778862 GCACTCTTTT
1778872 CCTGTTTTTCTTTTCTTTT-TTTTCTGTAAAATCGATTTCGTTTTTCATTC
1 CCTGTTTTTCTTTTCTTTTCTTTTCTGTAAAATCGATTTCGTTTTTCATTC
1778922 CCTGTTTTTCTTTTCTTTTCTTTTCTGTAAAATCGATTTCGTTTTTC
1 CCTGTTTTTCTTTTCTTTTCTTTTCTGTAAAATCGATTTCGTTTTTC
1778969 TTTTCTCCAT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 19 0.41
51 27 0.59
ACGTcount: A:0.11, C:0.19, G:0.08, T:0.62
Consensus pattern (51 bp):
CCTGTTTTTCTTTTCTTTTCTTTTCTGTAAAATCGATTTCGTTTTTCATTC
Found at i:1779343 original size:46 final size:46
Alignment explanation
Indices: 1779290--1779382 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
1779280 ATGTATCTGA
* *
1779290 GAAAGTTTATTCTGTGAAGCATCATAGTTTTTGATTGCAAGTCTTT
1 GAAAGTTTATTCTGTGAAGCATAATAGTTTCTGATTGCAAGTCTTT
*
1779336 GAAAGTTTATTCTGTGAAGCCTAATAGTTTCTGATTGCAAGTCTTT
1 GAAAGTTTATTCTGTGAAGCATAATAGTTTCTGATTGCAAGTCTTT
1779382 G
1 G
1779383 TTCTTTAAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (46 bp):
GAAAGTTTATTCTGTGAAGCATAATAGTTTCTGATTGCAAGTCTTT
Found at i:1782096 original size:59 final size:60
Alignment explanation
Indices: 1782032--1782198 Score: 145
Period size: 54 Copynumber: 2.8 Consensus size: 60
1782022 GATTATATAT
*
1782032 TATTTTCATAGTATTATATAATATGATTTTAGTAAATTCATATAAGAATAATTATATT-GA
1 TATTTT-ATAGTATTATATAATATGATTTTAGTAAATTCATATAAGAATAATTATATTAAA
* * * * *
1782092 -ATTTTAT--TA--A-ATTATAT-ATTTTAACTAAATT-ATATTTAATATTAATTATTTTAAATT
1 TATTTTATAGTATTATATAATATGATTTT-AGTAAATTCATA--TAAGAATAATTATATT-AA--
1782149 A
60 A
*
1782150 TATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATA
1 TATTTTATAGTATTATATAATATGATTTTAGTAAATTCATATAAGAATA
1782199 TTGATTATTA
Statistics
Matches: 81, Mismatches: 11, Indels: 27
0.68 0.09 0.23
Matches are distributed among these distances:
52 8 0.10
53 13 0.16
54 14 0.17
56 2 0.02
58 3 0.04
59 12 0.15
61 2 0.02
63 7 0.09
64 12 0.15
65 8 0.10
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (60 bp):
TATTTTATAGTATTATATAATATGATTTTAGTAAATTCATATAAGAATAATTATATTAAA
Found at i:1782149 original size:14 final size:14
Alignment explanation
Indices: 1782098--1782149 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
1782088 TTGAATTTTA
1782098 TTAAATT-ATATATT
1 TTAAATTAAT-TATT
* *
1782112 TTAACTAAATTATAT
1 TTAAATTAATTAT-T
1782127 TTAATATTAATTATT
1 TTAA-ATTAATTATT
1782142 TTAAATTA
1 TTAAATTA
1782150 TATTTTATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 12 0.39
15 12 0.39
16 7 0.23
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (14 bp):
TTAAATTAATTATT
Found at i:1782174 original size:117 final size:120
Alignment explanation
Indices: 1782032--1782252 Score: 369
Period size: 117 Copynumber: 1.9 Consensus size: 120
1782022 GATTATATAT
1782032 TATTTTCATAGTATTATATAATATGATTTTAGTAAATTCATATAAGAATAATT-A-TATT-GAAT
1 TATTTTCATAGTATTATATAATATGATTTTAGTAAATTCATATAAGAAT-ATTGATTATTAGAAT
*
1782094 TTTATTAAATTATATATTTTAACTAAATTATATTTAATATTAATTATTTTAAATTA
65 TTTATTAAATTATATATTTTAACTAAAATATATTTAATATTAATTATTTTAAATTA
*
1782150 TATTTT-ATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAAT
1 TATTTTCATAGTATTATATAATATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AGAAT
*
1782214 TTTATTAAATTATATATTTTAATTAAAATATATTTAATA
65 TTTATTAAATTATATATTTTAACTAAAATATATTTAATA
1782253 ATTATGTTAA
Statistics
Matches: 96, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
116 3 0.03
117 42 0.44
118 10 0.10
120 41 0.43
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (120 bp):
TATTTTCATAGTATTATATAATATGATTTTAGTAAATTCATATAAGAATATTGATTATTAGAATT
TTATTAAATTATATATTTTAACTAAAATATATTTAATATTAATTATTTTAAATTA
Found at i:1782240 original size:18 final size:17
Alignment explanation
Indices: 1782212--1782246 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1782202 ATTATTAAGA
*
1782212 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
1782229 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
1782247 TTAATAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:1782498 original size:45 final size:44
Alignment explanation
Indices: 1782387--1782501 Score: 151
Period size: 44 Copynumber: 2.6 Consensus size: 44
1782377 TTTTTCCCTT
* * * *
1782387 ATGCTATTACACCTCCACTCCATTCCATTCAACCAAACACAAGA
1 ATGCTATTACGCCTCTATTCCATTACATTCAACCAAACACAAGA
* *
1782431 ATACTATTACGCCTCTATTCCATTACATTCAACCAAACA-ATTGA
1 ATGCTATTACGCCTCTATTCCATTACATTCAACCAAACACA-AGA
1782475 ATTGCTATTACGCCTCTATTCCATTAC
1 A-TGCTATTACGCCTCTATTCCATTAC
1782502 GCTTCTATTC
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
43 1 0.02
44 37 0.60
45 24 0.39
ACGTcount: A:0.33, C:0.31, G:0.05, T:0.30
Consensus pattern (44 bp):
ATGCTATTACGCCTCTATTCCATTACATTCAACCAAACACAAGA
Found at i:1782502 original size:16 final size:16
Alignment explanation
Indices: 1782481--1782533 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
1782471 TTGAATTGCT
1782481 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
1782497 ATTACGCTTCTATTCC
1 ATTACGCCTCTATTCC
*
1782513 ATTACGCCTCCATTCC
1 ATTACGCCTCTATTCC
1782529 ATTAC
1 ATTAC
1782534 AGCGAACCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:1783263 original size:19 final size:19
Alignment explanation
Indices: 1783239--1783275 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1783229 CAACATATCA
1783239 TAATAAAACAAAATTTTAG
1 TAATAAAACAAAATTTTAG
* *
1783258 TAATAATACATAATTTTA
1 TAATAAAACAAAATTTTA
1783276 AAACAAGTGT
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:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
TAATAAAACAAAATTTTAG
Found at i:1783451 original size:15 final size:15
Alignment explanation
Indices: 1783428--1783466 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
1783418 GTATAAAGAT
* *
1783428 ATAAAAATAATAGGA
1 ATAATAATAATAGCA
1783443 ATAATAATAATAGCA
1 ATAATAATAATAGCA
1783458 ATAATAATA
1 ATAATAATA
1783467 TAAAATACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.26
Consensus pattern (15 bp):
ATAATAATAATAGCA
Found at i:1787742 original size:3 final size:3
Alignment explanation
Indices: 1787731--1787789 Score: 109
Period size: 3 Copynumber: 19.3 Consensus size: 3
1787721 TCTTTTTTTC
1787731 CTT CTTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1787777 CTT CTT CTT CTT C
1 CTT CTT CTT CTT C
1787790 CCTCGACCCA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:1787742 original size:56 final size:54
Alignment explanation
Indices: 1787641--1787756 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
1787631 TTCTTTTGAC
* * * *
1787641 TCTTCCCCCCCAAAATTTTTTGTCGTTGTTTTTTTTTCCTTCTTCTTTTTCTTCT
1 TCTT-CCCCCCAAAATTTTTTGACATTCTTTTTTTTTCCTTCTTCTTCTTCTTCT
* *
1787696 TCTTCCCCCCAAATTTTTTTGACATTCTTTTTTTCCTTCTTTCTTCTTCTTCTTCT
1 TCTTCCCCCCAAAATTTTTTGACATTCTTTTTTT--TTCCTTCTTCTTCTTCTTCT
1787752 TCTTC
1 TCTTC
1787757 TTCTTCTTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 26 0.49
55 4 0.08
56 23 0.43
ACGTcount: A:0.08, C:0.29, G:0.03, T:0.59
Consensus pattern (54 bp):
TCTTCCCCCCAAAATTTTTTGACATTCTTTTTTTTTCCTTCTTCTTCTTCTTCT
Found at i:1799168 original size:41 final size:40
Alignment explanation
Indices: 1799123--1799224 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 40
1799113 TGATTCAGTA
1799123 CACCGGCACTTAGCCTGCTAGACATATAGTCTAAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCTAAAATATTT
* * *
1799164 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTAAAATATTT
*
1799205 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
1799225 AGCGCTATGC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
40 2 0.04
41 51 0.93
42 2 0.04
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTAAAATATTT
Found at i:1801104 original size:29 final size:28
Alignment explanation
Indices: 1801068--1801173 Score: 95
Period size: 29 Copynumber: 3.7 Consensus size: 28
1801058 ACAGAAATTT
* *
1801068 GCCATAAAGGCGTTTCCTTTTAGAGTTTC
1 GCCACAAAGGC-TTACCTTTTAGAGTTTC
* * *
1801097 GCCATAAAGGCTTACCTTTCCAGAGTTTT
1 GCCACAAAGGCTTACCTTT-TAGAGTTTC
* * * *
1801126 GCCACAAAGGTGTTTCTTTTTAGAGGTTC
1 GCCACAAAGG-CTTACCTTTTAGAGTTTC
*
1801155 ACCACAAAGGCTTACCTTT
1 GCCACAAAGGCTTACCTTT
1801174 CCAGATTTTG
Statistics
Matches: 61, Mismatches: 14, Indels: 5
0.76 0.17 0.06
Matches are distributed among these distances:
28 13 0.21
29 42 0.69
30 6 0.10
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (28 bp):
GCCACAAAGGCTTACCTTTTAGAGTTTC
Found at i:1801135 original size:58 final size:57
Alignment explanation
Indices: 1801065--1801266 Score: 217
Period size: 58 Copynumber: 3.5 Consensus size: 57
1801055 TTGACAGAAA
* *
1801065 TTTGCCATAAAGGCGTTTCCTTTTAGAGTTTCGCCATAAAGGCTTACCTTTCCAGAGT
1 TTTGCCATAAAGGCGTTTCCTTTTAGAGGTTCACCA-AAAGGCTTACCTTTCCAGAGT
* * *
1801123 TTTGCCACAAAGGTGTTTCTTTTTAGAGGTTCACCACAAAGGCTTACCTTTCCAGA-T
1 TTTGCCATAAAGGCGTTTCCTTTTAGAGGTTCACCA-AAAGGCTTACCTTTCCAGAGT
* * * * * * * * * *
1801180 TTTGTCATGAAGGCATTTCCATTCAAAGGTACACTAAAAGGTTTACTTTTCCAGAGT
1 TTTGCCATAAAGGCGTTTCCTTTTAGAGGTTCACCAAAAGGCTTACCTTTCCAGAGT
* * *
1801237 TTTTCCATAAAGGTGTTTCATTTTAGAGGT
1 TTTGCCATAAAGGCGTTTCCTTTTAGAGGT
1801267 GTTTTATGCG
Statistics
Matches: 115, Mismatches: 28, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
56 17 0.15
57 48 0.42
58 50 0.43
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (57 bp):
TTTGCCATAAAGGCGTTTCCTTTTAGAGGTTCACCAAAAGGCTTACCTTTCCAGAGT
Found at i:1803992 original size:21 final size:21
Alignment explanation
Indices: 1803968--1804013 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1803958 CACATGACTG
*
1803968 TGTGGCTATCCC-ACACGCCCA
1 TGTGGCTA-CCCTACACACCCA
*
1803989 TGTGTCTACCCTACACACCCA
1 TGTGGCTACCCTACACACCCA
1804010 TGTG
1 TGTG
1804014 CTCACCCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.20, C:0.39, G:0.17, T:0.24
Consensus pattern (21 bp):
TGTGGCTACCCTACACACCCA
Found at i:1805195 original size:40 final size:40
Alignment explanation
Indices: 1805123--1805214 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 40
1805113 GACAACACCA
* *
1805123 GCACAAAGCCTGCTAGGCATAAAGCCCAATAAACACA-CTG
1 GCACAAAGCCTACTAGGCACAAAGCCCAATAAACACATC-G
* *** *
1805163 GCACAAAGCCTATTAGGCACAAAGCTTGATAAATACATCG
1 GCACAAAGCCTACTAGGCACAAAGCCCAATAAACACATCG
*
1805203 GCATAAAGCCTA
1 GCACAAAGCCTA
1805215 ATAGATAACA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 42 0.98
41 1 0.02
ACGTcount: A:0.40, C:0.26, G:0.17, T:0.16
Consensus pattern (40 bp):
GCACAAAGCCTACTAGGCACAAAGCCCAATAAACACATCG
Found at i:1811651 original size:18 final size:17
Alignment explanation
Indices: 1811622--1811685 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
1811612 AAGAAAACAT
1811622 TTTGAAATTGAATAACGA
1 TTTGAAA-TGAATAACGA
* *
1811640 TTTGTAAATGAATAATGT
1 TTTG-AAATGAATAACGA
*
1811658 TTTGGAAACGAATGACACGA
1 TTT-GAAATGAAT-A-ACGA
1811678 TTTGAAAT
1 TTTGAAAT
1811686 TAACATAAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
18 22 0.61
19 9 0.25
20 5 0.14
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.34
Consensus pattern (17 bp):
TTTGAAATGAATAACGA
Found at i:1815853 original size:22 final size:22
Alignment explanation
Indices: 1815822--1815866 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1815812 TGATTGGTAC
1815822 AATATTAATACTTTAAATATTTA
1 AATATTAATACTTTAAAT-TTTA
* *
1815845 AATA-TAATATTTTGAATTTTA
1 AATATTAATACTTTAAATTTTA
1815866 A
1 A
1815867 GGACCAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
AATATTAATACTTTAAATTTTA
Found at i:1819970 original size:24 final size:24
Alignment explanation
Indices: 1819943--1819990 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1819933 AAATAATCAG
*
1819943 AGTTTAACTTGGAAAAGATAGAAA
1 AGTTTAACTAGGAAAAGATAGAAA
* *
1819967 AGTTTAACTAGGAGAAGATTGAAA
1 AGTTTAACTAGGAAAAGATAGAAA
1819991 TTCCAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.48, C:0.04, G:0.23, T:0.25
Consensus pattern (24 bp):
AGTTTAACTAGGAAAAGATAGAAA
Found at i:1823138 original size:13 final size:13
Alignment explanation
Indices: 1823120--1823144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1823110 TTATACATTC
1823120 TTTTTTTATTTAA
1 TTTTTTTATTTAA
1823133 TTTTTTTATTTA
1 TTTTTTTATTTA
1823145 TTATTTGTCA
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTTATTTAA
Found at i:1823138 original size:15 final size:18
Alignment explanation
Indices: 1823106--1823148 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
1823096 GTTCTTAAAA
1823106 TTTATTATACATTCTTTT
1 TTTATTATACATTCTTTT
*
1823124 TTTATT-TA-ATTTTTTT
1 TTTATTATACATTCTTTT
1823140 ATTTATTAT
1 -TTTATTAT
1823149 TTGTCAACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.32
17 8 0.36
18 7 0.32
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTATACATTCTTTT
Found at i:1823805 original size:19 final size:19
Alignment explanation
Indices: 1823783--1823819 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1823773 TATTTTTAAT
1823783 AATATTATGGG-TTTTTTTA
1 AATATTA-GGGATTTTTTTA
1823802 AATATTAGGGATTTTTTT
1 AATATTAGGGATTTTTTT
1823820 TGCATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.57
Consensus pattern (19 bp):
AATATTAGGGATTTTTTTA
Found at i:1823816 original size:18 final size:19
Alignment explanation
Indices: 1823783--1823818 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1823773 TATTTTTAAT
*
1823783 AATATTATGGGTTTTTTTA
1 AATATTATGGGATTTTTTA
1823802 AATATTA-GGGATTTTTT
1 AATATTATGGGATTTTTT
1823819 TTGCATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.56
Consensus pattern (19 bp):
AATATTATGGGATTTTTTA
Found at i:1823984 original size:9 final size:9
Alignment explanation
Indices: 1823953--1823977 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1823943 TCCAAACAAT
1823953 TTTTTAAAA
1 TTTTTAAAA
1823962 TTTTTAAAA
1 TTTTTAAAA
1823971 TTTTTAA
1 TTTTTAA
1823978 TTTTTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:1827105 original size:19 final size:19
Alignment explanation
Indices: 1827081--1827118 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1827071 AGATTCATCC
1827081 AAGAAAGGTATTAAACCAA
1 AAGAAAGGTATTAAACCAA
*
1827100 AAGAAAGGTATTAAGCCAA
1 AAGAAAGGTATTAAACCAA
1827119 CATTACAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.11, G:0.18, T:0.16
Consensus pattern (19 bp):
AAGAAAGGTATTAAACCAA
Found at i:1827748 original size:18 final size:17
Alignment explanation
Indices: 1827727--1827770 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
1827717 TTCAAAAAAA
1827727 TATAAATTTTGGAACTTT
1 TATAAATTTTGGAA-TTT
*
1827745 TATAAATATTTTGAATTT
1 TATAAAT-TTTGGAATTT
*
1827763 TAAAAATT
1 TATAAATT
1827771 ATTTTGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 16 0.70
19 6 0.26
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (17 bp):
TATAAATTTTGGAATTT
Found at i:1827775 original size:19 final size:18
Alignment explanation
Indices: 1827732--1827780 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
1827722 AAAAATATAA
*
1827732 ATTTTGGAACTTTTATAAAT
1 ATTTT-GAA-TTTTAAAAAT
1827752 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAA-T
1827771 ATTTTGAATT
1 ATTTTGAATT
1827781 GTTTTGTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 8 0.30
19 14 0.52
20 5 0.19
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (18 bp):
ATTTTGAATTTTAAAAAT
Found at i:1832430 original size:159 final size:159
Alignment explanation
Indices: 1832141--1832464 Score: 648
Period size: 159 Copynumber: 2.0 Consensus size: 159
1832131 TTAATTCATT
1832141 TTTGTTCACGAACAAACTTATTTCAATCTAATTAAAATATTGTTTATTATTCAATGATTAATATC
1 TTTGTTCACGAACAAACTTATTTCAATCTAATTAAAATATTGTTTATTATTCAATGATTAATATC
1832206 AATATTATTTTACTTTATTTATTTATATTGTAATTGTTAATACTTACTTCTAAAGTACTAATAAA
66 AATATTATTTTACTTTATTTATTTATATTGTAATTGTTAATACTTACTTCTAAAGTACTAATAAA
1832271 TTTATTTATTTGTGGTTTATTTATTTAAG
131 TTTATTTATTTGTGGTTTATTTATTTAAG
1832300 TTTGTTCACGAACAAACTTATTTCAATCTAATTAAAATATTGTTTATTATTCAATGATTAATATC
1 TTTGTTCACGAACAAACTTATTTCAATCTAATTAAAATATTGTTTATTATTCAATGATTAATATC
1832365 AATATTATTTTACTTTATTTATTTATATTGTAATTGTTAATACTTACTTCTAAAGTACTAATAAA
66 AATATTATTTTACTTTATTTATTTATATTGTAATTGTTAATACTTACTTCTAAAGTACTAATAAA
1832430 TTTATTTATTTGTGGTTTATTTATTTAAG
131 TTTATTTATTTGTGGTTTATTTATTTAAG
1832459 TTTGTT
1 TTTGTT
1832465 AGTTTATTAT
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
159 165 1.00
ACGTcount: A:0.33, C:0.08, G:0.07, T:0.52
Consensus pattern (159 bp):
TTTGTTCACGAACAAACTTATTTCAATCTAATTAAAATATTGTTTATTATTCAATGATTAATATC
AATATTATTTTACTTTATTTATTTATATTGTAATTGTTAATACTTACTTCTAAAGTACTAATAAA
TTTATTTATTTGTGGTTTATTTATTTAAG
Found at i:1832561 original size:23 final size:23
Alignment explanation
Indices: 1832517--1832561 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1832507 GTTTGATTAT
*
1832517 ATGTTTATAAATATATTTATTTA
1 ATGTTTATAAATATATTCATTTA
* * *
1832540 ATGTTTGTGAATATGTTCATTT
1 ATGTTTATAAATATATTCATTT
1832562 GAGGTGGATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (23 bp):
ATGTTTATAAATATATTCATTTA
Found at i:1834248 original size:46 final size:46
Alignment explanation
Indices: 1834181--1834273 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
1834171 ATTGGTGGGG
1834181 AAAGAGCGATTAGAACTTGTTCCTGGTCTTAAACCCACGTTTTTAA
1 AAAGAGCGATTAGAACTTGTTCCTGGTCTTAAACCCACGTTTTTAA
*
1834227 AAAGAGTGATTAGAACTTGTTCCTGGTCTTAAACCCACGTTTTTAA
1 AAAGAGCGATTAGAACTTGTTCCTGGTCTTAAACCCACGTTTTTAA
1834273 A
1 A
1834274 TTGTGGTGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (46 bp):
AAAGAGCGATTAGAACTTGTTCCTGGTCTTAAACCCACGTTTTTAA
Found at i:1834543 original size:25 final size:26
Alignment explanation
Indices: 1834515--1834564 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
1834505 ATTTAATTAA
1834515 AAAATTATAATTT-AGTCATTGAACG
1 AAAATTATAATTTAAGTCATTGAACG
* * *
1834540 AAAATTTTCATTTAAGTCGTTGAAC
1 AAAATTATAATTTAAGTCATTGAAC
1834565 TTGGAGGTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (26 bp):
AAAATTATAATTTAAGTCATTGAACG
Found at i:1836833 original size:1 final size:1
Alignment explanation
Indices: 1836827--1836852 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
1836817 TGGGTTAAAA
1836827 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
1836853 GTAAATCGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1837291 original size:20 final size:19
Alignment explanation
Indices: 1837266--1837305 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1837256 GTTTTTCCGG
1837266 TATTGAACTCCTTAGATTAC
1 TATTGAACT-CTTAGATTAC
* *
1837286 TATTGAAGTGTTAGATTAC
1 TATTGAACTCTTAGATTAC
1837305 T
1 T
1837306 TGTACATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (19 bp):
TATTGAACTCTTAGATTAC
Found at i:1837668 original size:6 final size:6
Alignment explanation
Indices: 1837657--1837685 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
1837647 GTTACCGACC
1837657 AAGATG AAGATG AAGATG AAGATG AAGAT
1 AAGATG AAGATG AAGATG AAGATG AAGAT
1837686 TTTAGTACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.31, T:0.17
Consensus pattern (6 bp):
AAGATG
Found at i:1843661 original size:8 final size:8
Alignment explanation
Indices: 1843648--1843692 Score: 81
Period size: 8 Copynumber: 5.6 Consensus size: 8
1843638 AAAATATATC
*
1843648 AAAAAACT
1 AAAAAAAT
1843656 AAAAAAAT
1 AAAAAAAT
1843664 AAAAAAAT
1 AAAAAAAT
1843672 AAAAAAAT
1 AAAAAAAT
1843680 AAAAAAAT
1 AAAAAAAT
1843688 AAAAA
1 AAAAA
1843693 CCAGAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.87, C:0.02, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:1843813 original size:27 final size:27
Alignment explanation
Indices: 1843735--1843815 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
1843725 TCCCTGGGTG
**
1843735 GAGGGAAGCAGGTTGGCGGCACCAAAC
1 GAGGGAAGCAGGTTGGCGGCACCAGTC
*
1843762 AAGGGAAGCAGGTTGGCGGCACCAGTC
1 GAGGGAAGCAGGTTGGCGGCACCAGTC
*
1843789 GAGGGAACCAGGTTGGCGGCACCAGTC
1 GAGGGAAGCAGGTTGGCGGCACCAGTC
1843816 CTACCAACCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.26, C:0.23, G:0.41, T:0.10
Consensus pattern (27 bp):
GAGGGAAGCAGGTTGGCGGCACCAGTC
Found at i:1843824 original size:27 final size:27
Alignment explanation
Indices: 1843743--1843837 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 27
1843733 TGGAGGGAAG
** * ** *
1843743 CAGGTTGGCGGCACCAAACAAGGGAAG
1 CAGGTTGGCGGCACCAGTCGAGCCAAC
**
1843770 CAGGTTGGCGGCACCAGTCGAGGGAAC
1 CAGGTTGGCGGCACCAGTCGAGCCAAC
*
1843797 CAGGTTGGCGGCACCAGTCCTA-CCAAC
1 CAGGTTGGCGGCACCAGT-CGAGCCAAC
*
1843824 CAGATTGGCGGCAC
1 CAGGTTGGCGGCAC
1843838 TACTCGTGTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
27 57 0.97
28 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (27 bp):
CAGGTTGGCGGCACCAGTCGAGCCAAC
Found at i:1844133 original size:3 final size:3
Alignment explanation
Indices: 1844125--1844183 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
1844115 AATTTTATAG
1844125 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1844173 TAT TAT TAT TA
1 TAT TAT TAT TA
1844184 AGGTATTAAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1844961 original size:18 final size:18
Alignment explanation
Indices: 1844933--1844977 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1844923 TTGATATGGT
* *
1844933 TGGTGGTGAAGAAGAATG
1 TGGTGGCGAAGAAGAAGG
*
1844951 TGGTTGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
1844969 TGGTGGCGA
1 TGGTGGCGA
1844978 TCATTGGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.47, T:0.20
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:1847377 original size:14 final size:14
Alignment explanation
Indices: 1847358--1847386 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1847348 TAACTAAAAA
1847358 TAGAATAATTAAAT
1 TAGAATAATTAAAT
1847372 TAGAATAATTAAAT
1 TAGAATAATTAAAT
1847386 T
1 T
1847387 GATACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
TAGAATAATTAAAT
Found at i:1848358 original size:17 final size:17
Alignment explanation
Indices: 1848336--1848372 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
1848326 AGTAAGATGT
1848336 CATGAATATTAGAATAG
1 CATGAATATTAGAATAG
1848353 CATGAATATTAGAATAG
1 CATGAATATTAGAATAG
1848370 CAT
1 CAT
1848373 CTTACCCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (17 bp):
CATGAATATTAGAATAG
Found at i:1849735 original size:27 final size:28
Alignment explanation
Indices: 1849703--1849767 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
1849693 TTTTTGATAC
1849703 ATTTTGGTAAAT-AAAAAAA-TTATATAT
1 ATTTTGGTAAATAAAAAAAAGTTATA-AT
*
1849730 TTTTTGGTAAATAAAAAAAAGTTATAAT
1 ATTTTGGTAAATAAAAAAAAGTTATAAT
1849758 ATTTTGGTAA
1 ATTTTGGTAA
1849768 TTTTTTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 11 0.32
28 18 0.53
29 5 0.15
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.42
Consensus pattern (28 bp):
ATTTTGGTAAATAAAAAAAAGTTATAAT
Found at i:1849826 original size:18 final size:18
Alignment explanation
Indices: 1849803--1849852 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
1849793 TATAAAACCC
*
1849803 ATAATAAAATATTACAAA
1 ATAATAAAATATTAAAAA
1849821 ATAATAAAATATTAAAAA
1 ATAATAAAATATTAAAAA
**
1849839 ATACCAAAATATTA
1 ATAATAAAATATTA
1849853 TATATATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAATAAAATATTAAAAA
Found at i:1850602 original size:10 final size:10
Alignment explanation
Indices: 1850587--1850687 Score: 79
Period size: 10 Copynumber: 10.5 Consensus size: 10
1850577 TTCTCTTCTC
1850587 CTTTCCTTTT
1 CTTTCCTTTT
1850597 CTTTCCTTATT
1 CTTTCCTT-TT
1850608 -TTT-C-TTT
1 CTTTCCTTTT
***
1850615 CTTTCCTCCC
1 CTTTCCTTTT
1850625 CTTTCCTTTT
1 CTTTCCTTTT
1850635 CTTTCCTTCTT
1 CTTTCCTT-TT
1850646 -TTT-C-TTT
1 CTTTCCTTTT
* *
1850653 CTTTCCTCTC
1 CTTTCCTTTT
1850663 CTTTCCTTTT
1 CTTTCCTTTT
* *
1850673 CCTTCTTTTT
1 CTTTCCTTTT
1850683 CTTTC
1 CTTTC
1850688 TTCCTTTCTT
Statistics
Matches: 70, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
7 4 0.06
8 8 0.11
9 4 0.06
10 50 0.71
11 4 0.06
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:1850615 original size:18 final size:18
Alignment explanation
Indices: 1850594--1850704 Score: 95
Period size: 18 Copynumber: 6.1 Consensus size: 18
1850584 CTCCTTTCCT
*
1850594 TTTCTTTCCTTATTTTTC
1 TTTCTTTCCTTCTTTTTC
* * *
1850612 TTTCTTTCCTCCCCTTTCC
1 TTTCTTTCCT-TCTTTTTC
1850631 TTTTCTTTCCTTCTTTTTC
1 -TTTCTTTCCTTCTTTTTC
*
1850650 TTTCTTTCC-TCTCCTTTC
1 TTTCTTTCCTTCT-TTTTC
*
1850668 -CT-TTTCCTTCTTTTTC
1 TTTCTTTCCTTCTTTTTC
1850684 TTTC-TTCCTTTCTTTCTTC
1 TTTCTTTCC-TTCTTT-TTC
1850703 TT
1 TT
1850705 CTTCCCCTCT
Statistics
Matches: 74, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
16 9 0.12
17 12 0.16
18 29 0.39
19 14 0.19
20 10 0.14
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTCTTTCCTTCTTTTTC
Found at i:1850635 original size:38 final size:38
Alignment explanation
Indices: 1850586--1850695 Score: 159
Period size: 38 Copynumber: 2.9 Consensus size: 38
1850576 TTTCTCTTCT
1850586 CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
1 CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
* *
1850624 CCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCT
1 CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
* * *
1850662 CCTTTCCTTTTCCTT-CTTTTTCTTTCTTCCTTTC
1 CCTTTCCTTTTCTTTCCTTATT-TTTCTTTCTTTC
1850696 TTTCTTCTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 5 0.08
38 61 0.92
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.65
Consensus pattern (38 bp):
CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
Found at i:1850648 original size:14 final size:14
Alignment explanation
Indices: 1850631--1850704 Score: 55
Period size: 14 Copynumber: 5.1 Consensus size: 14
1850621 TCCCCTTTCC
1850631 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
1850645 TTTTCTTTCTTTCCT
1 TTTTCTTTCCTT-CT
1850660 CTCCTTTCCTTTTCCTTCT
1 -T--TTT-C-TTTCCTTCT
1850679 TTTTCTTT-CTTC-
1 TTTTCTTTCCTTCT
*
1850691 CTTTCTTT-CTTCT
1 TTTTCTTTCCTTCT
1850704 T
1 T
1850705 CTTCCCCTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
12 11 0.22
13 4 0.08
14 14 0.29
15 3 0.06
16 4 0.08
18 4 0.08
19 3 0.06
20 6 0.12
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:1850656 original size:28 final size:28
Alignment explanation
Indices: 1850625--1850704 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 28
1850615 CTTTCCTCCC
1850625 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
1 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
1850653 CTTTCCTCTCCTTTCCTTTTCCTTCTTTTTCTTT
1 CTTT-C-CT--TTT-C-TTTCCTTCTTTTTCTTT
1850687 C-TTCC-TTTCTTT-CTTCTT
1 CTTTCCTTTTCTTTCCTTCTT
1850705 CTTCCCCTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 6 0.13
26 3 0.07
27 1 0.02
28 7 0.15
29 1 0.02
30 2 0.04
31 1 0.02
32 4 0.09
33 3 0.07
34 18 0.39
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCCTTCTTTTTCTTT
Found at i:1850688 original size:10 final size:10
Alignment explanation
Indices: 1850636--1850707 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
1850626 TTTCCTTTTC
*
1850636 TTTCCTTCTT
1 TTTCTTTCTT
1850646 TTTCTTTCTT
1 TTTCTTTCTT
*
1850656 TCCTCTCCTTTCCT
1 T--T-T-CTTTCTT
*
1850670 TTTCCTTCTT
1 TTTCTTTCTT
1850680 TTTCTTTCTT
1 TTTCTTTCTT
1850690 CCTTTCTTTCTT
1 --TTTCTTTCTT
*
1850702 CTTCTT
1 TTTCTT
1850708 CCCCTCTCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 29 0.58
11 1 0.02
12 12 0.24
13 1 0.02
14 7 0.14
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:1850700 original size:22 final size:23
Alignment explanation
Indices: 1850665--1850707 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1850655 TTCCTCTCCT
*
1850665 TTCCTTTTCCTTCTTTTTCTTTC
1 TTCCTTTTCCTTCTTCTTCTTTC
*
1850688 TTCC-TTTCTTTCTTCTTCTT
1 TTCCTTTTCCTTCTTCTTCTT
1850708 CCCCTCTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
TTCCTTTTCCTTCTTCTTCTTTC
Found at i:1850705 original size:28 final size:30
Alignment explanation
Indices: 1850627--1850708 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 30
1850617 TTCCTCCCCT
*
1850627 TTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCC
1 TTCC-TTTCTTT-CTTCTTCTTCTTTCTTTCC
*
1850659 TCTCCTTTCCTTT-TCCTTCTT-TTTCTTT-C
1 T-TCCTTT-CTTTCTTCTTCTTCTTTCTTTCC
1850688 TTCCTTTCTTTCTTCTTCTTC
1 TTCCTTTCTTTCTTCTTCTTC
1850709 CCCTCTCATT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
27 4 0.09
28 13 0.30
29 2 0.05
30 7 0.16
31 6 0.14
32 4 0.09
33 7 0.16
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (30 bp):
TTCCTTTCTTTCTTCTTCTTCTTTCTTTCC
Found at i:1850721 original size:42 final size:40
Alignment explanation
Indices: 1850606--1850721 Score: 96
Period size: 42 Copynumber: 2.9 Consensus size: 40
1850596 TCTTTCCTTA
* *
1850606 TTTTTCTTTCTTTCCTCCCCTT-TCCT-T--TTCTTTCCTTC
1 TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCATTCTTT--TTC
* * * *
1850644 TTTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTTCTTTTTC
1 TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCATTCTTTTTC
* *
1850684 TTTCTTCCTTTCTTTCTTCTTCTTCCCCTCTCATTCTT
1 TTT-TT-CTTTCTTTCCTCTCCTTCCCCTCTCATTCTT
1850722 CCCCCACCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
38 21 0.33
39 2 0.03
40 7 0.11
41 2 0.03
42 31 0.49
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCATTCTTTTTC
Found at i:1850891 original size:27 final size:28
Alignment explanation
Indices: 1850860--1850933 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
1850850 TTTTTTGTTT
1850860 TTTATATATTTTGGTAAATAAAAAAAAA
1 TTTATATATTTTGGTAAATAAAAAAAAA
1850888 TTATATATATTTTGGTAAAT-AAAAAAAA
1 TT-TATATATTTTGGTAAATAAAAAAAAA
* *
1850916 GTTATAACATTTTGGTAA
1 TTTAT-ATATTTTGGTAA
1850934 TTTTTTTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 3 0.07
28 22 0.52
29 17 0.40
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.41
Consensus pattern (28 bp):
TTTATATATTTTGGTAAATAAAAAAAAA
Found at i:1850894 original size:29 final size:29
Alignment explanation
Indices: 1850862--1850933 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
1850852 TTTTGTTTTT
1850862 TATATATTTTGGTAAATAAAAAAAAATTA
1 TATATATTTTGGTAAATAAAAAAAAATTA
*
1850891 TATATATTTTGGTAAATAAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAAATTA
*
1850920 TA-ACATTTTGGTAA
1 TATATATTTTGGTAA
1850934 TTTTTTTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 11 0.27
29 30 0.73
ACGTcount: A:0.50, C:0.01, G:0.10, T:0.39
Consensus pattern (29 bp):
TATATATTTTGGTAAATAAAAAAAAATTA
Found at i:1855933 original size:29 final size:29
Alignment explanation
Indices: 1855875--1855929 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
1855865 GAAGTGGTTG
* *
1855875 TTGAACCACTAAACTTTTAATATTAAATA
1 TTGAACCACTAAACCTTAAATATTAAATA
1855904 TTGAACC-CTAAACCTTAAATATTAAA
1 TTGAACCACTAAACCTTAAATATTAAA
1855930 ATATATATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.35
Consensus pattern (29 bp):
TTGAACCACTAAACCTTAAATATTAAATA
Found at i:1856491 original size:28 final size:28
Alignment explanation
Indices: 1856460--1856537 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 28
1856450 AGACCTTAAG
1856460 CCCAAAACCTTAAA-ATTGAAACCATAAA-
1 CCCAAAACCTTAAACA-T-AAACCATAAAC
**
1856488 CCCAAAATATTAAACCATAAACCATAAAC
1 CCCAAAACCTTAAA-CATAAACCATAAAC
1856517 CCCAAAACCTTAAAC-TAAACC
1 CCCAAAACCTTAAACATAAACC
1856538 TCTAAATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
27 6 0.14
28 23 0.53
29 13 0.30
30 1 0.02
ACGTcount: A:0.53, C:0.29, G:0.01, T:0.17
Consensus pattern (28 bp):
CCCAAAACCTTAAACATAAACCATAAAC
Found at i:1856564 original size:14 final size:15
Alignment explanation
Indices: 1856557--1856599 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
1856547 AAACTTGAAA
1856557 CCCGAAACTCAAAAG
1 CCCGAAACTCAAAAG
1856572 CCCGAAACTCAAAA-
1 CCCGAAACTCAAAAG
* *
1856586 CACAAAACTCAAAA
1 CCCGAAACTCAAAA
1856600 CTCGAAGCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.53, C:0.33, G:0.07, T:0.07
Consensus pattern (15 bp):
CCCGAAACTCAAAAG
Found at i:1856577 original size:15 final size:14
Alignment explanation
Indices: 1856554--1856605 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
1856544 TAAAAACTTG
1856554 AAACCCGAAACTCA
1 AAACCCGAAACTCA
1856568 AAAGCCCGAAACTCA
1 AAA-CCCGAAACTCA
* *
1856583 AAACACAAAACTCA
1 AAACCCGAAACTCA
*
1856597 AAACTCGAA
1 AAACCCGAA
1856606 GCCCGAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 19 0.58
15 14 0.42
ACGTcount: A:0.54, C:0.31, G:0.08, T:0.08
Consensus pattern (14 bp):
AAACCCGAAACTCA
Found at i:1856713 original size:70 final size:70
Alignment explanation
Indices: 1856583--1856718 Score: 175
Period size: 70 Copynumber: 1.9 Consensus size: 70
1856573 CCGAAACTCA
* * * *
1856583 AAACACAAAACTCAAAACTCGAAGCCCGAAACCCTAAACCTTAAATACTAAACAAAAAATCGTAA
1 AAACACAAAACTCAAAACTCGAAACCCGAAACCCGAAACCTTAAATACAAAACAAAAAATCCTAA
1856648 ACCAT
66 ACCAT
* * * **
1856653 AAACTCAAAACTCGAAATTCGAAACCCGAAACCCGAAA-CTTGAAATACAAAACATTAAATCCTA
1 AAACACAAAACTCAAAACTCGAAACCCGAAACCCGAAACCTT-AAATACAAAACAAAAAATCCTA
1856717 AA
65 AA
1856719 ATAATAACCC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
69 3 0.05
70 53 0.95
ACGTcount: A:0.52, C:0.26, G:0.07, T:0.15
Consensus pattern (70 bp):
AAACACAAAACTCAAAACTCGAAACCCGAAACCCGAAACCTTAAATACAAAACAAAAAATCCTAA
ACCAT
Done.