Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 182 of 203
Found at i:57791159 original size:50 final size:50
Alignment explanation
Indices: 57791041--57791280 Score: 205
Period size: 50 Copynumber: 4.7 Consensus size: 50
57791031 GATAATAACA
* * * ** * * *
57791041 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGAACCTCTCATAT-CGG
* * **
57791090 TGCCAATGCCATATCCCAGATATGGTCTTACATGGAAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGAACCTCTCATATCGG
* *** * *
57791140 TGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATTTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGAACCTCTCATATCGG
* * * *
57791190 TGCCAATGCCATGTCCCAAAAATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGAACCTCTCAT-A--TC---GG
57791246 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG
57791281 GATCTCTTTG
Statistics
Matches: 153, Mismatches: 30, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.24
50 79 0.52
53 2 0.01
56 34 0.22
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGAACCTCTCATATCGG
Found at i:57791216 original size:100 final size:103
Alignment explanation
Indices: 57791090--57791275 Score: 252
Period size: 100 Copynumber: 1.8 Consensus size: 103
57791080 TTTCTTGTAC
* * ** * *
57791090 TGCCAATGCCATATCCCAGATATGGTCTTACATGGAAGTTCTCAT-A-TC-GGTGCCCATGCCAT
1 TGCCAATGCCATATCCCAAAAATGGTCTTACATGGAACCTCTCATAACTCAGATGCCAATGCCAT
57791152 GTCCCAGACATGGTCTTATGGGGGACCTCTCATTTCGG
66 GTCCCAGACATGGTCTTATGGGGGACCTCTCATTTCGG
* *
57791190 TGCCAATGCCATGTCCCAAAAATGGTCTTACATGGGACCTCTCATAACCTCAATGATGCCAATGC
1 TGCCAATGCCATATCCCAAAAATGGTCTTACATGGAACCTCTCATAA-CTC-A-GATGCCAATGC
57791255 CATGTCCCAGACATGGTCTTA
63 CATGTCCCAGACATGGTCTTA
57791276 CATGGGATCT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
100 39 0.54
101 1 0.01
103 2 0.03
106 30 0.42
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (103 bp):
TGCCAATGCCATATCCCAAAAATGGTCTTACATGGAACCTCTCATAACTCAGATGCCAATGCCAT
GTCCCAGACATGGTCTTATGGGGGACCTCTCATTTCGG
Found at i:57793858 original size:95 final size:95
Alignment explanation
Indices: 57793695--57793908 Score: 419
Period size: 95 Copynumber: 2.3 Consensus size: 95
57793685 AGTATTGTCG
*
57793695 GGATTACCAGTCCAGGCTAAATCCCTTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTA
1 GGATTACCTGTCCAGGCTAAATCCCTTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTA
57793760 CTAGTCCAGGCTAAATTCAGACCCTAATTC
66 CTAGTCCAGGCTAAATTCAGACCCTAATTC
57793790 GGATTACCTGTCCAGGCTAAATCCCTTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTA
1 GGATTACCTGTCCAGGCTAAATCCCTTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTA
57793855 CTAGTCCAGGCTAAATTCAGACCCTAATTC
66 CTAGTCCAGGCTAAATTCAGACCCTAATTC
57793885 GGATTACCTGTCCAGGCTAAATCC
1 GGATTACCTGTCCAGGCTAAATCC
57793909 ATTTTCCACA
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 118 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (95 bp):
GGATTACCTGTCCAGGCTAAATCCCTTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTA
CTAGTCCAGGCTAAATTCAGACCCTAATTC
Found at i:57801556 original size:83 final size:83
Alignment explanation
Indices: 57801417--57801581 Score: 312
Period size: 83 Copynumber: 2.0 Consensus size: 83
57801407 TCATATTCAT
* *
57801417 GTGCGCACATTTCCATTTCAGAGAGTACACTCCCGCGAACCTCATCCTTACAGCGGGATTACCAT
1 GTGCGCACATTTCCATTTCAGAGAGCACACTCCCGCGAACCTCATCCTTACAGCGGGATTACCAG
57801482 TTCAGGCTAAATCCCCTG
66 TTCAGGCTAAATCCCCTG
57801500 GTGCGCACATTTCCATTTCAGAGAGCACACTCCCGCGAACCTCATCCTTACAGCGGGATTACCAG
1 GTGCGCACATTTCCATTTCAGAGAGCACACTCCCGCGAACCTCATCCTTACAGCGGGATTACCAG
57801565 TTCAGGCTAAATCCCCT
66 TTCAGGCTAAATCCCCT
57801582 ATAATATAAA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.24
Consensus pattern (83 bp):
GTGCGCACATTTCCATTTCAGAGAGCACACTCCCGCGAACCTCATCCTTACAGCGGGATTACCAG
TTCAGGCTAAATCCCCTG
Found at i:57809549 original size:50 final size:50
Alignment explanation
Indices: 57809421--57809611 Score: 172
Period size: 50 Copynumber: 3.8 Consensus size: 50
57809411 GATAATAAAA
* ** * ** *
57809421 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTTTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATAT-CGG
* * * * **
57809470 TACCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTAATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATATCGG
* * ** * *
57809520 TGCTC-ATGCTATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGC-CAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATATCGG
57809570 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
57809612 TTACCCAAAT
Statistics
Matches: 114, Mismatches: 24, Indels: 7
0.79 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 38 0.33
50 74 0.65
51 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.29
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATATCGG
Found at i:57810965 original size:5 final size:5
Alignment explanation
Indices: 57810955--57810991 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
57810945 CCATAGTCAA
57810955 AATTT AATTT AATTT AATTT AATTT AATTT AATTT AA
1 AATTT AATTT AATTT AATTT AATTT AATTT AATTT AA
57810992 CTTACCTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
AATTT
Found at i:57812955 original size:10 final size:10
Alignment explanation
Indices: 57812929--57812958 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
57812919 ATCTCAATTT
*
57812929 CACACACACA
1 CACACATACA
57812939 CACACATACA
1 CACACATACA
57812949 CACACATACA
1 CACACATACA
57812959 TTCAACACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.43, G:0.00, T:0.07
Consensus pattern (10 bp):
CACACATACA
Found at i:57815279 original size:18 final size:18
Alignment explanation
Indices: 57815245--57815286 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
57815235 TTAACTTTTA
*
57815245 TTTTTGTTTTGTTGTTTG
1 TTTTTGTTTTATTGTTTG
57815263 TTTTT-TTTTATTAGTTTG
1 TTTTTGTTTTATT-GTTTG
*
57815281 TGTTTG
1 TTTTTG
57815287 GTTTCTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.05, C:0.00, G:0.19, T:0.76
Consensus pattern (18 bp):
TTTTTGTTTTATTGTTTG
Found at i:57817173 original size:32 final size:32
Alignment explanation
Indices: 57817132--57817197 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
57817122 AAAGGTTAAC
*
57817132 TACAAACACAGAAAATGAAATAGAGTAAGCAT
1 TACAAACACAGAAAATGAAATAGAGTAACCAT
57817164 TACAAACACAGAAAATGAAATAGAGTAACCAT
1 TACAAACACAGAAAATGAAATAGAGTAACCAT
57817196 TA
1 TA
57817198 AAATAGTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.56, C:0.14, G:0.14, T:0.17
Consensus pattern (32 bp):
TACAAACACAGAAAATGAAATAGAGTAACCAT
Found at i:57817749 original size:25 final size:26
Alignment explanation
Indices: 57817714--57817763 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
57817704 AATACACGGG
57817714 ATATAAATTGCTCACACAAGCTGTGA
1 ATATAAATTGCTCACACAAGCTGTGA
**
57817740 ATAT-AATTGCTCACATGAGCTGTG
1 ATATAAATTGCTCACACAAGCTGTG
57817764 GGTCAGGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (26 bp):
ATATAAATTGCTCACACAAGCTGTGA
Found at i:57819743 original size:17 final size:17
Alignment explanation
Indices: 57819723--57819767 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
57819713 AGATTAGTGG
*
57819723 CATTGTAAGAACATTTA
1 CATTGTGAGAACATTTA
*
57819740 CATTGTGAGAACGTTTA
1 CATTGTGAGAACATTTA
57819757 CATTGTGAGAA
1 CATTGTGAGAA
57819768 AGACAACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (17 bp):
CATTGTGAGAACATTTA
Found at i:57821293 original size:37 final size:39
Alignment explanation
Indices: 57821243--57821349 Score: 127
Period size: 37 Copynumber: 2.8 Consensus size: 39
57821233 CAAAAAATAT
57821243 ATTATTTTAATAGTTTAATATTAGATTTAAT-TT-AA-TG
1 ATTATTTTAATAGTTTAATATTA-ATTTAATATTAAAGTG
* *
57821280 ATTATCTTAATAGTATT-TTATTAATTTAATATTAAAGTG
1 ATTATTTTAATAGT-TTAATATTAATTTAATATTAAAGTG
*
57821319 ATTGTTTTAATA-TTTAAT-TTAATTTAATATT
1 ATTATTTTAATAGTTTAATATTAATTTAATATT
57821350 TATCTTGTAG
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
36 7 0.12
37 35 0.58
38 6 0.10
39 12 0.20
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (39 bp):
ATTATTTTAATAGTTTAATATTAATTTAATATTAAAGTG
Found at i:57821412 original size:12 final size:12
Alignment explanation
Indices: 57821380--57821413 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
57821370 TATTATTTTA
57821380 ATAATATTTAAT
1 ATAATATTTAAT
57821392 ATTAA-ATTTAAT
1 A-TAATATTTAAT
57821404 ATAATATTTA
1 ATAATATTTA
57821414 TCTTGATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 3 0.15
12 14 0.70
13 3 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATAATATTTAAT
Found at i:57824416 original size:43 final size:42
Alignment explanation
Indices: 57824355--57824441 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 42
57824345 GGCAAAGTCT
57824355 TGAGTAGCCCAGAAACTCTAACACGAGAGGAGACAAGAAAGAG
1 TGAGTAGCCCAGAAACTCTAACACGAGAGGAGA-AAGAAAGAG
* *
57824398 TGAGTAGCCTAGAAACTCTGACACGAGAGGAGAAAGAAAGAG
1 TGAGTAGCCCAGAAACTCTAACACGAGAGGAGAAAGAAAGAG
57824440 TG
1 TG
57824442 TCGAAAACCT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
42 11 0.26
43 31 0.74
ACGTcount: A:0.43, C:0.16, G:0.30, T:0.11
Consensus pattern (42 bp):
TGAGTAGCCCAGAAACTCTAACACGAGAGGAGAAAGAAAGAG
Found at i:57826827 original size:67 final size:67
Alignment explanation
Indices: 57826750--57826877 Score: 195
Period size: 67 Copynumber: 1.9 Consensus size: 67
57826740 CTATTTGCCA
** *
57826750 AGTAGTCATCCTAG-AATGGTGAGCTTACAAGTGACCTCCCTCCTTGCTGGTGGTAGGCTTACTA
1 AGTAGTCATCC-AGAAATGGTGAGCTTACAAGTGACCTCCCAACTTGCTAGTGGTAGGCTTACTA
57826814 TTT
65 TTT
* *
57826817 AGTAGTCATCCCGAAATGGTGAGCTTACAGGTGACCTCCCAACTTGCTAGTGGTAGGCTTA
1 AGTAGTCATCCAGAAATGGTGAGCTTACAAGTGACCTCCCAACTTGCTAGTGGTAGGCTTA
57826878 TTGTTCAAGC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 1 0.02
67 54 0.98
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (67 bp):
AGTAGTCATCCAGAAATGGTGAGCTTACAAGTGACCTCCCAACTTGCTAGTGGTAGGCTTACTAT
TT
Found at i:57829261 original size:58 final size:58
Alignment explanation
Indices: 57829173--57829319 Score: 244
Period size: 58 Copynumber: 2.6 Consensus size: 58
57829163 ACCTATGTTC
*
57829173 TGATAAAATCTCAC--TGTCTACTCAATTCATTCAAAATGGAACAACTTAATTACAAT
1 TGATAAAATCTGACTTTGTCTACTCAATTCATTCAAAATGGAACAACTTAATTACAAT
* *
57829229 TGATAAAATCTGACTTTGTCTACTCAATTCATTCAAAATGGAACAACTTACTTACTAT
1 TGATAAAATCTGACTTTGTCTACTCAATTCATTCAAAATGGAACAACTTAATTACAAT
*
57829287 TGATAAAATCAGACTTTGTCTACTCAATTCATT
1 TGATAAAATCTGACTTTGTCTACTCAATTCATT
57829320 GAAGATCCAA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
56 13 0.15
58 72 0.85
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.35
Consensus pattern (58 bp):
TGATAAAATCTGACTTTGTCTACTCAATTCATTCAAAATGGAACAACTTAATTACAAT
Found at i:57832837 original size:24 final size:24
Alignment explanation
Indices: 57832803--57832861 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
57832793 CTAGAACTAG
*
57832803 TGAAACA--CAAAGGTTTAGCGCT
1 TGAAACATTCAAAGCTTTAGCGCT
* *
57832825 T-AGAACATTCAAAGCTTTGGGGCT
1 TGA-AACATTCAAAGCTTTAGCGCT
57832849 TGAAACATTCAAA
1 TGAAACATTCAAA
57832862 ACTCTCGGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 1 0.03
22 5 0.17
24 23 0.77
25 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (24 bp):
TGAAACATTCAAAGCTTTAGCGCT
Found at i:57832871 original size:24 final size:24
Alignment explanation
Indices: 57832828--57832873 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
57832818 TAGCGCTTAG
* * *
57832828 AACATTCAAAGCTTTGGGGCTTGA
1 AACATTCAAAACTCTCGGGCTTGA
57832852 AACATTCAAAACTCTCGGGCTT
1 AACATTCAAAACTCTCGGGCTT
57832874 TCAGCATTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (24 bp):
AACATTCAAAACTCTCGGGCTTGA
Found at i:57834777 original size:27 final size:27
Alignment explanation
Indices: 57834649--57834804 Score: 150
Period size: 27 Copynumber: 5.8 Consensus size: 27
57834639 TGTCCTGGAA
* *
57834649 ACTACCCCGTGTTTAGTGTCCCGACGA
1 ACTACCCCGTGTTTAATGTCCCGACGG
* ** *
57834676 ACTACCCCGTGTTTATTGTCCTAACAG
1 ACTACCCCGTGTTTAATGTCCCGACGG
* *
57834703 ACTACCCCGTGTTTACTGTCCCGATGG
1 ACTACCCCGTGTTTAATGTCCCGACGG
* *
57834730 ACTACCTCGTGTTTAATGTCTCGACGG
1 ACTACCCCGTGTTTAATGTCCCGACGG
* * *** *
57834757 ACTACCCCATGTATAATGTCTTTATGG
1 ACTACCCCGTGTTTAATGTCCCGACGG
* *
57834784 ACTACCCTGTGTTTAGTGTCC
1 ACTACCCCGTGTTTAATGTCC
57834805 TAGCAGACTC
Statistics
Matches: 104, Mismatches: 25, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (27 bp):
ACTACCCCGTGTTTAATGTCCCGACGG
Found at i:57834787 original size:81 final size:81
Alignment explanation
Indices: 57834649--57834804 Score: 195
Period size: 81 Copynumber: 1.9 Consensus size: 81
57834639 TGTCCTGGAA
* * * *
57834649 ACTACCCCGTGTTTAGTGTCCCGACGAACTACCCCGTGTTTATTGTCCTAACAGACTACCCCGTG
1 ACTACCCCGTGTTTAATGTCCCGACGAACTACCCCATGTATAATGTCCTAACAGACTACCCCGTG
57834714 TTTACTGTCCCGATGG
66 TTTACTGTCCCGATGG
* * * * * ** *
57834730 ACTACCTCGTGTTTAATGTCTCGACGGACTACCCCATGTATAATGTCTTTATGGACTACCCTGTG
1 ACTACCCCGTGTTTAATGTCCCGACGAACTACCCCATGTATAATGTCCTAACAGACTACCCCGTG
*
57834795 TTTAGTGTCC
66 TTTACTGTCC
57834805 TAGCAGACTC
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 62 1.00
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (81 bp):
ACTACCCCGTGTTTAATGTCCCGACGAACTACCCCATGTATAATGTCCTAACAGACTACCCCGTG
TTTACTGTCCCGATGG
Found at i:57834813 original size:27 final size:26
Alignment explanation
Indices: 57834634--57834813 Score: 107
Period size: 27 Copynumber: 6.7 Consensus size: 26
57834624 GATACTCGTA
* *
57834634 TTTAGTGTCCTGGAAACTACCCCGTG
1 TTTAGTGTCCTAGAGACTACCCCGTG
*
57834660 TTTAGTGTCC-CGACGAACTACCCCGTG
1 TTTAGTGTCCTAGA-G-ACTACCCCGTG
* *
57834687 TTTATTGTCCTAACAGACTACCCCGTG
1 TTTAGTGTCCT-AGAGACTACCCCGTG
* * *
57834714 TTTACTGTCC-CGATGGACTACCTCGTG
1 TTTAGTGTCCTAGA--GACTACCCCGTG
* * *
57834741 TTTAATGT-CTCGACGGACTACCCCATG
1 TTTAGTGTCCTAGA--GACTACCCCGTG
* * * *
57834768 TATAATGTCTTTATG-GACTACCCTGTG
1 TTTAGTGTC-CTA-GAGACTACCCCGTG
57834795 TTTAGTGTCCTAGCAGACT
1 TTTAGTGTCCTAG-AGACT
57834814 CTGTTGGTTT
Statistics
Matches: 121, Mismatches: 21, Indels: 23
0.73 0.13 0.14
Matches are distributed among these distances:
25 4 0.03
26 13 0.11
27 100 0.83
28 1 0.01
29 2 0.02
30 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (26 bp):
TTTAGTGTCCTAGAGACTACCCCGTG
Found at i:57837463 original size:40 final size:41
Alignment explanation
Indices: 57837408--57837559 Score: 161
Period size: 40 Copynumber: 3.8 Consensus size: 41
57837398 TTTTGAGGCA
*
57837408 TTTAGCGGCGCTTTTGATAAAGCGCCGCTAATGCTCGAG-C
1 TTTAGCGGCGTTTTTGATAAAGCGCCGCTAATGCTCGAGCC
* *
57837448 TTTAGCGGTGTTTTTGA-AGAAGCGCCGCTAATGCTCGTGCC
1 TTTAGCGGCGTTTTTGATA-AAGCGCCGCTAATGCTCGAGCC
* ** *
57837489 TTTAGCAGCGTTTCGGATAAAGCGCCGCTAATG-TTG-GCC
1 TTTAGCGGCGTTTTTGATAAAGCGCCGCTAATGCTCGAGCC
* * *
57837528 TTTAGCGGCGCTTTATCA-AAAACGCCGCTAAT
1 TTTAGCGGCG-TTTTTGATAAAGCGCCGCTAAT
57837560 AATAAAATCT
Statistics
Matches: 95, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
39 26 0.27
40 40 0.42
41 28 0.29
42 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGATAAAGCGCCGCTAATGCTCGAGCC
Found at i:57837512 original size:41 final size:40
Alignment explanation
Indices: 57837423--57837533 Score: 129
Period size: 41 Copynumber: 2.8 Consensus size: 40
57837413 CGGCGCTTTT
* * **
57837423 GATAAAGCGCCGCTAATGCTCGAG-CTTTAGCGGTGTTTTT
1 GATAAAGCGCCGCTAATGCTCG-GCCTTTAGCAGCGTTTCG
57837463 GA-AGAAGCGCCGCTAATGCTCGTGCCTTTAGCAGCGTTTCG
1 GATA-AAGCGCCGCTAATGCTCG-GCCTTTAGCAGCGTTTCG
*
57837504 GATAAAGCGCCGCTAATG-TTGGCCTTTAGC
1 GATAAAGCGCCGCTAATGCTCGGCCTTTAGC
57837534 GGCGCTTTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
39 10 0.16
40 23 0.37
41 28 0.45
42 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (40 bp):
GATAAAGCGCCGCTAATGCTCGGCCTTTAGCAGCGTTTCG
Found at i:57839112 original size:10 final size:10
Alignment explanation
Indices: 57839085--57839144 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
57839075 GTGATTTAAA
57839085 ATTTTAAAATG
1 ATTTTAAAA-G
57839096 AATTTTAAAAG
1 -ATTTTAAAAG
***
57839107 ATTTTAATTT
1 ATTTTAAAAG
*
57839117 TTTTTAAAA-
1 ATTTTAAAAG
57839126 ATTTTAAAAAG
1 ATTTT-AAAAG
57839137 ATTTTAAA
1 ATTTTAAA
57839145 CTTTTATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
9 4 0.10
10 20 0.51
11 6 0.15
12 9 0.23
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (10 bp):
ATTTTAAAAG
Found at i:57839141 original size:20 final size:20
Alignment explanation
Indices: 57839082--57839144 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
57839072 TTCGTGATTT
57839082 AAAATTTTAAAATGAATTTTA
1 AAAATTTTAAAATG-ATTTTA
* **
57839103 AAAGATTTT-AATTTTTTTTA
1 AAA-ATTTTAAAATGATTTTA
*
57839123 AAAATTTTAAAAAGATTTTA
1 AAAATTTTAAAATGATTTTA
57839143 AA
1 AA
57839145 CTTTTATTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
19 5 0.15
20 17 0.52
21 6 0.18
22 5 0.15
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
AAAATTTTAAAATGATTTTA
Found at i:57844076 original size:42 final size:42
Alignment explanation
Indices: 57843997--57844085 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
57843987 TAATTTTTTT
* * * *
57843997 TAAAGGTTATGTTCTTAGTGGCGTTTTTGCGAGAAGCGTCGC
1 TAAAGGTTATGTTCTTAGCGGCGTTTTAGCGAAAAGCGCCGC
57844039 TAAAGGTT-TGTTCTTTAGCGGCGTTTGTAG-GAAAAGCGCCGC
1 TAAAGGTTATGTTC-TTAGCGGCGTTT-TAGCGAAAAGCGCCGC
57844081 TAAAG
1 TAAAG
57844086 ATAGTATTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 5 0.12
42 34 0.83
43 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (42 bp):
TAAAGGTTATGTTCTTAGCGGCGTTTTAGCGAAAAGCGCCGC
Found at i:57844112 original size:116 final size:116
Alignment explanation
Indices: 57843974--57844201 Score: 341
Period size: 115 Copynumber: 2.0 Consensus size: 116
57843964 AAATAAATAT
** *
57843974 TATTTGATTAAAATAATTTTTTTTAAAGGTTATGTTCTTAGTGGCGTTTTTGCGAGAAGCGTCGC
1 TATTTGATTAAAAT-ATTTTTTTTAAAGGTTATGTTCTTAGCAGCGTTTTTGCGAGAAGCGCCGC
* * * * *
57844039 TAAAGGT-TTGTTCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGATAG
65 TAAAGGTCGTGATCTTTAGCGGCGTTTCTAGCAAAAACGCCGCTAAAGATAG
* *
57844090 TATTTGATTAAAATATTTTTTTTAAAGGTTATGTTTTTAGCAGCGTTTTTGCGAGAAGCGCCGTT
1 TATTTGATTAAAATATTTTTTTTAAAGGTTATGTTCTTAGCAGCGTTTTTGCGAGAAGCGCCGCT
*
57844155 AAAGGTCGTGATCTTTAGCGGCGTTTCTCGCAAAAACGCCGCTAAAG
66 AAAGGTCGTGATCTTTAGCGGCGTTTCTAGCAAAAACGCCGCTAAAG
57844202 GTCGCGGTCT
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
115 52 0.52
116 48 0.48
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (116 bp):
TATTTGATTAAAATATTTTTTTTAAAGGTTATGTTCTTAGCAGCGTTTTTGCGAGAAGCGCCGCT
AAAGGTCGTGATCTTTAGCGGCGTTTCTAGCAAAAACGCCGCTAAAGATAG
Found at i:57844179 original size:43 final size:43
Alignment explanation
Indices: 57844125--57844309 Score: 185
Period size: 43 Copynumber: 4.3 Consensus size: 43
57844115 AGGTTATGTT
* * * *
57844125 TTTAGCAGCGTTTTTGCGAGAAGCGCCGTTAAAGGTCGTGATC
1 TTTAGCGGCGTTTCTGCGAAAAGCGCCGTTAAAGGTCGTGGTC
* * *
57844168 TTTAGCGGCGTTTCT-CGCAAAAACGCCGCTAAAGGTCGCGGTC
1 TTTAGCGGCGTTTCTGCG-AAAAGCGCCGTTAAAGGTCGTGGTC
* * * *
57844211 TATAGCGGCGTTTCTGGGAAAAGCGCCTTTAAAGGTCATGGT-
1 TTTAGCGGCGTTTCTGCGAAAAGCGCCGTTAAAGGTCGTGGTC
** * * *
57844253 TTATAGCAACGTTTGTGGGAAAAGCGCCGTTAAAGGTCTTGGTC
1 TT-TAGCGGCGTTTCTGCGAAAAGCGCCGTTAAAGGTCGTGGTC
*
57844297 TTTAGCGGTGTTT
1 TTTAGCGGCGTTT
57844310 TTAGAGAAAA
Statistics
Matches: 115, Mismatches: 23, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
42 3 0.03
43 109 0.95
44 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTCTGCGAAAAGCGCCGTTAAAGGTCGTGGTC
Found at i:57844412 original size:22 final size:22
Alignment explanation
Indices: 57844384--57844426 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
57844374 TAGCGGTGCT
*
57844384 AAAAAGCGCCACTAAAGGCCTA
1 AAAAAGCGCCACTAAAAGCCTA
*
57844406 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCACTAAAAGCCT
57844427 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.28, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCACTAAAAGCCTA
Found at i:57854499 original size:19 final size:19
Alignment explanation
Indices: 57854475--57854549 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
57854465 AATCACATCT
57854475 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
57854494 TCTAAGATTGTATATATCATA
1 TCTAAGA-T-TACATATCATA
*
57854515 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
57854534 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
57854550 CTCGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 32 0.63
20 2 0.04
21 17 0.33
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:57854559 original size:17 final size:18
Alignment explanation
Indices: 57854478--57854559 Score: 58
Period size: 19 Copynumber: 4.3 Consensus size: 18
57854468 CACATCTTCT
* *
57854478 AAGATTACATATCATATCT
1 AAGATTGCATATCA-ATCG
* *
57854497 AAGATTGTATATATCATATCT
1 AAGATTG--CATATCA-ATCG
*
57854518 AAGATTGCATATCATATCT
1 AAGATTGCATATCA-ATCG
*
57854537 AAGATTGCATATC-CTCG
1 AAGATTGCATATCAATCG
57854554 AAGATT
1 AAGATT
57854560 ATGTTTCCAT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
17 8 0.14
19 30 0.54
21 18 0.32
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
AAGATTGCATATCAATCG
Found at i:57855084 original size:128 final size:128
Alignment explanation
Indices: 57854833--57855084 Score: 301
Period size: 128 Copynumber: 2.0 Consensus size: 128
57854823 AGATGAATTT
* * * * *
57854833 GATGCGATCTGCTCTACTGTAATTTCAGAGAGATAAGATCCATCATTCTAATCCACTCCGCTACA
1 GATGCGATCTGCTCTAATGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
* * * *
57854898 ACTTTAGGGAGATAGGATTTGTTTATTTAGTCTGCTTCACTACAACTTCAGAGAGATAAGACTA
66 ACTTCAGGGAGATAGGATTTG-TGATTTAATCTGCTCCACTACAACTTCAGAGAGATAAGACTA
* * * * * *
57854962 GATGCGTTCTGCTC-AATGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCGCTTCACTGCA
1 GATGCGATCTGCTCTAATGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
* * *
57855026 ACTTCAGGGAGATAGGATTATCG-GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
66 ACTTCAGGGAGATAGGATT-T-GTGATTTAATCTGCTCCACTACAACTTCAGAGAGATAA
57855085 AATTTGCCAT
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
128 88 0.85
129 14 0.14
130 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (128 bp):
GATGCGATCTGCTCTAATGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
ACTTCAGGGAGATAGGATTTGTGATTTAATCTGCTCCACTACAACTTCAGAGAGATAAGACTA
Found at i:57855435 original size:44 final size:44
Alignment explanation
Indices: 57855368--57856092 Score: 667
Period size: 44 Copynumber: 16.5 Consensus size: 44
57855358 GTCGGTGCAC
* * * * * *
57855368 GAAGGCAAGACCTGCTATTTTCGATCTACTTCATGCCAATAAAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATACCAATATAG
* ** * *
57855412 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ATACCAATATAG
* *
57855457 GAAGACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATACCAATATAG
* * * * * * *
57855500 GAAGACAGGACCTGCTATTTTCGATCTACCTCATGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATACCAATATAG
* * * *
57855544 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCA-TACCAATATAG
* * * *
57855589 GAAGATAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATTG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATACCAATATAG
* * ** * *
57855632 GAAGACAAGACCTGCTATCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATACCAATATAG
** * * * *
57855676 GAAGTTAAGATCTGCTTTCTTCGATCTACTTTGC-CACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTAC-TT-CATACCAATATAG
* *
57855721 GAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ATACCAATATAG
* ** * *
57855765 GAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAC
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATACCAATATAG
* *
57855809 GAAGACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATACCAATATAG
* * ** * *
57855852 GAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAC
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATACCAATATAG
* *
57855896 GAAGACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATACCAATATAG
* * ** * *
57855939 GAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATAAAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATACCAATATAG
* * *
57855983 GAAGACAAGATCTGCTTTCTTCAATCTAC-TC-TACCACTAATATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATA-C-C-AATATAG
* * *
57856028 GAAGACAAGATCTGC-ATCTTTGATCCACTTCCTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATACCAATATAG
* * *
57856071 GAAGACAGGACCTGTTATCTTC
1 GAAGACAAGATCTGCTATCTTC
57856093 ACTGATCTGC
Statistics
Matches: 538, Mismatches: 126, Indels: 34
0.77 0.18 0.05
Matches are distributed among these distances:
42 1 0.00
43 136 0.25
44 301 0.56
45 97 0.18
46 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCATACCAATATAG
Found at i:57855613 original size:132 final size:133
Alignment explanation
Indices: 57855368--57856077 Score: 794
Period size: 132 Copynumber: 5.4 Consensus size: 133
57855358 GTCGGTGCAC
* *
57855368 GAAGGCAAGACCTGCTATTTTCGATCTACTTCATGCCAATAAATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGACCTGCTATTTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTT
*
57855433 CGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATA
66 CGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACTACCAATA
57855497 TAG
131 TAG
* *
57855500 GAAGACAGGACCTGCTATTTTCGATCTACCTCATGCCAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGACCTGCTATTTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTT
*
57855565 CGATCTACTTCACCACCAGTATGGGAAGATAAGATCTGCATCTTCGATCCACTTC-CTACCAATA
66 CGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACTACCAATA
*
57855629 TTG
131 TAG
* **
57855632 GAAGACAAGACCTGCTATCTTT-GATCTACTTCACGCCAATACATGAAGTTAAGATCTGCTTTCT
1 GAAGACAAGACCTGCTAT-TTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCT
** *
57855696 TCGATCTACTTTGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAAT
65 TCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACTACCAAT
57855761 ATAG
130 ATAG
* * * * * *
57855765 GAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACACGAAGACAAGATCTGC-ATCTT
1 GAAGACAAGACCTGCTATTTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTT
* * * * * * * *
57855829 CGATCCACTTC-CTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCAC-GCCAAT
66 CGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCACTACCAAT
* *
57855892 ACAC
130 ATAG
* * * * * * * * * *
57855896 GAAGACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTT
1 GAAGACAAGACCTGCTATTTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTT
* * *** * * * * *
57855960 CGATCTACTTCA-CGCCAATAAATGAAGACAAGATCTGCTTTCTTCAATCTAC-TCTACCACTAA
66 CGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-ACTACCAA
*
57856023 TATGG
129 TATAG
* * * * * *
57856028 GAAGACAAGATCTGC-ATCTTT-GATCCACTTCCTACCAATATAGGAAGACA
1 GAAGACAAGACCTGCTAT-TTTCGATCTACTTCATGCCAATACATGAAGACA
57856078 GGACCTGTTA
Statistics
Matches: 510, Mismatches: 59, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
130 37 0.07
131 92 0.18
132 315 0.62
133 66 0.13
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (133 bp):
GAAGACAAGACCTGCTATTTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTT
CGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACTACCAATA
TAG
Found at i:57862008 original size:19 final size:19
Alignment explanation
Indices: 57861984--57862079 Score: 120
Period size: 21 Copynumber: 4.8 Consensus size: 19
57861974 AATCACATTT
57861984 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
57862003 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
57862024 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
57862045 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
57862064 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
57862080 CTCGAAGATT
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 33 0.46
21 39 0.54
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:57862021 original size:21 final size:21
Alignment explanation
Indices: 57861995--57862078 Score: 154
Period size: 21 Copynumber: 4.1 Consensus size: 21
57861985 CTAAGATTAC
57861995 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
57862016 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
57862037 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
57862056 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
57862077 AT
1 AT
57862079 CCTCGAAGAT
Statistics
Matches: 61, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
19 19 0.31
21 42 0.69
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:57862032 original size:40 final size:38
Alignment explanation
Indices: 57861984--57862079 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 38
57861974 AATCACATTT
57861984 TCTAAGATTACATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGC--ATATCATA
*
57862024 TCTAAGATTGCATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATT--ACATATCATATCTAAGATTGCATATCATA
*
57862064 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
57862080 CTCGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
38 5 0.10
40 26 0.51
42 20 0.39
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:57863577 original size:9 final size:9
Alignment explanation
Indices: 57863563--57863647 Score: 100
Period size: 9 Copynumber: 9.4 Consensus size: 9
57863553 TTTTGGTTAA
57863563 AATTAACCG
1 AATTAACCG
*
57863572 AATTAAACG
1 AATTAACCG
*
57863581 AATTAACCT
1 AATTAACCG
57863590 AATT-ACTCG
1 AATTAAC-CG
57863599 AATTAACCG
1 AATTAACCG
*
57863608 AATTACCCG
1 AATTAACCG
*
57863617 AATTAACTG
1 AATTAACCG
* *
57863626 AATTACCCA
1 AATTAACCG
57863635 AATTAACCG
1 AATTAACCG
57863644 AATT
1 AATT
57863648 GAATCACTAC
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
8 2 0.03
9 58 0.94
10 2 0.03
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:57863586 original size:18 final size:18
Alignment explanation
Indices: 57863563--57863647 Score: 116
Period size: 18 Copynumber: 4.7 Consensus size: 18
57863553 TTTTGGTTAA
**
57863563 AATTAACCGAATTAAACG
1 AATTAACCGAATTACCCG
* *
57863581 AATTAACCTAATTACTCG
1 AATTAACCGAATTACCCG
57863599 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
* *
57863617 AATTAACTGAATTACCCA
1 AATTAACCGAATTACCCG
57863635 AATTAACCGAATT
1 AATTAACCGAATT
57863648 GAATCACTAC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:57874493 original size:25 final size:25
Alignment explanation
Indices: 57874465--57874513 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
57874455 TTCAAGTGAG
57874465 CTATATCAGGAAGCTCATAAAGAGC
1 CTATATCAGGAAGCTCATAAAGAGC
*
57874490 CTATATCAGGACGCTCATAAAGAG
1 CTATATCAGGAAGCTCATAAAGAG
57874514 TTGTGGTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (25 bp):
CTATATCAGGAAGCTCATAAAGAGC
Found at i:57878969 original size:22 final size:20
Alignment explanation
Indices: 57878918--57878956 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
57878908 TAACAACCTT
57878918 TAAACATGTTCAAAACATCC
1 TAAACATGTTCAAAACATCC
57878938 TAAAACCATG-TCAAAACAT
1 T-AAA-CATGTTCAAAACAT
57878957 ACCATAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.06
21 12 0.71
22 4 0.24
ACGTcount: A:0.49, C:0.23, G:0.05, T:0.23
Consensus pattern (20 bp):
TAAACATGTTCAAAACATCC
Found at i:57882867 original size:47 final size:47
Alignment explanation
Indices: 57882750--57883140 Score: 530
Period size: 47 Copynumber: 8.2 Consensus size: 47
57882740 AATTCTAAAT
*
57882750 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
57882799 TGTGATAAGGCTTAATGGCCGATGTGATAAATGTGAAAGTGTATATG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
57882846 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
57882895 TGTGATAAGGCTTAATGGCCGATGTGATAAATGTGAAAGTGTATATG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
57882942 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
*
57882991 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
57883038 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * ** * * * * *
57883085 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
57883132 TGTGATAAG
1 TGTGATAAG
57883141 TCCCGAAGGG
Statistics
Matches: 302, Mismatches: 36, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
47 178 0.59
49 124 0.41
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:57882897 original size:96 final size:96
Alignment explanation
Indices: 57882753--57883085 Score: 612
Period size: 96 Copynumber: 3.5 Consensus size: 96
57882743 TCTAAATTGT
*
57882753 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
57882818 CGATGTGATAAATGTGAAAGTGTATATGTGC
66 CGATGTGATAAATGTGAAAGTGTATATGTGC
57882849 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
57882914 CGATGTGATAAATGTGAAAGTGTATATGTGC
66 CGATGTGATAAATGTGAAAGTGTATATGTGC
57882945 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
* * *
57883010 CGATGTGATGAATGTGAAAGTGTATATGCGT
66 CGATGTGATAAATGTGAAAGTGTATATGTGC
* *
57883041 GATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
57883086 GTGACAGGGC
Statistics
Matches: 231, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 231 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
CGATGTGATAAATGTGAAAGTGTATATGTGC
Found at i:57886774 original size:24 final size:24
Alignment explanation
Indices: 57886747--57886793 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
57886737 AAATTTTAAA
*
57886747 TTTA-TTAATAAATGGATGTTTATG
1 TTTATTTAA-AAATGGATATTTATG
*
57886771 TTTATTTAAAATTGGATATTTAT
1 TTTATTTAAAAATGGATATTTAT
57886794 TTGTCTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (24 bp):
TTTATTTAAAAATGGATATTTATG
Found at i:57886823 original size:14 final size:14
Alignment explanation
Indices: 57886806--57886838 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
57886796 GTCTAAGTTC
57886806 ATTTTAAATGTA-AA
1 ATTTTAAAT-TATAA
57886820 ATTTTAAATTATAA
1 ATTTTAAATTATAA
57886834 ATTTT
1 ATTTT
57886839 TTATAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (14 bp):
ATTTTAAATTATAA
Found at i:57888072 original size:21 final size:22
Alignment explanation
Indices: 57888048--57888099 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
57888038 TGGCCAGTAC
*
57888048 AAATAACAA-AAACAATAGC-AA
1 AAATAACAACAAA-AACAGCAAA
57888069 AAATAACAACAAAAACAGCAGAA
1 AAATAACAACAAAAACAGCA-AA
57888092 AAATAACA
1 AAATAACA
57888100 GCACCAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 14 0.52
22 3 0.11
23 10 0.37
ACGTcount: A:0.71, C:0.15, G:0.06, T:0.08
Consensus pattern (22 bp):
AAATAACAACAAAAACAGCAAA
Found at i:57888093 original size:23 final size:24
Alignment explanation
Indices: 57888052--57888099 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
57888042 CAGTACAAAT
*
57888052 AACAAAAACAATAGCAAAAATAAC
1 AACAAAAACAACAGCAAAAATAAC
*
57888076 AACAAAAACAGCAG-AAAAATAAC
1 AACAAAAACAACAGCAAAAATAAC
57888099 A
1 A
57888100 GCACCAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.71, C:0.17, G:0.06, T:0.06
Consensus pattern (24 bp):
AACAAAAACAACAGCAAAAATAAC
Found at i:57888747 original size:11 final size:11
Alignment explanation
Indices: 57888727--57888764 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
57888717 CTTAACACCA
57888727 AAATTGAGAGG
1 AAATTGAGAGG
*
57888738 AAATTTAGAGG
1 AAATTGAGAGG
57888749 AAATTGAGAGG
1 AAATTGAGAGG
57888760 AAATT
1 AAATT
57888765 TTAGAGAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (11 bp):
AAATTGAGAGG
Found at i:57888755 original size:22 final size:23
Alignment explanation
Indices: 57888727--57888770 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
57888717 CTTAACACCA
57888727 AAATTGAGAGGAAA-TTTAGAGG
1 AAATTGAGAGGAAATTTTAGAGG
57888749 AAATTGAGAGGAAATTTTAGAG
1 AAATTGAGAGGAAATTTTAGAG
57888771 AGGATTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (23 bp):
AAATTGAGAGGAAATTTTAGAGG
Found at i:57894854 original size:31 final size:32
Alignment explanation
Indices: 57894804--57894863 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
57894794 TTGCTTGGCA
* *
57894804 AAGTGGAATGAAAATTAGAAAGATGGAAATTG
1 AAGTGGAATGAAAAATAGAAAGATAGAAATTG
* *
57894836 AAGTGGTA-GAAAAATAGAAGGATAGAAA
1 AAGTGGAATGAAAAATAGAAAGATAGAAA
57894864 ATATAATTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 17 0.71
32 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.28, T:0.18
Consensus pattern (32 bp):
AAGTGGAATGAAAAATAGAAAGATAGAAATTG
Found at i:57898851 original size:19 final size:20
Alignment explanation
Indices: 57898810--57898851 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
57898800 ATTTCTATGC
* *
57898810 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
57898830 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
57898849 CAT
1 CAT
57898852 CACATCAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:57902572 original size:24 final size:24
Alignment explanation
Indices: 57902545--57902590 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
57902535 AGAACAGTCC
* *
57902545 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGAAAATGAAGGAGCAGCTT
*
57902569 CAAAAGAAAATGAATGAGCAGC
1 CAAAAGAAAATGAAGGAGCAGC
57902591 AAAAAATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGAAAATGAAGGAGCAGCTT
Found at i:57910781 original size:44 final size:45
Alignment explanation
Indices: 57910719--57910836 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 45
57910709 GATCGCATCT
*
57910719 AGTCTTATC-TCCTTGAAGTTGCAGTGGAGTAGACT-AAG-TAAGCA
1 AGTCCTATCTTCC-TGAAGTTGCAGTGGAGTAGACTGAAGAT-AGCA
* *
57910763 AGTCCTATCTTCCTGAAGTTACAGT-GAGGTAGACTGAAGATGGCA
1 AGTCCTATCTTCCTGAAGTTGCAGTGGA-GTAGACTGAAGATAGCA
* *
57910808 A-ACCTTATCTCCCTGAAGTTGCAGTGGAG
1 AGTCC-TATCTTCCTGAAGTTGCAGTGGAG
57910837 CAGGTTAAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
43 2 0.03
44 28 0.45
45 29 0.47
46 3 0.05
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (45 bp):
AGTCCTATCTTCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCA
Found at i:57910826 original size:45 final size:45
Alignment explanation
Indices: 57910722--57911279 Score: 137
Period size: 44 Copynumber: 12.8 Consensus size: 45
57910712 CGCATCTAGT
* *
57910722 CTTATCTCCTTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGTC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGAC
* * *
57910767 C-TATCTTCCTGAAGTTACAGT-GAGGTAGACTGAAG-ATGGCAA-AC
1 CTTATCTCCCTGAAGTTGCAGTGGA-GTAGACT-AAGTA-AGCAAGAC
* ** *
57910811 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGT-TG-ATA-ATC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACT-AAGTAAGCA-AGA-C
* * * * * ** *
57910856 C-TATCTCCCTAAAGTTGTAGTGGA-TCGGATTAA--AATCTTGGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGT-AGACTAAGTAAGC-AAGAC
* * * * * * * *
57910899 CTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CG-CATCTAG-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGAC
* * * *
57910939 CTTGTCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAG-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGAC
* * *
57910983 CTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAG-ATGGCAA-AC
1 CTTATCTC-CCTGAAGTTGCAGTGGAGTAGACT-AAGTA-AGCAAGAC
* * * *
57911028 CTTATCTCCCTAAAGTTGCAGTGGAGCAG-GTTA--AAGCCGATA-ATC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAG-C-A-AGA-C
* * * * * * *
57911073 C-TATCTCCCTAAAGTTGTAGTGGAGCAGATTAA--AA-TATTGGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCA--AGAC
* * ** * * * * * *
57911116 CTTATCTCTCTGAAGTTGTA-AAGAGCAGA-T-CG-CATCTA-AT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGAC
* *
57911156 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGAC
* * *
57911200 CTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAG-ATGGCAA-AC
1 CTTATCTC-CCTGAAGTTGCAGTGGAGTAGACT-AAGTA-AGCAAGAC
* *
57911245 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAG
57911280 GCCAATAATC
Statistics
Matches: 391, Mismatches: 77, Indels: 91
0.70 0.14 0.16
Matches are distributed among these distances:
40 40 0.10
41 16 0.04
42 11 0.03
43 25 0.06
44 187 0.48
45 108 0.28
46 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGAC
Found at i:57910871 original size:44 final size:44
Alignment explanation
Indices: 57910813--57911323 Score: 194
Period size: 44 Copynumber: 11.8 Consensus size: 44
57910803 TGGCAAACCT
*
57910813 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTGATAATCC
* * * * * * *
57910857 TATCTCCCTAAAGTTGTAGTGGATCGGATTAAAATCT--TGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-TGAT-AATCC
* * *** * * *
57910901 TATCTCTCTGAAGTTGCAG-AGAGCAGATCGCA--T-CTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTGATAATCC
* * * * * *
57910941 TGTCTCCCTGAAGTTGCAGTGGAGCAAACT-AAGTAAGCA-AGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-TG-ATAATCC
* * * * ** *
57910985 TATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACC
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAGTTGATAATCC
* * **
57911029 TTATCTCCCTAAAGTTGCAGTGGAGCAGGTTAAAGCCGATAATCC
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTGATAATCC
* * * * *
57911074 TATCTCCCTAAAGTTGTAGTGGAGCAGATTAAA-AT-ATTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTGA-T-AATCC
* * ** *** * *
57911118 TATCTCTCTGAAGTTGTA-AAGAGCAGATCGCA--T-CTAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTGATAATCC
* * * *
57911158 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCA-AGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-TG-ATAATCC
* * * * ** *
57911202 TATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACC
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAGTTGATAATCC
* *** *
57911246 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGGCCAATAATCT
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTGATAATCC
* * *
57911291 TATCTCCCTAAAGTTGCAGCGGAGCGGATTAAA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
57911324 ATCACAGATC
Statistics
Matches: 346, Mismatches: 94, Indels: 54
0.70 0.19 0.11
Matches are distributed among these distances:
40 43 0.12
41 15 0.04
42 2 0.01
43 20 0.06
44 194 0.56
45 70 0.20
46 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTGATAATCC
Found at i:57911016 original size:217 final size:217
Alignment explanation
Indices: 57910626--57911403 Score: 1193
Period size: 217 Copynumber: 3.6 Consensus size: 217
57910616 GAATAGATCG
* * * * * *
57910626 AAAGCCAATGATCCTATCTCTCTGAAGTTGCACTGGAGCGGATTAAAACCACAGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCT
* *
57910691 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGACTAA
66 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
* * * * *
57910756 GTAAGCAAGTCCTATCTTCCTGAAGTTACAGTGAGGTAGACTGAAGATGGCAAACCTTATCTCCC
131 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCC
57910821 TGAAGTTGCAGTGGAGCAGGTT
196 TGAAGTTGCAGTGGAGCAGGTT
** * * ***
57910843 AAAGTTGATAATCCTATCTCCCTAAAGTTGTAGTGGATCGGATTAAAATCTTGGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCT
* *
57910908 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTGTCTCCCTGAAGTTGCAGTGGAGCAAACTAA
66 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
57910973 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCC
131 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCC
*
57911038 TAAAGTTGCAGTGGAGCAGGTT
196 TGAAGTTGCAGTGGAGCAGGTT
* * **
57911060 AAAGCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAAT-ATTGGATCTTATCTC
1 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCA-CAGATCTTATCTC
* * *
57911124 TCTGAAGTTGTAAAGAGCAGATCGCATCTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA
65 TCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA
57911189 AGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCC
130 AGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCC
*
57911254 CTGAAGTTGCAGTGGAGCAGATT
195 CTGAAGTTGCAGTGGAGCAGGTT
* * * *
57911277 AAGGCCAATAATCTTATCTCCCTAAAGTTGCAGCGGAGCGGATTAAAATCACAGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCT
*
57911342 CTGAAGTTGCAGAG-GCAGATCGCATCTAGTCTTATCTCCCTGACA-TTGCAGTGGAGTAGACT
66 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGA-AGTTGCAGTGGAGCAGACT
57911404 GCAGCACTAG
Statistics
Matches: 511, Mismatches: 47, Indels: 7
0.90 0.08 0.01
Matches are distributed among these distances:
216 44 0.09
217 466 0.91
218 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (217 bp):
AAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCT
CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCC
TGAAGTTGCAGTGGAGCAGGTT
Found at i:57911688 original size:15 final size:15
Alignment explanation
Indices: 57911668--57911706 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
57911658 AACAAAGCGG
57911668 TGGCCCAAATTACAA
1 TGGCCCAAATTACAA
57911683 TGGCCCAAATTACAA
1 TGGCCCAAATTACAA
57911698 TGGCCCAAA
1 TGGCCCAAA
57911707 ACAGATGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.18
Consensus pattern (15 bp):
TGGCCCAAATTACAA
Found at i:57920705 original size:41 final size:41
Alignment explanation
Indices: 57920659--57920783 Score: 180
Period size: 41 Copynumber: 3.0 Consensus size: 41
57920649 AGAATAATGA
* *
57920659 TGAATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCT
1 TGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCT
* *
57920700 TGAATTGGACATACGTGCCCCTATTTGTACTTCAGTAACCC-
1 TGAATTGCACATACGTGCCCCTATTTGTACTTCGGT-ACCCT
* *
57920741 TGTATTGCACAGACGTGCCCCTATTTGTACTTCGGTACCCT
1 TGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCT
57920782 TG
1 TG
57920784 GATGTACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
40 4 0.05
41 66 0.89
42 4 0.05
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.34
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCT
Found at i:57922596 original size:51 final size:50
Alignment explanation
Indices: 57922431--57922617 Score: 179
Period size: 51 Copynumber: 3.7 Consensus size: 50
57922421 AGTGAATGTG
* ***
57922431 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATG--
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTATATATG-ATGCA
* * *
57922480 ATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTAT-TGGATAGTTTCA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTA--CGTATAT--AT-GATGCA
*
57922535 A---TCACGTGTGTAGTACTATGTGCAGGCTACTACGTATATATGATGGCA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTATATATGAT-GCA
*
57922583 ATGGTCACATGTGTAGTACTATGTGCAAGCTACTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
57922618 TGTGAACTAA
Statistics
Matches: 112, Mismatches: 13, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
47 2 0.02
48 5 0.04
49 7 0.06
50 33 0.29
51 58 0.52
52 4 0.04
53 1 0.01
54 1 0.01
55 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTATATATGATGCA
Found at i:57928196 original size:51 final size:51
Alignment explanation
Indices: 57928032--57928199 Score: 173
Period size: 51 Copynumber: 3.3 Consensus size: 51
57928022 AGTGAAAGTG
* * *
57928032 ATGGTCACGTGTGTAGTAC-ATGTGCAGGCTTCTACGTGTATCAGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAATGGT
* * * * * *
57928082 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTA-CTGGATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAATGGT
* * * *
57928131 TTCGATCACGTGTGTAGTACTGTGTGCAGGCTACTACGTGTATC-GAATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAATGGT
57928182 AATGGTCACATGTGTAGT
1 -ATGGTCACATGTGTAGT
57928200 GTGAACCAAA
Statistics
Matches: 92, Mismatches: 21, Indels: 9
0.75 0.17 0.07
Matches are distributed among these distances:
49 20 0.22
50 19 0.21
51 51 0.55
52 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAATGGT
Found at i:57928259 original size:45 final size:45
Alignment explanation
Indices: 57928209--57928297 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
57928199 TGTGAACCAA
* * *
57928209 ACATCATTGATTAGTAAGGTGGTTGCTATGTGTTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGATGAATCCACCGG
57928254 ACATCATTGATTAATAAGGTGGTTGCTATGTGATGAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGATGAATCCACCG
57928298 AGTATTTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGATGAATCCACCGG
Found at i:57930009 original size:221 final size:221
Alignment explanation
Indices: 57929626--57930072 Score: 869
Period size: 221 Copynumber: 2.0 Consensus size: 221
57929616 ACTATGGTTG
*
57929626 AGTGTAATGTTTATATCTTATGTGATATGCATAGGAAACGAGATTGGAAAGGAAATGAAATACTA
1 AGTGTAATGTTTATATCTTATGTGATATGCATAGGAAACGAGAGTGGAAAGGAAATGAAATACTA
57929691 AGTTCATGCTTGAAGTGTAAAATGACACAAAAGGCGACTTTAAGTTAAACGATAAATATGTATTA
66 AGTTCATGCTTGAAGTGTAAAATGACACAAAAGGCGACTTTAAGTTAAACGATAAATATGTATTA
57929756 TTATTGAACTTAATGAAATTGAACTGTACGTGAATTAAATGGAAATTGCAAATGATATGATTTGA
131 TTATTGAACTTAATGAAATTGAACTGTACGTGAATTAAATGGAAATTGCAAATGATATGATTTGA
57929821 ATTAAATGAATTATTGTGGTACTGGA
196 ATTAAATGAATTATTGTGGTACTGGA
*
57929847 AGTGTAATGTTTATATCTTGTGTGATATGCATAGGAAACGAGAGTGGAAAGGAAATGAAATACTA
1 AGTGTAATGTTTATATCTTATGTGATATGCATAGGAAACGAGAGTGGAAAGGAAATGAAATACTA
57929912 AGTTCATGCTTGAAGTGTAAAATGACACAAAAGGCGACTTTAAGTTAAACGATAAATATGTATTA
66 AGTTCATGCTTGAAGTGTAAAATGACACAAAAGGCGACTTTAAGTTAAACGATAAATATGTATTA
57929977 TTATTGAACTTAATGAAATTGAACTGTACGTGAATTAAATGGAAATTGCAAATGATATGATTTGA
131 TTATTGAACTTAATGAAATTGAACTGTACGTGAATTAAATGGAAATTGCAAATGATATGATTTGA
57930042 ATTAAATGAATTATTGTGGTACTGGA
196 ATTAAATGAATTATTGTGGTACTGGA
57930068 A-TGTA
1 AGTGTA
57930073 TATTGGATTG
Statistics
Matches: 224, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
220 4 0.02
221 220 0.98
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (221 bp):
AGTGTAATGTTTATATCTTATGTGATATGCATAGGAAACGAGAGTGGAAAGGAAATGAAATACTA
AGTTCATGCTTGAAGTGTAAAATGACACAAAAGGCGACTTTAAGTTAAACGATAAATATGTATTA
TTATTGAACTTAATGAAATTGAACTGTACGTGAATTAAATGGAAATTGCAAATGATATGATTTGA
ATTAAATGAATTATTGTGGTACTGGA
Found at i:57947082 original size:39 final size:39
Alignment explanation
Indices: 57947026--57947280 Score: 308
Period size: 39 Copynumber: 6.5 Consensus size: 39
57947016 AGATGTTTTG
* *
57947026 AGTATTGTGATATATGCTTAAGTATTATGAGATTATATGT
1 AGTATTGTGATATATGCTTAA-TGTTATGTGATTATATGT
* *
57947066 A-TATTGTGATATATGCTTGAATATTATGTGATTATACG-
1 AGTATTGTGATATATGCTT-AATGTTATGTGATTATATGT
*
57947104 AGTATTGTGATATATGCTTACATGTTATGAGATTATATGT
1 AGTATTGTGATATATGCTTA-ATGTTATGTGATTATATGT
* *
57947144 A-TATTATGATATATGCTTGAATGTTATGTGATTATA-CT
1 AGTATTGTGATATATGCTT-AATGTTATGTGATTATATGT
57947182 AGTATTGTGATATATGCTTAAATGTTATGTGATTATATG-
1 AGTATTGTGATATATGCTT-AATGTTATGTGATTATATGT
* *
57947221 AGTATTGTGATATATGCTTGGATGTTAGGTGATTATATGT
1 AGTATTGTGATATATGCTT-AATGTTATGTGATTATATGT
*
57947261 -GTAATAG-GATATATGCTTAA
1 AGT-ATTGTGATATATGCTTAA
57947281 AAGTGAATAC
Statistics
Matches: 190, Mismatches: 16, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
38 5 0.03
39 177 0.93
40 8 0.04
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.45
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTAATGTTATGTGATTATATGT
Found at i:57947239 original size:117 final size:117
Alignment explanation
Indices: 57947028--57947280 Score: 348
Period size: 117 Copynumber: 2.2 Consensus size: 117
57947018 ATGTTTTGAG
* * *
57947028 TATTGTGATATATGCTTAAGTATTATGAGATTATATGTATATTGTGATATATGCTTGAATATTAT
1 TATTATGATATATGCTTAAGTATTATGAGATTATATCTATATTGTGATATATGCTTAAATATTAT
*
57947093 GTGATTATACGAGTATTGTGATATATGCTTACATGTTATGAGATTATATGTA
66 GTGATTATACGAGTATTGTGATATATGCTTACATGTTAGGAGATTATATGTA
* * *
57947145 TATTATGATATATGCTTGAA-TGTTATGTGATTATA-CTAGTATTGTGATATATGCTTAAATGTT
1 TATTATGATATATGCTT-AAGTATTATGAGATTATATCTA-TATTGTGATATATGCTTAAATATT
* ** * *
57947208 ATGTGATTATATGAGTATTGTGATATATGCTTGGATGTTAGGTGATTATATGTG
64 ATGTGATTATACGAGTATTGTGATATATGCTTACATGTTAGGAGATTATATGTA
* *
57947262 TAATAGGATATATGCTTAA
1 TATTATGATATATGCTTAA
57947281 AAGTGAATAC
Statistics
Matches: 120, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
116 4 0.03
117 114 0.95
118 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.45
Consensus pattern (117 bp):
TATTATGATATATGCTTAAGTATTATGAGATTATATCTATATTGTGATATATGCTTAAATATTAT
GTGATTATACGAGTATTGTGATATATGCTTACATGTTAGGAGATTATATGTA
Found at i:57947281 original size:78 final size:78
Alignment explanation
Indices: 57947024--57947281 Score: 369
Period size: 78 Copynumber: 3.3 Consensus size: 78
57947014 AAAGATGTTT
* * *
57947024 TGAGTATTGTGATATATGCTTAAGTATTATGAGATTATATGTATATTGTGATATATGCTTGAATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGAGATTATATGTATATTGTGATATATGCTTGAATG
57947089 TTATGTGATTATA
66 TTATGTGATTATA
* * *
57947102 CGAGTATTGTGATATATGCTTACATGTTATGAGATTATATGTATATTATGATATATGCTTGAATG
1 TGAGTATTGTGATATATGCTTAAATGTTATGAGATTATATGTATATTGTGATATATGCTTGAATG
57947167 TTATGTGATTATA
66 TTATGTGATTATA
* *
57947180 CT-AGTATTGTGATATATGCTTAAATGTTATGTGATTATATG-AGTATTGTGATATATGCTTGGA
1 -TGAGTATTGTGATATATGCTTAAATGTTATGAGATTATATGTA-TATTGTGATATATGCTTGAA
*
57947243 TGTTAGGTGATTATA
64 TGTTATGTGATTATA
* *
57947258 TGTGTAATAG-GATATATGCTTAAA
1 TGAGT-ATTGTGATATATGCTTAAA
57947282 AGTGAATACA
Statistics
Matches: 162, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
77 2 0.01
78 157 0.97
79 3 0.02
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.45
Consensus pattern (78 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGAGATTATATGTATATTGTGATATATGCTTGAATG
TTATGTGATTATA
Found at i:57958082 original size:29 final size:29
Alignment explanation
Indices: 57958038--57958304 Score: 239
Period size: 29 Copynumber: 9.1 Consensus size: 29
57958028 TATCAACAAT
* * ***
57958038 CATCGATCAATGAAAAAGGATGGTTTTGAC
1 CATCGA-CTATGAAAAGGGATGGTGACGAC
* * * **
57958068 CATCGATTATGAAAAAGGATAGTTTCGAC
1 CATCGACTATGAAAAGGGATGGTGACGAC
*
57958097 TATCGACTATGAAAAGGGATGGTGACGAC
1 CATCGACTATGAAAAGGGATGGTGACGAC
* **
57958126 TATAAACTATGAAAAGGGATGGTGACGAC
1 CATCGACTATGAAAAGGGATGGTGACGAC
* ***
57958155 CATCGTA-TATGAAAAGGGATAGTTTTGAC
1 CATCG-ACTATGAAAAGGGATGGTGACGAC
* *
57958184 TATCAACTATGAAAAGGGATGGTGACGAC
1 CATCGACTATGAAAAGGGATGGTGACGAC
* *
57958213 CATCAACTATGAAAAGGGATGGTGACGGC
1 CATCGACTATGAAAAGGGATGGTGACGAC
* ** *
57958242 CATCTACTATGAAAAATGATGGTGACAAC
1 CATCGACTATGAAAAGGGATGGTGACGAC
* * *
57958271 CATCGATTAATGAAAAAGGATGATGACGAC
1 CATCGACT-ATGAAAAGGGATGGTGACGAC
57958301 CATC
1 CATC
57958305 AAAAATGAAA
Statistics
Matches: 197, Mismatches: 37, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
28 1 0.01
29 167 0.85
30 29 0.15
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (29 bp):
CATCGACTATGAAAAGGGATGGTGACGAC
Found at i:57958146 original size:87 final size:87
Alignment explanation
Indices: 57958047--57958257 Score: 300
Period size: 87 Copynumber: 2.4 Consensus size: 87
57958037 TCATCGATCA
* *** *
57958047 ATGAAAAAGGATGGTTTTGACCATCG-ATTATGAAAAAGGATAGTTTCGACTATCGACTATGAAA
1 ATGAAAAGGGATGGTGACGACCATCGTA-TATGAAAAAGGATAGTTTCGACTATCAACTATGAAA
*
57958111 AGGGATGGTGACGACTATAAACT
65 AGGGATGGTGACGACCATAAACT
* *
57958134 ATGAAAAGGGATGGTGACGACCATCGTATATGAAAAGGGATAGTTTTGACTATCAACTATGAAAA
1 ATGAAAAGGGATGGTGACGACCATCGTATATGAAAAAGGATAGTTTCGACTATCAACTATGAAAA
*
57958199 GGGATGGTGACGACCATCAACT
66 GGGATGGTGACGACCATAAACT
*
57958221 ATGAAAAGGGATGGTGACGGCCATC-TACTATGAAAAA
1 ATGAAAAGGGATGGTGACGACCATCGTA-TATGAAAAA
57958258 TGATGGTGAC
Statistics
Matches: 111, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
86 2 0.02
87 108 0.97
88 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.24
Consensus pattern (87 bp):
ATGAAAAGGGATGGTGACGACCATCGTATATGAAAAAGGATAGTTTCGACTATCAACTATGAAAA
GGGATGGTGACGACCATAAACT
Found at i:57967061 original size:25 final size:25
Alignment explanation
Indices: 57967023--57967080 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
57967013 TTAATTAGTA
* *
57967023 TAAATATT-AATAATTCAAT-AAAT
1 TAAAAATTAAATAATTAAATAAAAT
57967046 TGAAAAATTAAATAATTAAATAAAAT
1 T-AAAAATTAAATAATTAAATAAAAT
57967072 TAAAAATTA
1 TAAAAATTA
57967081 GGAGAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 1 0.03
24 6 0.20
25 18 0.60
26 5 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (25 bp):
TAAAAATTAAATAATTAAATAAAAT
Found at i:57967936 original size:16 final size:15
Alignment explanation
Indices: 57967911--57967944 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
57967901 AAGTTTGATA
*
57967911 ATAATTAATATATATT
1 ATAATCAATATA-ATT
57967927 ATAATCAATATAATT
1 ATAATCAATATAATT
57967942 ATA
1 ATA
57967945 CACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATCAATATAATT
Found at i:57970140 original size:74 final size:74
Alignment explanation
Indices: 57970019--57970166 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
57970009 TGTGGGACGG
57970019 TTTTGGGTTGCCCAGTGCTCGTCGAATCAGTTTTCTCGATTTAGCTCAACTAGGTCTCTTTTCAT
1 TTTTGGGTTGCCCAGTGCTCGTCGAATCAGTTTTCTCGATTTAGCTCAACTAGGTCTCTTTTCAT
57970084 AATTAATTA
66 AATTAATTA
57970093 TTTTGGGTTGCCCAGTGCTCGTCGAATCAGTTTTCTCGATTTAGCTCAACTAGGTCTCTTTTCAT
1 TTTTGGGTTGCCCAGTGCTCGTCGAATCAGTTTTCTCGATTTAGCTCAACTAGGTCTCTTTTCAT
*
57970158 TATTAATTA
66 AATTAATTA
57970167 ATAATAATTT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.43
Consensus pattern (74 bp):
TTTTGGGTTGCCCAGTGCTCGTCGAATCAGTTTTCTCGATTTAGCTCAACTAGGTCTCTTTTCAT
AATTAATTA
Found at i:57972628 original size:27 final size:27
Alignment explanation
Indices: 57972598--57972775 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
57972588 ATATTGAGTC
* * * *
57972598 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
57972625 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
57972652 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
57972680 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
57972707 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
57972734 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
57972761 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57972776 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:57972737 original size:82 final size:81
Alignment explanation
Indices: 57972619--57972774 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57972609 TGCTATATAA
* *
57972619 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
57972684 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
57972701 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
57972765 CACTTAGTGC
65 CACTTAGTGC
57972775 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:57995584 original size:19 final size:20
Alignment explanation
Indices: 57995560--57995599 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
57995550 TTCTATCCAT
57995560 AAAATA-CTAAACCATAATC
1 AAAATACCTAAACCATAATC
57995579 AAAATACGCCTAAACCATAAT
1 AAAATA--CCTAAACCATAAT
57995600 TCACTCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
22 12 0.67
ACGTcount: A:0.55, C:0.23, G:0.03, T:0.20
Consensus pattern (20 bp):
AAAATACCTAAACCATAATC
Found at i:57996352 original size:43 final size:43
Alignment explanation
Indices: 57996316--57996415 Score: 191
Period size: 43 Copynumber: 2.3 Consensus size: 43
57996306 TCCCGGATAG
57996316 GGTCTTACACGAAAACACAAGTCAATTCCAACGTCCCAGACGT
1 GGTCTTACACGAAAACACAAGTCAATTCCAACGTCCCAGACGT
*
57996359 GGTCTTACACGAAAACACAAGTCAATTCCAACATCCCAGACGT
1 GGTCTTACACGAAAACACAAGTCAATTCCAACGTCCCAGACGT
57996402 GGTCTTACACGAAA
1 GGTCTTACACGAAA
57996416 TCACTTATCA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.36, C:0.29, G:0.16, T:0.19
Consensus pattern (43 bp):
GGTCTTACACGAAAACACAAGTCAATTCCAACGTCCCAGACGT
Found at i:58002882 original size:43 final size:43
Alignment explanation
Indices: 58002809--58002962 Score: 175
Period size: 43 Copynumber: 3.6 Consensus size: 43
58002799 CAACGCCAAC
* * * * * * *
58002809 GTCCCAGAAGTGGTCTTACATGTAATCACAAATCGATGTCGCT
1 GTCCCAGACGTGGTCTTACACGAAAACACAAGTCGATGCCACT
** * *
58002852 GTCCCAGACAAGGTCTTACACGAAAACACAAGTCAATACCAAC-
1 GTCCCAGACGTGGTCTTACACGAAAACACAAGTCGATGCC-ACT
* *
58002895 GTCTCAGACGTGGTCTTACACGAAAACACAAGTCGATGCCAAT
1 GTCCCAGACGTGGTCTTACACGAAAACACAAGTCGATGCCACT
58002938 GTCCCAGACGTGGTCTTACACGAAA
1 GTCCCAGACGTGGTCTTACACGAAA
58002963 TCACTTATCA
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 89 0.98
44 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (43 bp):
GTCCCAGACGTGGTCTTACACGAAAACACAAGTCGATGCCACT
Found at i:58002953 original size:86 final size:86
Alignment explanation
Indices: 58002804--58002962 Score: 219
Period size: 86 Copynumber: 1.8 Consensus size: 86
58002794 TTGTACAACG
* * * * **
58002804 CCAACGTCCCAGAAGTGGTCTTACATGTAATCACAAATCGATGTCGCTGTCCCAGACAAGGTCTT
1 CCAACGTCCCAGAAGTGGTCTTACACGAAAACACAAATCGATGCCAATGTCCCAGACAAGGTCTT
58002869 ACACGAAAACACAAGTCAATA
66 ACACGAAAACACAAGTCAATA
* * * **
58002890 CCAACGTCTCAGACGTGGTCTTACACGAAAACACAAGTCGATGCCAATGTCCCAGACGTGGTCTT
1 CCAACGTCCCAGAAGTGGTCTTACACGAAAACACAAATCGATGCCAATGTCCCAGACAAGGTCTT
58002955 ACACGAAA
66 ACACGAAA
58002963 TCACTTATCA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 62 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (86 bp):
CCAACGTCCCAGAAGTGGTCTTACACGAAAACACAAATCGATGCCAATGTCCCAGACAAGGTCTT
ACACGAAAACACAAGTCAATA
Found at i:58007896 original size:30 final size:30
Alignment explanation
Indices: 58007840--58007896 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
58007830 CGTAGTCTGG
* *
58007840 CACATGGCCATGTGTCCACCAGGTGTGGCT
1 CACACGGCCATGTGTCCACCACGTGTGGCT
*
58007870 CACACGGCCGTGTGTCCAGCC-CGTGTG
1 CACACGGCCATGTGTCCA-CCACGTGTG
58007897 CCTCTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 21 0.91
31 2 0.09
ACGTcount: A:0.14, C:0.33, G:0.32, T:0.21
Consensus pattern (30 bp):
CACACGGCCATGTGTCCACCACGTGTGGCT
Found at i:58012454 original size:27 final size:28
Alignment explanation
Indices: 58012370--58012467 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
58012360 CATGAGATTG
* * *
58012370 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
58012399 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
58012427 GCACTAAGTGTGCGAG-TTGATTTTATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
58012454 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
58012468 GACTTAATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
27 23 0.37
28 21 0.33
29 19 0.30
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:58012480 original size:27 final size:27
Alignment explanation
Indices: 58012398--58012480 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
58012388 TAAATTGTTC
* *
58012398 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* * *
58012426 AGCACTAAGTGTGCGAGTTGATTTTAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
58012453 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
58012480 A
1 A
58012481 TATTTTTGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 28 0.58
28 20 0.42
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:58018267 original size:12 final size:13
Alignment explanation
Indices: 58018234--58018264 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
58018224 ATATGGTTCA
58018234 TAAAAACATAGCT
1 TAAAAACATAGCT
*
58018247 TAAAAACATATCT
1 TAAAAACATAGCT
58018260 TAAAA
1 TAAAA
58018265 CATTTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (13 bp):
TAAAAACATAGCT
Found at i:58020935 original size:24 final size:25
Alignment explanation
Indices: 58020903--58020957 Score: 103
Period size: 24 Copynumber: 2.2 Consensus size: 25
58020893 ATAATTAAGT
58020903 TAAATGCAAAACTACATCGTTTTGA
1 TAAATGCAAAACTACATCGTTTTGA
58020928 TAAA-GCAAAACTACATCGTTTTGA
1 TAAATGCAAAACTACATCGTTTTGA
58020952 TAAATG
1 TAAATG
58020958 TTTACTCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.31
Consensus pattern (25 bp):
TAAATGCAAAACTACATCGTTTTGA
Found at i:58021274 original size:4 final size:4
Alignment explanation
Indices: 58021265--58021315 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
58021255 TTAGTTTATG
58021265 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
58021313 CAT
1 CAT
58021316 GGCTTTTCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:58034840 original size:22 final size:22
Alignment explanation
Indices: 58034815--58034864 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
58034805 TTTTTTTCCT
*
58034815 TATTTTCATTGATTTTCTAATC
1 TATTTTCATTGATTTACTAATC
**
58034837 TATTTTTGTTGATTTACTAATC
1 TATTTTCATTGATTTACTAATC
*
58034859 TGTTTT
1 TATTTT
58034865 GGTCTCTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.08, T:0.62
Consensus pattern (22 bp):
TATTTTCATTGATTTACTAATC
Found at i:58037725 original size:6 final size:6
Alignment explanation
Indices: 58037716--58037743 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
58037706 ACCTGCTGAA
58037716 TTAGGG TTAGGG TTAGGG TTAGGG TTAG
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAG
58037744 TATTAGGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.46, T:0.36
Consensus pattern (6 bp):
TTAGGG
Found at i:58037749 original size:18 final size:18
Alignment explanation
Indices: 58037716--58037750 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58037706 ACCTGCTGAA
*
58037716 TTAGGGTTAGGGTTAGGG
1 TTAGGGTTAGGATTAGGG
*
58037734 TTAGGGTTAGTATTAGG
1 TTAGGGTTAGGATTAGG
58037751 ACTAGGTGAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (18 bp):
TTAGGGTTAGGATTAGGG
Found at i:58038734 original size:10 final size:10
Alignment explanation
Indices: 58038709--58038753 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
58038699 ATATAACATA
*
58038709 TAAATAATTC
1 TAAAAAATTC
58038719 -AAAAAATTC
1 TAAAAAATTC
58038728 TAAAAAATTC
1 TAAAAAATTC
58038738 T--AAAATTC
1 TAAAAAATTC
58038746 TAAAAAAT
1 TAAAAAAT
58038754 ATAAATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
8 8 0.26
9 8 0.26
10 15 0.48
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (10 bp):
TAAAAAATTC
Found at i:58038780 original size:28 final size:28
Alignment explanation
Indices: 58038749--58038802 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
58038739 AAAATTCTAA
*
58038749 AAAATATAAATAT-AAACTTTAAAAATTC
1 AAAATA-AAATATAAAAATTTAAAAATTC
*
58038777 AAAATAATATATAAAAATTTAAAAAT
1 AAAATAAAATATAAAAATTTAAAAAT
58038803 ATATTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAATAAAATATAAAAATTTAAAAATTC
Found at i:58038793 original size:21 final size:20
Alignment explanation
Indices: 58038769--58038811 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
58038759 TATAAACTTT
*
58038769 AAAAATTCAAAATAATATATA
1 AAAAATTAAAAAT-ATATATA
* *
58038790 AAAATTTAAAAATATATTTA
1 AAAAATTAAAAATATATATA
58038810 AA
1 AA
58038812 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTAAAAATATATATA
Found at i:58038805 original size:18 final size:18
Alignment explanation
Indices: 58038768--58038827 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
58038758 ATATAAACTT
*
58038768 TAAAAATTCAAAATAATATA
1 TAAAAATT-TAAA-AATATA
58038788 TAAAAATTTAAAAATATA
1 TAAAAATTTAAAAATATA
**
58038806 TTTAAATTTAAAAA-AT-
1 TAAAAATTTAAAAATATA
58038822 TAAAAA
1 TAAAAA
58038828 ACATAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 4 0.11
17 2 0.06
18 18 0.51
19 3 0.09
20 8 0.23
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAAATTTAAAAATATA
Found at i:58038911 original size:7 final size:8
Alignment explanation
Indices: 58038885--58038920 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
58038875 ATTTTTTTCA
58038885 AAAAATTT
1 AAAAATTT
*
58038893 -AAATTTT
1 AAAAATTT
58038900 AAAAATTT
1 AAAAATTT
58038908 AAAAATTT
1 AAAAATTT
58038916 AAAAA
1 AAAAA
58038921 CAATATATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAAAATTT
Found at i:58040386 original size:43 final size:43
Alignment explanation
Indices: 58040338--58040664 Score: 480
Period size: 43 Copynumber: 7.7 Consensus size: 43
58040328 GTTTATAAGA
*
58040338 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTGCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTGCCC
* * *
58040381 AAAAACGCCGCTAAAGAATATAACCTTTAACGGCGCTTTG-CC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTGCCC
* *
58040423 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTGCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTGCCC
* * *
58040466 AAAAACGCCGCTAAAGAATATAACCTTTAACGGCGCTTTG-CC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTGCCC
* *
58040508 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTGCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTGCCC
* * *
58040551 AAAAACGCCGCTAAAGAATATAACCTTTAACGGCGCTTTG-CC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTGCCC
* *
58040593 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTGCCC
*
58040636 ATAAACGCCGCTAAAGAACATGACCTTTA
1 AAAAACGCCGCTAAAGAACATGACCTTTA
58040665 ACGGTTCTTT
Statistics
Matches: 251, Mismatches: 30, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
42 111 0.44
43 140 0.56
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTGCCC
Found at i:58040483 original size:85 final size:85
Alignment explanation
Indices: 58040340--58040668 Score: 613
Period size: 85 Copynumber: 3.9 Consensus size: 85
58040330 TTATAAGAAA
58040340 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTGCCCAAAAACGCCGCTAAAGAATATAAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTGCCCAAAAACGCCGCTAAAGAATATAAC
58040405 CTTTAACGGCGCTTTGCCAC
66 CTTTAACGGCGCTTTGCCAC
58040425 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTGCCCAAAAACGCCGCTAAAGAATATAAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTGCCCAAAAACGCCGCTAAAGAATATAAC
58040490 CTTTAACGGCGCTTTGCCAC
66 CTTTAACGGCGCTTTGCCAC
58040510 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTGCCCAAAAACGCCGCTAAAGAATATAAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTGCCCAAAAACGCCGCTAAAGAATATAAC
58040575 CTTTAACGGCGCTTTGCCAC
66 CTTTAACGGCGCTTTGCCAC
* * * * *
58040595 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCATAAACGCCGCTAAAGAACATGAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTGCCCAAAAACGCCGCTAAAGAATATAAC
58040660 CTTTAACGG
66 CTTTAACGG
58040669 TTCTTTAGCG
Statistics
Matches: 239, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 239 1.00
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (85 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTGCCCAAAAACGCCGCTAAAGAATATAAC
CTTTAACGGCGCTTTGCCAC
Found at i:58041757 original size:40 final size:40
Alignment explanation
Indices: 58041694--58041778 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
58041684 TAGCTTGAAT
* * *
58041694 ATCAACACTTCAATATTTAATATGCAAGGAATTATCAAAA
1 ATCAACACTTCAATAATTAATATGCAAGAAATTAACAAAA
*
58041734 ATCAACATTTCAATAAATT-ATATGCAAGAAATTAACAAAA
1 ATCAACACTTCAAT-AATTAATATGCAAGAAATTAACAAAA
58041774 ATCAA
1 ATCAA
58041779 TCTTACAACA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 37 0.93
41 3 0.08
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (40 bp):
ATCAACACTTCAATAATTAATATGCAAGAAATTAACAAAA
Found at i:58041889 original size:86 final size:85
Alignment explanation
Indices: 58041785--58042130 Score: 288
Period size: 86 Copynumber: 4.0 Consensus size: 85
58041775 TCAATCTTAC
* * * * ***
58041785 AACAGTTTATGTGAAACAAATTAGCAAAATCAA-GTATTCATAGTTCATATATTTATCGGTAAT-
1 AACAATTTATATGCAACAAATTAGCAAAATCAATG-ATTCA-AGTTCATATATTTACCAAAAATC
*
58041848 AGGGCTAAATCTTCAAT-TTCTAT
64 A-GACTAAATCTTCAATATT-TAT
* * *
58041871 AACGATTTATATGCAACAAATTAGCAAAAATCAATGGTTCAAGTTCATGTATTTACCAAAAATCA
1 AACAATTTATATGCAACAAATTAGC-AAAATCAATGATTCAAGTTCATATATTTACCAAAAATCA
* *
58041936 GACTAATTTTTCAATATTTAT
65 GACTAAATCTTCAATATTTAT
* * * ** * *
58041957 AACAACTTATATGCAACAAATTAGCAAAAATAAATGGTTCAAGTTCATGCATTTACCAACAACCA
1 AACAATTTATATGCAACAAATTAGC-AAAATCAATGATTCAAGTTCATATATTTACCAAAAATCA
* *
58042022 GACTAAATTTTCAATTTTTAT
65 GACTAAATCTTCAATATTTAT
* * * ** * * *
58042043 AACAACTTATGTGCAACAAATTAGAAAAAATCAACTG-TTCAAGTTCATGCATTCACCAACAACC
1 AACAATTTATATGCAACAAATTAG-CAAAATCAA-TGATTCAAGTTCATATATTTACCAAAAATC
* *
58042107 AGACCAAATTTTCAACT-TTTAT
64 AGACTAAATCTTCAA-TATTTAT
58042129 AA
1 AA
58042131 AGTAGAAGGA
Statistics
Matches: 227, Mismatches: 26, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
86 208 0.92
87 18 0.08
88 1 0.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (85 bp):
AACAATTTATATGCAACAAATTAGCAAAATCAATGATTCAAGTTCATATATTTACCAAAAATCAG
ACTAAATCTTCAATATTTAT
Found at i:58045898 original size:11 final size:11
Alignment explanation
Indices: 58045884--58045943 Score: 65
Period size: 10 Copynumber: 5.7 Consensus size: 11
58045874 AAAATAAAAG
58045884 TTTAAAATCTT
1 TTTAAAATCTT
58045895 TTTAAAA--TT
1 TTTAAAATCTT
*
58045904 TTTAAAA-ATT
1 TTTAAAATCTT
58045914 TTTAAAATC-T
1 TTTAAAATCTT
*
58045924 TTTAAAATTCAT
1 TTTAAAA-TCTT
58045936 TTTAAAAT
1 TTTAAAAT
58045944 TTTAAATCAT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
9 9 0.20
10 17 0.39
11 10 0.23
12 8 0.18
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTAAAATCTT
Found at i:58045949 original size:20 final size:19
Alignment explanation
Indices: 58045884--58045946 Score: 74
Period size: 19 Copynumber: 3.1 Consensus size: 19
58045874 AAAATAAAAG
58045884 TTTAAAATCTTTTTAAAATT
1 TTTAAAATC-TTTTAAAATT
58045904 TTTAAAAAT-TTTTAAAATCT
1 TTT-AAAATCTTTTAAAAT-T
58045924 TTTAAAATTCATTTTAAAATT
1 TTTAAAA-TC-TTTTAAAATT
58045945 TT
1 TT
58045947 AAATCATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
19 13 0.34
20 8 0.21
21 8 0.21
22 9 0.24
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTAAAATCTTTTAAAATT
Found at i:58045950 original size:19 final size:20
Alignment explanation
Indices: 58045884--58045950 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
58045874 AAAATAAAAG
* *
58045884 TTTAAAATCTTTTTAAAATT
1 TTTAAATTCATTTTAAAATT
*
58045904 TTTAAA--AATTTTTAAAATCT
1 TTTAAATTCA-TTTTAAAAT-T
58045924 TTTAAAATTCATTTTAAAA-T
1 TTT-AAATTCATTTTAAAATT
58045944 TTTAAAT
1 TTTAAAT
58045951 CATGAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
19 13 0.33
20 14 0.36
21 3 0.08
22 8 0.21
23 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTAAATTCATTTTAAAATT
Found at i:58046481 original size:14 final size:14
Alignment explanation
Indices: 58046461--58046651 Score: 77
Period size: 14 Copynumber: 13.4 Consensus size: 14
58046451 ACTAGTTAAT
*
58046461 CTAAACCCTAAACC
1 CTAAACCATAAACC
* *
58046475 ATAAACC-TAAGCC
1 CTAAACCATAAACC
58046488 CTAAAACCATAAACC
1 CT-AAACCATAAACC
*
58046503 CTTAACACAT-AACC
1 CTAAAC-CATAAACC
*
58046517 TCTAAACCTTAAACC
1 -CTAAACCATAAACC
* * *
58046532 C-CAGCCTTTAAACC
1 CTAAACC-ATAAACC
* *
58046546 ATAAATCATAAACC
1 CTAAACCATAAACC
* * *
58046560 ATAACCCCTAAACC
1 CTAAACCATAAACC
*
58046574 CATAATCCATAAACC
1 C-TAAACCATAAACC
* *
58046589 TTAAA--ATGGTAACAC
1 CTAAACCAT--AAAC-C
** *
58046604 CTAAACTTTAAACT
1 CTAAACCATAAACC
*
58046618 CTAAACCATATACC
1 CTAAACCATAAACC
*
58046632 CTAAACCAAAAACC
1 CTAAACCATAAACC
*
58046646 TTAAAC
1 CTAAAC
58046652 TATAGTGATA
Statistics
Matches: 130, Mismatches: 34, Indels: 26
0.68 0.18 0.14
Matches are distributed among these distances:
12 2 0.02
13 9 0.07
14 78 0.60
15 40 0.31
17 1 0.01
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:58046496 original size:21 final size:20
Alignment explanation
Indices: 58046461--58046502 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
58046451 ACTAGTTAAT
58046461 CTAAACCCTAAACCATAAAC
1 CTAAACCCTAAACCATAAAC
*
58046481 CTAAGCCCTAAAACCATAAAC
1 CTAAACCCT-AAACCATAAAC
58046502 C
1 C
58046503 CTTAACACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.48, C:0.36, G:0.02, T:0.14
Consensus pattern (20 bp):
CTAAACCCTAAACCATAAAC
Found at i:58046550 original size:7 final size:7
Alignment explanation
Indices: 58046540--58046593 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
58046530 CCCCAGCCTT
58046540 TAAACCA
1 TAAACCA
*
58046547 TAAATCA
1 TAAACCA
58046554 TAAACCA
1 TAAACCA
* *
58046561 TAACCCC
1 TAAACCA
58046568 TAAACCCA
1 TAAA-CCA
*
58046576 TAATCCA
1 TAAACCA
*
58046583 TAAACCT
1 TAAACCA
58046590 TAAA
1 TAAA
58046594 ATGGTAACAC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCA
Found at i:58046593 original size:22 final size:22
Alignment explanation
Indices: 58046462--58046502 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 22
58046452 CTAGTTAATC
58046462 TAAACCCTAAA-CCATAAACC-
1 TAAACCCTAAACCCATAAACCA
* *
58046482 TAAGCCCTAAAACCATAAACC
1 TAAACCCTAAACCCATAAACC
58046503 CTTAACACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.49, C:0.34, G:0.02, T:0.15
Consensus pattern (22 bp):
TAAACCCTAAACCCATAAACCA
Found at i:58046932 original size:41 final size:41
Alignment explanation
Indices: 58046833--58047034 Score: 252
Period size: 41 Copynumber: 5.0 Consensus size: 41
58046823 TTTTAAATCC
* *
58046833 CTGAGCATTAGCGGCACTTT-TTAGAAAACGCCGCTAAA--A
1 CTGAGCATTAGCGGCGCTTTCTCA-AAAACGCCGCTAAAGCA
*
58046872 -TAGAGCATTAGCGGTGCTTTCTCAAAAACGCCGCTAAAGCA
1 CT-GAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCA
* * *
58046913 CTGAGCATTAGCGGCGCTTTCTAAAAAACGCCGCTAAAACC
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCA
*
58046954 CTGAGCATTAGCGGCGCTTTCTCAAAAATGCCGCTAAAGC-
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCA
* * *
58046994 CTTAAGCATTAGCGGCACTTTCTTAAAAACGCCGCTAAAGC
1 C-TGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGC
58047035 CCCGAAAGCT
Statistics
Matches: 143, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
38 1 0.01
39 30 0.21
40 3 0.02
41 108 0.76
42 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.22
Consensus pattern (41 bp):
CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCA
Found at i:58046987 original size:82 final size:79
Alignment explanation
Indices: 58046832--58047032 Score: 287
Period size: 82 Copynumber: 2.5 Consensus size: 79
58046822 ATTTTAAATC
* * *
58046832 CCTGAGCATTAGCGGCACTTTTTAGAAAACGCCGCTAAAATAGAGCATTAGCGGTGCTTTCTCAA
1 CCTGAGCATTAGCGGCACTTTCTAAAAAACGCCGCTAAAATAGAGCATTAGCGGCGCTTTCTCAA
58046897 AAACGCCGCTAAAG
66 AAACGCCGCTAAAG
*
58046911 CACTGAGCATTAGCGGCGCTTTCTAAAAAACGCCGCTAAAACCCT-GAGCATTAGCGGCGCTTTC
1 C-CTGAGCATTAGCGGCACTTTCTAAAAAACGCCGCTAAAA---TAGAGCATTAGCGGCGCTTTC
*
58046975 TCAAAAATGCCGCTAAAG
62 TCAAAAACGCCGCTAAAG
* *
58046993 CCTTAAGCATTAGCGGCACTTTCTTAAAAACGCCGCTAAA
1 CC-TGAGCATTAGCGGCACTTTCTAAAAAACGCCGCTAAA
58047033 GCCCCGAAAG
Statistics
Matches: 109, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
79 1 0.01
80 36 0.33
81 1 0.01
82 70 0.64
83 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.22
Consensus pattern (79 bp):
CCTGAGCATTAGCGGCACTTTCTAAAAAACGCCGCTAAAATAGAGCATTAGCGGCGCTTTCTCAA
AAACGCCGCTAAAG
Found at i:58047853 original size:12 final size:13
Alignment explanation
Indices: 58047826--58047876 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
58047816 TTTTATTATT
58047826 AATTAAAATAAAA
1 AATTAAAATAAAA
*
58047839 AATTAAAA-GAAA
1 AATTAAAATAAAA
58047851 AATTACTAAATAAAA
1 AATTA--AAATAAAA
*
58047866 TATTAAGAATA
1 AATTAA-AATA
58047877 TTAATGGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 8 0.26
13 9 0.29
14 7 0.23
15 7 0.23
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (13 bp):
AATTAAAATAAAA
Found at i:58057537 original size:24 final size:22
Alignment explanation
Indices: 58057510--58057553 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
58057500 AATTTGGATA
*
58057510 GTTTGAAGGTTAAGAGGGTTTTAG
1 GTTTGAA--TTAAAAGGGTTTTAG
*
58057534 GTTTTAATTAAAAGGGTTTT
1 GTTTGAATTAAAAGGGTTTT
58057554 GGGATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
24 6 0.33
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (22 bp):
GTTTGAATTAAAAGGGTTTTAG
Found at i:58057544 original size:22 final size:22
Alignment explanation
Indices: 58057519--58057562 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
58057509 AGTTTGAAGG
* *
58057519 TTAAGAGGGTTTTAGGTTTTAA
1 TTAAAAGGGTTTTAGGATTTAA
*
58057541 TTAAAAGGGTTTTGGGATTTAA
1 TTAAAAGGGTTTTAGGATTTAA
58057563 ATAGGGTAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (22 bp):
TTAAAAGGGTTTTAGGATTTAA
Found at i:58057592 original size:23 final size:23
Alignment explanation
Indices: 58057561--58057607 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
58057551 TTTGGGATTT
58057561 AAATAGGGT-AAGTTAAGGGTTTA
1 AAATAGGGTGAA-TTAAGGGTTTA
* *
58057584 AAATTGGGTGAATTTAGGGTTTA
1 AAATAGGGTGAATTAAGGGTTTA
58057607 A
1 A
58057608 TTAACTGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.34
Consensus pattern (23 bp):
AAATAGGGTGAATTAAGGGTTTA
Found at i:58058556 original size:5 final size:5
Alignment explanation
Indices: 58058546--58058576 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
58058536 TGAGCATTCG
*
58058546 ATCGA ATCGA ATTGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
58058577 AATTTTCGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (5 bp):
ATCGA
Found at i:58059366 original size:30 final size:31
Alignment explanation
Indices: 58059327--58059386 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
58059317 GGAGGTGGGA
*
58059327 TGGGAAGGGAATAAAAGTTTT-AGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTGA-GGGAAAAG
*
58059358 TGGG-AGGGAGTAAAAATTTTGAGGGAAAA
1 TGGGAAGGGAATAAAAATTTTGAGGGAAAA
58059387 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGAGGGAAAAG
Found at i:58059559 original size:30 final size:30
Alignment explanation
Indices: 58059500--58059559 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
58059490 GGGGAGGGGA
* * ***
58059500 GTAAAAGTTTTGGGGGGAAAGTGGGAAGGT
1 GTAAAAGTTTTGAGGGAAAAGTAAAAAGGT
58059530 GTAAAAGTTTTGAGGGAAAAGTAAAAAGGT
1 GTAAAAGTTTTGAGGGAAAAGTAAAAAGGT
58059560 TTGGAAGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (30 bp):
GTAAAAGTTTTGAGGGAAAAGTAAAAAGGT
Found at i:58059692 original size:19 final size:18
Alignment explanation
Indices: 58059670--58059712 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
58059660 GAAAAAAAAT
*
58059670 TCGAGTTGATTCAAATAAC
1 TCGA-TTGACTCAAATAAC
*
58059689 TCGATTGACTCGAATAAC
1 TCGATTGACTCAAATAAC
58059707 TCGATT
1 TCGATT
58059713 CGTTTAACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (18 bp):
TCGATTGACTCAAATAAC
Found at i:58061230 original size:18 final size:18
Alignment explanation
Indices: 58061187--58061222 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
58061177 TGAATTTAAT
58061187 AAATAAAACATGAAAGAA
1 AAATAAAACATGAAAGAA
58061205 AAATAAAACATGAAAGAA
1 AAATAAAACATGAAAGAA
58061223 TTATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.06, G:0.11, T:0.11
Consensus pattern (18 bp):
AAATAAAACATGAAAGAA
Found at i:58066583 original size:21 final size:22
Alignment explanation
Indices: 58066544--58066584 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
58066534 CTTTATTTAA
* *
58066544 TTATTAAATTACCTTAATAACC
1 TTATTAAATTAACTAAATAACC
58066566 TTATT-AATTAACTAAATAA
1 TTATTAAATTAACTAAATAA
58066585 AACATCTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (22 bp):
TTATTAAATTAACTAAATAACC
Found at i:58076158 original size:15 final size:14
Alignment explanation
Indices: 58076136--58076167 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
58076126 TAATAATTAT
58076136 ATAATAAATAGTGA
1 ATAATAAATAGTGA
58076150 ATAATTAAATAGTGA
1 ATAA-TAAATAGTGA
58076165 ATA
1 ATA
58076168 CATGTAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.31
Consensus pattern (14 bp):
ATAATAAATAGTGA
Found at i:58078645 original size:114 final size:114
Alignment explanation
Indices: 58078502--58078844 Score: 659
Period size: 114 Copynumber: 3.0 Consensus size: 114
58078492 GTTTCCAGAT
* *
58078502 AAATATGGATTAGAAATTGTGAAATGTGGTACCACACAAGTCGAATCTACAGAATTTTCTGAGTG
1 AAATAT-GATTAGAAATTGTGAAATGTGGTGCCACACAAGTCGAATCTACAGAATTTTCTAAGTG
58078567 TTTAAAGAGAAGTGTTGGAGTAATCTAATGAGTCAAGTTGTAATGCTCCA
65 TTTAAAGAGAAGTGTTGGAGTAATCTAATGAGTCAAGTTGTAATGCTCCA
58078617 AAATATGATTAGAAATTGTGAAATGTGGTGCCACACAAGTCGAATCTACAGAATTTTCTAAGTGT
1 AAATATGATTAGAAATTGTGAAATGTGGTGCCACACAAGTCGAATCTACAGAATTTTCTAAGTGT
58078682 TTAAAGAGAAGTGTTGGAGTAATCTAATGAGTCAAGTTGTAATGCTCCA
66 TTAAAGAGAAGTGTTGGAGTAATCTAATGAGTCAAGTTGTAATGCTCCA
58078731 AAATATGATTAGAAATTGTGAAATGTGGTGCCACACAAGTCGAATCTACAGAATTTTCTAAGTGT
1 AAATATGATTAGAAATTGTGAAATGTGGTGCCACACAAGTCGAATCTACAGAATTTTCTAAGTGT
58078796 TTAAAGAGAAGTGTTGGAGTAATCTAATGAGTCAAGTTGTAATGCTCCA
66 TTAAAGAGAAGTGTTGGAGTAATCTAATGAGTCAAGTTGTAATGCTCCA
58078845 TACCCAGTTT
Statistics
Matches: 226, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
114 220 0.97
115 6 0.03
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (114 bp):
AAATATGATTAGAAATTGTGAAATGTGGTGCCACACAAGTCGAATCTACAGAATTTTCTAAGTGT
TTAAAGAGAAGTGTTGGAGTAATCTAATGAGTCAAGTTGTAATGCTCCA
Found at i:58084976 original size:11 final size:10
Alignment explanation
Indices: 58084927--58084975 Score: 73
Period size: 10 Copynumber: 4.9 Consensus size: 10
58084917 TTTAATTTCA
58084927 AATTTTTTTG
1 AATTTTTTTG
*
58084937 AATTTTTTTTC
1 AA-TTTTTTTG
58084948 AATTTTTTTG
1 AATTTTTTTG
58084958 AATTTTTTT-
1 AATTTTTTTG
58084967 AATTTTTTT
1 AATTTTTTT
58084976 TCACATACCT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
9 9 0.25
10 18 0.50
11 9 0.25
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (10 bp):
AATTTTTTTG
Found at i:58084976 original size:21 final size:21
Alignment explanation
Indices: 58084922--58084975 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
58084912 TTTTTTTTAA
58084922 TTTCAAATTTTTTTGAATTTTT
1 TTTC-AATTTTTTTGAATTTTT
58084944 TTTCAATTTTTTTGAA-TTTT
1 TTTCAATTTTTTTGAATTTTT
58084964 TTT-AATTTTTTT
1 TTTCAATTTTTTT
58084976 TCACATACCT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.28
20 7 0.22
21 12 0.38
22 4 0.12
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (21 bp):
TTTCAATTTTTTTGAATTTTT
Found at i:58085195 original size:44 final size:44
Alignment explanation
Indices: 58085178--58085291 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
58085168 TTTAGTTAGG
*
58085178 GAATGGTATTGGTTTTGGTACAAAATAGGGTTTGGTATAGGTAC
1 GAATGGTATAGGTTTTGGTACAAAATAGGGTTTGGTATAGGTAC
** * *
58085222 GAATGGTATAGGTTTTGGTACAAAAT-GAATTTTGGTGTAAGTAC
1 GAATGGTATAGGTTTTGGTACAAAATAG-GGTTTGGTATAGGTAC
* *
58085266 GAAAGGGTATGGGTTTTGGTACAAAA
1 G-AATGGTATAGGTTTTGGTACAAAA
58085292 ATGGATCAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
43 1 0.02
44 38 0.62
45 22 0.36
ACGTcount: A:0.31, C:0.04, G:0.31, T:0.34
Consensus pattern (44 bp):
GAATGGTATAGGTTTTGGTACAAAATAGGGTTTGGTATAGGTAC
Found at i:58086193 original size:20 final size:20
Alignment explanation
Indices: 58086168--58086212 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
58086158 TAAATTCACA
58086168 TAATTAAAACT-AGACACAAT
1 TAATT-AAACTAAGACACAAT
**
58086188 TAATTAAGTTAAGACACAAT
1 TAATTAAACTAAGACACAAT
58086208 TAATT
1 TAATT
58086213 CGGTTAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (20 bp):
TAATTAAACTAAGACACAAT
Found at i:58102110 original size:6 final size:6
Alignment explanation
Indices: 58102099--58102131 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
58102089 ACAAAAATGT
*
58102099 AATGAC AATGAC AATGAA AATG-C AATGAC AATG
1 AATGAC AATGAC AATGAC AATGAC AATGAC AATG
58102132 TATACTTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.52, C:0.12, G:0.18, T:0.18
Consensus pattern (6 bp):
AATGAC
Done.