Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 280 of 316
Found at i:92842799 original size:65 final size:65
Alignment explanation
Indices: 92842718--92842849 Score: 210
Period size: 65 Copynumber: 2.0 Consensus size: 65
92842708 GTCTCTTTCC
* * *
92842718 AATCAATTAATAACATGTCAGTTAATTTTTACATGTTATTTACATCTCATTTAATTAGATTTTTT
1 AATCAATTAATAACATGTCAGCTAATTTTTACATGTCATCTACATCTCATTTAATTAGATTTTTT
* * *
92842783 AATCATTTAATGACATGTTAGCTAATTTTTACATGTCATCTACATCTCATTTAATTAGATTTTTT
1 AATCAATTAATAACATGTCAGCTAATTTTTACATGTCATCTACATCTCATTTAATTAGATTTTTT
92842848 AA
1 AA
92842850 CCATAAATCC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (65 bp):
AATCAATTAATAACATGTCAGCTAATTTTTACATGTCATCTACATCTCATTTAATTAGATTTTTT
Found at i:92843018 original size:60 final size:60
Alignment explanation
Indices: 92842918--92843156 Score: 302
Period size: 60 Copynumber: 4.0 Consensus size: 60
92842908 CACGTCTCTG
** * *
92842918 CCCTGCTGCTATTA-TTTTTTCGGCAATTGCTTTTTTTGCCTCTTCGCGTCTCTTTGCAAC
1 CCCTGCTGCTATTATTTTTTTCGGCAATTGC-TTTGCTGCCTCTTCACGTCTCTCTGCAAC
* * *
92842978 CCCCGCTGCTATTATTTTTTTCGACAATTGCTTTGCTGCCTCTTCACCTCTCTCTGCAAC
1 CCCTGCTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTCTTCACGTCTCTCTGCAAC
* * *
92843038 CCCTACTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTTTTCACGTCTCTCTACAAC
1 CCCTGCTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTCTTCACGTCTCTCTGCAAC
* * * * * * *
92843098 CCTTGTTGCTATT-TTTTTTCCGTCAACTACTTTTCTGCCTCTTCACGTCTCTCTGCAAC
1 CCCTGCTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTCTTCACGTCTCTCTGCAAC
92843157 ACCTATTGAT
Statistics
Matches: 155, Mismatches: 23, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
59 39 0.25
60 101 0.65
61 15 0.10
ACGTcount: A:0.13, C:0.31, G:0.12, T:0.44
Consensus pattern (60 bp):
CCCTGCTGCTATTATTTTTTTCGGCAATTGCTTTGCTGCCTCTTCACGTCTCTCTGCAAC
Found at i:92843177 original size:119 final size:121
Alignment explanation
Indices: 92842927--92843176 Score: 301
Period size: 119 Copynumber: 2.1 Consensus size: 121
92842917 GCCCTGCTGC
** * * *
92842927 TATTA-TTTTTTCGGCAATTGCTTTTTTTGCCTCTTCGCGTCTCTTTGCAACCCCCGCTGCTATT
1 TATTATTTTTTTCGGCAATTGCTTTTGCTGCCTCTTCACGTCTCTCTACAACCCCCGCTGCTATT
* * * * *
92842991 ATTTTTTTCGACAATTGCTTTGCTGCCTCTTCACCTCTCTCTGCAACCCCTACTGC
66 ATTTTTTCCGACAACTACTTTGCTGCCTCTTCACCTCTCTCTGCAACACCTACTGA
* ** *
92843047 TATTATTTTTTTCGGCAATTGC-TTTGCTGCCTTTTCACGTCTCTCTACAACCCTTGTTGCTATT
1 TATTATTTTTTTCGGCAATTGCTTTTGCTGCCTCTTCACGTCTCTCTACAACCCCCGCTGCTATT
* * * *
92843111 -TTTTTTCCGTCAACTACTTTTCTGCCTCTTCACGTCTCTCTGCAACACCTATTGA
66 ATTTTTTCCGACAACTACTTTGCTGCCTCTTCACCTCTCTCTGCAACACCTACTGA
*
92843166 T-TTGTTTTTTT
1 TATTATTTTTTT
92843177 TTTCGATGTG
Statistics
Matches: 110, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
118 9 0.08
119 47 0.43
120 38 0.35
121 16 0.15
ACGTcount: A:0.13, C:0.29, G:0.12, T:0.46
Consensus pattern (121 bp):
TATTATTTTTTTCGGCAATTGCTTTTGCTGCCTCTTCACGTCTCTCTACAACCCCCGCTGCTATT
ATTTTTTCCGACAACTACTTTGCTGCCTCTTCACCTCTCTCTGCAACACCTACTGA
Found at i:92848154 original size:65 final size:65
Alignment explanation
Indices: 92848050--92848183 Score: 232
Period size: 65 Copynumber: 2.1 Consensus size: 65
92848040 AGGGATTTAA
92848050 GATTAAAAAATCTAATTAAATGAGGTGTAAATGACATGTAAAAATCAACTGACATGTCATTAAAT
1 GATTAAAAAATCTAATTAAATGAGGTGTAAATGACATGTAAAAATCAACTGACATGTCATTAAAT
* * * *
92848115 GATTAAAAAATCTAATTAAATGAGGTGTAATTGACATGTAAAAATTAGCTGACATGTCATTAATT
1 GATTAAAAAATCTAATTAAATGAGGTGTAAATGACATGTAAAAATCAACTGACATGTCATTAAAT
92848180 GATT
1 GATT
92848184 GGGAAATGAC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.32
Consensus pattern (65 bp):
GATTAAAAAATCTAATTAAATGAGGTGTAAATGACATGTAAAAATCAACTGACATGTCATTAAAT
Found at i:92851505 original size:58 final size:58
Alignment explanation
Indices: 92851438--92851552 Score: 167
Period size: 58 Copynumber: 2.0 Consensus size: 58
92851428 AAGGCATATA
* * *
92851438 AATCTTCGAGTTGTTTTGAAGTTAGTCATATTTTCTAAAACACTCAGTTGAGAATGTG
1 AATCCTCGAGTTGTTTTGAACTTAGGCATATTTTCTAAAACACTCAGTTGAGAATGTG
* * * *
92851496 AATCCTCGAGTTGTTTTGAACTTAGGCATATTTTCTAAGATACTTAGTTGGGAATGT
1 AATCCTCGAGTTGTTTTGAACTTAGGCATATTTTCTAAAACACTCAGTTGAGAATGT
92851553 AAATTCGTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (58 bp):
AATCCTCGAGTTGTTTTGAACTTAGGCATATTTTCTAAAACACTCAGTTGAGAATGTG
Found at i:92851779 original size:70 final size:70
Alignment explanation
Indices: 92851610--92851788 Score: 164
Period size: 70 Copynumber: 2.6 Consensus size: 70
92851600 AAAAAAATGA
* * * * ** * * *
92851610 CTAGGAGCTTTTGACTCTCGCTAGTTATTTGGGTGGTGTGGTATTGAACCTGCGAGCCTTAGAAT
1 CTAGGAGCTTTTAACTCTCACTAATTATTTGGGTGCTACGATATTGAACCTACAAGCCTTAGAAT
*
92851675 AAGAG
66 AACAG
* * * * * * *
92851680 -TTGTGAGCTTTTAACTTTTGA-TCACTATTTGGTTGCTACGATATTGAACCTATAAGCCTTAGA
1 CTAG-GAGCTTTTAAC-TCTCACTAATTATTTGGGTGCTACGATATTGAACCTACAAGCCTTAGA
92851743 ATAACAG
64 ATAACAG
*
92851750 CTAGGAGCTTTTAACTCTCACTAATTATTTGGGGGCTAC
1 CTAGGAGCTTTTAACTCTCACTAATTATTTGGGTGCTAC
92851789 AGGTATAAGA
Statistics
Matches: 81, Mismatches: 24, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
69 5 0.06
70 72 0.89
71 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (70 bp):
CTAGGAGCTTTTAACTCTCACTAATTATTTGGGTGCTACGATATTGAACCTACAAGCCTTAGAAT
AACAG
Found at i:92851965 original size:69 final size:70
Alignment explanation
Indices: 92851821--92852001 Score: 197
Period size: 69 Copynumber: 2.6 Consensus size: 70
92851811 TAGTTGTGAG
* * * *
92851821 CTTTTAACTCTCGTTAACTATTTGGGGATTGCAGTATTGAACCTGCGAGTCTTAGAATAATAGCT
1 CTTTTAACTCTCGCTAACTATTTGGGGATTGCAGTATTAAACCTACGAGCCTTAGAATAATAGCT
**
92851886 GGGAA
66 GACAA
* * *
92851891 CTTTTAACTCTCGCTAACTGTTTGGGGCTATG-A-TATTAAACCTACGAGCCTTAGAATGATAGC
1 CTTTTAACTCTCGCTAACTATTTGGGGAT-TGCAGTATTAAACCTACGAGCCTTAGAATAATAGC
*
92851954 TGACAG
65 TGACAA
* * * *
92851960 TTTTTAACTTTCGCCAACTATTTGGGGGA-TGCGGTATTAAAC
1 CTTTTAACTCTCGCTAACTATTT-GGGGATTGCAGTATTAAAC
92852002 TTGTGAGCCA
Statistics
Matches: 91, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
68 2 0.02
69 48 0.53
70 39 0.43
71 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (70 bp):
CTTTTAACTCTCGCTAACTATTTGGGGATTGCAGTATTAAACCTACGAGCCTTAGAATAATAGCT
GACAA
Found at i:92858642 original size:52 final size:49
Alignment explanation
Indices: 92858557--92858923 Score: 415
Period size: 46 Copynumber: 7.6 Consensus size: 49
92858547 TTTGAGTACT
* *
92858557 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * *
92858603 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
92858655 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
92858701 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
92858747 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
92858799 TTTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTC-GTCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCAG-CTACACTTA
* *
92858851 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
92858897 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
92858924 GCTACACTTA
Statistics
Matches: 289, Mismatches: 16, Indels: 32
0.86 0.05 0.09
Matches are distributed among these distances:
46 154 0.53
47 1 0.00
48 1 0.00
49 2 0.01
50 1 0.00
51 1 0.00
52 129 0.45
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:92858677 original size:98 final size:97
Alignment explanation
Indices: 92858557--92858923 Score: 483
Period size: 98 Copynumber: 3.7 Consensus size: 97
92858547 TTTGAGTACT
* *
92858557 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
92858622 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
92858655 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
92858715 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
92858747 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
*
92858812 CAAGTGAAAAGTGATAAGTGATAGCTTCGTCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
92858851 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
92858916 GATAAGTG
65 GA-AAGTG
92858924 GCTACACTTA
Statistics
Matches: 237, Mismatches: 18, Indels: 27
0.84 0.06 0.10
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
98 143 0.60
99 10 0.04
101 1 0.00
104 40 0.17
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:92858905 original size:196 final size:196
Alignment explanation
Indices: 92858571--92858923 Score: 589
Period size: 196 Copynumber: 1.8 Consensus size: 196
92858561 ATCAAGTGAT
* * *
92858571 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
92858636 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
92858701 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
92858766 G
196 G
* * *
92858767 AAAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* *
92858832 ATAGCTTCGTCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
92858897 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
92858924 GCTACACTTA
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 144 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:92858931 original size:37 final size:37
Alignment explanation
Indices: 92858887--92859032 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
92858877 GATAGCTTTA
*
92858887 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
92858924 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
92858961 GCTACACTTATCTGATCAAGAAACAAAGTGAT-AGTTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAG-TG
**
92858998 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
92859033 ATCATACGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
35 9 0.09
36 8 0.08
37 87 0.84
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:92858960 original size:150 final size:149
Alignment explanation
Indices: 92858557--92858912 Score: 442
Period size: 144 Copynumber: 2.4 Consensus size: 149
92858547 TTTGAGTACT
* * * * *
92858557 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * *
92858622 GAAAGTGATAAGTAATAGCTTCGGCTATACT----T-ATC---TGATCAAGTGATAAAGTGATAA
66 GAAAGTGATAACT-ATAGCTTCAGC-AAACTAAAGTGATCAAGTGA-CAAGTGATAAAGTGATAA
92858679 GTGATAGCTTCGGCTATACTTA
128 GTGATAGCTTCGGCTATACTTA
* *
92858701 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * * **
92858766 GAAAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGTGACAAGTGA-AAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGC-AAACTAAAGTGATCAAGTGACAAGTGATAAAGTGATAAG
*
92858830 TGATAGCTTCGTCTATACTTA
129 TGATAGCTTCGGCTATACTTA
*
92858851 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
92858913 AGTGATAAGT
Statistics
Matches: 195, Mismatches: 9, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
144 91 0.47
148 1 0.01
149 3 0.02
150 90 0.46
151 7 0.04
152 3 0.02
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (149 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
GAAAGTGATAACTATAGCTTCAGCAAACTAAAGTGATCAAGTGACAAGTGATAAAGTGATAAGTG
ATAGCTTCGGCTATACTTA
Found at i:92860362 original size:58 final size:58
Alignment explanation
Indices: 92860285--92860452 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
92860275 CATGTGAACA
92860285 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
92860344 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
92860400 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
92860451 TG
1 TG
92860453 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:92860394 original size:28 final size:28
Alignment explanation
Indices: 92860304--92860394 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
92860294 GTGATTCCGT
92860304 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
92860332 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
92860361 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
92860390 GTAAG
1 GTAAG
92860395 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:92860417 original size:49 final size:49
Alignment explanation
Indices: 92860345--92860485 Score: 228
Period size: 49 Copynumber: 2.9 Consensus size: 49
92860335 AGTGATATGT
* *
92860345 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
92860394 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
92860443 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCAT
92860486 TGAGAAAACG
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 86 1.00
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.33
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:92863694 original size:52 final size:49
Alignment explanation
Indices: 92863609--92863975 Score: 424
Period size: 46 Copynumber: 7.6 Consensus size: 49
92863599 TTTGAGTACT
* *
92863609 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * *
92863655 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
92863707 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
92863753 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
92863799 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
92863851 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTC-GTCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCAG-CTACACTTA
* *
92863903 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
92863949 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
92863976 GCTACACTTA
Statistics
Matches: 291, Mismatches: 14, Indels: 32
0.86 0.04 0.09
Matches are distributed among these distances:
46 154 0.53
47 1 0.00
48 1 0.00
49 2 0.01
50 1 0.00
51 1 0.00
52 131 0.45
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:92863729 original size:98 final size:97
Alignment explanation
Indices: 92863609--92863975 Score: 492
Period size: 98 Copynumber: 3.7 Consensus size: 97
92863599 TTTGAGTACT
* *
92863609 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
92863674 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
92863707 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
92863767 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
92863799 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
*
92863864 CAAGTGAAAAGTGATAAGTGATAGCTTCGTCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
92863903 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
92863968 GATAAGTG
65 GA-AAGTG
92863976 GCTACACTTA
Statistics
Matches: 239, Mismatches: 16, Indels: 27
0.85 0.06 0.10
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
98 145 0.61
99 10 0.04
101 1 0.00
104 40 0.17
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:92863957 original size:196 final size:196
Alignment explanation
Indices: 92863623--92863975 Score: 598
Period size: 196 Copynumber: 1.8 Consensus size: 196
92863613 ATCAAGTGAT
* * *
92863623 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
92863688 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
92863753 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
92863818 G
196 G
* *
92863819 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* *
92863884 ATAGCTTCGTCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
92863949 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
92863976 GCTACACTTA
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 145 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:92863983 original size:37 final size:37
Alignment explanation
Indices: 92863939--92864084 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
92863929 GATAGCTTTA
*
92863939 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
92863976 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
92864013 GCTACACTTATCTGATCAAGAAACAAAGTGAT-AGTTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAG-TG
**
92864050 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
92864085 ATCATACGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
35 9 0.09
36 8 0.08
37 87 0.84
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:92865224 original size:42 final size:42
Alignment explanation
Indices: 92865177--92865299 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 42
92865167 GAAGGCCACA
* * *
92865177 CAGAAGCACATAAGTGCTAAACGAAAATCCGTAAGGGTTGAT
1 CAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTTGAT
* * * * * *
92865219 CAGAAGCTCATAGGAGCTGACCGAAAACCCATAAGGGTTAAA
1 CAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTTGAT
* * * * *
92865261 CTGAAGCTCAAAAGAGCTAAACGGAAACCCATTAGGGTT
1 CAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTT
92865300 AAATTGAAAC
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.17
Consensus pattern (42 bp):
CAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTTGAT
Found at i:92867567 original size:21 final size:21
Alignment explanation
Indices: 92867543--92867594 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
92867533 CTTGAGCAAC
*
92867543 CATTTGCTTCATTATGAATCT
1 CATTTGCTCCATTATGAATCT
92867564 CATTTGCTCCATTATGAATCT
1 CATTTGCTCCATTATGAATCT
92867585 CATTTGCTCC
1 CATTTGCTCC
92867595 TAGAGGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.25, G:0.10, T:0.44
Consensus pattern (21 bp):
CATTTGCTCCATTATGAATCT
Found at i:92868604 original size:29 final size:30
Alignment explanation
Indices: 92868571--92868643 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
92868561 GCATAAGGGT
*
92868571 AAAATAGTCATTTTGCC-AAGTCTAGGGGC
1 AAAATGGTCATTTTGCCAAAGTCTAGGGGC
* *
92868600 AAAATGGTTATTTTGCCAAAGTCTTGGGGC
1 AAAATGGTCATTTTGCCAAAGTCTAGGGGC
92868630 AAAATGGTCATTTT
1 AAAATGGTCATTTT
92868644 ACTAAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 15 0.38
30 24 0.62
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (30 bp):
AAAATGGTCATTTTGCCAAAGTCTAGGGGC
Found at i:92870712 original size:5 final size:5
Alignment explanation
Indices: 92870663--92870694 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
92870653 TTATTATTGG
92870663 TTATAT TTATT TTATT TTATT TTATT TTATT T
1 TTAT-T TTATT TTATT TTATT TTATT TTATT T
92870695 CATTCTGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:92875489 original size:13 final size:13
Alignment explanation
Indices: 92875454--92875490 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
92875444 TTTTCAAGAG
*
92875454 AATTCTTTAATCA
1 AATTCTTTAGTCA
92875467 AATTCTTTAGTCA
1 AATTCTTTAGTCA
92875480 AATTCTTTAGT
1 AATTCTTTAGT
92875491 TGAATAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.49
Consensus pattern (13 bp):
AATTCTTTAGTCA
Found at i:92883033 original size:21 final size:20
Alignment explanation
Indices: 92883003--92883058 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 20
92882993 AAGAAGGAAT
*
92883003 GAGCTGAAACGAGTTAAATTC
1 GAGCTCAAACGAGTTAAA-TC
* *
92883024 GAGCTCAAACGAGCTGAATC
1 GAGCTCAAACGAGTTAAATC
* *
92883044 GAACTCAAGCGAGTT
1 GAGCTCAAACGAGTT
92883059 GATGGAAACT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (20 bp):
GAGCTCAAACGAGTTAAATC
Found at i:92895795 original size:9 final size:9
Alignment explanation
Indices: 92895781--92895835 Score: 75
Period size: 9 Copynumber: 6.7 Consensus size: 9
92895771 TTTACTTTTA
92895781 ATTTTTAAT
1 ATTTTTAAT
92895790 ATTTTTAAT
1 ATTTTTAAT
92895799 ATTTTTAAT
1 ATTTTTAAT
92895808 ATTTTT-A-
1 ATTTTTAAT
92895815 ATTTTT-A-
1 ATTTTTAAT
92895822 ATTTTTAAT
1 ATTTTTAAT
92895831 -TTTTT
1 ATTTTT
92895836 TCTATGATGG
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
7 13 0.30
8 7 0.16
9 24 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:92895797 original size:16 final size:16
Alignment explanation
Indices: 92895776--92895834 Score: 86
Period size: 18 Copynumber: 3.7 Consensus size: 16
92895766 TGGATTTTAC
92895776 TTTTAATTTTTAATAT
1 TTTTAATTTTTAATAT
92895792 TTTTAATATTTTTAATAT
1 TTTT-A-ATTTTTAATAT
92895810 TTTTAATTTTT-A-AT
1 TTTTAATTTTTAATAT
92895824 TTTTAATTTTT
1 TTTTAATTTTT
92895835 TTCTATGATG
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
14 13 0.32
15 1 0.02
16 10 0.24
17 2 0.05
18 15 0.37
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTAATTTTTAATAT
Found at i:92895826 original size:6 final size:7
Alignment explanation
Indices: 92895776--92895834 Score: 64
Period size: 7 Copynumber: 7.6 Consensus size: 7
92895766 TGGATTTTAC
92895776 TTTTAAT
1 TTTTAAT
92895783 TTTTAATAT
1 TTTT-A-AT
92895792 TTTTAATAT
1 TTTT-A-AT
92895801 TTTTAATAT
1 TTTT-A-AT
92895810 TTTTAAT
1 TTTTAAT
92895817 TTTTAAT
1 TTTTAAT
92895824 TTTTAAT
1 TTTTAAT
92895831 TTTT
1 TTTT
92895835 TTCTATGATG
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
7 24 0.48
8 2 0.04
9 24 0.48
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTAAT
Found at i:92895836 original size:16 final size:16
Alignment explanation
Indices: 92895776--92895827 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
92895766 TGGATTTTAC
92895776 TTTTAATTTTTAATATT
1 TTTTAATTTTTAAT-TT
* *
92895793 TTTAATATTTTTAATAT
1 TTTTA-ATTTTTAATTT
92895810 TTTTAATTTTTAATTT
1 TTTTAATTTTTAATTT
92895826 TT
1 TT
92895828 AATTTTTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 12 0.40
17 9 0.30
18 9 0.30
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTAATTTTTAATTT
Found at i:92898331 original size:6 final size:6
Alignment explanation
Indices: 92898320--92898345 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
92898310 AAATTGTGTA
92898320 TGAAAT TGAAAT TGAAAT TGAAAT TG
1 TGAAAT TGAAAT TGAAAT TGAAAT TG
92898346 GATTAAGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (6 bp):
TGAAAT
Found at i:92903319 original size:47 final size:46
Alignment explanation
Indices: 92903188--92903386 Score: 168
Period size: 47 Copynumber: 4.2 Consensus size: 46
92903178 ATAGTGAAAC
* * * * * *
92903188 TATGGTCTTGCAC-ATAGTCACATATCACACACCGAAGCCATAGCTCGGC
1 TATGGTCTTACACGA-AG-CACATATCACACA--GATGCCATATCCCAGA
* * * *
92903237 TATAGTCTTACACGGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTACACGAAGCACATATCACACAGATGCCATATCCCAGA
*
92903283 TATGGTCTTACACAGAAGCACATATCATACAGATGCCATATCCCAGA
1 TATGGTCTTACAC-GAAGCACATATCACACAGATGCCATATCCCAGA
* * * * * *
92903330 TATGGTCTTATACGGAAGCTCATATCACACCGACGTCATAGT-CCAGC
1 TATGGTCTTACAC-GAAGCACATATCACACAGATGCCATA-TCCCAGA
92903377 TATGGTCTTA
1 TATGGTCTTA
92903387 TACAAAAATC
Statistics
Matches: 124, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
46 23 0.19
47 76 0.61
48 13 0.10
49 12 0.10
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (46 bp):
TATGGTCTTACACGAAGCACATATCACACAGATGCCATATCCCAGA
Found at i:92903387 original size:47 final size:47
Alignment explanation
Indices: 92903254--92903406 Score: 182
Period size: 47 Copynumber: 3.2 Consensus size: 47
92903244 TTACACGGAT
* *
92903254 CACATATCACACTGATGCCATATCCCAGATATGGTCTTACACAGAAG
1 CACATATCACACAGATGCCATATCCCAGATATGGTCTTATACAGAAG
* *
92903301 CACATATCATACAGATGCCATATCCCAGATATGGTCTTATACGGAAG
1 CACATATCACACAGATGCCATATCCCAGATATGGTCTTATACAGAAG
* * * * * * *
92903348 CTCATATCACACCGACGTCATAGT-CCAGCTATGGTCTTATACAAAAAT
1 CACATATCACACAGATGCCATA-TCCCAGATATGGTCTTATAC-AGAAG
92903396 CACATATCACA
1 CACATATCACA
92903407 TGTTGCCATG
Statistics
Matches: 90, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
47 77 0.86
48 13 0.14
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.25
Consensus pattern (47 bp):
CACATATCACACAGATGCCATATCCCAGATATGGTCTTATACAGAAG
Found at i:92907528 original size:30 final size:30
Alignment explanation
Indices: 92907494--92907554 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
92907484 CTTATTTTCA
*
92907494 TGTTAATTTTGTTATTATTTTAAATGCATT
1 TGTTAATTTTGTTATTATTTTAAAGGCATT
* *
92907524 TGTTAATTTTTTTATTATTTTAGAGGCATT
1 TGTTAATTTTGTTATTATTTTAAAGGCATT
92907554 T
1 T
92907555 ACTTGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.03, G:0.11, T:0.61
Consensus pattern (30 bp):
TGTTAATTTTGTTATTATTTTAAAGGCATT
Found at i:92912656 original size:16 final size:17
Alignment explanation
Indices: 92912627--92912668 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
92912617 AATTTTATAG
92912627 TAGTTA-TT-TTATGC-
1 TAGTTATTTATTATGCT
92912641 TAGTTATTTATTATGCT
1 TAGTTATTTATTATGCT
92912658 TA-TTATTTATT
1 TAGTTATTTATT
92912669 CCATTTCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.24
15 2 0.08
16 15 0.60
17 2 0.08
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.62
Consensus pattern (17 bp):
TAGTTATTTATTATGCT
Found at i:92917331 original size:5 final size:5
Alignment explanation
Indices: 92917321--92917345 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
92917311 TCTTATATTG
92917321 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
92917346 TGTAATATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:92929965 original size:218 final size:215
Alignment explanation
Indices: 92929537--92929973 Score: 574
Period size: 218 Copynumber: 2.0 Consensus size: 215
92929527 TGTACTAAAC
* * *
92929537 TTTGTCTTGTTTTGGATCCAAAGCGACCGGATAAAACTATGTAAACAAGAAACTTGCAGATGACT
1 TTTGTCTTGTTGTGGATCCAAAGCCACAGGATAAAACTATGTAAACAAGAAACTTGCAGATGACT
* * * *
92929602 ACAACAAGTGCTAGTTTTGGAACTTTAATATTAATGTAAGACTATTATTAGTTAGTTATTCGTAC
66 ACAACAAGTGCCAGATTTGGAACTTTAATATTAATGTAAGAATATTATTAGTTAGTTATTAGTAC
* * * *
92929667 ATTAAGATACTGAGAACAAAAGGATATGTGGAACCAACAAAAAAAAGAACAAAAAAGCATTGAAG
131 ATTAAGATACTGAAAAAAAAAGGAGATGTGGAACCAACAAAAAAAAGAACAAAAAAGCATTGAAA
*
92929732 GGTTCTCGGCTTCTACCTGA
196 GGTTCTCGACTTCTACCTGA
* * *
92929752 TTTGTCTTGTTGTGGATCCAAAGCCAGAGGATGAAACTA-GTAAACAAGAAACTTGCAGATGGCT
1 TTTGTCTTGTTGTGGATCCAAAGCCACAGGATAAAACTATGTAAACAAGAAACTTGCAGATGACT
* * * * *
92929816 AGAACATGTTGTGCCAGATTTGGAACTTTAGTATTAATGTAAGAATGTTATTATTTAGTTATTAG
66 ACAACA---AGTGCCAGATTTGGAACTTTAATATTAATGTAAGAATATTATTAGTTAGTTATTAG
* * * *
92929881 TTACATTAAGATACTGAAAAAAAAAGTAGATGTGGAACCAACACAAAAAGGAA-AAAAAGTTGCA
128 -TACATTAAGATACTGAAAAAAAAAGGAGATGTGGAACCAACAAAAAAAAGAACAAAAA--AGCA
*
92929945 TTGAAAGG-TCTCTACTTCTACCTGA
190 TTGAAAGGTTCTCGACTTCTACCTGA
92929970 TTTG
1 TTTG
92929974 GTCAGTCACT
Statistics
Matches: 191, Mismatches: 25, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
214 29 0.15
215 34 0.18
217 53 0.28
218 65 0.34
219 10 0.05
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (215 bp):
TTTGTCTTGTTGTGGATCCAAAGCCACAGGATAAAACTATGTAAACAAGAAACTTGCAGATGACT
ACAACAAGTGCCAGATTTGGAACTTTAATATTAATGTAAGAATATTATTAGTTAGTTATTAGTAC
ATTAAGATACTGAAAAAAAAAGGAGATGTGGAACCAACAAAAAAAAGAACAAAAAAGCATTGAAA
GGTTCTCGACTTCTACCTGA
Found at i:92935335 original size:9 final size:9
Alignment explanation
Indices: 92935321--92935479 Score: 78
Period size: 9 Copynumber: 17.4 Consensus size: 9
92935311 TATGTGGCAA
92935321 AAAAATTAT
1 AAAAATTAT
92935330 -AAAA--AT
1 AAAAATTAT
*
92935336 AAAAATCAAT
1 AAAAAT-TAT
*
92935346 AAAATTTAT
1 AAAAATTAT
92935355 AAAAATTATT
1 AAAAATTA-T
**
92935365 AAATTTTAAT
1 AAAAATT-AT
92935375 AAAAA-TAT
1 AAAAATTAT
92935383 -AAAATATATT
1 AAAAAT-TA-T
* *
92935393 AAAATTTAG
1 AAAAATTAT
92935402 AAAAATATAT
1 AAAAAT-TAT
**
92935412 AAAAATCGT
1 AAAAATTAT
92935421 AAAAA-TAT
1 AAAAATTAT
*
92935429 AAAAAATAT
1 AAAAATTAT
*
92935438 AAAAAACTAT
1 -AAAAATTAT
**
92935448 AACATTTTAT
1 AA-AAATTAT
*
92935458 AAAAATCAT
1 AAAAATTAT
*
92935467 AAAAAATAT
1 AAAAATTAT
92935476 AAAA
1 AAAA
92935480 TACATAAAAA
Statistics
Matches: 112, Mismatches: 24, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
6 2 0.02
7 8 0.07
8 12 0.11
9 43 0.38
10 42 0.38
11 5 0.04
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:92935359 original size:10 final size:10
Alignment explanation
Indices: 92935346--92935463 Score: 54
Period size: 10 Copynumber: 12.5 Consensus size: 10
92935336 AAAAATCAAT
92935346 AAAATTTATA
1 AAAATTTATA
*
92935356 AAAA-TTATT
1 AAAATTTATA
*
92935365 AAATTTTAATA
1 AAAATTT-ATA
92935376 AAAA--TAT-
1 AAAATTTATA
* *
92935383 AAAATATATT
1 AAAATTTATA
*
92935393 AAAATTTAGA
1 AAAATTTATA
*
92935403 AAAATATATA
1 AAAATTTATA
**
92935413 AAAA-TCGTA
1 AAAATTTATA
92935422 AAAA--TATA
1 AAAATTTATA
*
92935430 AAAA-ATATA
1 AAAATTTATA
**
92935439 AAAAACTATA
1 AAAATTTATA
* *
92935449 ACATTTTATA
1 AAAATTTATA
92935459 AAAAT
1 AAAAT
92935464 CATAAAAAAT
Statistics
Matches: 80, Mismatches: 21, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
7 4 0.05
8 8 0.10
9 25 0.31
10 38 0.47
11 5 0.06
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAATTTATA
Found at i:92935368 original size:18 final size:18
Alignment explanation
Indices: 92935321--92935441 Score: 72
Period size: 19 Copynumber: 6.7 Consensus size: 18
92935311 TATGTGGCAA
92935321 AAAAATTATAAAA---AT
1 AAAAATTATAAAATTTAT
*
92935336 AAAAATCAATAAAATTTAT
1 AAAAAT-TATAAAATTTAT
*
92935355 AAAAATTATTAAATTTTAAT
1 AAAAATTA-TAAAATTT-AT
*
92935375 AAAAA-TATAAAATATATT
1 AAAAATTATAAAATTTA-T
* * *
92935393 AAAATTTAGAAAAATATAT
1 AAAAATTA-TAAAATTTAT
** *
92935412 AAAAATCGTAAAA-ATAT
1 AAAAATTATAAAATTTAT
*
92935429 AAAAAATATAAAA
1 AAAAATTATAAAA
92935442 AACTATAACA
Statistics
Matches: 83, Mismatches: 14, Indels: 16
0.73 0.12 0.14
Matches are distributed among these distances:
15 6 0.07
16 6 0.07
17 15 0.18
18 16 0.19
19 25 0.30
20 15 0.18
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAAATTATAAAATTTAT
Found at i:92935427 original size:46 final size:46
Alignment explanation
Indices: 92935373--92935490 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 46
92935363 TTAAATTTTA
* **
92935373 ATAAAAATATAAAATATATTAAAATTTAGAAAAATATATAAAAATC
1 ATAAAAATATAAAATATATAAAAAACTAGAAAAATATATAAAAATC
* * * * * *
92935419 GTAAAAATATAAAAAATATAAAAAACTATAACATTTTATAAAAATC
1 ATAAAAATATAAAATATATAAAAAACTAGAAAAATATATAAAAATC
*
92935465 ATAAAAAATATAAAATACATAAAAAA
1 AT-AAAAATATAAAATATATAAAAAA
92935491 TGCCCTTTAA
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
46 38 0.64
47 21 0.36
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (46 bp):
ATAAAAATATAAAATATATAAAAAACTAGAAAAATATATAAAAATC
Found at i:92935461 original size:28 final size:26
Alignment explanation
Indices: 92935321--92935489 Score: 110
Period size: 28 Copynumber: 6.2 Consensus size: 26
92935311 TATGTGGCAA
**
92935321 AAAAAT-TATAAAAATA-AAAATCAAT
1 AAAAATATA-AAAAATATAAAATTTAT
* * *
92935346 AAAATTTATAAAAATTATTAAATTTTAAT
1 AAAA-ATATAAAAAATA-TAAAATTT-AT
* *
92935375 AAAAATATAAAATATATTAAAATTTAG
1 AAAAATATAAAAAATA-TAAAATTTAT
* *
92935402 AAAAATATATAAAAATCGTAAAA-ATAT
1 AAAAATATA-AAAAAT-ATAAAATTTAT
*
92935429 AAAAAATATAAAAAACTATAACATTTTAT
1 -AAAAATATAAAAAA-TATAA-AATTTAT
**
92935458 AAAAATCATAAAAAATATAAAATACAT
1 AAAAAT-ATAAAAAATATAAAATTTAT
92935485 AAAAA
1 AAAAA
92935490 ATGCCCTTTA
Statistics
Matches: 112, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
25 4 0.04
26 7 0.06
27 31 0.28
28 53 0.47
29 17 0.15
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.30
Consensus pattern (26 bp):
AAAAATATAAAAAATATAAAATTTAT
Found at i:92935833 original size:27 final size:26
Alignment explanation
Indices: 92935803--92935895 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 26
92935793 TTCTTTATAT
*
92935803 TTTTTATGATTTTTGTAAAATTT-GTAA
1 TTTTTAT-ATTTTT-TAAAATTTAATAA
92935830 TTTTTAATATTTTATTAAAATTTAATAA
1 TTTTT-ATATTTT-TTAAAATTTAATAA
* * *
92935858 -TTTTATAATTTTATAAAATTTATTGA
1 TTTTTAT-ATTTTTTAAAATTTAATAA
92935884 TTTTTAT-TTTTT
1 TTTTTATATTTTT
92935896 ATAACTTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
25 4 0.07
26 13 0.23
27 33 0.59
28 6 0.11
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (26 bp):
TTTTTATATTTTTTAAAATTTAATAA
Found at i:92936144 original size:88 final size:88
Alignment explanation
Indices: 92935992--92936173 Score: 244
Period size: 88 Copynumber: 2.1 Consensus size: 88
92935982 AACTGTTAAG
* *
92935992 GTACCCAATTGAGTGCAAAAAAAAGTAGGGACTTAATTGCCATTTTTGAAAAAATTTGAGGGCCT
1 GTACCCAATTGAGTGCAAAAAAAAGTAAGGACTTAATTG-CATTTTTGAAAAAATTTGAAGGCCT
*
92936057 TTTTGATACATTTTGACAGTTCAA
65 TTTTGATACATTTTGAAAGTTCAA
* * *
92936081 GTACCCAATTGAGTGCAAAAAAAA-TAAATG-CTTAATTG-TTTTCTTTAAAAAAGTTTGAAGGC
1 GTACCCAATTGAGTGCAAAAAAAAGT-AAGGACTTAATTGCATTT-TTGAAAAAA-TTTGAAGGC
*
92936143 CTTTTTGATATATTTTGAAAGTTCAA
63 CTTTTTGATACATTTTGAAAGTTCAA
92936169 GTACC
1 GTACC
92936174 TAACTGTAAC
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
86 3 0.04
87 8 0.10
88 46 0.55
89 26 0.31
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.35
Consensus pattern (88 bp):
GTACCCAATTGAGTGCAAAAAAAAGTAAGGACTTAATTGCATTTTTGAAAAAATTTGAAGGCCTT
TTTGATACATTTTGAAAGTTCAA
Found at i:92938159 original size:15 final size:14
Alignment explanation
Indices: 92938137--92938187 Score: 66
Period size: 15 Copynumber: 3.5 Consensus size: 14
92938127 TATTTTTCCT
92938137 TTTATTTCCTTTTA
1 TTTATTTCCTTTTA
92938151 TTCTATTTCCTTTTA
1 TT-TATTTCCTTTTA
**
92938166 TTTATTTTATTTTA
1 TTTATTTCCTTTTA
92938180 TTTTATTT
1 -TTTATTT
92938188 GTTTTAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
14 12 0.36
15 21 0.64
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTATTTCCTTTTA
Found at i:92938171 original size:19 final size:19
Alignment explanation
Indices: 92938147--92938187 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
92938137 TTTATTTCCT
*
92938147 TTTATTCTATTTCCTTTTA
1 TTTATTCTATTTCATTTTA
* *
92938166 TTTATTTTATTTTATTTTA
1 TTTATTCTATTTCATTTTA
92938185 TTT
1 TTT
92938188 GTTTTAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATTCTATTTCATTTTA
Found at i:92938174 original size:5 final size:5
Alignment explanation
Indices: 92938136--92938187 Score: 52
Period size: 5 Copynumber: 10.6 Consensus size: 5
92938126 CTATTTTTCC
** * **
92938136 TTTTA TTTCC TTTTA TTCTA TTTCC TTTTA -TTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
92938185 TTT
1 TTT
92938188 GTTTTAGATT
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
4 4 0.11
5 32 0.89
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:92938675 original size:15 final size:14
Alignment explanation
Indices: 92938614--92938704 Score: 62
Period size: 14 Copynumber: 6.3 Consensus size: 14
92938604 CACAATTGAC
*
92938614 ATAAATT-TATTTT
1 ATAAATTATATTAT
* *
92938627 ATAATATAATATGATT
1 ATAA-ATTATATTA-T
*
92938643 ATAATTTA-ATTAT
1 ATAAATTATATTAT
92938656 CATAAATTCATATTAT
1 -ATAAATT-ATATTAT
92938672 ATAAATTATATTTAT
1 ATAAATTATA-TTAT
*
92938687 ATATCATTA-ATTAT
1 ATA-AATTATATTAT
92938701 ATAA
1 ATAA
92938705 TTTAAAACAA
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
13 5 0.08
14 21 0.34
15 21 0.34
16 14 0.23
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (14 bp):
ATAAATTATATTAT
Found at i:92938842 original size:17 final size:18
Alignment explanation
Indices: 92938807--92938842 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
92938797 TATTGTTCTA
*
92938807 TAATTCAATTTTTATCCT
1 TAATTCAATTTTAATCCT
92938825 TAATTCAA-TTTAATCCT
1 TAATTCAATTTTAATCCT
92938842 T
1 T
92938843 TTTTCTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTCAATTTTAATCCT
Found at i:92939519 original size:15 final size:15
Alignment explanation
Indices: 92939499--92939546 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
92939489 AGTTTAATTA
92939499 AATTTAAATTTAAAT
1 AATTTAAATTTAAAT
92939514 AATTT-AA--TAAA-
1 AATTTAAATTTAAAT
* *
92939525 AATATATATTTAAAT
1 AATTTAAATTTAAAT
92939540 AATTTAA
1 AATTTAA
92939547 TTAAATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
11 4 0.16
12 5 0.20
14 6 0.24
15 10 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTTAAATTTAAAT
Found at i:92939561 original size:25 final size:25
Alignment explanation
Indices: 92939491--92939569 Score: 104
Period size: 25 Copynumber: 3.1 Consensus size: 25
92939481 AACTAGCAAG
*
92939491 TTTAATTAAATTTAAATTTAAATAA
1 TTTAATTAAATTTATATTTAAATAA
* *
92939516 TTTAATAAAAATATATATTTAAATAA
1 TTTAAT-TAAATTTATATTTAAATAA
* *
92939542 TTTAATTAAATTTATTTTTAATTAA
1 TTTAATTAAATTTATATTTAAATAA
92939567 TTT
1 TTT
92939570 TGTTAGTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
25 24 0.52
26 22 0.48
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TTTAATTAAATTTATATTTAAATAA
Found at i:92945594 original size:17 final size:16
Alignment explanation
Indices: 92945557--92945595 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
92945547 AATAAATAAT
92945557 TAAA-TAAATTGGAAA
1 TAAATTAAATTGGAAA
92945572 TAAAATTAAATTAGGAAA
1 T-AAATTAAATT-GGAAA
92945590 TAAATT
1 TAAATT
92945596 TGAATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 3 0.14
17 11 0.52
18 6 0.29
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (16 bp):
TAAATTAAATTGGAAA
Found at i:92953428 original size:16 final size:17
Alignment explanation
Indices: 92953404--92953436 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
92953394 CATGCCATAC
*
92953404 TAGCTCCAAAAT-ATAG
1 TAGCACCAAAATGATAG
92953420 TAGCACCAAAATGATAG
1 TAGCACCAAAATGATAG
92953437 ATAGTGTGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.21
Consensus pattern (17 bp):
TAGCACCAAAATGATAG
Found at i:92954068 original size:45 final size:45
Alignment explanation
Indices: 92953967--92954097 Score: 173
Period size: 45 Copynumber: 3.0 Consensus size: 45
92953957 AAACCCGAGT
*
92953967 TCAT-TCACCGGCATT-TCGCCTGCTAGGCT-AAAAGCCCG-ATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATA
* * *
92954008 TCATTTCACCAGCATTATAGCCTACTAGGCTCAAAAGCCCGAATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATA
*
92954053 GT-ATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 -TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATA
92954098 ATACTGTGCG
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
41 4 0.05
42 10 0.13
43 12 0.15
44 9 0.12
45 42 0.54
46 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (45 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATA
Found at i:92958193 original size:39 final size:39
Alignment explanation
Indices: 92958117--92958370 Score: 359
Period size: 39 Copynumber: 6.5 Consensus size: 39
92958107 GATTTTAACT
* * * *
92958117 GGGCTAAGACCCGCAGGCCTT-GTG-TGAGATTTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGATA-TTATATCC
*
92958155 GGGCTAAGTCCCGAAGGCATTCGTACTGATATTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
* *
92958194 GGGCTAAGTCCCGAAGGCATTCTTGCTGACATTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
* * *
92958233 AGGTTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
92958272 GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
* * *
92958311 GGGCAAAGTCCCGAAGGCATTCGTGCTAATGTTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
*
92958350 GGGCTAAGTTCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
92958371 TGGGTTGGAA
Statistics
Matches: 193, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
38 18 0.09
39 171 0.89
40 4 0.02
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.28
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCC
Found at i:92964575 original size:16 final size:18
Alignment explanation
Indices: 92964554--92964586 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
92964544 CATACTAGCT
92964554 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
92964570 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
92964587 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:92965179 original size:43 final size:45
Alignment explanation
Indices: 92965116--92965242 Score: 136
Period size: 45 Copynumber: 2.9 Consensus size: 45
92965106 CTGAGTTCAT
* * * *
92965116 TCACCAGCATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
* * *
92965158 TTACCTGCATTATAGCTTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
92965203 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCGCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
92965243 ATACTGTGCG
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 9 0.13
43 15 0.21
44 5 0.07
45 40 0.57
46 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:92971221 original size:12 final size:12
Alignment explanation
Indices: 92971203--92971244 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
92971193 ATCAGAGCTA
92971203 CGGTTCGGAGCTT
1 CGGTTCGGAG-TT
92971216 -GGTTCGGAGTT
1 CGGTTCGGAGTT
*
92971227 CGGTTC-GTGTT
1 CGGTTCGGAGTT
92971238 CGGTTCG
1 CGGTTCG
92971245 TGTCCAGTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 12 0.46
12 14 0.54
ACGTcount: A:0.05, C:0.19, G:0.40, T:0.36
Consensus pattern (12 bp):
CGGTTCGGAGTT
Found at i:92977850 original size:17 final size:17
Alignment explanation
Indices: 92977828--92977872 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
92977818 ATCAGAGTGA
92977828 ACAGGGAATTTGCAAGT
1 ACAGGGAATTTGCAAGT
92977845 ACAGGGAATTTGCAAGT
1 ACAGGGAATTTGCAAGT
92977862 ACAGGGAATTT
1 ACAGGGAATTT
92977873 CAACTGTAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.24
Consensus pattern (17 bp):
ACAGGGAATTTGCAAGT
Found at i:92979843 original size:13 final size:13
Alignment explanation
Indices: 92979825--92979864 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
92979815 ATGTGTGGAG
*
92979825 AAGAAAAGAGAGA
1 AAGAAAGGAGAGA
92979838 AAGAAAGGAGAGA
1 AAGAAAGGAGAGA
92979851 AAGAAAGGAGAGA
1 AAGAAAGGAGAGA
92979864 A
1 A
92979865 CGGAGAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (13 bp):
AAGAAAGGAGAGA
Found at i:92980586 original size:105 final size:100
Alignment explanation
Indices: 92980200--92980635 Score: 511
Period size: 105 Copynumber: 4.3 Consensus size: 100
92980190 ATAAATTGTT
* * * *
92980200 GTGTTTTGTGAGTTTTTAGTAATGTAATTTTTTTTAAAAAAA-TATAGTTATTTTGTTAGTAGTT
1 GTGTTTTGTGATTTTTTAGTAATGTAATTTTTTTAAAAAAAATTATAGTTATTTTGTTAATAATT
*
92980264 TATGATTAGGTTATAAATTGTTAATG--T--TTT-
66 TATGATTAGGTTATAAATTGTTAGTGTTTAGTTTA
92980294 GTGTTTTGTGATTTTTTTAGTAATGTAATTTCTTTT-AAAAAAATTCATAGTTATTTATTTTGTT
1 GTGTTTTGTGA-TTTTTTAGTAATGTAATTT-TTTTAAAAAAAATT-ATAG----TTATTTTGTT
* *
92980358 AATAATTTATGGGATTAGGTTGTAACTTGTTAGTGTTTAGTTTA
59 AATAATTTAT--GATTAGGTTATAAATTGTTAGTGTTTAGTTTA
*
92980402 GGGTTTTGTGATTTTTTTAGTAATGTAA---TTTTAAAAAAAATTATAGTTATTTTGTTAATAAT
1 GTGTTTTGTGA-TTTTTTAGTAATGTAATTTTTTTAAAAAAAATTATAGTTATTTTGTTAATAAT
92980464 TTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTA
65 TTATGATTAGG-T-TATAAATTGTTAGTGTTTAGTTTA
*
92980502 GTGTTTTGTGATTTTTTAGTAATGTAATTTTTTTAAAAAATAATTTTATAGTTATTTTGTTAGTA
1 GTGTTTTGTGATTTTTTAGTAATGTAATTTTTTTAAAAAA-AA--TTATAGTTATTTTGTTAATA
* *
92980567 ACTTATGATTAAGTTATATAAATTGTTAGTGTTTAGTTTA
63 ATTTATGATT-AGGT-TATAAATTGTTAGTGTTTAGTTTA
* *
92980607 TTATTTTGTGA-TTTTT--TAATGTAATTTTT
1 GTGTTTTGTGATTTTTTAGTAATGTAATTTTT
92980636 ATATAATTTG
Statistics
Matches: 302, Mismatches: 15, Indels: 42
0.84 0.04 0.12
Matches are distributed among these distances:
94 11 0.04
95 25 0.08
96 5 0.02
97 4 0.01
98 7 0.02
99 17 0.06
100 52 0.17
101 18 0.06
102 23 0.08
103 22 0.07
104 13 0.04
105 73 0.24
106 2 0.01
107 3 0.01
108 27 0.09
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.55
Consensus pattern (100 bp):
GTGTTTTGTGATTTTTTAGTAATGTAATTTTTTTAAAAAAAATTATAGTTATTTTGTTAATAATT
TATGATTAGGTTATAAATTGTTAGTGTTTAGTTTA
Found at i:92980603 original size:205 final size:199
Alignment explanation
Indices: 92980202--92980623 Score: 516
Period size: 205 Copynumber: 2.1 Consensus size: 199
92980192 AAATTGTTGT
* * * *
92980202 GTTTTGTGA-GTTTTTAGTAATGTAATTTTTTTTAAAAAAATATAGTTATTTTGTTAGTAGTTTA
1 GTTTTGTGATTTTTTTAGTAATGTAA--TTTTTAAAAAAAATATAGTTATTTTGTTAATAATTTA
92980266 TGATTAGGTTATAAATTGTTAATGTTTTGTGTTTTGTGATTTTTTTAGTAATGTAATTTCTTTTA
64 TGATTAGGTTATAAATTGTTAATGTTTTGTGTTTTGTGATTTTTTTAGTAATGTAATTTCTTTTA
* * * *
92980331 AAAAAATTCATAGTTATTTATTTTGTTAATAATTTATGGGATTAGGTTGTAACTTGTTAGTGTTT
129 AAAAAATTCATAG-TAGTTATTTTGTTAATAACTTAT-GGATTAGGTTATAAATTGTTAGTGTTT
92980396 AGTTTAGG
192 AGTTTAGG
92980404 GTTTTGTGATTTTTTTAGTAATGTAA-TTTTAAAAAAAATTATAGTTATTTTGTTAATAATTTAT
1 GTTTTGTGATTTTTTTAGTAATGTAATTTTTAAAAAAAA-TATAGTTATTTTGTTAATAATTTAT
*
92980468 GATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA-TTTTTTAGTAATGTAATTT
65 GATTAGG-T-TATAAATTGTTAATG--T--TTT-GTGTTTTGTGATTTTTTTAGTAATGTAATTT
* * *
92980532 -TTTTAAAAAATAATT-TTA-TAGTTATTTTGTTAGTAACTTAT-GATTAAGTTATATAAATTGT
123 CTTTT-AAAAA-AATTCATAGTAGTTATTTTGTTAATAACTTATGGATT-AGGT-TATAAATTGT
**
92980593 TAGTGTTTAGTTTATT
184 TAGTGTTTAGTTTAGG
*
92980609 ATTTTGTGATTTTTT
1 GTTTTGTGATTTTTT
92980624 AATGTAATTT
Statistics
Matches: 192, Mismatches: 15, Indels: 23
0.83 0.07 0.10
Matches are distributed among these distances:
200 11 0.06
201 30 0.16
202 10 0.05
203 33 0.17
204 3 0.02
205 57 0.30
206 4 0.02
207 29 0.15
208 15 0.08
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.55
Consensus pattern (199 bp):
GTTTTGTGATTTTTTTAGTAATGTAATTTTTAAAAAAAATATAGTTATTTTGTTAATAATTTATG
ATTAGGTTATAAATTGTTAATGTTTTGTGTTTTGTGATTTTTTTAGTAATGTAATTTCTTTTAAA
AAAATTCATAGTAGTTATTTTGTTAATAACTTATGGATTAGGTTATAAATTGTTAGTGTTTAGTT
TAGG
Found at i:92985723 original size:5 final size:5
Alignment explanation
Indices: 92985713--92985754 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
92985703 AACCTAAATT
92985713 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
92985755 CAACATAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:92993037 original size:27 final size:27
Alignment explanation
Indices: 92993007--92993070 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
92992997 ATTAAGCACT
* *
92993007 AGTGGCGCCTAT-AAGGTAGGAGTCACC
1 AGTGGCGCCTATCAA-ATAGGAGTCACA
92993034 AGTGGCGCCTATCAAATAGGAGTCACA
1 AGTGGCGCCTATCAAATAGGAGTCACA
*
92993061 AGTGGTGCCT
1 AGTGGCGCCT
92993071 GCGACCCCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 31 0.94
28 2 0.06
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (27 bp):
AGTGGCGCCTATCAAATAGGAGTCACA
Found at i:92997020 original size:73 final size:72
Alignment explanation
Indices: 92996899--92997330 Score: 619
Period size: 73 Copynumber: 6.0 Consensus size: 72
92996889 CTTTTATGAG
* * * *
92996899 TTGTTTTATCTATTTATCTATTTATTTTTTATTTTTTTACTTTTTAAATATTTAAATTTAATATT
1 TTGTTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATT
* * *
92996964 GTTTGTC
66 ATTTATA
*
92996971 TTGGTTTTATCTATTTATTTATTTATTTATTATTCCTTTT-CTTTTTAAATATTTAAATTTGATA
1 TT-GTTTTATCTATTTATTTATTTATTTGTTATT-CTTTTACTTTTTAAATATTTAAATTTGATA
*
92997035 TTATTTAAA
64 TTATTTATA
*
92997044 TTTGTTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAACATTTGATA
1 -TTGTTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAA-ATTTGATA
92997109 TTATTTATA
64 TTATTTATA
92997118 TTTGTTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATAT
1 -TTGTTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATAT
92997183 TATTTATA
65 TATTTATA
*
92997191 TT-TTTT-T-TATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATT
1 TTGTTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATT
92997253 ATTTATA
66 ATTTATA
* * *
92997260 CTTGTTTCATCTATTTATTTATTTA----TTATTCTTCTACTTTTTAAACATTTAAATTTGATAT
1 -TTGTTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATAT
*
92997321 AATTTATA
65 TATTTATA
92997329 TT
1 TT
92997331 CTATTTTCAT
Statistics
Matches: 333, Mismatches: 18, Indels: 22
0.89 0.05 0.06
Matches are distributed among these distances:
68 2 0.01
69 102 0.31
70 3 0.01
71 7 0.02
72 10 0.03
73 132 0.40
74 77 0.23
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (72 bp):
TTGTTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATT
ATTTATA
Found at i:92997219 original size:19 final size:19
Alignment explanation
Indices: 92997174--92997220 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
92997164 AAATATTTAA
*
92997174 ATTTGATATTATTTATATT
1 ATTTGTTATTATTTATATT
*
92997193 -TTTTTTATCTATTTAT-TT
1 ATTTGTTAT-TATTTATATT
92997211 ATTTGTTATT
1 ATTTGTTATT
92997221 CTTTTACTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.70
Consensus pattern (19 bp):
ATTTGTTATTATTTATATT
Found at i:92997242 original size:69 final size:72
Alignment explanation
Indices: 92996899--92997330 Score: 610
Period size: 69 Copynumber: 6.0 Consensus size: 72
92996889 CTTTTATGAG
* * * * *
92996899 TTGTTTTATCTATTTATCTATTTATTTTTTATTTTTTTACTTTTTAAATATTTAAATTTAATATT
1 TTGTTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATT
* * *
92996964 GTTTGTC
66 ATTTATA
* *
92996971 TTGGTTTTATCTATTTATTTATTTATTTATTATTCCTTTT-CTTTTTAAATATTTAAATTTGATA
1 TT-GTTTTATCTATCTATTTATTTATTTGTTATT-CTTTTACTTTTTAAATATTTAAATTTGATA
*
92997035 TTATTTAAA
64 TTATTTATA
92997044 TTTGTTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAACATTTGATA
1 -TTGTTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAA-ATTTGATA
92997109 TTATTTATA
64 TTATTTATA
*
92997118 TTTGTTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATAT
1 -TTGTTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATAT
92997183 TATTTATA
65 TATTTATA
92997191 TT-TTTT-T-TATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATT
1 TTGTTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATT
92997253 ATTTATA
66 ATTTATA
* * *
92997260 CTTG--TT-TC-ATCTATTTATTTATTTATTATTCTTCTACTTTTTAAACATTTAAATTTGATAT
1 -TTGTTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATAT
*
92997321 AATTTATA
65 TATTTATA
92997329 TT
1 TT
92997331 CTATTTTCAT
Statistics
Matches: 335, Mismatches: 17, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
68 2 0.01
69 121 0.36
70 3 0.01
71 4 0.01
72 9 0.03
73 119 0.36
74 77 0.23
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (72 bp):
TTGTTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATT
ATTTATA
Found at i:92997313 original size:220 final size:219
Alignment explanation
Indices: 92996899--92997330 Score: 594
Period size: 220 Copynumber: 2.0 Consensus size: 219
92996889 CTTTTATGAG
* *
92996899 TTGTTTTATCTATTTATCTATTTATTTTTTATTTTTTTACTTTTTAAATATTTAAATTTAATATT
1 TTGTTTTATCTATTTATCTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTAATATT
* * * *
92996964 GTTTGTCTTGGTTTTATCTATTTATTTATTTATTTATTATTCCTTTTCTTTTTAAATATTTAAAT
66 ATTTATATT-GTTTTATCTATCTATTTATTTATTTATTATTCCTTTTCTTTTTAAATATTTAAAT
* * * * *
92997029 TTGATATTATTTAAATTTGTTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAAT
130 TTGATATTATTTAAACTTGTTTCATCTATCTATTTATTTATTTCTTATACTTTTACTATTTAAAT
92997094 ATTTAACATTTGATATTATTTATAT
195 ATTTAACATTTGATATTATTTATAT
* *
92997119 TTGTTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATT
1 TTGTTTTATCTATTTATCTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTAATATT
*
92997184 ATTTATATT-TTTT-T-TATCTATTTATTTATTTGTTATT-CTTTTACTTTTTAAATATTTAAAT
66 ATTTATATTGTTTTATCTATCTATTTATTTATTTATTATTCCTTTT-CTTTTTAAATATTTAAAT
* * * * * *
92997245 TTGATATTATTTATACTTG-TT--TC-ATCTATTTATTTATTTATTATTCTTCTACTTTTTAAAC
130 TTGATATTATTTAAACTTGTTTCATCTATCTATTTATTTATTTCTTATACTTTTACTATTTAAAT
*
92997306 ATTTAA-ATTTGATATAATTTATAT
195 ATTTAACATTTGATATTATTTATAT
92997330 T
1 T
92997331 CTATTTTCAT
Statistics
Matches: 196, Mismatches: 15, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
211 18 0.09
212 41 0.21
213 2 0.01
215 7 0.04
216 56 0.29
217 1 0.01
218 4 0.02
220 67 0.34
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (219 bp):
TTGTTTTATCTATTTATCTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTAATATT
ATTTATATTGTTTTATCTATCTATTTATTTATTTATTATTCCTTTTCTTTTTAAATATTTAAATT
TGATATTATTTAAACTTGTTTCATCTATCTATTTATTTATTTCTTATACTTTTACTATTTAAATA
TTTAACATTTGATATTATTTATAT
Found at i:92997330 original size:147 final size:145
Alignment explanation
Indices: 92996902--92997330 Score: 549
Period size: 147 Copynumber: 3.0 Consensus size: 145
92996892 TTATGAGTTG
* * * * * *
92996902 TTTTATCTATTTATCTATTTATTTTTTATTTTTTTACTTTTTAAATATTTAAATTTAATATTGTT
1 TTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATT
* * *
92996967 TGT-CTTGGTTTTATCTATTTATTTATTTATTTATTATTCCTTTTCTTTTTAAATATTTAAATTT
66 TATACTT-GTTTTATCTATTTATTTATTTATTTATTCTT-C--TACTTTTTAAATATTTAAATTT
*
92997031 GATATTATTTA-A--ATTTG
127 GATA-TATTTATATTATTTA
92997048 TTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAACATTTGATATTAT
1 TTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAA-ATTTGATATTAT
* *
92997113 TTATATTTGTTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTT
65 TTATACTTGTTTTATCTATTTATTTATTTA--T-TTATTCTTCTACTTTTTAAATATTTAAATTT
92997178 G--ATA-TTAT-TTATATT-
127 GATATATTTATATTAT-TTA
92997193 TTTT-T-TATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATT
1 TTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATT
* *
92997256 TATACTTGTTTCATCTATTTATTTATTTA-TTATTCTTCTACTTTTTAAACATTTAAATTTGATA
66 TATACTTGTTTTATCTATTTATTTATTTATTTATTCTTCTACTTTTTAAATATTTAAATTTGATA
92997320 TAATTTATATT
131 T-ATTTATATT
92997331 CTATTTTCAT
Statistics
Matches: 254, Mismatches: 15, Indels: 31
0.85 0.05 0.10
Matches are distributed among these distances:
138 30 0.12
140 2 0.01
141 1 0.00
142 44 0.17
143 50 0.20
144 3 0.01
145 7 0.03
146 50 0.20
147 57 0.22
148 2 0.01
149 1 0.00
150 7 0.03
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.64
Consensus pattern (145 bp):
TTTTATCTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATT
TATACTTGTTTTATCTATTTATTTATTTATTTATTCTTCTACTTTTTAAATATTTAAATTTGATA
TATTTATATTATTTA
Found at i:92997530 original size:21 final size:21
Alignment explanation
Indices: 92997505--92997556 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
92997495 ATTTTACCTT
*
92997505 TTATTTATTTTCTTTAT-TCA
1 TTATTTATTTTATTTATGTCA
92997525 TCTATTTA-TTTATTTATGTCA
1 T-TATTTATTTTATTTATGTCA
92997546 TTATTTCATTT
1 TTATTT-ATTT
92997557 CTTCACCATC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 14 0.52
21 11 0.41
22 2 0.07
ACGTcount: A:0.21, C:0.10, G:0.02, T:0.67
Consensus pattern (21 bp):
TTATTTATTTTATTTATGTCA
Found at i:93009229 original size:22 final size:22
Alignment explanation
Indices: 93009187--93009230 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
93009177 AATTATTTAC
* *
93009187 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
93009209 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
93009231 ACGCGTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:93009531 original size:40 final size:40
Alignment explanation
Indices: 93009457--93009678 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
93009447 AACCCAAGTA
* * * *
93009457 CCTTCAGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAAAG
*
93009496 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
* *
93009536 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
93009576 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
93009616 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
93009656 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
93009679 CATTCGAATA
Statistics
Matches: 171, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 11 0.06
40 157 0.92
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
Found at i:93018870 original size:62 final size:62
Alignment explanation
Indices: 93018773--93018896 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
93018763 CTCAAATTTT
93018773 GATTGAAGATGAGGCATGTGGTAGTCTCGTCCCCTTAGAAATAACAA-GAAGGAGAAACTTTA
1 GATTGAAGATGAGGCATGTGGTAGTCTCGTCCCCTTAGAAATAACAATG-AGGAGAAACTTTA
*
93018835 GATTGAAGATTAGGCATGTGGTAGTCTCGTCCCCTTAGAAATAACAATGAGGAGAAACTTTA
1 GATTGAAGATGAGGCATGTGGTAGTCTCGTCCCCTTAGAAATAACAATGAGGAGAAACTTTA
93018897 CATCTTCGGG
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
62 59 0.98
63 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.26
Consensus pattern (62 bp):
GATTGAAGATGAGGCATGTGGTAGTCTCGTCCCCTTAGAAATAACAATGAGGAGAAACTTTA
Found at i:93021492 original size:50 final size:50
Alignment explanation
Indices: 93021423--93021538 Score: 160
Period size: 50 Copynumber: 2.3 Consensus size: 50
93021413 TATCTCCCTG
93021423 AAGTTGCAGTGGAGCAGATTGAAGTCACCATAGCAAATCTTATCTCTTTT
1 AAGTTGCAGTGGAGCAGATTGAAGTCACCATAGCAAATCTTATCTCTTTT
* * * * ** *
93021473 AAGTTGTAGTGGAGTAGATTGAAGTTACCATGGCAAATCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGTCACCATAGCAAATCTTATCTCTTTT
*
93021523 AAGTTACAGTGGAGCA
1 AAGTTGCAGTGGAGCA
93021539 AATTAAAGCT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (50 bp):
AAGTTGCAGTGGAGCAGATTGAAGTCACCATAGCAAATCTTATCTCTTTT
Found at i:93021569 original size:44 final size:44
Alignment explanation
Indices: 93021412--93021709 Score: 260
Period size: 44 Copynumber: 6.5 Consensus size: 44
93021402 ACCACTCATT
*
93021412 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACCATAGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAG----C-TA-CAAATC
** * * * * *
93021462 TTATCTCTTTTAAGTTGTAGTGGAGTAGATTGAAGTTACCATGGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAG----C-T-ACAAATC
* *
93021512 TTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATC
* * *
93021556 TTATCTTCCTGAAGTTACAGTGGAGTAAATTGAAG-TACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATC
* * *
93021599 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTCAAGCTACAAAT-
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATC
* * * * *
93021642 TTGATTTCGCTGAAGTTGCTGTGGAGCAGATTGAAGCGACAAATC
1 TT-ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATC
93021687 TTAT-TCCTCTGAAGTTGCAGTGG
1 TTATCTCC-CTGAAGTTGCAGTGG
93021710 GTCAGATTAA
Statistics
Matches: 210, Mismatches: 33, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
43 41 0.20
44 96 0.46
45 3 0.01
46 1 0.00
50 69 0.33
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATC
Found at i:93021655 original size:87 final size:88
Alignment explanation
Indices: 93021506--93021720 Score: 278
Period size: 87 Copynumber: 2.5 Consensus size: 88
93021496 GTTACCATGG
* *
93021506 CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCTACAAATCTTATCTTCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTTCCTGAAGT
* *
93021571 TACAGTGGAGTAAATTGAAG-TA
66 TACAGTGGAGCAAATTGAAGCGA
* *
93021593 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTCAAGCTACAAAT-TTGAT-TTCGCTGAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTT-ATCTTC-CTGAA
* * *
93021656 GTTGCTGTGGAGCAGATTGAAGCGA
64 GTTACAGTGGAGCAAATTGAAGCGA
93021681 CAAATCTTAT-TCCTCTGAAGTTGCAGTGG-GTCAGATTAAA
1 CAAATCTTATCTCC-CTGAAGTTGCAGTGGAG-CAGATTAAA
93021721 TATGCCATAG
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
86 5 0.04
87 74 0.66
88 33 0.29
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (88 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTTCCTGAAGT
TACAGTGGAGCAAATTGAAGCGA
Found at i:93023181 original size:20 final size:20
Alignment explanation
Indices: 93023156--93023195 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
93023146 TAAGTATACT
93023156 AAAATCTTCAAATTTATCCC
1 AAAATCTTCAAATTTATCCC
93023176 AAAATCTTCAAATTTATCCC
1 AAAATCTTCAAATTTATCCC
93023196 TATTCTGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATCTTCAAATTTATCCC
Found at i:93033131 original size:47 final size:47
Alignment explanation
Indices: 93033077--93033626 Score: 813
Period size: 47 Copynumber: 11.6 Consensus size: 47
93033067 TATTTGAATA
*
93033077 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
93033124 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
93033173 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
93033220 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
93033269 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
93033316 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
93033365 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
93033412 AATGTGAACA-T-TCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGT-ATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
93033459 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
93033506 AATGTGAACA-TGCATATATGGGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
93033553 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
93033600 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
93033627 TCCCGAAGGG
Statistics
Matches: 473, Mismatches: 20, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
46 2 0.00
47 331 0.70
48 1 0.00
49 138 0.29
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:93033455 original size:94 final size:96
Alignment explanation
Indices: 93033077--93033626 Score: 841
Period size: 96 Copynumber: 5.8 Consensus size: 96
93033067 TATTTGAATA
*
93033077 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* *
93033142 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
93033173 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* *
93033238 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
93033269 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
93033334 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
93033365 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-T-T-CA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATA
*
93033426 TATATGAGATAAGGCCGAATGGCCAATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
93033459 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--CA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATA
*
93033520 TATATGGGATAAGGCCGAATGGCCAATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
93033553 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTATA-A
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
93033617 -ATGTGATAAG
66 TATGTGATAAG
93033627 TCCCGAAGGG
Statistics
Matches: 431, Mismatches: 16, Indels: 16
0.93 0.03 0.03
Matches are distributed among these distances:
93 2 0.00
94 185 0.43
95 2 0.00
96 240 0.56
97 2 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:93033504 original size:22 final size:22
Alignment explanation
Indices: 93033477--93033598 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
93033467 CATGTGTATG
93033477 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
93033499 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
93033524 TGGGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
93033546 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
93033571 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
93033593 TGTGAT
1 TGTGAT
93033599 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:93037284 original size:48 final size:46
Alignment explanation
Indices: 93037179--93037350 Score: 147
Period size: 47 Copynumber: 3.7 Consensus size: 46
93037169 TCATTTGTGT
* *** **
93037179 GCTAGTGGAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGGGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGATTACAAAAT--GA
* * * **
93037225 GCCAGTGTAAGACCATGTATGGGACATGGCATCAGCATTGAGACGA-GA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-G-ATT-ACAAAATGA
*
93037273 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGATTACAAAATGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGATTACAAAATGA
*
93037317 GTTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
93037351 GCACTATGCC
Statistics
Matches: 102, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 3 0.03
44 15 0.15
45 15 0.15
46 21 0.21
47 26 0.25
48 18 0.18
49 1 0.01
51 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGATTACAAAATGA
Found at i:93044997 original size:17 final size:18
Alignment explanation
Indices: 93044944--93045015 Score: 103
Period size: 19 Copynumber: 3.9 Consensus size: 18
93044934 AATCATATCT
93044944 TCTAAGATTGTATATCATA
1 TCTAAGATTG-ATATCATA
93044963 TCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATA
93044981 TCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATA
93044998 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
93045016 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
17 16 0.33
18 16 0.33
19 17 0.35
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGATATCATA
Found at i:93045002 original size:35 final size:37
Alignment explanation
Indices: 93044937--93045015 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
93044927 ATTACAAAAT
93044937 CATATC-T-TCTAAGATTGTATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
93044973 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
93045008 CATATCAT
1 CATATCAT
93045016 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:93045013 original size:14 final size:15
Alignment explanation
Indices: 93044958--93045013 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
93044948 AGATTGTATA
93044958 TCATATCTAAGATTG
1 TCATATCTAAGATTG
93044973 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
93044991 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
93045008 -CATATC
1 TCATATC
93045014 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:93045623 original size:83 final size:83
Alignment explanation
Indices: 93045395--93045747 Score: 589
Period size: 83 Copynumber: 4.2 Consensus size: 83
93045385 TTCGATTTGT
* * * *
93045395 AAGGATGTCAAATCATCTTGAGCCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
*
93045460 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* * *
93045478 AAGGATTCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAAAGTCATGTCTGCAAGGTCCTCG
1 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCG
93045543 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
* *
93045562 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
*
93045627 TTTGTTCCTTGTAAGTAC
66 TTTGTTCCTTGTAAGCAC
*
93045645 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
93045710 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
93045728 AAGGATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
93045748 GATCTGCTTC
Statistics
Matches: 253, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
83 177 0.70
84 76 0.30
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:93046148 original size:119 final size:119
Alignment explanation
Indices: 93045671--93046145 Score: 781
Period size: 119 Copynumber: 4.0 Consensus size: 119
93045661 CTTGAGTCTG
* * * * * *
93045671 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
93045736 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
93045790 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
93045855 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
93045909 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
* * *
93045974 CAAATAATCTTAGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
93046028 TTTGAGAATGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTATTCCTTGTAAACACAAGAAT-C
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
* *
93046092 CTAAATCATCTTGGATCTACTTCATTATAAACATCTGAAGGTTAGATCTGCTAT
66 C-AAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
93046146 CTTCGATCTG
Statistics
Matches: 333, Mismatches: 22, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
118 2 0.01
119 331 0.99
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:93046185 original size:44 final size:43
Alignment explanation
Indices: 93046137--93046316 Score: 150
Period size: 44 Copynumber: 4.1 Consensus size: 43
93046127 TGAAGGTTAG
*
93046137 ATCTGCTATCTTCGATCTGTTCCTTATAAACACAAGGGTGTCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACAC-AGGGTGTCAA
* *
93046181 ATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATG-C-C
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGG-TGTCAA
** * * * * * *
93046223 ATGCTGAAATCTTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAGG-GTGTCAA
* * *
93046269 ATCTACTATCTTCGATCTGTTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGG-TGTCAA
93046313 ATCT
1 ATCT
93046317 TGTTTCTTTG
Statistics
Matches: 105, Mismatches: 22, Indels: 18
0.72 0.15 0.12
Matches are distributed among these distances:
42 2 0.02
43 18 0.17
44 69 0.66
45 14 0.13
46 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (43 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGTGTCAA
Found at i:93047209 original size:8 final size:8
Alignment explanation
Indices: 93047196--93047238 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
93047186 CCTCTCCATC
93047196 TTTTCTTT
1 TTTTCTTT
*
93047204 TTTTCTCT
1 TTTTCTTT
93047212 TTTTCTTT
1 TTTTCTTT
*
93047220 TCTT-TTT
1 TTTTCTTT
93047227 TTTTCTTT
1 TTTTCTTT
93047235 TTTT
1 TTTT
93047239 TGAAATAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTCTTT
Found at i:93047214 original size:10 final size:10
Alignment explanation
Indices: 93047196--93047239 Score: 70
Period size: 10 Copynumber: 4.3 Consensus size: 10
93047186 CCTCTCCATC
93047196 TTTTCTTTTT
1 TTTTCTTTTT
*
93047206 TTCTCTTTTT
1 TTTTCTTTTT
93047216 CTTTTCTTTTT
1 -TTTTCTTTTT
93047227 TTTTCTTTTT
1 TTTTCTTTTT
93047237 TTT
1 TTT
93047240 GAAATAGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:93047218 original size:21 final size:21
Alignment explanation
Indices: 93047194--93047236 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
93047184 GGCCTCTCCA
93047194 TCTTTTCTTTTTTTCTCTTTT
1 TCTTTTCTTTTTTTCTCTTTT
*
93047215 TCTTTTCTTTTTTTTTCTTTT
1 TCTTTTCTTTTTTTCTCTTTT
93047236 T
1 T
93047237 TTTGAAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (21 bp):
TCTTTTCTTTTTTTCTCTTTT
Found at i:93053682 original size:17 final size:17
Alignment explanation
Indices: 93053660--93053721 Score: 97
Period size: 17 Copynumber: 3.6 Consensus size: 17
93053650 AATCATATCT
93053660 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
*
93053677 TCTAAGATTGCAATCATA
1 TCTAAGATTG-TATCATA
*
93053695 TCTAAGATTGTATTATA
1 TCTAAGATTGTATCATA
93053712 TCTAAGATTG
1 TCTAAGATTG
93053722 CATATCATTG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
17 25 0.61
18 16 0.39
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.40
Consensus pattern (17 bp):
TCTAAGATTGTATCATA
Found at i:93053704 original size:35 final size:36
Alignment explanation
Indices: 93053653--93053729 Score: 124
Period size: 35 Copynumber: 2.2 Consensus size: 36
93053643 ATTACAAAAT
93053653 CATATC-T-TCTAAGATTGTATCATATCTAAGATTG
1 CATATCATATCTAAGATTGTATCATATCTAAGATTG
*
93053687 CA-ATCATATCTAAGATTGTATTATATCTAAGATTG
1 CATATCATATCTAAGATTGTATCATATCTAAGATTG
93053722 CATATCAT
1 CATATCAT
93053730 TGAAGATTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
33 3 0.08
34 3 0.08
35 28 0.72
36 5 0.13
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.40
Consensus pattern (36 bp):
CATATCATATCTAAGATTGTATCATATCTAAGATTG
Found at i:93054433 original size:35 final size:35
Alignment explanation
Indices: 93054367--93054434 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
93054357 TTTATATGCC
* * ** **
93054367 ATGTTAAATGCAATATTGTATAGTATTGAGTTATA
1 ATGTTAAATACAATATTATATAACAAAGAGTTATA
93054402 ATGTTAAATACAATATTATATAACAAAGAGTTA
1 ATGTTAAATACAATATTATATAACAAAGAGTTA
93054435 AGAAATAGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.38
Consensus pattern (35 bp):
ATGTTAAATACAATATTATATAACAAAGAGTTATA
Found at i:93057204 original size:17 final size:16
Alignment explanation
Indices: 93057182--93057213 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
93057172 TTGCAAATTA
93057182 AAAAAAAGTTCGAACAT
1 AAAAAAAGTT-GAACAT
93057199 AAAAAAAGTTGAACA
1 AAAAAAAGTTGAACA
93057214 ATTCTATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.62, C:0.09, G:0.12, T:0.16
Consensus pattern (16 bp):
AAAAAAAGTTGAACAT
Found at i:93059388 original size:37 final size:37
Alignment explanation
Indices: 93059347--93059445 Score: 105
Period size: 37 Copynumber: 2.7 Consensus size: 37
93059337 TAATAATATT
*
93059347 TTAATAGTTTAATATTAAATTAA-ATTAAA-TACTTATC
1 TTAATAG--TAATATTAAATTAATATTAAAGTAATTATC
* *
93059384 TTAATAGTATTATTAATTTAATATTAAAGTAATTATC
1 TTAATAGTAATATTAAATTAATATTAAAGTAATTATC
* *
93059421 TTAATATTAA-ATTTAATTTAATATT
1 TTAATAGTAATA-TTAAATTAATATT
93059446 TAGTTTAATC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
35 12 0.22
36 7 0.13
37 35 0.65
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (37 bp):
TTAATAGTAATATTAAATTAATATTAAAGTAATTATC
Found at i:93059446 original size:12 final size:12
Alignment explanation
Indices: 93059396--93059454 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
93059386 AATAGTATTA
93059396 TTAATTTAATA-
1 TTAATTTAATAT
**
93059407 TTAAAGTAATTAT
1 TTAATTTAA-TAT
93059420 CTTAATATTAA-AT
1 -TTAAT-TTAATAT
93059433 TTAATTTAATAT
1 TTAATTTAATAT
*
93059445 TTAGTTTAAT
1 TTAATTTAAT
93059455 CATAGTTGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
11 11 0.29
12 18 0.47
13 2 0.05
14 4 0.11
15 3 0.08
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (12 bp):
TTAATTTAATAT
Found at i:93059454 original size:17 final size:17
Alignment explanation
Indices: 93059396--93059445 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 17
93059386 AATAGTATTA
93059396 TTAATTTAATATTAAAGT
1 TTAATTTAATATTAAA-T
93059414 AATT-ATCTTAATATTAAAT
1 --TTAAT-TTAATATTAAAT
93059433 TTAATTTAATATT
1 TTAATTTAATATT
93059446 TAGTTTAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 10 0.36
18 2 0.07
19 3 0.11
20 13 0.46
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
TTAATTTAATATTAAAT
Found at i:93062086 original size:40 final size:40
Alignment explanation
Indices: 93062025--93062270 Score: 309
Period size: 40 Copynumber: 6.2 Consensus size: 40
93062015 CGGAATTTAG
* * * *
93062025 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
93062065 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
93062105 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
*
93062145 CTGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
93062185 CCGGATAAAATCACTAGCATAAATGCCTTCGGGT-TTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
93062224 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
93062264 CCGGATA
1 CCGGATA
93062271 TCATTCAAAT
Statistics
Matches: 184, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 39 0.21
40 141 0.77
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:93066411 original size:47 final size:47
Alignment explanation
Indices: 93066351--93066535 Score: 280
Period size: 47 Copynumber: 3.9 Consensus size: 47
93066341 GATAATTGTG
**
93066351 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
93066398 ATGTGAACATGCATATATGTTATAAGGCCAAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
93066445 ATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * *
93066492 ATATGAACATGCATATATGTGGTAATGCCGAATGGCTAATGTGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
93066536 AATATATGTA
Statistics
Matches: 124, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 124 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:93066891 original size:37 final size:37
Alignment explanation
Indices: 93066740--93066889 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
93066730 GGAAATATAT
93066740 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
93066777 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
93066814 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
93066851 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
93066888 TC
1 TC
93066890 TGAGCTAAAG
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:93068677 original size:40 final size:40
Alignment explanation
Indices: 93068166--93068666 Score: 799
Period size: 40 Copynumber: 12.6 Consensus size: 40
93068156 AGTGGTATAC
93068166 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
93068206 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
93068246 CCGGGCTAAGTCCCGAAGAGCATTCGTGCCAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
93068286 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
93068326 CCGGGTTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
93068366 CCGAGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
93068406 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
93068446 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
93068486 CCGGGCTAAGT-CCGAAGAGCATTCGTACTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
93068525 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
93068565 CCGGGCTAAGTCCCGAAGTGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* * * * *
93068605 CCGTGCTAA-ACCACGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAGTGATGTAT
*
93068645 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
93068667 ATCATGCTGG
Statistics
Matches: 426, Mismatches: 32, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
39 38 0.09
40 386 0.91
41 2 0.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
Found at i:93068883 original size:25 final size:25
Alignment explanation
Indices: 93068842--93068891 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
93068832 TGTACAAATA
93068842 CGAATGAATAAGAGCACTATGTGTG
1 CGAATGAATAAGAGCACTATGTGTG
* *
93068867 CGAATG-ATTAGAGGCACTGTGTGTG
1 CGAATGAATAAGA-GCACTATGTGTG
93068892 TGCGAATTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.26
Consensus pattern (25 bp):
CGAATGAATAAGAGCACTATGTGTG
Found at i:93072814 original size:47 final size:47
Alignment explanation
Indices: 93072754--93072938 Score: 262
Period size: 47 Copynumber: 3.9 Consensus size: 47
93072744 GATAATTGTG
**
93072754 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
93072801 ATGTGAACATGCATATATGTGATAGGGCCAAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
93072848 ATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* ** * * *
93072895 ATATGAACATATATATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
93072939 AATATATGTA
Statistics
Matches: 122, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 122 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:93073193 original size:37 final size:37
Alignment explanation
Indices: 93073143--93073292 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
93073133 GGAAATATAT
93073143 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
93073180 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
93073217 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
93073254 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
93073291 TC
1 TC
93073293 TGAGCTAAAG
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:93077436 original size:181 final size:175
Alignment explanation
Indices: 93076932--93077568 Score: 918
Period size: 175 Copynumber: 3.6 Consensus size: 175
93076922 GTAAACACGT
* ** * * * *
93076932 GAAAGCCAAATCTGCCGTGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTAG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* * * * *
93076997 ATCTGTTTTAGTA-AAATCATCTGAAGGTTAAATTTTCTATGTATCTGCTCTCCGTCGAAATGGA
66 ATCTGCTTCAGTATAAA-CATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGA
* *
93077061 GATGCCAGATCTGTTATCTTGGATCTACTTTGGTGTGAGAACATTC
130 GATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
93077107 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
*
93077172 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTTTCCGTCGAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
93077237 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
* * * * * * *
93077282 GAAAGTGAAATCTGCTATGTCTTCGATTTGCTCCTCGTCGAAGATAGAGAA-GCTAAATCTTGTT
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGT-AAACACA-AGAATGCCAAATC-----
* *
93077346 ATCTTGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGA
59 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGA
* *
93077411 AATGGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAGAACATCT
124 AATGGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
*
93077463 GAAAGTCAAATCTGTTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* * *
93077528 ATTTGCTTCAATATAAACATCTGAAGGTTAGATTTGCTATG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATG
93077569 CTTTGGTCTG
Statistics
Matches: 414, Mismatches: 39, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
175 235 0.57
176 14 0.03
177 4 0.01
179 4 0.01
180 11 0.03
181 146 0.35
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (175 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
Found at i:93094204 original size:17 final size:18
Alignment explanation
Indices: 93094178--93094211 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
93094168 CTTATTTTTA
93094178 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
93094195 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
93094212 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:93094784 original size:8 final size:8
Alignment explanation
Indices: 93094760--93094794 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
93094750 TTCTCCTAAA
93094760 TTTTAATTT
1 TTTTAA-TT
93094769 TATTTAATT
1 T-TTTAATT
93094778 TTTTAATT
1 TTTTAATT
93094786 TTTTAATT
1 TTTTAATT
93094794 T
1 T
93094795 ATTGAATCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 16 0.64
9 4 0.16
10 5 0.20
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTAATT
Found at i:93094790 original size:16 final size:18
Alignment explanation
Indices: 93094760--93094813 Score: 67
Period size: 16 Copynumber: 3.0 Consensus size: 18
93094750 TTCTCCTAAA
93094760 TTTTAATTTTATTTAATT
1 TTTTAATTTTATTTAATT
93094778 TTTTAA-TTT-TTTAATT
1 TTTTAATTTTATTTAATT
*
93094794 TATTGAATCTTTATTTAATT
1 T-TTTAAT-TTTATTTAATT
93094814 AAAATTTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 8 0.26
17 7 0.23
18 6 0.19
19 3 0.10
20 7 0.23
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTAATTTTATTTAATT
Found at i:93103789 original size:47 final size:47
Alignment explanation
Indices: 93103730--93104296 Score: 981
Period size: 47 Copynumber: 11.9 Consensus size: 47
93103720 TAGTATGGCG
*
93103730 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
93103777 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
93103824 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
93103871 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
93103918 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
93103965 TAATGGTCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
93104012 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
93104059 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
93104108 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
93104157 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
93104204 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
* * * * * *
93104253 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
93104297 TCCCGAAGGG
Statistics
Matches: 501, Mismatches: 15, Indels: 8
0.96 0.03 0.02
Matches are distributed among these distances:
47 367 0.73
49 134 0.27
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:93104484 original size:37 final size:37
Alignment explanation
Indices: 93104415--93104493 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
93104405 CCGAGCTCTA
* * *
93104415 AAGACCCGATGACTACGTATGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTATGGAGATTATGTCCGGGT
* *
93104452 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTATGGAGATTATGTCCGGGT
93104489 AAGAC
1 AAGAC
93104494 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTATGGAGATTATGTCCGGGT
Found at i:93109208 original size:43 final size:43
Alignment explanation
Indices: 93109105--93109208 Score: 138
Period size: 43 Copynumber: 2.4 Consensus size: 43
93109095 TAGCCCAGCT
*
93109105 ATGGTCTTACACAAAATCAAATAACGATGCCAATGTTCCAGAC
1 ATGGTCTTACACATAATCAAATAACGATGCCAATGTTCCAGAC
* * * *
93109148 ATGGTCTTACACGTAATCATATAATGATGCCAATG-TCTCAGGC
1 ATGGTCTTACACATAATCAAATAACGATGCCAATGTTC-CAGAC
*
93109191 ATGGTCTTACATATAATC
1 ATGGTCTTACACATAATC
93109209 TCATCTCGTT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
42 2 0.04
43 51 0.96
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACATAATCAAATAACGATGCCAATGTTCCAGAC
Found at i:93110543 original size:14 final size:15
Alignment explanation
Indices: 93110519--93110553 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
93110509 GGCAACCAAA
93110519 ATTTATTTTATTTAT
1 ATTTATTTTATTTAT
93110534 ATTT-TTTTATTTAT
1 ATTTATTTTATTTAT
93110548 ATTTAT
1 ATTTAT
93110554 ATTTTCTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTTATTTTATTTAT
Found at i:93110552 original size:20 final size:19
Alignment explanation
Indices: 93110520--93110558 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
93110510 GCAACCAAAA
93110520 TTTATTTTATTTATATTTT
1 TTTATTTTATTTATATTTT
93110539 TTTATTTATATTTATATTTT
1 TTTATTT-TATTTATATTTT
93110559 CTATTTCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTATTTTATTTATATTTT
Found at i:93111531 original size:104 final size:105
Alignment explanation
Indices: 93111344--93111533 Score: 278
Period size: 105 Copynumber: 1.8 Consensus size: 105
93111334 TTTTTAAGAA
* * *
93111344 TATGTTGGGCTGAGTAACCAGAGTGGGGTGCTTGGCTGTTATCTCTCTTTCCGTCAAAAGGTTCA
1 TATGTTGGGCTGAATAACCAGAGCGGGGTGCTTGGCTGTCATCTCTCTTTCCGTCAAAAGGTTCA
*
93111409 ATATATTCTTAAGAAAAAAATAAATATAATAAATTACGAG
66 ATATATTCTTAACAAAAAAATAAATATAATAAATTACGAG
* *
93111449 TATGTTGGGCTGAATAACCATG-GCGGGGTGCTTGGTTG-CATCTCTC-TTCGTGTCAAAAGGTT
1 TATGTTGGGCTGAATAACCA-GAGCGGGGTGCTTGGCTGTCATCTCTCTTTC-CGTCAAAAGGTT
93111511 CAATATATTCTTAACCAAAAAAA
64 CAATATATTCTTAA-CAAAAAAA
93111534 AAGAAAAAAT
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
103 3 0.04
104 32 0.42
105 40 0.53
106 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (105 bp):
TATGTTGGGCTGAATAACCAGAGCGGGGTGCTTGGCTGTCATCTCTCTTTCCGTCAAAAGGTTCA
ATATATTCTTAACAAAAAAATAAATATAATAAATTACGAG
Found at i:93114462 original size:18 final size:18
Alignment explanation
Indices: 93114439--93114481 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
93114429 AAATGTTAGT
93114439 CTACATATAAAAAACAAA
1 CTACATATAAAAAACAAA
93114457 CTACATATAAAAAACAAA
1 CTACATATAAAAAACAAA
93114475 CTACATA
1 CTACATA
93114482 CTAGCCTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.63, C:0.19, G:0.00, T:0.19
Consensus pattern (18 bp):
CTACATATAAAAAACAAA
Found at i:93117661 original size:28 final size:27
Alignment explanation
Indices: 93117623--93117723 Score: 87
Period size: 28 Copynumber: 3.4 Consensus size: 27
93117613 CATAGTTAAC
*
93117623 TGGGCCTTAGCCCATATCAATATTAATT
1 TGGGCC-TAGCCCATATCAATATCAATT
*
93117651 TGGGCCATAGCCCCT-TACAATATCAGAGTAT
1 TGGGCC-TAGCCCATAT-CAATATCA-A-T-T
*
93117682 ACTGGGCCTAGCCCATATCAGTATCAATT
1 --TGGGCCTAGCCCATATCAATATCAATT
93117711 TGGGCCGTAGCCC
1 TGGGCC-TAGCCC
93117724 TATAACAAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
27 7 0.12
28 26 0.43
29 2 0.03
30 2 0.03
31 2 0.03
32 14 0.23
33 7 0.12
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (27 bp):
TGGGCCTAGCCCATATCAATATCAATT
Found at i:93126917 original size:56 final size:56
Alignment explanation
Indices: 93126831--93126941 Score: 222
Period size: 56 Copynumber: 2.0 Consensus size: 56
93126821 AAAAGCAATG
93126831 AGGCATTAATGTAAAGGAAGAACAGAAGAGCAAATGGCCATTGCCTATATACTTTC
1 AGGCATTAATGTAAAGGAAGAACAGAAGAGCAAATGGCCATTGCCTATATACTTTC
93126887 AGGCATTAATGTAAAGGAAGAACAGAAGAGCAAATGGCCATTGCCTATATACTTT
1 AGGCATTAATGTAAAGGAAGAACAGAAGAGCAAATGGCCATTGCCTATATACTTT
93126942 TTCAGACCCA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (56 bp):
AGGCATTAATGTAAAGGAAGAACAGAAGAGCAAATGGCCATTGCCTATATACTTTC
Found at i:93131543 original size:28 final size:28
Alignment explanation
Indices: 93131501--93131556 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
93131491 GAAATCAGCC
93131501 TTATCCATTAGAGCTCACAAAACCAGTT
1 TTATCCATTAGAGCTCACAAAACCAGTT
*
93131529 TTATCCATT-GCAGCTCACAAAACTAGTT
1 TTATCCATTAG-AGCTCACAAAACCAGTT
93131557 GGCTGATATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (28 bp):
TTATCCATTAGAGCTCACAAAACCAGTT
Found at i:93146177 original size:22 final size:22
Alignment explanation
Indices: 93146135--93146179 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
93146125 TACTTTAGCC
*
93146135 ATTTTTATTTTTATTGCAATTT
1 ATTTTTATTTTTATTACAATTT
*
93146157 ATTTTTATTTTTATTATAATTT
1 ATTTTTATTTTTATTACAATTT
93146179 A
1 A
93146180 CTAACTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (22 bp):
ATTTTTATTTTTATTACAATTT
Found at i:93149395 original size:30 final size:30
Alignment explanation
Indices: 93149339--93149396 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
93149329 CACGGCCATG
* *
93149339 ACACATGGGCGTGTGGCTAGCTCGTGTGTC
1 ACACATGGGCGTGTGACTAGCCCGTGTGTC
*
93149369 ACACATGGGCGTGTAGATTA-CCCGTGTG
1 ACACATGGGCGTGT-GACTAGCCCGTGTG
93149397 GGAGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.17, C:0.22, G:0.34, T:0.26
Consensus pattern (30 bp):
ACACATGGGCGTGTGACTAGCCCGTGTGTC
Found at i:93151066 original size:18 final size:18
Alignment explanation
Indices: 93151043--93151145 Score: 64
Period size: 18 Copynumber: 5.4 Consensus size: 18
93151033 ACATCGTGAT
93151043 CTGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGGCTAA
*
93151061 CTGAAGCACAC-AAGTGTTAA
1 CTGAAGC-C-CGAAG-GCTAA
* *
93151081 ATGGAAGCCCAAAGGCTAA
1 CT-GAAGCCCGAAGGCTAA
* **
93151100 TTGAAGCATGCAAGTGCTAAA
1 CTGAAGCCCG-AAG-GCT-AA
* *
93151121 CAGAAGCCCGAAGGTTAA
1 CTGAAGCCCGAAGGCTAA
93151139 CTGAAGC
1 CTGAAGC
93151146 TCATCAGAGC
Statistics
Matches: 64, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
18 20 0.31
19 15 0.23
20 16 0.25
21 13 0.20
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (18 bp):
CTGAAGCCCGAAGGCTAA
Done.