Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_pilon, whole genome shotgun sequence
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: 5120959
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 21
Found at i:944262 original size:81 final size:81
Alignment explanation
Indices: 944149--944320 Score: 188
Period size: 81 Copynumber: 2.1 Consensus size: 81
944139 TGCGAACTCT
* *
944149 AATTTCGCAACTCAGTTTCCAAATTCATAACGCG-ATTTCCAAATTCGCAACGCGATTTCCAAAT
1 AATTTCGCAACTCAATTTCCAAATTCACAACGCGAATTT-CAAATTCGCAACGCGATTTCCAAAT
944213 TCGCAACACTGAATTTCA
65 TCGCAACAC-GAATTTCA
** * **** * * *
944231 AATTT-GCAACTCAATTTTTAAATTCGCAACGCGAATTTTGTTTTCGCAACTCGATTTTCGAATT
1 AATTTCGCAACTCAATTTCCAAATTCACAACGCGAATTTCAAATTCGCAACGCGATTTCCAAATT
*
944295 CGCAACACGAATTT-T
66 CGCAACACGAATTTCA
944310 AATTTCGCAAC
1 AATTTCGCAAC
944321 ATGTTTTAGT
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
79 5 0.07
80 11 0.15
81 50 0.67
82 9 0.12
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (81 bp):
AATTTCGCAACTCAATTTCCAAATTCACAACGCGAATTTCAAATTCGCAACGCGATTTCCAAATT
CGCAACACGAATTTCA
Found at i:944280 original size:40 final size:40
Alignment explanation
Indices: 944128--944320 Score: 156
Period size: 40 Copynumber: 4.8 Consensus size: 40
944118 AAATGACCAA
** * * * *
944128 CAAATTCGCAATGCGAACTCTAATTTCGCAACTCAGTTTC
1 CAAATTCGCAACACGAATTTTAATTTCGCAACTCAATTTT
** * * * * * *
944168 CAAATTCATAACGCG-ATTTCCAAATTCGCAACGCGATTTC
1 CAAATTCGCAACACGAATTT-TAATTTCGCAACTCAATTTT
*
944208 CAAATTCGCAACACTGAATTTCAAATTT-GCAACTCAATTTT
1 CAAATTCGCAACAC-GAATTT-TAATTTCGCAACTCAATTTT
* * ** *
944249 TAAATTCGCAACGCGAATTTTGTTTTCGCAACTCGATTTT
1 CAAATTCGCAACACGAATTTTAATTTCGCAACTCAATTTT
*
944289 CGAATTCGCAACACGAATTTTAATTTCGCAAC
1 CAAATTCGCAACACGAATTTTAATTTCGCAAC
944321 ATGTTTTAGT
Statistics
Matches: 120, Mismatches: 29, Indels: 8
0.76 0.18 0.05
Matches are distributed among these distances:
39 5 0.04
40 83 0.69
41 23 0.19
42 9 0.08
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (40 bp):
CAAATTCGCAACACGAATTTTAATTTCGCAACTCAATTTT
Found at i:944321 original size:20 final size:20
Alignment explanation
Indices: 944212--944340 Score: 90
Period size: 20 Copynumber: 6.5 Consensus size: 20
944202 GATTTCCAAA
*
944212 TTCGCAACACTGAATTTCAAAT
1 TTCGCAACAC-GAATTT-TAAT
* *
944234 TT-GCAACTC-AATTTTTAAA
1 TTCGCAACACGAA-TTTTAAT
* **
944253 TTCGCAACGCGAATTTTGTT
1 TTCGCAACACGAATTTTAAT
*
944273 TTCGCAACTCG-ATTTTCGAA-
1 TTCGCAACACGAATTTT--AAT
944293 TTCGCAACACGAATTTTAAT
1 TTCGCAACACGAATTTTAAT
* *
944313 TTCGCAACATG--TTTTAGT
1 TTCGCAACACGAATTTTAAT
944331 TTCGCAACAC
1 TTCGCAACAC
944341 AAATGTTTTG
Statistics
Matches: 86, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
18 15 0.17
19 13 0.15
20 43 0.50
21 13 0.15
22 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (20 bp):
TTCGCAACACGAATTTTAAT
Found at i:945297 original size:24 final size:24
Alignment explanation
Indices: 945239--945285 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
945229 AGTCAGTATT
*
945239 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
945263 CGAACTTTGATCTTGGTCAATAC
1 CGAACTTTGATCTTGGTCAATAC
945286 TCGGATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:947538 original size:6 final size:6
Alignment explanation
Indices: 947527--947556 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
947517 CAAGTAAAAG
*
947527 AAAATC AAAATC ACAATC AAAATC AAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC
947557 CCAATCACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.63, C:0.20, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:947550 original size:18 final size:18
Alignment explanation
Indices: 947527--947563 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
947517 CAAGTAAAAG
947527 AAAATCAAAATCACAATC
1 AAAATCAAAATCACAATC
*
947545 AAAATCAAAATCCCAATC
1 AAAATCAAAATCACAATC
947563 A
1 A
947564 CAACCGGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAATCAAAATCACAATC
Found at i:947871 original size:20 final size:20
Alignment explanation
Indices: 947811--947872 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
947801 TCACAACCCA
*
947811 AATTTAACTTTCGCATTGCG
1 AATTTGACTTTCGCATTGCG
* * **
947831 AATTTGACTATCACAACGCG
1 AATTTGACTTTCGCATTGCG
*
947851 AATTTGACTTTCGCGTTGCG
1 AATTTGACTTTCGCATTGCG
947871 AA
1 AA
947873 ATTCTACCTT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (20 bp):
AATTTGACTTTCGCATTGCG
Found at i:947998 original size:14 final size:14
Alignment explanation
Indices: 947979--948018 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
947969 ATAATAATTA
*
947979 TTTACACATCAACT
1 TTTACAAATCAACT
947993 TTTACAAATCAACT
1 TTTACAAATCAACT
948007 TTTACAAATCAA
1 TTTACAAATCAA
948019 TTAAACAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (14 bp):
TTTACAAATCAACT
Found at i:948012 original size:65 final size:64
Alignment explanation
Indices: 947936--948081 Score: 213
Period size: 65 Copynumber: 2.3 Consensus size: 64
947926 AAAAACAACC
**
947936 TCAACTTTTACAAATCAATTAAACAAACAAAAAATAATAATTATTTACACATCAACTTTTACAAA
1 TCAACTTTTACAAATCAATTAAACAAACAAAAAATAATAATTATTTACACATCAA-TTAAACAAA
* ** * *
948001 TCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTAAACAAA
1 TCAACTTTTACAAATCAATTAAACAAACAAAAAATAATAATTATTTACACATCAATTAAACAAA
948065 TCAAC-TTTACAAATCAA
1 TCAACTTTTACAAATCAA
948082 CTTTTACAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
63 12 0.16
64 12 0.16
65 50 0.68
ACGTcount: A:0.50, C:0.18, G:0.01, T:0.31
Consensus pattern (64 bp):
TCAACTTTTACAAATCAATTAAACAAACAAAAAATAATAATTATTTACACATCAATTAAACAAA
Found at i:948076 original size:13 final size:14
Alignment explanation
Indices: 948060--948092 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
948050 CATCAATTAA
948060 ACAAATCAAC-TTT
1 ACAAATCAACTTTT
948073 ACAAATCAACTTTT
1 ACAAATCAACTTTT
948087 ACAAAT
1 ACAAAT
948093 ACATCAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:949460 original size:21 final size:21
Alignment explanation
Indices: 949449--949489 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
949439 TCGAACGGTG
*
949449 GGAGGGGCCTCTTGAACGATA
1 GGAGAGGCCTCTTGAACGATA
949470 GGAGAGGCCTCTTGAACGAT
1 GGAGAGGCCTCTTGAACGAT
949490 GACAGGTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.20, G:0.37, T:0.20
Consensus pattern (21 bp):
GGAGAGGCCTCTTGAACGATA
Found at i:949893 original size:21 final size:21
Alignment explanation
Indices: 949869--949918 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
949859 ACCATTATCT
*
949869 TCACGTAAAGTACCGACCTCC
1 TCACGTAAAGTACCGACCTCA
* **
949890 TCACGAAAAGTATTGACCTCA
1 TCACGTAAAGTACCGACCTCA
949911 TCACGTAA
1 TCACGTAA
949919 CTCCCTTAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.22
Consensus pattern (21 bp):
TCACGTAAAGTACCGACCTCA
Found at i:951484 original size:20 final size:20
Alignment explanation
Indices: 951442--951484 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
951432 GAAATTGGGG
* * *
951442 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGAATTTAAGT
*
951462 TTCGTGTTGCGAATTTAAGT
1 TTCGCGTTGCGAATTTAAGT
951482 TTC
1 TTC
951485 AAATAGTCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.14, C:0.16, G:0.21, T:0.49
Consensus pattern (20 bp):
TTCGCGTTGCGAATTTAAGT
Found at i:951840 original size:22 final size:22
Alignment explanation
Indices: 951810--951867 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
951800 GATGGAGATA
951810 GACGAATTTCGCCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
* *
951832 GACGGATTTCGTCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
*
951854 GACGAATGTCGCCG
1 GACGAATTTCGCCG
951868 TAGAGAGTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.21, C:0.19, G:0.41, T:0.19
Consensus pattern (22 bp):
GACGAATTTCGCCGGAGATGGG
Found at i:952037 original size:20 final size:20
Alignment explanation
Indices: 952012--952060 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
952002 CAAACGCACT
952012 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
952032 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
952052 TTGCGAATT
1 TTGCGAATT
952061 ACAGATTCGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.16, C:0.14, G:0.24, T:0.45
Consensus pattern (20 bp):
TTGCGAATTTGACTTCTGTG
Found at i:952074 original size:20 final size:20
Alignment explanation
Indices: 952051--952120 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
952041 TGACTTCTGT
*
952051 GTTGCGAATTACAGATTCGC
1 GTTGCGAATTACAAATTCGC
* *
952071 GTTGCGATTTACATATTCGC
1 GTTGCGAATTACAAATTCGC
* ** *
952091 GTTGCGATTTTGAAAATCGC
1 GTTGCGAATTACAAATTCGC
952111 GTTGCGAATT
1 GTTGCGAATT
952121 TGGAAAATCG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (20 bp):
GTTGCGAATTACAAATTCGC
Found at i:952122 original size:20 final size:21
Alignment explanation
Indices: 952087--952203 Score: 80
Period size: 20 Copynumber: 5.8 Consensus size: 21
952077 ATTTACATAT
*
952087 TCGCGTTGCG-ATTTTGAAAA
1 TCGCGTTGCGAATTTGGAAAA
952107 TCGCGTTGCGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAAAA
** * ** * *
952128 TCGCAATGTG-ATTTACATAT
1 TCGCGTTGCGAATTTGGAAAA
* *
952148 TCGGGTTGCGAATTTGGAAAC
1 TCGCGTTGCGAATTTGGAAAA
* * **
952169 T-GAGTTGCGAAATTGG-AGT
1 TCGCGTTGCGAATTTGGAAAA
952188 TCGCGTTGCGAATTTG
1 TCGCGTTGCGAATTTG
952204 TTGGTCATTT
Statistics
Matches: 72, Mismatches: 22, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
19 2 0.03
20 47 0.65
21 23 0.32
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (21 bp):
TCGCGTTGCGAATTTGGAAAA
Found at i:956261 original size:34 final size:32
Alignment explanation
Indices: 956202--956301 Score: 96
Period size: 34 Copynumber: 3.0 Consensus size: 32
956192 ATGAAATATT
* *
956202 AAAACAAATAATAA-ACATAATTAAAATAATTAA
1 AAAACAAATAATAATA-A-AAATAAAATAAGTAA
*
956235 AACAACAAATAATAATAAACAATAAAAAACAGTAA
1 AA-AACAAATAATAATAAA-AATAAAATA-AGTAA
956270 AAAACATAA-AATAATTAAAAATAAAATAAGTA
1 AAAACA-AATAATAA-TAAAAATAAAATAAGTA
956302 CAAGGACCTA
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
33 7 0.12
34 37 0.65
35 13 0.23
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.20
Consensus pattern (32 bp):
AAAACAAATAATAATAAAAATAAAATAAGTAA
Found at i:957855 original size:3 final size:3
Alignment explanation
Indices: 957847--957885 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
957837 GTATATTTGT
*
957847 ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA TTTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
957886 TATATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.88
4 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:957865 original size:14 final size:14
Alignment explanation
Indices: 957846--957891 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
957836 TGTATATTTG
957846 TATAATAATAATAA
1 TATAATAATAATAA
957860 TATAATAATAATAA
1 TATAATAATAATAA
*
957874 TAT-TTAATAATATA
1 TATAATAATAATA-A
957888 TATA
1 TATA
957892 TTTTAAGATC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 8 0.28
14 21 0.72
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TATAATAATAATAA
Found at i:961459 original size:257 final size:253
Alignment explanation
Indices: 960847--961755 Score: 1122
Period size: 256 Copynumber: 3.6 Consensus size: 253
960837 AATGAGAAAG
* *
960847 GTTTCTCATTTAAATATTGTCAGAAAATGAAATTTTTGAAAAGTAAAAAGCAATTTCCAAAGTTT
1 GTTTCTCATTT-AATATT-TTAGAAAATGAAATTTTTGAAAAGTAAAAAGCGATTTCCAAAGTTT
* * *
960912 CTTACCCAGTAAATTATTTCCAAAATTTGTAAGTCCATCAGGCCATCAGTAAGTCTTTCGAGCAT
64 CTTACCCAGTAAACTATTTCCAAAATTTGTAAGTCCTTCAGGCCATCAGTAAGTCTTT-GAACAT
* * * *
960977 GATACTTAAATCCTTT-GGGTCATCTGTAAGTCTTTCCAGTGAGATGATAAGTCTTTCGGGCCAT
128 GATAATTAAAT-CTTTCGGGTCATCTGTCAGTCTTTCGAGTAAGATGATAAGTCTTTC-GGCCAT
* * *
961041 CTATAAGACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAAATGAGAAAGCAATTTCCAAA
191 CTATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTGAAAAATGAGAAAGCGATTTCCAAA
* *
961104 GTTTCTCATTTAGTATTTTAGAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTTCCAACGTTTC
1 GTTTCTCATTTAATATTTTAGAAAATGAAATTTTTGAAAAGTAA-AAAGCGATTTCCAAAGTTTC
* *
961169 TTACCCAGTAAATTATTTCCAAAATTTGTAAGTCCTTCATGCCATCAGTAAGTCTTTGAACATGA
65 TTACCCAGTAAACTATTTCCAAAATTTGTAAGTCCTTCAGGCCATCAGTAAGTCTTTGAACATGA
* * * *
961234 TAATTAAATATTTCGGGTCATCTGTCAGCCTTTCGAGTAATATGATATGT-TCTTCAGGCCATCT
130 TAATTAAATCTTTCGGGTCATCTGTCAGTCTTTCGAGTAAGATGATAAGTCT-TTC-GGCCATCT
* *
961298 ATAAGACCTTTGGGCAAGATGTTTTCACATGATTTTCGAAAAATGAGAAAGCGATTTCCAAA
193 ATAAGACCTTCGGGCAGGATGTTTTCACATGATTTT-GAAAAATGAGAAAGCGATTTCCAAA
*
961360 GTTTCTCATTTAATGTTTTCAGAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTT
1 GTTTCTCATTTAATATTTT-AGAAAATGAAATTTTTGAAAAGTAA-AAAGCGATTTCCAAAGTTT
* *
961425 CTTACCCAGTAAACTATTTCCAAAATTTGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCAT
64 CTTACCCAGTAAACTATTTCCAAAATTTGTAAGTCCTTCAGGCCATCAGTAAGTCTTTGAA-CAT
* * * * * * * *
961490 GATGATTAAATCCTTCAGGTCATCTGTCAGTTTTTTGAGCAAGGTGATAAGTCTTTCGG--GTCT
128 GATAATTAAATCTTTCGGGTCATCTGTCAGTCTTTCGAGTAAGATGATAAGTCTTTCGGCCATCT
* * * * *
961553 -T-----CTTCGGACAGGATGTTTCCACACGATTTTTGAAAAATGAGAAAGTGATTTTCAAA
193 ATAAGACCTTCGGGCAGGATGTTTTCACATGA-TTTTGAAAAATGAGAAAGCGATTTCCAAA
* * * * *
961609 GTTTCTTATTTAATGTTTTTGAAAATGAAATTTTTGAAAAGTAAAAA-AGATTTTCAAAGTTTCT
1 GTTTCTCATTTAATATTTTAGAAAATGAAATTTTTGAAAAGTAAAAAGCGATTTCCAAAGTTTCT
* ** * * * * *
961673 CATTCAATAAACTACTTCCAAAATTTGTAAGTCCTTCGGGCCATCAGTAA-TTTTTCCGAGCATG
66 TACCCAGTAAACTATTTCCAAAATTTGTAAGTCCTTCAGGCCATCAGTAAGTCTTT--GAACATG
* *
961737 ATGATTAAATCCTTCGGGT
129 ATAATTAAATCTTTCGGGT
961756 TATTTGTCGG
Statistics
Matches: 582, Mismatches: 60, Indels: 31
0.86 0.09 0.05
Matches are distributed among these distances:
245 4 0.01
246 82 0.14
247 4 0.01
248 24 0.04
249 61 0.10
250 4 0.01
254 5 0.01
255 117 0.20
256 119 0.20
257 114 0.20
258 47 0.08
259 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (253 bp):
GTTTCTCATTTAATATTTTAGAAAATGAAATTTTTGAAAAGTAAAAAGCGATTTCCAAAGTTTCT
TACCCAGTAAACTATTTCCAAAATTTGTAAGTCCTTCAGGCCATCAGTAAGTCTTTGAACATGAT
AATTAAATCTTTCGGGTCATCTGTCAGTCTTTCGAGTAAGATGATAAGTCTTTCGGCCATCTATA
AGACCTTCGGGCAGGATGTTTTCACATGATTTTGAAAAATGAGAAAGCGATTTCCAAA
Found at i:961898 original size:3 final size:3
Alignment explanation
Indices: 961890--961937 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
961880 TTTGTCTGGG
* *
961890 TTA TTA TTA ATA TTTA TTA TTA CTA TTA TTA TTA TT- TATA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
961936 TT
1 TT
961938 TTTTAAAGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
2 1 0.03
3 34 0.89
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:961931 original size:9 final size:10
Alignment explanation
Indices: 961893--961934 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
961883 GTCTGGGTTA
*
961893 TTATTAATAT
1 TTATTATTAT
961903 TTATTATTACT
1 TTATTATTA-T
961914 ATTATTATTAT
1 -TTATTATTAT
961925 TTA-TATTAT
1 TTATTATTAT
961934 T
1 T
961935 ATTTTTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 7 0.24
10 11 0.38
11 2 0.07
12 9 0.31
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (10 bp):
TTATTATTAT
Found at i:963097 original size:20 final size:22
Alignment explanation
Indices: 963051--963102 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
963041 ACCGTAAGGG
*
963051 GTATCGATACTATAGTATAGTA
1 GTATCGATACCATAGTATAGTA
963073 GTATCGATACCATAGTA-AG-A
1 GTATCGATACCATAGTATAGTA
963093 GTATCGATAC
1 GTATCGATAC
963103 TAGGTAACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 11 0.38
21 2 0.07
22 16 0.55
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (22 bp):
GTATCGATACCATAGTATAGTA
Found at i:963144 original size:94 final size:95
Alignment explanation
Indices: 962976--963173 Score: 258
Period size: 94 Copynumber: 2.1 Consensus size: 95
962966 TATCGAAGAG
* * *
962976 GTAGTATCAATACCATGATAAGAGTATCGATACCAAGCAACATCGAATCAAAAACTGGTATCGAT
1 GTAGTATCGATACCATGATAAGAGTATCGATACCAAGCAACATCGAACCAAAAACTAGTATCGAT
* *
963041 ACCGTAA-GGGGTATCGATACTATAGTATA
66 ACAGTAAGGGGGTATCGATACCATAGTATA
* * * * *
963070 GTAGTATCGATACCAT-AGTAAGAGTATCGATACTAGGTAACATCGAACCTAAAATTAGTATCGA
1 GTAGTATCGATACCATGA-TAAGAGTATCGATACCAAGCAACATCGAACCAAAAACTAGTATCGA
963134 TACAAG-AAGGGGGTATCGATACCATAGTATA
65 TAC-AGTAAGGGGGTATCGATACCATAGTATA
*
963165 GAAGTATCG
1 GTAGTATCG
963174 GTACTAGGGT
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
93 1 0.01
94 59 0.66
95 30 0.33
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.25
Consensus pattern (95 bp):
GTAGTATCGATACCATGATAAGAGTATCGATACCAAGCAACATCGAACCAAAAACTAGTATCGAT
ACAGTAAGGGGGTATCGATACCATAGTATA
Found at i:963192 original size:94 final size:94
Alignment explanation
Indices: 962978--963198 Score: 250
Period size: 94 Copynumber: 2.4 Consensus size: 94
962968 TCGAAGAGGT
* * * *
962978 AGTATCAATACCATGA-TAAGAGTATCGATACCAAGCAACATCGAATCAAAAACTGGTATCGATA
1 AGTATCGATACCA-GAGTAAGAGTATCGATACTAAGCAACATCGAACCAAAAACTAGTATCGATA
* * *
963042 CCGTAAGGGGTATCGATACTATAGTATAGT
65 CAGTAAGGGGTATCGATACCATAGTATAGA
* * * * *
963072 AGTATCGATACCATAGTAAGAGTATCGATACTAGGTAACATCGAACCTAAAATTAGTATCGATAC
1 AGTATCGATACCAGAGTAAGAGTATCGATACTAAGCAACATCGAACCAAAAACTAGTATCGATAC
963137 AAG-AAGGGGGTATCGATACCATAGTATAGA
66 -AGTAA-GGGGTATCGATACCATAGTATAGA
* * * *
963167 AGTATCGGTACTAGGGTAATA-TATCGATACTA
1 AGTATCGATACCAGAGTAAGAGTATCGATACTA
963199 TAAAGCCAGA
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
93 1 0.01
94 67 0.63
95 39 0.36
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.25
Consensus pattern (94 bp):
AGTATCGATACCAGAGTAAGAGTATCGATACTAAGCAACATCGAACCAAAAACTAGTATCGATAC
AGTAAGGGGTATCGATACCATAGTATAGA
Found at i:963592 original size:57 final size:55
Alignment explanation
Indices: 963519--963686 Score: 160
Period size: 55 Copynumber: 3.0 Consensus size: 55
963509 ATTACCAAAT
**
963519 GGCACTATGGGTGCAAAAATTTAAGAAATTCATACTAAGTGTCTGAATTTCAA-TATG
1 GGCACTATGGGTGCAAAAA--TAAGAAATTCATACTAAGTGTAGGAATTT-AAGTATG
* * *
963576 GGCACTTTGTGTGCAAAAATGAGAAATTCATACTAAGTGTAGGAATTTAAGTATG
1 GGCACTATGGGTGCAAAAATAAGAAATTCATACTAAGTGTAGGAATTTAAGTATG
* * * * * * * * **
963631 GGCACCATGGGTAC-GAACTGAGAAATTTATACTATGTGTATGAATTTTCGTATG
1 GGCACTATGGGTGCAAAAATAAGAAATTCATACTAAGTGTAGGAATTTAAGTATG
963685 GG
1 GG
963687 AAATAGATGT
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
54 37 0.39
55 40 0.43
57 17 0.18
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (55 bp):
GGCACTATGGGTGCAAAAATAAGAAATTCATACTAAGTGTAGGAATTTAAGTATG
Found at i:963612 original size:55 final size:56
Alignment explanation
Indices: 963519--963642 Score: 162
Period size: 55 Copynumber: 2.2 Consensus size: 56
963509 ATTACCAAAT
**
963519 GGCACTATGGGTGCAAAAATTTAAGAAATTCATACTAAGTGTCTGAATTTCAA-TATG
1 GGCACTATGGGTGCAAAAA-TTAAGAAATTCATACTAAGTGTAGGAATTT-AAGTATG
* * *
963576 GGCACTTTGTGTGCAAAAA-TGAGAAATTCATACTAAGTGTAGGAATTTAAGTATG
1 GGCACTATGGGTGCAAAAATTAAGAAATTCATACTAAGTGTAGGAATTTAAGTATG
*
963631 GGCACCATGGGT
1 GGCACTATGGGT
963643 ACGAACTGAG
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 2 0.03
55 39 0.67
57 17 0.29
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (56 bp):
GGCACTATGGGTGCAAAAATTAAGAAATTCATACTAAGTGTAGGAATTTAAGTATG
Found at i:964074 original size:68 final size:68
Alignment explanation
Indices: 963898--964150 Score: 382
Period size: 68 Copynumber: 3.7 Consensus size: 68
963888 CGATTATAGA
* * *
963898 CCTAACTGTGCAAATGATAGAAAGATGTCATTTATTCTAGTTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAACTGTGCAAATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
963963 AGG
66 AGG
*
963966 CCTTAATTGTGCAAATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 CC-TAACTGTGCAAATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
964031 GAGG
65 GAGG
*
964035 CCTAACTGTGCAAATGATAGAAAGGTGTCATTTCTGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAACTGTGCAAATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
964100 AGG
66 AGG
* * * ** * *
964103 CCTAACCGTAC-ATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 CCTAACTGTGCAAATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAA
964151 CGATTAAATA
Statistics
Matches: 170, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
67 31 0.18
68 75 0.44
69 64 0.38
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (68 bp):
CCTAACTGTGCAAATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
AGG
Found at i:964254 original size:81 final size:81
Alignment explanation
Indices: 964101--964588 Score: 627
Period size: 81 Copynumber: 6.0 Consensus size: 81
964091 GTGCCTTTGA
* * * *
964101 GGCCTAACCGTAC-ATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGT
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
964165 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * * * *
964181 GGTCTAACTGTTCAATTGACAGAAAGGTGTCAAATATGCTAGTTAGATGAATGGTTAAGTACCGT
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
964246 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * * * **
964262 GACCTAGCTGTGCAATTGGTAGAAAGGTGTTAATTATGCCAGTTAGATGAATGTTTAAATACTTT
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
964327 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* *
964343 GGCCTAACTGTGCAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCCT
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
964408 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* *
964424 GGCCTAACTGTGCAATTGGCAGAAATGATGTCATTTATGCCAGTTAGATGAACGGTTAAATACCG
1 GGCCTAACTGTGCAATTGGCAGAAA-GGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCG
*
964489 TTGAGTAAAACAATAAT
65 TTGAGTAAAAGAATAAT
* * ** * * * * * ** * *
964506 GGCCTAACTATTCAATTGATAGAAATGTGTCAACTATGCCAGATCGATGCACAATTAAACACTGT
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
964571 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
964587 GG
1 GG
964589 ATTAGTTGTG
Statistics
Matches: 355, Mismatches: 51, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
80 10 0.03
81 272 0.77
82 73 0.21
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
TGAGTAAAAGAATAAT
Found at i:964667 original size:244 final size:243
Alignment explanation
Indices: 964120--964647 Score: 585
Period size: 244 Copynumber: 2.2 Consensus size: 243
964110 GTACATTGGC
* * ** * * * *
964120 AGAAATGTGTCAATTATGCCAGTTAGATG-AACGATTAAATACCGTTGAGTAAAAGAATAATGGT
1 AGAAAGGTGTCAAATATGAAAGTTAGATGAAAAG-CTAAATACCCTTGAGTAAAAGAATAATGGC
* * * * *
964184 CTAACTGTTCAATTGACAGAAAGGTGTCAAATATGCTAGTTAGATGAATGGTTAAGTACCGTTGA
65 CTAACTGTGCAATTGACAGAAAGATGTCAAATATGCCAGTTAGATGAACGGTTAAATACCGTTGA
* * * * * * * *
964249 GTAAAAGAATAATGACCTAGCTGTGCAATTGGTAGAAAGGTGTTAATTATGCCAGTTAGATGAAT
130 GTAAAACAATAATGACCTAACTATGCAATTGATAGAAAGGTGTCAACTATGCCAGATAGATGAAC
** * * * **
964314 GTTTAAATACTTTTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGT
195 AATTAAACACTGTTGAGTAAAAGAATAATGGACTAACTGTGCAATTAAT
* ** ** *
964363 AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCCTTGAGTAAAAGAATAATGGCC
1 AGAAAGGTGTCAAATATGAAAGTTAGATGAAAAGCTAAATACCCTTGAGTAAAAGAATAATGGCC
* **
964428 TAACTGTGCAATTGGCAGAAATGATGTCATTTATGCCAGTTAGATGAACGGTTAAATACCGTTGA
66 TAACTGTGCAATTGACAGAAA-GATGTCAAATATGCCAGTTAGATGAACGGTTAAATACCGTTGA
* * * * *
964493 GTAAAACAATAATGGCCTAACTATTCAATTGATAGAAATGTGTCAACTATGCCAGATCGATGCAC
130 GTAAAACAATAATGACCTAACTATGCAATTGATAGAAAGGTGTCAACTATGCCAGATAGATGAAC
* ** *
964558 AATTAAACACTGTTGAGTAAAAGAATAATGGATTAGTTGTGCATTTAAT
195 AATTAAACACTGTTGAGTAAAAGAATAATGGACTAACTGTGCAATTAAT
964607 AGGAAA-GTGTCAAATATGAAAGTTA-AGTGAAAAGCTAAATA
1 A-GAAAGGTGTCAAATATGAAAGTTAGA-TGAAAAGCTAAATA
964648 TCTTTGTTAA
Statistics
Matches: 238, Mismatches: 43, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
243 77 0.32
244 157 0.66
245 4 0.02
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (243 bp):
AGAAAGGTGTCAAATATGAAAGTTAGATGAAAAGCTAAATACCCTTGAGTAAAAGAATAATGGCC
TAACTGTGCAATTGACAGAAAGATGTCAAATATGCCAGTTAGATGAACGGTTAAATACCGTTGAG
TAAAACAATAATGACCTAACTATGCAATTGATAGAAAGGTGTCAACTATGCCAGATAGATGAACA
ATTAAACACTGTTGAGTAAAAGAATAATGGACTAACTGTGCAATTAAT
Found at i:964727 original size:2 final size:2
Alignment explanation
Indices: 964720--964772 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
964710 TGAAGGGATA
964720 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
964762 AT AT AT AT AT A
1 AT AT AT AT AT A
964773 ATGTTAAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:969170 original size:54 final size:54
Alignment explanation
Indices: 969021--969180 Score: 187
Period size: 55 Copynumber: 2.9 Consensus size: 54
969011 ATGGCACTAG
* * **
969021 GGGTGCAAAAATTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGACACTTT
1 GGGTGCAAAAA--TGAGAAATTCATACTAAGTGTATGAATTT-TGTATGGGCACCAT
* * *
969078 GTGTGCAAAAATGAGAAATTCATACTAAGTGTAGGAATTTTAGTATGGGTACCAT
1 GGGTGCAAAAATGAGAAATTCATACTAAGTGTATGAATTTT-GTATGGGCACCAT
* *
969133 GGGTGC-GAACTGAGAAATTCATACTAAGTGTATGAATTTTCGTATGGG
1 GGGTGCAAAAATGAGAAATTCATACTAAGTGTATGAATTTT-GTATGGG
969181 AAATAGATGT
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
54 39 0.43
55 41 0.46
57 10 0.11
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.33
Consensus pattern (54 bp):
GGGTGCAAAAATGAGAAATTCATACTAAGTGTATGAATTTTGTATGGGCACCAT
Found at i:969619 original size:68 final size:68
Alignment explanation
Indices: 969392--969645 Score: 346
Period size: 68 Copynumber: 3.7 Consensus size: 68
969382 ATGATTATAT
* * * *
969392 GCCTAACTATGCAAATCATAAAAAGTTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCAAATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
969457 GAG
66 GAG
* *
969460 GCCTAACTGTGCAAATGATAGAAAGCTGTCATTTATTCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCAAATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
969525 GAG
66 GAG
* * * *
969528 GCCTAACTGTACAAATAATAGAAAGGTGTCATTTATGCCAGTTTGATGAAAGGCTAAGTGCATTT
1 GCCTAACTGTGCAAATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
969593 GAG
66 GAG
* * ** * * * *
969596 GCTTAACTGTGCAATTGGCAGAAATGTATCAATTATGCTAGTTAGATGAA
1 GCCTAACTGTGCAAATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAA
969646 TAGTTAAATA
Statistics
Matches: 164, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 164 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (68 bp):
GCCTAACTGTGCAAATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAG
Found at i:969734 original size:81 final size:81
Alignment explanation
Indices: 969599--970044 Score: 608
Period size: 81 Copynumber: 5.5 Consensus size: 81
969589 ATTTGAGGCT
* * *
969599 TAACTGTGCAATTGGCAGAAATGTATCAATTATGCTAGTTAGATGAATAGTTAAATACCGTTGAG
1 TAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAG
969664 TAAAAGAATAATGGCC
66 TAAAAGAATAATGGCC
* * * *
969680 TAACTGTGCAATTGGCAGAAAGGTGTTAATTATGCCAGTTAGATGAACATTTAAATACCTTTGAG
1 TAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAG
*
969745 TAGAAGAATAATGGCC
66 TAAAAGAATAATGGCC
*
969761 TAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTCAGATGAAC-GATTAAATACCGTTGA
1 TAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACAG-TTAAATACCGTTGA
969825 GTAAAAGAATAATGGCC
65 GTAAAAGAATAATGGCC
* * * *
969842 TAACTGTGCAATTAGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATAGTTAAATACCATTGAG
1 TAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAG
969907 TAAAAGAATAATGGCC
66 TAAAAGAATAATGGCC
* * * * ** * *
969923 TAGCTGTGCAATTGACAGAAATGTGTCAACTATGCCAGTTAGATGCATGGTTAAACACTGTTGAG
1 TAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAG
**
969988 TAAAAGAATAATGGAT
66 TAAAAGAATAATGGCC
* * * * *
970004 TAGCTGTGCATTTGACAGGAAA-GTGTCAAATATGCAAGTTA
1 TAACTGTGCAATTGGCA-GAAATGTGTCAATTATGCCAGTTA
970045 AGTGAAAAAC
Statistics
Matches: 328, Mismatches: 34, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
81 323 0.98
82 5 0.02
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (81 bp):
TAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAG
TAAAAGAATAATGGCC
Found at i:971122 original size:23 final size:23
Alignment explanation
Indices: 971067--971111 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
971057 CATCTAATCC
971067 AGATATCATCGTATCTCCATGAT
1 AGATATCATCGTATCTCCATGAT
971090 AGATATCATCGTATCTCCATGA
1 AGATATCATCGTATCTCCATGA
971112 AATCAATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (23 bp):
AGATATCATCGTATCTCCATGAT
Found at i:977617 original size:22 final size:22
Alignment explanation
Indices: 977592--977633 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
977582 TATACGGTAC
977592 GAACAATACTGTGAATAGTAAT
1 GAACAATACTGTGAATAGTAAT
* *
977614 GAACAGTAGTGTGAATAGTA
1 GAACAATACTGTGAATAGTA
977634 CCGAATGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (22 bp):
GAACAATACTGTGAATAGTAAT
Found at i:978459 original size:31 final size:31
Alignment explanation
Indices: 978363--978459 Score: 167
Period size: 31 Copynumber: 3.1 Consensus size: 31
978353 GGTCATATAA
978363 TAATCTGTCCATATGTCCCAAAGAACATAGG
1 TAATCTGTCCATATGTCCCAAAGAACATAGG
* *
978394 TAACCTGTCCATATGTCCCAAAGAACATATG
1 TAATCTGTCCATATGTCCCAAAGAACATAGG
*
978425 TAATCTGTCCATATGTCCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCAAAGAACATAGG
978456 TAAT
1 TAAT
978460 ATGTAACATA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (31 bp):
TAATCTGTCCATATGTCCCAAAGAACATAGG
Found at i:978788 original size:31 final size:31
Alignment explanation
Indices: 978638--978791 Score: 227
Period size: 31 Copynumber: 5.0 Consensus size: 31
978628 CCCGAAGGAC
* * * *
978638 CAGTCCATAAGTCCTGAAGAACCTAGATAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAT
* * *
978669 CAGTCCATATGTCCCGAAAAACCTAGATAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAT
978700 CAGTCCATATGTCCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAT
* *
978731 CAGTCCATATGTCCCAAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAT
978762 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
978792 CCCTCGACTC
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 114 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAT
Found at i:998606 original size:7 final size:6
Alignment explanation
Indices: 998586--998619 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
998576 TTCCGCTATA
998586 TTTT-T TTTTAT TTTTAT TTTTACT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTT
998620 GTTTCGTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 17 0.63
7 6 0.22
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:998612 original size:13 final size:12
Alignment explanation
Indices: 998586--998619 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
998576 TTCCGCTATA
998586 TTTT-TTTTTAT
1 TTTTATTTTTAT
998597 TTTTATTTTTACT
1 TTTTATTTTTA-T
998610 TTTTATTTTT
1 TTTTATTTTT
998620 GTTTCGTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.19
12 6 0.29
13 11 0.52
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTATTTTTAT
Found at i:1003551 original size:21 final size:21
Alignment explanation
Indices: 1003493--1003551 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
1003483 CTATAAGCCT
* * *
1003493 AAAACATAAGCTTGTCATTGC
1 AAAACACAAACTTGTCCTTGC
1003514 AAAACACAAACTTGTCCTTGC
1 AAAACACAAACTTGTCCTTGC
1003535 AAAACACAAACTTGTCC
1 AAAACACAAACTTGTCC
1003552 ATATTAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.41, C:0.25, G:0.10, T:0.24
Consensus pattern (21 bp):
AAAACACAAACTTGTCCTTGC
Found at i:1024494 original size:28 final size:28
Alignment explanation
Indices: 1024454--1024511 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
1024444 GCAATTCTCC
*
1024454 ATGAAATGAATTTTATGCATGAATGCAT
1 ATGAAATGAATTTTATACATGAATGCAT
1024482 ATGAAATGAATTTTATACATGAATGCAT
1 ATGAAATGAATTTTATACATGAATGCAT
1024510 AT
1 AT
1024512 TATTTGTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (28 bp):
ATGAAATGAATTTTATACATGAATGCAT
Found at i:1033085 original size:13 final size:15
Alignment explanation
Indices: 1033067--1033099 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
1033057 CTTTAATCTG
1033067 TTTTATT-TTTT-TA
1 TTTTATTCTTTTATA
1033080 TTTTATTCTTTTATA
1 TTTTATTCTTTTATA
1033095 TTTTA
1 TTTTA
1033100 GCAGAGCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 4 0.22
15 7 0.39
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTATTCTTTTATA
Found at i:1034462 original size:64 final size:68
Alignment explanation
Indices: 1034393--1034534 Score: 161
Period size: 68 Copynumber: 2.1 Consensus size: 68
1034383 TTTATAAATA
* * * *
1034393 AAAATATTCAAAATAATA-TATTTTATTAAAATAA-AAAT-ATTAT-AA-ATTATGTTAATTATT
1 AAAATAAT-AAAATAATATTATATTATTAAAATAATAAATAATTATAAATATTATATTAATTACT
1034453 TATT
65 TATT
* * *
1034457 AAAATAATAATATTATATTATATTATTAAAATAATAAATAATTTTAAATATTATATTAATTACTT
1 AAAATAATAAAATAATATTATATTATTAAAATAATAAATAATTATAAATATTATATTAATTACTT
1034522 A-T
66 ATT
1034524 AATAATAATAA
1 AA-AATAATAA
1034535 GTAAAATAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
63 7 0.11
64 22 0.34
65 4 0.06
66 4 0.06
67 5 0.08
68 23 0.35
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (68 bp):
AAAATAATAAAATAATATTATATTATTAAAATAATAAATAATTATAAATATTATATTAATTACTT
ATT
Found at i:1034590 original size:22 final size:23
Alignment explanation
Indices: 1034555--1034599 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
1034545 AATATTATTT
1034555 TATATTTTGAAAAT-TATTAATAAA
1 TATATTTT-AAAATAT-TTAATAAA
1034579 TATATTTT-AAATATTTAATAA
1 TATATTTTAAAATATTTAATAA
1034600 TTCAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 11 0.55
23 1 0.05
24 8 0.40
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TATATTTTAAAATATTTAATAAA
Found at i:1035033 original size:42 final size:42
Alignment explanation
Indices: 1034974--1035058 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
1034964 CACAAATCTA
1034974 CCATTGCTCTAACATGAGAGAGCTGACTATAAGCAGGATTGT
1 CCATTGCTCTAACATGAGAGAGCTGACTATAAGCAGGATTGT
1035016 CCATTGCTCTAACATGAGAGAGCTGACTATAAGCAGGATTGT
1 CCATTGCTCTAACATGAGAGAGCTGACTATAAGCAGGATTGT
1035058 C
1 C
1035059 TACAGTCAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (42 bp):
CCATTGCTCTAACATGAGAGAGCTGACTATAAGCAGGATTGT
Found at i:1035070 original size:40 final size:42
Alignment explanation
Indices: 1034979--1035070 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
1034969 ATCTACCATT
**
1034979 GCTCTAACATGAGAGAGCTGACTATAAGCAGGATTGTCCATT
1 GCTCTAACATGAGAGAGCTGACTATAAGCAGGATTGTCCACA
*
1035021 GCTCTAACATGAGAGAGCTGACTATAAGCAGGATTGTCTACA
1 GCTCTAACATGAGAGAGCTGACTATAAGCAGGATTGTCCACA
1035063 G-TC-AACAT
1 GCTCTAACAT
1035071 CTTAATAGCT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 5 0.11
41 2 0.04
42 40 0.85
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (42 bp):
GCTCTAACATGAGAGAGCTGACTATAAGCAGGATTGTCCACA
Found at i:1036064 original size:20 final size:20
Alignment explanation
Indices: 1036039--1036077 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1036029 ACCAATGCAA
1036039 ATAAAT-AAATAAATAATATT
1 ATAAATAAAATAAA-AATATT
1036059 ATAAATAAAATAAAAATAT
1 ATAAATAAAATAAAAATAT
1036078 AATATATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAAATAAAATAAAAATATT
Found at i:1036184 original size:3 final size:3
Alignment explanation
Indices: 1036130--1036169 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
1036120 ATAGTATGTG
*
1036130 TGA TGA TGA TGA TGA TGA TGA TGA CGA TGA CT-A TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA -TGA TGA TGA T
1036170 AGTGGTTGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 1 0.03
3 31 0.94
4 1 0.03
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:1037872 original size:20 final size:20
Alignment explanation
Indices: 1037847--1037887 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1037837 TAGGAAGATG
1037847 ATTGAAAGGTTAAGACCTTT
1 ATTGAAAGGTTAAGACCTTT
1037867 ATTGAAAGGTTAAGACCTTT
1 ATTGAAAGGTTAAGACCTTT
1037887 A
1 A
1037888 AATGAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
ATTGAAAGGTTAAGACCTTT
Found at i:1042791 original size:35 final size:36
Alignment explanation
Indices: 1042723--1042802 Score: 128
Period size: 35 Copynumber: 2.2 Consensus size: 36
1042713 AATACTATTT
*
1042723 TCATCACCATATCCATCTTCCATTATCACGCCTATA
1 TCATCACCATATCCATCTACCATTATCACGCCTATA
1042759 TCATCACCATAGTCCATC-ACCA-TATCACGCCTATA
1 TCATCACCATA-TCCATCTACCATTATCACGCCTATA
1042794 TCATCACCA
1 TCATCACCA
1042803 AATTCTCAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
35 22 0.52
36 14 0.33
37 6 0.14
ACGTcount: A:0.30, C:0.38, G:0.04, T:0.29
Consensus pattern (36 bp):
TCATCACCATATCCATCTACCATTATCACGCCTATA
Found at i:1042967 original size:15 final size:15
Alignment explanation
Indices: 1042943--1042976 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1042933 TTTGATAACT
1042943 ATTCTATCCATTTCA
1 ATTCTATCCATTTCA
* *
1042958 ATTCTTTCCATTTCT
1 ATTCTATCCATTTCA
1042973 ATTC
1 ATTC
1042977 CTTCTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTCTATCCATTTCA
Found at i:1046840 original size:35 final size:37
Alignment explanation
Indices: 1046768--1046847 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 37
1046758 ATACTATTTC
* *
1046768 CATCACCATAATCCATCTTCCATTATCACGCCTATAT
1 CATCACCATAATCCATCTACCATTATCACGCCCATAT
*
1046805 CATCACCATAGTCCATC-ACCA-TATCACGCCCATAT
1 CATCACCATAATCCATCTACCATTATCACGCCCATAT
1046840 CATCACCA
1 CATCACCA
1046848 AATTCTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 21 0.52
36 3 0.08
37 16 0.40
ACGTcount: A:0.31, C:0.39, G:0.04, T:0.26
Consensus pattern (37 bp):
CATCACCATAATCCATCTACCATTATCACGCCCATAT
Found at i:1066467 original size:133 final size:133
Alignment explanation
Indices: 1066143--1067635 Score: 1532
Period size: 133 Copynumber: 11.2 Consensus size: 133
1066133 TCGAGAAACA
* * * * * *
1066143 TTGATTCATTCAACTATTC-TTCAGGGAAGATTGAATCAAGGTAGACTTGTTTCACTGCCACTCA
1 TTGATTCATTCCACTA-TCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCA
* * *
1066207 GGGAATATCAAATCTTGAAAGAGATGGATATGTTCTACTTCTTCTTGAGGGAAAATCATATCTGA
65 GGGAATATCAAATCTTGAAAGAGA-GGATATGTTCTGCTTCTTCTTGAGGGAAAATCAAATCTGG
1066272 GGAATG
129 GGAA-G
* * * *
1066278 TTGATTCAATCCACTATCACTCGGGGAAGATTGAATCGGGGCAGACTTGTTTCACTGTCACTCAG
1 TTGATTCATTCCACTATCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAG
* * * * * * * * *
1066343 GGAATACCAAATCTTGAAAGAGAGTATCTATTTTTCTTCCTCTTGAGGGAAAATCATATTTGGGG
66 GGAATATCAAATCTTGAAAGAGAGGATATGTTCTGCTTCTTCTTGAGGGAAAATCAAATCTGGGG
1066408 AAG
131 AAG
* * *
1066411 TTGATTCATTCCACTATCACTCAGGGAAGATTTAATCGAGGAAGACTTCTTCCACTGTCACTCAG
1 TTGATTCATTCCACTATCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAG
* * * * *
1066476 GGAATATCAAATCTTGAAAGAGATGATCA-ATTCTGCTTCTTCTTGAGAGAAAATCAGATATGGG
66 GGAATATCAAATCTTGAAAGAGAGGAT-ATGTTCTGCTTCTTCTTGAGGGAAAATCAAATCTGGG
1066540 GAAG
130 GAAG
* * * *
1066544 TTGATTCATTCTACTATCACTCAAGGAAGATTGAATC-AGTGTAGACTTGTTCCACTAG-CACTG
1 TTGATTCATTCCACTATCACTCAGGGAAGATTGAATCGAG-GCAGACTTGTTCCACT-GTCACTC
* * * * *
1066607 AGGGAATATTAAATCTTGAAAAAGAGGATCTGTTCCGCTTCTTCTTGAGGGAAAAATCAAATATG
64 AGGGAATATCAAATCTTGAAAGAGAGGATATGTTCTGCTTCTTCTTGAGGG-AAAATCAAATCTG
1066672 GGGAAG
128 GGGAAG
* * * * * *
1066678 TTTATTCATTCCACTGTCACTCAGGGAATATTAAATCGAGGCAGACTTGTTCCACAGTCACTCAT
1 TTGATTCATTCCACTATCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAG
* * * * *
1066743 AGAATATCAAATTTTGAAAGAGAGGATATGTTGTGATTCTTCTTGAGGGAAAATCAAATAT-GGG
66 GGAATATCAAATCTTGAAAGAGAGGATATGTTCTGCTTCTTCTTGAGGGAAAATCAAATCTGGGG
*
1066807 AAA
131 AAG
* * * ** * * * * * * *
1066810 CTGATTCATTCCACTGTCGCTCAAAGAAGATTGAATAGTGGAAAACTTGTTCCGCTGTCACTTAA
1 TTGATTCATTCCACTATCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAG
* * * * * * * * **
1066875 TGAATATTAAATATTGAAAAAGAGGGATATGTTCTACTTCTTCTTGAGGAAAAATCATATATTAG
66 GGAATATCAAATCTTGAAAGAGA-GGATATGTTCTGCTTCTTCTTGAGGGAAAATCAAATCTGGG
*
1066940 GATG
130 GAAG
* * * * * *
1066944 TTGATTCAATT-CACTATCACTCA-GGAAGATTGAATTGGGGTAGAGTTATTCAACTGTCACTCA
1 TTGATTC-ATTCCACTATCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCA
* * * * *
1067007 GGGAATATCAAATCTTGAAAGATAGGATATGTTCCGCTTCTTCTTGAGGGAAAATTAGATCTAGG
65 GGGAATATCAAATCTTGAAAGAGAGGATATGTTCTGCTTCTTCTTGAGGGAAAATCAAATCTGGG
1067072 GACA-
130 GA-AG
** * * * * * * * * *
1067076 TTGAACCATTCCACTGTCAATTAGGGAAGATTGAATTGATGTAGACTTGTTCCATTATCACTAAG
1 TTGATTCATTCCACTATCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAG
* * * * * * * * * * *
1067141 GGAATATCAAATCTTGAAATAGATGGATCTCTTGTGCTT-TTTTTAAAGAAAAATCAGATCTAGA
66 GGAATATCAAATCTTGAAAGAGA-GGATATGTTCTGCTTCTTCTTGAGGGAAAATCAAATCTGGG
1067205 GAAG
130 GAAG
* * * * * * *
1067209 TTGATTCATTCCAGTATCACTCAGGGAAGATTGAATCAAGGAAGACATGTTCCACTATCAGTTAG
1 TTGATTCATTCCACTATCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAG
* * * * * *
1067274 GAAATATCAAATCTTGAAAGAGATGG-TTTGTTCTACTTCTTATTAAGGGAAAATCAGATCTGGG
66 GGAATATCAAATCTTGAAAGAGA-GGATATGTTCTGCTTCTTCTTGAGGGAAAATCAAATCTGGG
1067338 GAAG
130 GAAG
* *
1067342 TTGATTCA-TCCTACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTTTTCCACTGTCACTCA
1 TTGATTCATTCC-ACTATCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCA
* * *
1067406 AGGAATATCAAATCTTGAAAGGGAGGATATGTTCTACTTCTTCTTGAGGGAAAATCAAATCTGGG
65 GGGAATATCAAATCTTGAAAGAGAGGATATGTTCTGCTTCTTCTTGAGGGAAAATCAAATCTGGG
1067471 GAAG
130 GAAG
* * * * * * *
1067475 TTTATTAATTCCATTATCACTCAGGGAAGATTGAATGGGGGCAGACTTGTTCCACTTTCACTTAG
1 TTGATTCATTCCACTATCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAG
* * * * * * *
1067540 GGAATCTCAAATCTTGAAATAGAGAATTTGTTCCGCTTCTTCTTGAAGGAAAATCAAATCTAGGG
66 GGAATATCAAATCTTGAAAGAGAGGATATGTTCTGCTTCTTCTTGAGGGAAAATCAAATCTGGGG
1067605 AAG
131 AAG
*
1067608 TTGATTCATTCCACTGTCACTCAGGGAA
1 TTGATTCATTCCACTATCACTCAGGGAA
1067636 TACCAAATCT
Statistics
Matches: 1127, Mismatches: 211, Indels: 42
0.82 0.15 0.03
Matches are distributed among these distances:
131 3 0.00
132 139 0.12
133 723 0.64
134 181 0.16
135 81 0.07
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (133 bp):
TTGATTCATTCCACTATCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAG
GGAATATCAAATCTTGAAAGAGAGGATATGTTCTGCTTCTTCTTGAGGGAAAATCAAATCTGGGG
AAG
Found at i:1067686 original size:92 final size:92
Alignment explanation
Indices: 1067524--1067727 Score: 266
Period size: 92 Copynumber: 2.2 Consensus size: 92
1067514 GGCAGACTTG
* * * * * *
1067524 TTCCACTTTCACTTAGGGAATCTCAAATCTTGAAATAGAGAATTTGTTCCGCTTCTTCTTGAAGG
1 TTCCACTTTCACTCAGGGAATCTCAAATCTTGAAAGAGAGAATATATTACGCTTCCTCTTGAAGG
*
1067589 AAAATCAAATCTAGGGAAGTTGATTCA
66 AAAATCAAATATAGGGAAGTTGATTCA
* * * *
1067616 TTCCACTGTCACTCAGGGAATAC-CAAATCTTGAAAGAGAGTATATATTATGCTTCCTCTTGAGG
1 TTCCACTTTCACTCAGGGAAT-CTCAAATCTTGAAAGAGAGAATATATTACGCTTCCTCTTGAAG
* * *
1067680 GGAAATCAGATATGGGGAAGTTGATTCA
65 GAAAATCAAATATAGGGAAGTTGATTCA
1067708 TTCCACTTTCACTCAGGGAA
1 TTCCACTTTCACTCAGGGAA
1067728 GATTGAATCA
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
92 95 0.99
93 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (92 bp):
TTCCACTTTCACTCAGGGAATCTCAAATCTTGAAAGAGAGAATATATTACGCTTCCTCTTGAAGG
AAAATCAAATATAGGGAAGTTGATTCA
Found at i:1067782 original size:225 final size:225
Alignment explanation
Indices: 1067391--1067860 Score: 615
Period size: 225 Copynumber: 2.1 Consensus size: 225
1067381 GGCAGACTTT
* * * * * *
1067391 TTCCACTGTCACTCAAGGAATATCAAATCTTGAAAGGGAGGATATGTTCTACTTCTTCTTGAGGG
1 TTCCACTGTCACTCAGGGAATACCAAATCTTGAAAGAGAGGATATATTATACTTCCTCTTGAGGG
* * *** *
1067456 AAAATCAAATCTGGGGAAGTTTATTAATTCCATTATCACTCAGGGAAGATTGAATGGGGGCAGAC
66 AAAATCAAATATGGGGAAGTTGATTAATTCCATTATCACTCAGGGAAGATTGAATCAAGGAAGAC
* * * * * *
1067521 TTGTTCCACTTTCACTTAGGGAATCTCAAATCTTGAAATAGAGAATTTG-TTCCGCTTCTTCTTG
131 TTCTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGAA-TCGATTCCGCTTCTTCTTG
*
1067585 A-AGGAAAATCAAATCTAGGG-AAGTTGATTCA
195 AGA-GAAAATCAAATAT-GGGAAAGTTGATTCA
* *
1067616 TTCCACTGTCACTCAGGGAATACCAAATCTTGAAAGAGAGTATATATTATGCTTCCTCTTGAGGG
1 TTCCACTGTCACTCAGGGAATACCAAATCTTGAAAGAGAGGATATATTATACTTCCTCTTGAGGG
* * *
1067681 GAAATCAGATATGGGGAAGTTGATTCATTCCACTT-TCACTCAGGGAAGATTGAATCAAGGAAGA
66 AAAATCAAATATGGGGAAGTTGATTAATTCCA-TTATCACTCAGGGAAGATTGAATCAAGGAAGA
*
1067745 CTTCTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGATCGATTCCGCTTCTTCTTG
130 CTTCTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGAATCGATTCCGCTTCTTCTTG
*
1067810 AGAGAAAATCAGATATGGGAAAGTTGATTCA
195 AGAGAAAATCAAATATGGGAAAGTTGATTCA
* * *
1067841 TTCTACTATCAGTCAGGGAA
1 TTCCACTGTCACTCAGGGAA
1067861 GATTGAATTT
Statistics
Matches: 212, Mismatches: 29, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
224 5 0.02
225 204 0.96
226 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (225 bp):
TTCCACTGTCACTCAGGGAATACCAAATCTTGAAAGAGAGGATATATTATACTTCCTCTTGAGGG
AAAATCAAATATGGGGAAGTTGATTAATTCCATTATCACTCAGGGAAGATTGAATCAAGGAAGAC
TTCTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGAATCGATTCCGCTTCTTCTTGA
GAGAAAATCAAATATGGGAAAGTTGATTCA
Found at i:1067782 original size:358 final size:358
Alignment explanation
Indices: 1067258--1067993 Score: 905
Period size: 358 Copynumber: 2.1 Consensus size: 358
1067248 GGAAGACATG
* * * * * * * * * *
1067258 TTCCACTATCAGTTAGGAAATATCAAATCTTGAAAGAGATGGT-T-TGTTCTACTTCTTATTAAG
1 TTCCACTATCACTCAGGGAATACCAAATCTTGAAAGAGA--GTATATATTATGCTTCCTCTTGAG
* * *
1067321 GGAAAATCAGATCTGGGGAAGTTGATTCATCCTACTGTCACTCAGGGAAGATTGAATCGAGGCAG
64 GGAAAATCAGATATGGGGAAGTTGATTCATCCTACTGTCACTCAGGGAAGATTGAATCAAGGAAG
* * * *
1067386 ACTTTTTCCACTGTCACTCAAGGAATATCAAATCTTGAAAGGGAGGATATG-TTCTACTTCTTCT
129 ACTTCTTCCACTGTCACTCAAGGAATATCAAATCTTGAAAGAGAGGAT-CGATTCCACTTCTTCT
* * * * *
1067450 TGAGGGAAAATCAAATCTGGGGAAGTTTATTAATTCCATTATCACTCAGGGAAGATTGAATGGGG
193 TGAGAGAAAATCAAATATGGGAAAGTTGATTAATTCCACTATCACTCAGGGAAGATTGAATGGGG
** * * * *
1067515 GCAGACTTGTTCCACTTTCACTTAGGGAATC-TCAAATCTTG-AA-ATAGAGA-ATTTGTTCCGC
258 GCAGACTTGTTCCACTGCCAATCAGGGAA-CATCAAATCTCGAAAGATA-AGACA--TGTTCCAC
*
1067576 TTCTTCTTGAAG-GAAAATCAAATCTAGGGAAGTTGATTCA
319 TTCTTCTT-AAGCGAAAATCAAATATAGGGAAGTTGATTCA
*
1067616 TTCCACTGTCACTCAGGGAATACCAAATCTTGAAAGAGAGTATATATTATGCTTCCTCTTGAGGG
1 TTCCACTATCACTCAGGGAATACCAAATCTTGAAAGAGAGTATATATTATGCTTCCTCTTGAGGG
* *
1067681 GAAATCAGATATGGGGAAGTTGATTCATTCC-ACTTTCACTCAGGGAAGATTGAATCAAGGAAGA
66 AAAATCAGATATGGGGAAGTTGATTCA-TCCTACTGTCACTCAGGGAAGATTGAATCAAGGAAGA
* *
1067745 CTTCTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGATCGATTCCGCTTCTTCTTG
130 CTTCTTCCACTGTCACTCAAGGAATATCAAATCTTGAAAGAGAGGATCGATTCCACTTCTTCTTG
* * * * **
1067810 AGAGAAAATCAGATATGGGAAAGTTGATTCATTCTACTATCAGTCAGGGAAGATTGAATTTGGGC
195 AGAGAAAATCAAATATGGGAAAGTTGATTAATTCCACTATCACTCAGGGAAGATTGAATGGGGGC
* * * *
1067875 AGACTTGTTCTACTGCCAATCAGGGAACATCATATCTCGAAAGATAAGACATGTTCCATTTTTTC
260 AGACTTGTTCCACTGCCAATCAGGGAACATCAAATCTCGAAAGATAAGACATGTTCCACTTCTTC
* *
1067940 TTAAGCGAAAATCAGATATGGGGAAGTTGATTCA
325 TTAAGCGAAAATCAAATATAGGGAAGTTGATTCA
*
1067974 TTCCACTATCACTTAGGGAA
1 TTCCACTATCACTCAGGGAA
1067994 GATTGAATCG
Statistics
Matches: 321, Mismatches: 48, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
356 2 0.01
357 6 0.02
358 301 0.94
359 8 0.02
360 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (358 bp):
TTCCACTATCACTCAGGGAATACCAAATCTTGAAAGAGAGTATATATTATGCTTCCTCTTGAGGG
AAAATCAGATATGGGGAAGTTGATTCATCCTACTGTCACTCAGGGAAGATTGAATCAAGGAAGAC
TTCTTCCACTGTCACTCAAGGAATATCAAATCTTGAAAGAGAGGATCGATTCCACTTCTTCTTGA
GAGAAAATCAAATATGGGAAAGTTGATTAATTCCACTATCACTCAGGGAAGATTGAATGGGGGCA
GACTTGTTCCACTGCCAATCAGGGAACATCAAATCTCGAAAGATAAGACATGTTCCACTTCTTCT
TAAGCGAAAATCAAATATAGGGAAGTTGATTCA
Found at i:1068109 original size:134 final size:133
Alignment explanation
Indices: 1067616--1068139 Score: 638
Period size: 133 Copynumber: 3.9 Consensus size: 133
1067606 AGTTGATTCA
* * * ** *
1067616 TTCCACTGTCACTCAGGGAATACCAAATCTTGAAAGAGAGTATATATTATGCTTCCTCTTGAGGG
1 TTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGATATGTTCCGCTTCTTCTTGAGGG
* * *
1067681 GAAATCAGATATGGGGAAGTTGATTCATTCCACTTTCACTCAGGGAAGATTGAATCAAGGAAGAC
66 AAAATCAGATATGGGGAAGTTGATTCATTCCACTATCACTCAGGGAAGATTGAATCGAGGAAGAC
*
1067746 TTC
131 TTG
* *
1067749 TTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGAT-CGATTCCGCTTCTTCTTGAGA
1 TTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGATATG-TTCCGCTTCTTCTTGAGG
* * * * *
1067813 GAAAATCAGATATGGGAAAGTTGATTCATTCTACTATCAGTCAGGGAAGATTGAATTTG-GGCAG
65 GAAAATCAGATATGGGGAAGTTGATTCATTCCACTATCACTCAGGGAAGATTGAA-TCGAGGAAG
1067877 ACTTG
129 ACTTG
* * * * * * * * * ** * * *
1067882 TTCTACTGCCAATCAGGGAACATCATATCTCGAAAGATAAGACATGTTCCATTTTTTCTTAAGCG
1 TTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGATATGTTCCGCTTCTTCTTGAGGG
* *
1067947 AAAATCAGATATGGGGAAGTTGATTCATTCCACTATCACTTAGGGAAGATTGAATCGAGGTAGAC
66 AAAATCAGATATGGGGAAGTTGATTCATTCCACTATCACTCAGGGAAGATTGAATCGAGGAAGAC
1068012 TTG
131 TTG
* * * * *
1068015 TTCCACTGTTACTCAAGGAATATAAAATCTTGAAAGAGAAGGATTTGTTCCCCTTCTTCTTGAGG
1 TTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAG-AGGATATGTTCCGCTTCTTCTTGAGG
* * *
1068080 GAAAATCATATATGGGGACGTTGATTCATTCCACTATCACTTAGGGAAGATTGAATCGAG
65 GAAAATCAGATATGGGGAAGTTGATTCATTCCACTATCACTCAGGGAAGATTGAATCGAG
1068140 TTTGATTTAC
Statistics
Matches: 328, Mismatches: 58, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
132 2 0.01
133 248 0.76
134 78 0.24
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (133 bp):
TTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGATATGTTCCGCTTCTTCTTGAGGG
AAAATCAGATATGGGGAAGTTGATTCATTCCACTATCACTCAGGGAAGATTGAATCGAGGAAGAC
TTG
Found at i:1076273 original size:29 final size:30
Alignment explanation
Indices: 1076199--1076273 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 30
1076189 GAGGAATAAA
1076199 AAAT-AAATAAAACATGGGGCTCAATTAAAAT
1 AAATAAAAT-AAACAT-GGGCTCAATTAAAAT
* *
1076230 AAATTAAAAT-TACAT-GGCTGAATTAAAAT
1 AAA-TAAAATAAACATGGGCTCAATTAAAAT
1076259 AAATAAAATAAACAT
1 AAATAAAATAAACAT
1076274 ATTTGAGGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
28 6 0.16
29 20 0.53
31 7 0.18
32 1 0.03
33 4 0.11
ACGTcount: A:0.57, C:0.08, G:0.09, T:0.25
Consensus pattern (30 bp):
AAATAAAATAAACATGGGCTCAATTAAAAT
Found at i:1080423 original size:131 final size:131
Alignment explanation
Indices: 1080236--1080479 Score: 321
Period size: 131 Copynumber: 1.9 Consensus size: 131
1080226 TTTTAAGAGC
* * * *
1080236 GAAAACAATAACATTTAATTATTTCCAATCGAGAATAAATGACATTTTGTCAATTAAAACAATCA
1 GAAAACAATAACATCTAATGATTTACAATCAAGAATAAATGACATTTTGTCAATTAAAACAATCA
* * * *
1080301 TTTATTACCCTAATTTAAATAAAGAGATATTACTATTTCGTCTTAAAATTCAATATCGATTCAAG
66 TTTATTACCCCAATTGAAATAAAGAAAAATTACTATTTCGTCTTAAAATTCAATATCGATTCAAG
1080366 T
131 T
* * * *
1080367 GAAAACGATAATATCTAATGATTTACAATCAAGAATAAATGACCTTTCT-TGC-ATTAAAACATT
1 GAAAACAATAACATCTAATGATTTACAATCAAGAATAAATGACATTT-TGT-CAATTAAAACAAT
* * *
1080430 CATTTATTACCCCAATTGAAATAAATAAAAATTTCTATTTTGTCTTAAAA
64 CATTTATTACCCCAATTGAAATAAAGAAAAATTACTATTTCGTCTTAAAA
1080480 ATTGGAATTA
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
131 94 0.98
132 2 0.02
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (131 bp):
GAAAACAATAACATCTAATGATTTACAATCAAGAATAAATGACATTTTGTCAATTAAAACAATCA
TTTATTACCCCAATTGAAATAAAGAAAAATTACTATTTCGTCTTAAAATTCAATATCGATTCAAG
T
Found at i:1080511 original size:131 final size:131
Alignment explanation
Indices: 1080251--1080539 Score: 300
Period size: 131 Copynumber: 2.2 Consensus size: 131
1080241 CAATAACATT
* * *
1080251 TAATTATTTCCAATCGAGAATAAATGACATTTTGTCAATTAAAACAATCATTTATTACCCTAATT
1 TAATTATTTACAATCAAGAATAAATGACATTTTGTCAATTAAAACAATCATTTATTACCCCAATT
* * * * * * *
1080316 TAAATAAAGAGATATTACTATTTCGTCTTAAAATTCAATATCGATTCAAGTGAAAACGATAATAT
66 GAAATAAAGAAAAATTACTATTTCGTCTTAAAATTCAATATCAATTAAAGAGAAAACGACAATAT
1080381 C
131 C
* * *
1080382 TAATGATTTACAATCAAGAATAAATGACCTTTCT-TGC-ATTAAAACATTCATTTATTACCCCAA
1 TAATTATTTACAATCAAGAATAAATGACATTT-TGT-CAATTAAAACAATCATTTATTACCCCAA
* * * * * *
1080445 TTGAAATAAATAAAAATTTCTATTTTGTCTTAAAAATTGGAAT-T-AATTAAAGAGAAAAGGGCA
64 TTGAAATAAAGAAAAATTACTATTTCGTCTT-AAAATT-CAATATCAATTAAAGAGAAAACGACA
1080508 ATATC
127 ATATC
* **
1080513 AAATTATTTTTAATCGAA-AATAAATGA
1 TAATTATTTACAATC-AAGAATAAATGA
1080540 TCTCTCATAC
Statistics
Matches: 130, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
131 116 0.89
132 11 0.08
133 3 0.02
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (131 bp):
TAATTATTTACAATCAAGAATAAATGACATTTTGTCAATTAAAACAATCATTTATTACCCCAATT
GAAATAAAGAAAAATTACTATTTCGTCTTAAAATTCAATATCAATTAAAGAGAAAACGACAATAT
C
Found at i:1082407 original size:25 final size:25
Alignment explanation
Indices: 1082378--1082432 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
1082368 GGTGGAGATA
**
1082378 GGCGGCAGA-CTTGGTTGGCTTTACT
1 GGCGGCAGATC-TGGTTGGCTCCACT
*
1082403 GGCGGCGGATCTGGTTGGCTCCACT
1 GGCGGCAGATCTGGTTGGCTCCACT
1082428 GGCGG
1 GGCGG
1082433 TGACGACTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.09, C:0.24, G:0.42, T:0.25
Consensus pattern (25 bp):
GGCGGCAGATCTGGTTGGCTCCACT
Found at i:1082531 original size:3 final size:3
Alignment explanation
Indices: 1082512--1082557 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
1082502 CAAAATAAAA
* *
1082512 AAT AATT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1082558 CGGACGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:1083333 original size:25 final size:26
Alignment explanation
Indices: 1083300--1083351 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
1083290 GGACTAAAAT
*
1083300 ACCCTTGAACTATAAAAT-AACCAAA
1 ACCCCTGAACTATAAAATGAACCAAA
* *
1083325 ACCCCTGAAGTATAAAATGACCCAAA
1 ACCCCTGAACTATAAAATGAACCAAA
1083351 A
1 A
1083352 TATCCTCAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.50, C:0.25, G:0.08, T:0.17
Consensus pattern (26 bp):
ACCCCTGAACTATAAAATGAACCAAA
Found at i:1084515 original size:32 final size:31
Alignment explanation
Indices: 1084465--1084587 Score: 120
Period size: 34 Copynumber: 3.7 Consensus size: 31
1084455 TATTTTTTTT
* * *
1084465 TTGGGTAGACTCTAAGGCCCCAAGGTACTCTC
1 TTGGGTAGGCTCTTAGGCCCCAAAGT-CTCTC
* *
1084497 TTGGGTAGGCTCTTAGGCCCTAGTAAATTCTCTC
1 TTGGGTAGGCTCTTAGGCCC---CAAAGTCTCTC
*
1084531 TTGGGTAGGCTCTTAGGCCCTAGTAAAGTCTCTC
1 TTGGGTAGGCTCTTAGGCCC---CAAAGTCTCTC
*
1084565 TTGGGTAGGCTCTCAGGCCCCAA
1 TTGGGTAGGCTCTTAGGCCCCAA
1084588 GATGCTTCCT
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
31 2 0.03
32 18 0.22
34 57 0.71
35 3 0.04
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.29
Consensus pattern (31 bp):
TTGGGTAGGCTCTTAGGCCCCAAAGTCTCTC
Found at i:1084535 original size:34 final size:34
Alignment explanation
Indices: 1084492--1084584 Score: 168
Period size: 34 Copynumber: 2.7 Consensus size: 34
1084482 CCCCAAGGTA
*
1084492 CTCTCTTGGGTAGGCTCTTAGGCCCTAGTAAATT
1 CTCTCTTGGGTAGGCTCTTAGGCCCTAGTAAAGT
1084526 CTCTCTTGGGTAGGCTCTTAGGCCCTAGTAAAGT
1 CTCTCTTGGGTAGGCTCTTAGGCCCTAGTAAAGT
*
1084560 CTCTCTTGGGTAGGCTCTCAGGCCC
1 CTCTCTTGGGTAGGCTCTTAGGCCC
1084585 CAAGATGCTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.15, C:0.27, G:0.26, T:0.32
Consensus pattern (34 bp):
CTCTCTTGGGTAGGCTCTTAGGCCCTAGTAAAGT
Found at i:1087328 original size:24 final size:24
Alignment explanation
Indices: 1087288--1087333 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
1087278 ATACTAGGAC
*
1087288 TAATAATATTAAGTATTTAGTATT
1 TAATAATATTAAGTATTAAGTATT
*
1087312 TAATAATTATTTA-TATTAAGTA
1 TAATAA-TATTAAGTATTAAGTA
1087334 AATTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (24 bp):
TAATAATATTAAGTATTAAGTATT
Found at i:1087824 original size:14 final size:16
Alignment explanation
Indices: 1087787--1087822 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1087777 ATAAATTTGT
*
1087787 TTTTTTGTTTTGATTA
1 TTTTTTATTTTGATTA
1087803 TTTTTTATTTT-ATTA
1 TTTTTTATTTTGATTA
1087818 TTTTT
1 TTTTT
1087823 ATAACTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.81
Consensus pattern (16 bp):
TTTTTTATTTTGATTA
Found at i:1093211 original size:57 final size:57
Alignment explanation
Indices: 1093118--1093287 Score: 272
Period size: 57 Copynumber: 3.0 Consensus size: 57
1093108 ACCTTATTCG
* *
1093118 AGATCTGATTAGATGTGGAGACATGAAAGGAATTAGGATAAAATCCTTTTTGTGAAT
1 AGATATGATTAGATGTGGAGACATGAAAGGAATTAGGATAAAATCCTTCTTGTGAAT
*
1093175 AGATATGATTAGATGTGGAGACATGAAAGGAATTAGGATAAAATCCTTCTTGTGAAG
1 AGATATGATTAGATGTGGAGACATGAAAGGAATTAGGATAAAATCCTTCTTGTGAAT
* * *
1093232 AGATTTGATTAGATGTGGAGACATTATAGGAATTAGGAT-AAATCCTTCTTGT-AAT
1 AGATATGATTAGATGTGGAGACATGAAAGGAATTAGGATAAAATCCTTCTTGTGAAT
1093287 A
1 A
1093288 TGTTTCAAGA
Statistics
Matches: 106, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
55 3 0.03
56 13 0.12
57 90 0.85
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (57 bp):
AGATATGATTAGATGTGGAGACATGAAAGGAATTAGGATAAAATCCTTCTTGTGAAT
Found at i:1093380 original size:23 final size:22
Alignment explanation
Indices: 1093352--1093416 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
1093342 TGAGTTTAAC
1093352 ATAGATATCTTTTTTCAAAGATG
1 ATAGAT-TCTTTTTTCAAAGATG
*
1093375 ATAGATTCACTTTTT-AAAGATG
1 ATAGATTC-TTTTTTCAAAGATG
* *
1093397 ATATATTCTCTTTTCAAAGA
1 ATAGATTCTTTTTTCAAAGA
1093417 CGGAAGCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 4 0.11
22 21 0.58
23 11 0.31
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (22 bp):
ATAGATTCTTTTTTCAAAGATG
Found at i:1094162 original size:44 final size:44
Alignment explanation
Indices: 1094113--1094435 Score: 198
Period size: 44 Copynumber: 7.3 Consensus size: 44
1094103 AGCCTCCAAG
*
1094113 GAAGAGTATTGGAAGCAAATTTAATCATAAATATGAACTCCACA
1 GAAGAGTAGTGGAAGCAAATTTAATCATAAATATGAACTCCACA
* * ** * *
1094157 AAAGAGTAGTGGAA-C-AGTTTTTTCA-ACGAAGTATCAA-ACCACA
1 GAAGAGTAGTGGAAGCAAATTTAATCATA--AA-TATGAACTCCACA
* * * * *
1094200 GAAGAGTAGTGGAAGAAAATTCAATCATAAATCTGATCTCCACG
1 GAAGAGTAGTGGAAGCAAATTTAATCATAAATATGAACTCCACA
* * * * *
1094244 GAAGAGTAGTGGAATG--AATTT-TTCAGAAAAGGATCAAACTCCACG
1 GAAGAGTAGTGGAA-GCAAATTTAATCA-TAAA-TAT-GAACTCCACA
* ** * *
1094289 GAAGAGTAGTGGAAGCAAATTCAATCATAAATCCGCACTCCACG
1 GAAGAGTAGTGGAAGCAAATTTAATCATAAATATGAACTCCACA
* * * * * *
1094333 GAAGAGTAATGGAATG-AATTTTTTAGCA-AAGTATCAAACTCCACA
1 GAAGAGTAGTGGAA-GCAA-ATTTAATCATAAATAT-GAACTCCACA
* *
1094378 GAAAAGTAGTGGAAGCAAATTCT-ATCATAAATCTGAACTCCACA
1 GAAGAGTAGTGGAAGCAAATT-TAATCATAAATATGAACTCCACA
*
1094422 AAAGAGTAGTGGAA
1 GAAGAGTAGTGGAA
1094436 CGGATTTTTT
Statistics
Matches: 206, Mismatches: 53, Indels: 40
0.69 0.18 0.13
Matches are distributed among these distances:
41 1 0.00
42 10 0.05
43 31 0.15
44 92 0.45
45 61 0.30
46 8 0.04
47 3 0.01
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (44 bp):
GAAGAGTAGTGGAAGCAAATTTAATCATAAATATGAACTCCACA
Found at i:1094295 original size:45 final size:44
Alignment explanation
Indices: 1094237--1094391 Score: 140
Period size: 45 Copynumber: 3.5 Consensus size: 44
1094227 TAAATCTGAT
1094237 CTCCACGGAAGAGTAGTGGAATGAATTTTTCAGAAAAGGATCAAA
1 CTCCACGGAAGAGTAGTGGAATGAATTTTTCAGAAAA-GATCAAA
* **
1094282 CTCCACGGAAGAGTAGTGGAA-GCAA--ATTCA-ATCATAA-ATCCGCA
1 CTCCACGGAAGAGTAGTGGAATG-AATTTTTCAGA--A-AAGAT-CAAA
* * *
1094326 CTCCACGGAAGAGTAATGGAATGAATTTTTTAGCAAAGTATCAAA
1 CTCCACGGAAGAGTAGTGGAATGAATTTTTCAGAAAAG-ATCAAA
* *
1094371 CTCCACAGAAAAGTAGTGGAA
1 CTCCACGGAAGAGTAGTGGAA
1094392 GCAAATTCTA
Statistics
Matches: 87, Mismatches: 12, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
42 1 0.01
43 6 0.07
44 28 0.32
45 47 0.54
46 5 0.06
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (44 bp):
CTCCACGGAAGAGTAGTGGAATGAATTTTTCAGAAAAGATCAAA
Found at i:1094318 original size:176 final size:177
Alignment explanation
Indices: 1094106--1094444 Score: 457
Period size: 176 Copynumber: 1.9 Consensus size: 177
1094096 CATTTTCAGC
* * * *
1094106 CTCCAAGGAAGAGTATTGGAAGCAAATTTAATCATAAATATGAACTCCACAAAAGAGTAGTGGAA
1 CTCCAAGGAAGAGTAGTGGAAGCAAATTCAATCATAAATACGAACTCCACAAAAGAGTAATGGAA
* * *
1094171 -CAGTTTTTTCAACGAAGTATCAAA-CCACAGAAGAGTAGTGGAAGAAAATTCAATCATAAATCT
66 TCAATTTTTT-AACAAAGTATCAAACCCACAGAAAAGTAGTGGAAGAAAATTCAATCATAAATCT
* ** *
1094234 GATCTCCACGGAAGAGTAGTGGAATGAATTTTTCAGAAAAGGATCAAA
130 GAACTCCACAAAAGAGTAGTGGAACGAATTTTTCAGAAAAGGATCAAA
* * * **
1094282 CTCCACGGAAGAGTAGTGGAAGCAAATTCAATCATAAATCCGCACTCCACGGAAGAGTAATGGAA
1 CTCCAAGGAAGAGTAGTGGAAGCAAATTCAATCATAAATACGAACTCCACAAAAGAGTAATGGAA
* * * *
1094347 TGAATTTTTTAGCAAAGTATCAAACTCCACAGAAAAGTAGTGGAAGCAAATTCTATCATAAATCT
66 TCAATTTTTTAACAAAGTATCAAAC-CCACAGAAAAGTAGTGGAAGAAAATTCAATCATAAATCT
*
1094412 GAACTCCACAAAAGAGTAGTGGAACGGATTTTT
130 GAACTCCACAAAAGAGTAGTGGAACGAATTTTT
1094445 TAGCAAAGTA
Statistics
Matches: 139, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
176 68 0.49
177 7 0.05
178 64 0.46
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (177 bp):
CTCCAAGGAAGAGTAGTGGAAGCAAATTCAATCATAAATACGAACTCCACAAAAGAGTAATGGAA
TCAATTTTTTAACAAAGTATCAAACCCACAGAAAAGTAGTGGAAGAAAATTCAATCATAAATCTG
AACTCCACAAAAGAGTAGTGGAACGAATTTTTCAGAAAAGGATCAAA
Found at i:1094330 original size:89 final size:89
Alignment explanation
Indices: 1094113--1094460 Score: 416
Period size: 89 Copynumber: 3.9 Consensus size: 89
1094103 AGCCTCCAAG
* * * * *
1094113 GAAGAGTATTGGAAGCAAATTTAATCATAAATATGAACTCCACAAAAGAGTAGTGGAA-CAGTTT
1 GAAGAGTAGTGGAAGCAAATTCAATCATAAATCTGAACTCCACAAAAGAGTAGTGGAATGA-ATT
*
1094177 TTTCA-ACGAAGTATCAAA--CCACA
65 TTTCAGA-AAAGTATCAAACTCCACA
* * **
1094200 GAAGAGTAGTGGAAGAAAATTCAATCATAAATCTGATCTCCACGGAAGAGTAGTGGAATGAATTT
1 GAAGAGTAGTGGAAGCAAATTCAATCATAAATCTGAACTCCACAAAAGAGTAGTGGAATGAATTT
* *
1094265 TTCAGAAAAGGATCAAACTCCACG
66 TTCAGAAAAGTATCAAACTCCACA
* * ** *
1094289 GAAGAGTAGTGGAAGCAAATTCAATCATAAATCCGCACTCCACGGAAGAGTAATGGAATGAATTT
1 GAAGAGTAGTGGAAGCAAATTCAATCATAAATCTGAACTCCACAAAAGAGTAGTGGAATGAATTT
* *
1094354 TTTAGCAAAGTATCAAACTCCACA
66 TTCAGAAAAGTATCAAACTCCACA
* * * *
1094378 GAAAAGTAGTGGAAGCAAATTCTATCATAAATCTGAACTCCACAAAAGAGTAGTGGAACGGATTT
1 GAAGAGTAGTGGAAGCAAATTCAATCATAAATCTGAACTCCACAAAAGAGTAGTGGAATGAATTT
* * *
1094443 TTTAGCAAAGTATGAAAC
66 TTCAGAAAAGTATCAAAC
1094461 CTTTATGAAA
Statistics
Matches: 226, Mismatches: 31, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
87 67 0.30
88 2 0.01
89 157 0.69
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (89 bp):
GAAGAGTAGTGGAAGCAAATTCAATCATAAATCTGAACTCCACAAAAGAGTAGTGGAATGAATTT
TTCAGAAAAGTATCAAACTCCACA
Found at i:1096117 original size:24 final size:24
Alignment explanation
Indices: 1096077--1096122 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
1096067 ACACTAGGAC
*
1096077 TAATAATATTAAGTATTTAGTATT
1 TAATAATATTAAGTATTAAGTATT
*
1096101 TAATAATTATTTA-TATTAAGTA
1 TAATAA-TATTAAGTATTAAGTA
1096123 AATCATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (24 bp):
TAATAATATTAAGTATTAAGTATT
Found at i:1098844 original size:18 final size:18
Alignment explanation
Indices: 1098821--1098863 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
1098811 CACCCTTGAA
1098821 ATTTTAAAATTATCATAT
1 ATTTTAAAATTATCATAT
* * * *
1098839 ATTTTAGATTTTTTATAT
1 ATTTTAAAATTATCATAT
1098857 ATTTTAA
1 ATTTTAA
1098864 TTTGAAAATA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
ATTTTAAAATTATCATAT
Found at i:1099537 original size:11 final size:11
Alignment explanation
Indices: 1099521--1099549 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1099511 AATAATAATA
1099521 ATTTATTATAT
1 ATTTATTATAT
1099532 ATTTATTATAT
1 ATTTATTATAT
1099543 A-TTATTA
1 ATTTATTA
1099550 AAATATAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTTATTATAT
Found at i:1103149 original size:41 final size:41
Alignment explanation
Indices: 1103102--1103268 Score: 144
Period size: 42 Copynumber: 4.3 Consensus size: 41
1103092 GAATATGTTC
* * *
1103102 CACTACTTTTCTAT-AGATATCAGACTTG-ATCTGATTTGCTT
1 CACTACTCTTCTATGA-AGATCAGACTCGAAT-TGATTTGCTT
*
1103143 CACTACTCTTCTATGAAGATCAGAGTCGAAATTGATTTGCTT
1 CACTACTCTTCTATGAAGATCAGACTCG-AATTGATTTGCTT
1103185 CACTACTCTTCTATGAAG----GA-T-GAATCTG--TT-C--
1 CACTACTCTTCTATGAAGATCAGACTCGAAT-TGATTTGCTT
* *
1103216 CACTACTCTTCTGTGGAGATCAGACTCGAAATTGATTTGCTT
1 CACTACTCTTCTATGAAGATCAGACTCG-AATTGATTTGCTT
1103258 CACTACTCTTC
1 CACTACTCTTC
1103269 AGTGAAAGGC
Statistics
Matches: 104, Mismatches: 6, Indels: 31
0.74 0.04 0.22
Matches are distributed among these distances:
31 16 0.15
33 1 0.01
34 2 0.02
35 5 0.05
36 4 0.04
37 4 0.04
38 5 0.05
39 2 0.02
40 1 0.01
41 22 0.21
42 40 0.38
43 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (41 bp):
CACTACTCTTCTATGAAGATCAGACTCGAATTGATTTGCTT
Found at i:1103190 original size:42 final size:41
Alignment explanation
Indices: 1103133--1103268 Score: 150
Period size: 42 Copynumber: 3.5 Consensus size: 41
1103123 AGACTTGATC
1103133 TGATTTGCTTCACTACTCTTCTATGAAGATCAGAGTCGAAAT
1 TGATTTGCTTCACTACTCTTCTATGAAGATCAGA-TCGAAAT
1103175 TGATTTGCTTCACTACTCTTCTATGAAG----GAT-G-AAT
1 TGATTTGCTTCACTACTCTTCTATGAAGATCAGATCGAAAT
* *
1103210 CTG--TT-C--CACTACTCTTCTGTGGAGATCAGACTCGAAAT
1 -TGATTTGCTTCACTACTCTTCTATGAAGATCAGA-TCGAAAT
1103248 TGATTTGCTTCACTACTCTTC
1 TGATTTGCTTCACTACTCTTC
1103269 AGTGAAAGGC
Statistics
Matches: 79, Mismatches: 2, Indels: 26
0.74 0.02 0.24
Matches are distributed among these distances:
31 16 0.20
33 1 0.01
34 2 0.03
35 5 0.06
36 4 0.05
37 4 0.05
38 5 0.06
39 2 0.03
40 1 0.01
42 39 0.49
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (41 bp):
TGATTTGCTTCACTACTCTTCTATGAAGATCAGATCGAAAT
Found at i:1103400 original size:72 final size:73
Alignment explanation
Indices: 1103143--1103490 Score: 432
Period size: 73 Copynumber: 4.8 Consensus size: 73
1103133 TGATTTGCTT
* * * *
1103143 CACTACTCTTCTATGAAGATCAGAGTCGAAATTGATTTGCTTCACTACTCTTCTATGAAGGATGA
1 CACTACTCTTCTATGGAGATCAGACTCGAAATTGATTTGCTTCACTACTCTTCTGTGAAGGTTGA
*
1103208 ATCTGTTC
66 ATCTGTTA
* * *
1103216 CACTACTCTTCTGTGGAGATCAGACTCGAAATTGATTTGCTTCACTACTCTTCAGTGAAAGGCTG
1 CACTACTCTTCTATGGAGATCAGACTCGAAATTGATTTGCTTCACTACTCTTCTGTG-AAGGTTG
*
1103281 AATCTATTA
65 AATCTGTTA
* * *
1103290 CACTACTCTTCTATGGAGATCAGACTCGAAATTAATTTGCTTCATTACTCTTTTGTGAAGGTTGA
1 CACTACTCTTCTATGGAGATCAGACTCGAAATTGATTTGCTTCACTACTCTTCTGTGAAGGTTGA
* *
1103355 ATTTG-TC
66 ATCTGTTA
* * * * * *
1103362 CACTACTTTTCTATGGAGATCAAACTCAAAATTGATTTGCTTCACTACTATTCCGTGAAGGTTAA
1 CACTACTCTTCTATGGAGATCAGACTCGAAATTGATTTGCTTCACTACTCTTCTGTGAAGGTTGA
1103427 ATCTGTTA
66 ATCTGTTA
* * * * *
1103435 CACTACTCTTCTGTGGTGATCAAACTTG--ATCTGATTTGCTTCACTACTCTTATGTG
1 CACTACTCTTCTATGGAGATCAGACTCGAAAT-TGATTTGCTTCACTACTCTTCTGTG
1103491 GTGATCAAAC
Statistics
Matches: 236, Mismatches: 36, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
71 2 0.01
72 83 0.35
73 86 0.36
74 65 0.28
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.37
Consensus pattern (73 bp):
CACTACTCTTCTATGGAGATCAGACTCGAAATTGATTTGCTTCACTACTCTTCTGTGAAGGTTGA
ATCTGTTA
Found at i:1103547 original size:41 final size:41
Alignment explanation
Indices: 1103435--1103531 Score: 185
Period size: 41 Copynumber: 2.4 Consensus size: 41
1103425 AAATCTGTTA
1103435 CACTACTCTTCTGTGGTGATCAAACTTGATCTGATTTGCTT
1 CACTACTCTTCTGTGGTGATCAAACTTGATCTGATTTGCTT
*
1103476 CACTACTCTTATGTGGTGATCAAACTTGATCTGATTTGCTT
1 CACTACTCTTCTGTGGTGATCAAACTTGATCTGATTTGCTT
1103517 CACTACTCTTCTGTG
1 CACTACTCTTCTGTG
1103532 ACGATTGAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (41 bp):
CACTACTCTTCTGTGGTGATCAAACTTGATCTGATTTGCTT
Found at i:1103858 original size:136 final size:136
Alignment explanation
Indices: 1103606--1104007 Score: 486
Period size: 136 Copynumber: 2.9 Consensus size: 136
1103596 CTTTTTAGGG
* * * * * *
1103606 ATAATAGAGATAACATGGTTCCTACGCAATAAGGGAAGTCT-GTCTATATAAGGATGACG-TAGG
1 ATAATGGAGATAACATGGTTCCTACGCGATAA-GGAATTTTGGT-TATATAAGGATGACGCGA-C
** * *
1103669 TCCTACGTGATGAGGAGATCTGGTTAGTGGATGACATTGTTCCTTCATGATGAGGACGTATGTCC
63 TCCTACGTGATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCGTGATGAGGACGTATGACC
*
1103734 ATGTTTTTTT
128 AT-ATTTTTT
* * * *
1103744 ATAATGGATA-AACATGGTTCCTACGCGATGAGGAATTTTGGTTATCTAAGGATGGCGCGACTCC
1 ATAATGGAGATAACATGGTTCCTACGCGATAAGGAATTTTGGTTATATAAGGATGACGCGACTCC
* * ** * *
1103808 TACGTGATGAGGAGATCTAGTCGGTAGATTCCACTGTTCCTTCGTGATGAGGACGTCTGACCATA
66 TACGTGATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCGTGATGAGGACGTATGACCATA
1103873 TTTTTT
131 TTTTTT
* * *
1103879 ATAGTGGAGATAACATGGTTCCTATGCGATAAGGAATTTTGGTTATATAAGGATGACGCGGCTCC
1 ATAATGGAGATAACATGGTTCCTACGCGATAAGGAATTTTGGTTATATAAGGATGACGCGACTCC
* * * * *
1103944 TATGTGATGAGGAGATCTGGACGGTGGATGACATTGTTCCATCGTGATGAGGACATCTGACCAT
66 TACGTGATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCGTGATGAGGACGTATGACCAT
1104008 CTTCTTTTTT
Statistics
Matches: 224, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
135 14 0.06
136 180 0.80
137 22 0.10
138 8 0.04
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (136 bp):
ATAATGGAGATAACATGGTTCCTACGCGATAAGGAATTTTGGTTATATAAGGATGACGCGACTCC
TACGTGATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCGTGATGAGGACGTATGACCATA
TTTTTT
Found at i:1104185 original size:62 final size:62
Alignment explanation
Indices: 1104072--1104216 Score: 161
Period size: 62 Copynumber: 2.3 Consensus size: 62
1104062 TTAATTTCTT
* * * *
1104072 TTCACGAGGAAGTCAAGGATTGACTCTACTGTAGAATCAGGAATGACAAAGGTTCG-TTTATC
1 TTCATGAGGAAGTCAATGATTGACTCTACTGGAGAATCAGGAATGACAAAGGTT-GACTTATC
* * * **
1104134 TTCATGAGGAAGTTAATGATTGACTCTACTGGGGAGTCCTGAATAGA-AAAGGTTGACTTATC
1 TTCATGAGGAAGTCAATGATTGACTCTACTGGAGAATCAGGAAT-GACAAAGGTTGACTTATC
1104196 TTCACT-AGGAAGTCAATGATT
1 TTCA-TGAGGAAGTCAATGATT
1104217 TGCTCCTCTG
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
61 1 0.01
62 66 0.94
63 3 0.04
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (62 bp):
TTCATGAGGAAGTCAATGATTGACTCTACTGGAGAATCAGGAATGACAAAGGTTGACTTATC
Found at i:1109324 original size:21 final size:21
Alignment explanation
Indices: 1109298--1109346 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
1109288 AACAAGTGTA
*
1109298 CCAAAGTACCACATATATGTT
1 CCAAAGGACCACATATATGTT
**
1109319 CCAAAGGATTACATATATG-T
1 CCAAAGGACCACATATATGTT
*
1109339 CCGAAGGA
1 CCAAAGGA
1109347 ACAAGTAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (21 bp):
CCAAAGGACCACATATATGTT
Found at i:1109494 original size:31 final size:31
Alignment explanation
Indices: 1109449--1109520 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
1109439 CACATATTCA
* * *
1109449 TATCATATAAGAATATAAACTTATGTCTTCT
1 TATCACATATGAATATAAACTTATGGCTTCT
1109480 TATCACATATGAATATAAACTTATGGCTTCT
1 TATCACATATGAATATAAACTTATGGCTTCT
1109511 TATCACATAT
1 TATCACATAT
1109521 ATCAGGTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (31 bp):
TATCACATATGAATATAAACTTATGGCTTCT
Found at i:1113874 original size:21 final size:19
Alignment explanation
Indices: 1113836--1113881 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
1113826 AATTAATCCT
1113836 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
1113856 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
1113877 A-TAAT
1 ACTAAT
1113882 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:1124152 original size:21 final size:19
Alignment explanation
Indices: 1124114--1124159 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
1124104 AATTAATCCT
1124114 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
1124134 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
1124155 A-TAAT
1 ACTAAT
1124160 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:1126156 original size:24 final size:24
Alignment explanation
Indices: 1126129--1126271 Score: 78
Period size: 28 Copynumber: 5.7 Consensus size: 24
1126119 TTTTAATCAG
1126129 AATATTAATTATTCAAT-TTTTTAA-
1 AATA-TAATTATT-AATATTTTTAAT
*
1126153 AATATATTTATTAATATTTTTAAT
1 AATATAATTATTAATATTTTTAAT
*
1126177 AATA-AAATATT-ATATTTTTAAT
1 AATATAATTATTAATATTTTTAAT
* * ** *
1126199 ATTATGAGAAATAATCAATTATTATAAT
1 AATATAATTATTAAT--ATT-TT-TAAT
* *
1126227 AATATAAGATATTATATTTTTATTTAAT
1 AATATAA-TTATTA-A-TATT-TTTAAT
1126255 AATATAAATTATTAATA
1 AATAT-AATTATTAATA
1126272 AAATTTATAT
Statistics
Matches: 91, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
22 17 0.19
23 22 0.24
24 10 0.11
26 4 0.04
27 3 0.03
28 23 0.25
29 10 0.11
30 1 0.01
31 1 0.01
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (24 bp):
AATATAATTATTAATATTTTTAAT
Found at i:1126172 original size:23 final size:23
Alignment explanation
Indices: 1126135--1126199 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
1126125 TCAGAATATT
1126135 AATTATTCAAT-TTTTTAA-AATA
1 AATTATT-AATATTTTTAATAATA
*
1126157 TATTTATTAATATTTTTAATAATA
1 -AATTATTAATATTTTTAATAATA
*
1126181 AAATATT-ATATTTTTAATA
1 AATTATTAATATTTTTAATA
1126200 TTATGAGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 15 0.41
23 18 0.49
24 4 0.11
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
AATTATTAATATTTTTAATAATA
Found at i:1126390 original size:23 final size:22
Alignment explanation
Indices: 1126371--1126414 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1126361 AATAATATTT
1126371 TAATAAAGATATTTAAAATATAC
1 TAATAAAGAT-TTTAAAATATAC
* *
1126394 TAATTAATATTTTAAAATATA
1 TAATAAAGATTTTAAAATATA
1126415 ATAAACTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
TAATAAAGATTTTAAAATATAC
Found at i:1126429 original size:22 final size:21
Alignment explanation
Indices: 1126379--1126430 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
1126369 TTTAATAAAG
* *
1126379 ATATTTAAAATATACTAATTA
1 ATATTTAAAATATAATAACTA
1126400 ATATTTTAAAATATAATAAACTA
1 ATA-TTTAAAATATAAT-AACTA
*
1126423 TTATTTAA
1 ATATTTAA
1126431 TAAATAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 3 0.12
22 17 0.65
23 6 0.23
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATTTAAAATATAATAACTA
Found at i:1126733 original size:14 final size:14
Alignment explanation
Indices: 1126714--1126740 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1126704 ATTTTCCTTG
1126714 AAAACATTTTCCAA
1 AAAACATTTTCCAA
1126728 AAAACATTTTCCA
1 AAAACATTTTCCA
1126741 GAAATGTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAACATTTTCCAA
Found at i:1126767 original size:14 final size:14
Alignment explanation
Indices: 1126748--1126777 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1126738 CCAGAAATGT
*
1126748 AATTCATTTTCCAG
1 AATTCAATTTCCAG
1126762 AATTCAATTTCCAG
1 AATTCAATTTCCAG
1126776 AA
1 AA
1126778 AAACCAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (14 bp):
AATTCAATTTCCAG
Found at i:1126780 original size:49 final size:50
Alignment explanation
Indices: 1126678--1126781 Score: 131
Period size: 49 Copynumber: 2.1 Consensus size: 50
1126668 CAAACATCGT
* * * *
1126678 AAAACGTTTTCTAGAAAATGTAATTCATTTTCCTTGAAAACATTTTCCAA
1 AAAACATTTTCCAGAAAATGTAATTCATTTTCCTAGAAAACAATTTCCAA
**
1126728 AAAACATTTTCCAG-AAATGTAATTCATTTTCC-AGAATTCAATTTCCAGA
1 AAAACATTTTCCAGAAAATGTAATTCATTTTCCTAGAAAACAATTTCCA-A
1126777 AAAAC
1 AAAAC
1126782 CAATTACACC
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
48 11 0.23
49 24 0.51
50 12 0.26
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (50 bp):
AAAACATTTTCCAGAAAATGTAATTCATTTTCCTAGAAAACAATTTCCAA
Found at i:1143122 original size:18 final size:18
Alignment explanation
Indices: 1143101--1143139 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1143091 CTTTAACCTT
1143101 ACAACACTTACCACGACA
1 ACAACACTTACCACGACA
* *
1143119 ACAACATTTGCCACGACA
1 ACAACACTTACCACGACA
1143137 ACA
1 ACA
1143140 CCATTCATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.36, G:0.08, T:0.13
Consensus pattern (18 bp):
ACAACACTTACCACGACA
Found at i:1147069 original size:47 final size:47
Alignment explanation
Indices: 1147012--1147115 Score: 163
Period size: 47 Copynumber: 2.2 Consensus size: 47
1147002 AAGGGAAAAT
*
1147012 TATTTTTCCCACTTTACGTCAAATCAAATATTATGATATTAACGCCA
1 TATTTTTCCCACTTTACGTCAAAACAAATATTATGATATTAACGCCA
* * * *
1147059 TATTTCTCCCACTTTATGTCAAAACAAATATTTTTATATTAACGCCA
1 TATTTTTCCCACTTTACGTCAAAACAAATATTATGATATTAACGCCA
1147106 TATTTTTCCC
1 TATTTTTCCC
1147116 TCTCGTTTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (47 bp):
TATTTTTCCCACTTTACGTCAAAACAAATATTATGATATTAACGCCA
Found at i:1151298 original size:22 final size:23
Alignment explanation
Indices: 1151266--1151308 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
1151256 ACAATAATAG
*
1151266 TATATTGTATA-TTCTTGTTTAC
1 TATATTATATATTTCTTGTTTAC
1151288 TATATTATATATTTCTTGTTT
1 TATATTATATATTTCTTGTTT
1151309 TATTTTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (23 bp):
TATATTATATATTTCTTGTTTAC
Found at i:1152224 original size:18 final size:18
Alignment explanation
Indices: 1152203--1152245 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1152193 GTTGTTTTTA
* *
1152203 AAATAAAAGATAAGGATT
1 AAATAAAAGAAAAGAATT
*
1152221 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
1152239 AAATAAA
1 AAATAAA
1152246 TTAATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:1155027 original size:30 final size:30
Alignment explanation
Indices: 1154993--1155051 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
1154983 CTTTCCTTGG
*
1154993 CATTGAGATGCCTT-AGCTTTCGTTCCTTAT
1 CATTGAGAT-ACTTAAGCTTTCGTTCCTTAT
*
1155023 CATTGAGCTACTTAAGCTTTCGTTCCTTA
1 CATTGAGATACTTAAGCTTTCGTTCCTTA
1155052 ACCCTTGCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (30 bp):
CATTGAGATACTTAAGCTTTCGTTCCTTAT
Found at i:1162072 original size:26 final size:26
Alignment explanation
Indices: 1162043--1162098 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
1162033 AGTAGATAAA
* *
1162043 TCGGAAAGGGAGTCGTTGCGTCAGCG
1 TCGGAAAGCGAGTCGCTGCGTCAGCG
*
1162069 TCGGAAAGCGAGTCGCTGCGTCTGCG
1 TCGGAAAGCGAGTCGCTGCGTCAGCG
1162095 TCGG
1 TCGG
1162099 TGGTCTGATC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.16, C:0.23, G:0.41, T:0.20
Consensus pattern (26 bp):
TCGGAAAGCGAGTCGCTGCGTCAGCG
Found at i:1171057 original size:15 final size:15
Alignment explanation
Indices: 1171037--1171067 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1171027 CAACAAATAA
1171037 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
1171052 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
1171067 A
1 A
1171068 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:1171248 original size:20 final size:20
Alignment explanation
Indices: 1171223--1171280 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
1171213 ATCCTATTCC
**
1171223 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
*
1171243 CTGGTAATCTTACATTCTCA
1 CTGGTAATCTTACATTCCCA
*
1171263 CTGGTGATCTTACATTCC
1 CTGGTAATCTTACATTCC
1171281 GTGAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:1171984 original size:37 final size:37
Alignment explanation
Indices: 1171894--1171998 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
1171884 CCTTTTCGTC
1171894 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* ** **
1171931 TTGTTAGGATTCAAACTCCTAAAAATAGGATAGTGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
1171968 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
1171999 CCACATGCAT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:1176392 original size:24 final size:23
Alignment explanation
Indices: 1176354--1176420 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
1176344 AACAAAAAGG
*
1176354 GCAAAAAACAAAAAAGAAAAGAA
1 GCAAAAAACAAAAAAAAAAAGAA
*
1176377 GCAAAAAAGAAGAAAAAAAAAGAA
1 GCAAAAAACAA-AAAAAAAAAGAA
* *
1176401 -CAAAAATCAAAAAGAAAAAG
1 GCAAAAAACAAAAAAAAAAAG
1176421 GGACAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 9 0.24
23 18 0.47
24 11 0.29
ACGTcount: A:0.78, C:0.07, G:0.13, T:0.01
Consensus pattern (23 bp):
GCAAAAAACAAAAAAAAAAAGAA
Found at i:1176419 original size:23 final size:22
Alignment explanation
Indices: 1176355--1176430 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 22
1176345 ACAAAAAGGG
*
1176355 CAAAAAACAAAAAAGAAAAGAA
1 CAAAAAACAAAAAAAAAAAGAA
*
1176377 GCAAAAAAGAAGAAAAAAAAAGAA
1 -CAAAAAACAA-AAAAAAAAAGAA
* * *
1176401 CAAAAATCAAAAAGAAAAAGGGA
1 CAAAAAACAAAAA-AAAAAAGAA
1176424 CAAAAAA
1 CAAAAAA
1176431 GCACATGCAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
22 3 0.07
23 30 0.68
24 11 0.25
ACGTcount: A:0.78, C:0.08, G:0.13, T:0.01
Consensus pattern (22 bp):
CAAAAAACAAAAAAAAAAAGAA
Found at i:1177047 original size:22 final size:22
Alignment explanation
Indices: 1177022--1177076 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
1177012 ATCACCCCAT
1177022 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
1177044 CAAACCTTTGAGCATTAAATGC
1 CAAACCTTTGAGCATCAAATGC
1177066 CAAACCTTTGA
1 CAAACCTTTGA
1177077 CCAAACACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:1179315 original size:106 final size:106
Alignment explanation
Indices: 1178039--1179314 Score: 1978
Period size: 106 Copynumber: 12.0 Consensus size: 106
1178029 ATATCGTGCC
* * * **
1178039 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1178104 AAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1178145 ACTCCAGACAACACAAGTTCAACTTCATGACGAAGGGACCGTTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1178210 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1178251 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1178316 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
1178357 ACTCAAGACAATGCAAGTTCAACTTCATGACGAAGGGACCACTGGTTGTCAATAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1178422 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1178463 ACTCCAGACAACGCAAGTTCAACTTCACGACGAATGGACCACTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1178528 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1178569 ACTCCAAACAACGCAAGTTCATCTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
1178634 AATTTCAGAGCCAATTTCAACTTAACAGCGAAGGATAGTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
1178675 ACTCGAGACAACGCAAATTTAACTTCACGACGAAGGGACCGCTGATTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1178740 AATTTCAGTGCCAATTTCAACTTCACAACGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* **
1178781 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAAATCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1178846 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
1178887 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1178952 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1178993 ACTCCAGACAACGCAAGTTCAACTTCACGACGAATGGACCGCTGGTTGTCAACAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1179058 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1179099 ACTCGAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** * * *
1179164 AATTTTGGAGCCAATTTTAACTTTACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1179205 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCC
* * * *
1179269 CGATTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
1179311 ACTC
1 ACTC
1179315 GGAATAATGT
Statistics
Matches: 1073, Mismatches: 96, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
105 2 0.00
106 1071 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:1180154 original size:37 final size:37
Alignment explanation
Indices: 1180064--1180168 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
1180054 CCTTTTCGTC
1180064 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * **
1180101 TTTCTAGGATTCAAACTCCTAAAAATAGGATAGTGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
1180138 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
1180169 CCACAAGCAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:1182109 original size:14 final size:15
Alignment explanation
Indices: 1182090--1182127 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1182080 TATAAAATTA
1182090 TTAATAAAT-ATATT
1 TTAATAAATAATATT
*
1182104 TTAATAATTAATATT
1 TTAATAAATAATATT
*
1182119 TTATTAAAT
1 TTAATAAAT
1182128 TATACTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAATAAATAATATT
Found at i:1182139 original size:23 final size:23
Alignment explanation
Indices: 1182113--1182164 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
1182103 TTTAATAATT
*
1182113 AATATTTTATTAAATTATACTAA
1 AATATTATATTAAATTATACTAA
* *
1182136 AATATTATATTATATTATATTAA
1 AATATTATATTAAATTATACTAA
1182159 ATATAT
1 A-ATAT
1182165 AAAAAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
AATATTATATTAAATTATACTAA
Found at i:1185464 original size:12 final size:12
Alignment explanation
Indices: 1185442--1185503 Score: 61
Period size: 12 Copynumber: 4.8 Consensus size: 12
1185432 CTACAAAAAT
1185442 ATAAAATATAATA
1 ATAAAA-ATAATA
1185455 ATAAAAATAATAGCA
1 ATAAAAATAAT---A
*
1185470 ATAAAAAATAAAA
1 AT-AAAAATAATA
1185483 ATAAAAATAATA
1 ATAAAAATAATA
*
1185495 ATATAAATA
1 ATAAAAATA
1185504 TCAGGACGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
12 22 0.52
13 9 0.21
15 3 0.07
16 8 0.19
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (12 bp):
ATAAAAATAATA
Found at i:1185494 original size:22 final size:22
Alignment explanation
Indices: 1185436--1185495 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
1185426 TTGTGCCTAC
*
1185436 AAAAATATAAAAT-AT-AATAAT
1 AAAAATA-AAAATAATAAAAAAT
* **
1185457 AAAAATAATAGCAATAAAAAAT
1 AAAAATAAAAATAATAAAAAAT
1185479 AAAAATAAAAATAATAA
1 AAAAATAAAAATAATAA
1185496 TATAAATATC
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 2 0.07
21 9 0.30
22 19 0.63
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (22 bp):
AAAAATAAAAATAATAAAAAAT
Found at i:1185504 original size:6 final size:6
Alignment explanation
Indices: 1185436--1185503 Score: 55
Period size: 6 Copynumber: 10.2 Consensus size: 6
1185426 TTGTGCCTAC
1185436 AAAAAT ATAAAAT ATAATAAT AAAAAT AATAGCAAT AAAAAAT AAAAAT
1 AAAAAT A-AAAAT A-AA-AAT AAAAAT AA-A--AAT -AAAAAT AAAAAT
* *
1185485 AAAAAT AATAAT ATAAAT A
1 AAAAAT AAAAAT AAAAAT A
1185504 TCAGGACGAT
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
6 28 0.53
7 15 0.28
8 4 0.08
9 4 0.08
10 2 0.04
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.24
Consensus pattern (6 bp):
AAAAAT
Found at i:1186005 original size:132 final size:131
Alignment explanation
Indices: 1185718--1186158 Score: 564
Period size: 132 Copynumber: 3.3 Consensus size: 131
1185708 ATCGAGGTTT
* * * *
1185718 ATTTGCTTCACTGCTCTTCAGGAAGAACAAATCTGAAAGAAGAAGAATTTGCTCTGA-TATTCTT
1 ATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATATGCTC-CACTACTCTT
* * *
1185782 TAGGGGAGATTAGACTCGAGAAAATTTTTGATTCACTTTGCTTCTCTTCAGGGAAGATTGAATCG
65 TAGGGGAGATCAGACTC-AGAAAA-CTTTGATTCAC-TTCCTTCTCTTCAGGGAAGATTGAATCG
1185847 AACTTG
127 AA-TTG
** * *
1185853 ATTTGCTTCGTTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGTTCCACTACTCTTT
1 ATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATATGCTCCACTACTCTTT
* * *
1185918 AGGGGAGATCAGACTC-GAAAACTTTGATCCACTTCACTTCTCTTCAGGAAAGATTGAATTAGAA
66 AGGGGAGATCAGACTCAGAAAACTTTGATTCACTTC-CTTCTCTTCAGGGAAGATTGAA-TCGAA
*
1185982 TCG
129 TTG
* * * *
1185985 ATTTGATTCACTTCTCTTCAGGAAGACCAAATCTGAAAGAAGAAAAATATGCTCCGCTACTCTTT
1 ATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATATGCTCCACTACTCTTT
* * *
1186050 A-GGGAGATCAGACTCAAGAAAAAAGTTTGATTCACTTCCTACTCTTCAGGGAAGATTCAATCGA
66 AGGGGAGATCAGACTC-AG--AAAACTTTGATTCACTTCCTTCTCTTCAGGGAAGATTGAATCG-
1186114 AATTG
127 AATTG
1186119 ATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGA
1 ATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGA
1186159 TGGACTCCTC
Statistics
Matches: 267, Mismatches: 31, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
131 16 0.06
132 90 0.34
133 12 0.04
134 62 0.23
135 87 0.33
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (131 bp):
ATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATATGCTCCACTACTCTTT
AGGGGAGATCAGACTCAGAAAACTTTGATTCACTTCCTTCTCTTCAGGGAAGATTGAATCGAATT
G
Found at i:1186222 original size:45 final size:45
Alignment explanation
Indices: 1186151--1186918 Score: 528
Period size: 45 Copynumber: 17.8 Consensus size: 45
1186141 AAGACCAAAT
* * * *
1186151 CTGAAAGATGGACTCCTCTTTACGAGAAAGGCAAGAAATACAACA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAAGACAACA
* * *
1186196 CTGAAAGATTGACTCATCTTCGCGAGAAAGTCAAGAAGGACAACA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAAGACAACA
* * *
1186241 CTAAAATAGTGACTCCTCTTCACGAGAAAGTCAA-AGAAGA-AACA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGA-AAGACAACA
* * * * * *
1186285 CTGAAAGATTGAATCTTCTCCGCGAGAAAGACAAGAAAGACAGCA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAAGACAACA
*
1186330 CTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAG-AAGTACAACA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAAG-ACAACA
* * * *
1186375 CTAAAATATTGACTCCTCTTCACGAGAAAGTCAAGGAAGATAACA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAAGACAACA
* * * * * * *
1186420 CCGAAAGATTGGCTGCTCTTCGCGATAAAGTCAATAAGGACAACA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAAGACAACA
* * * * * *
1186465 CTAAAATATAGACCCCTCTTCACGAGAAAGTCAAGGATGACAACA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAAGACAACA
* ** *
1186510 CTGAAATATTGACAACTCTTCACGAGAAAGTCAAG--A-ATAACA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAAGACAACA
* * * ** ** * **
1186552 TTAAAAGATTGATTGTTCTTCACGAGGGAGTCAATATGGACAACA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAAGACAACA
** * * *
1186597 CAAAAATATTGACTCCTCTTCACGAGAAAGTCAAGGATGACAACA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAAGACAACA
* * * *
1186642 CTGAAATATTGACTCCTCTTCATGAGAAAGTC-A-ATA-ATAACA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAAGACAACA
* * * *
1186684 TTGAAAGATTGACTCCTCTTCATGAGGAAGTCAAG--A-A-TA-A
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAAGACAACA
* * *
1186724 C--AAAGATTGACTCCACTTCACGAGAGAGTCAAG--A-ATAACA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAAGACAACA
* * * *
1186764 ---AAA-ATTGACTTCTCTTCATGAGGAAGTCAAG--A-ATAACA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAAGACAACA
* * ** ** *
1186802 TTGAAAGATTGACTCATCTTCATAAGGGAGTCAAG--A-ATAAC-
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAAGACAACA
* * *
1186843 C---AAGATTGACTTCTCTTCACGAGGAAGTCAAG--A-ATAACA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAAGACAACA
* ** *
1186882 TTGAAAGATTGACTAATCTTCACGAGGAAGTCAAGAA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAA
1186919 TAACATATAT
Statistics
Matches: 582, Mismatches: 119, Indels: 45
0.78 0.16 0.06
Matches are distributed among these distances:
38 92 0.16
39 4 0.01
40 2 0.00
41 4 0.01
42 125 0.21
43 1 0.00
44 39 0.07
45 312 0.54
46 3 0.01
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (45 bp):
CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAAGACAACA
Found at i:1186428 original size:90 final size:87
Alignment explanation
Indices: 1186151--1186918 Score: 599
Period size: 90 Copynumber: 8.9 Consensus size: 87
1186141 AAGACCAAAT
* * * *
1186151 CTGAAAGATGGACTCCTCTTTACGAGAAAGGCAAGAAATACAACACTGAAAGATTGACTCATCTT
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAG-AATA-AACACTGAAAGATTGACTCCTCTT
*
1186216 CGCGAGAAAGTCAAGAAGGACAACA
64 CACGAGAAAGTCAAGAA-GACAACA
* * * * * * *
1186241 CTAAAATAGTGACTCCTCTTCACGAGAAAGTCAAAGAAGAAACACTGAAAGATTGAATCTTCTCC
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTC-AAGAATAAACACTGAAAGATTGACTCCTCTTC
* * *
1186306 GCGAGAAAGACAAGAAAGACAGCA
65 ACGAGAAAGTCAAG-AAGACAACA
* * *
1186330 CTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAGTACAACACTAAAATATTGACTCCTCTT
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAA-TA-AACACTGAAAGATTGACTCCTCTT
*
1186395 CACGAGAAAGTCAAGGAAGATAACA
64 CACGAGAAAGTCAA-GAAGACAACA
* * * * * * * * * * *
1186420 CCGAAAGATTGGCTGCTCTTCGCGATAAAGTCAATAAGGACAACACTAAAATATAGACCCCTCTT
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAA-TA-AACACTGAAAGATTGACTCCTCTT
*
1186485 CACGAGAAAGTCAAGGATGACAACA
64 CACGAGAAAGTCAA-GAAGACAACA
* ** * * * **
1186510 CTGAAATATTGACAACTCTTCACGAGAAAGTCAAGAAT-AACATTAAAAGATTGATTGTTCTTCA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATAAACACTGAAAGATTGACTCCTCTTCA
** * *
1186574 CGAGGGAGTCAATATGGACAACA
66 CGAGAAAGTCAAGA-AGACAACA
** * * *
1186597 CAAAAATATTGACTCCTCTTCACGAGAAAGTCAAGGATGACAACACTGAAATATTGACTCCTCTT
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAT-A-AACACTGAAAGATTGACTCCTCTT
* * *
1186662 CATGAGAAAGTCAA-TA-ATAACA
64 CACGAGAAAGTCAAGAAGACAACA
* * * *
1186684 TTGAAAGATTGACTCCTCTTCATGAGGAAGTCAAGAAT--A-AC--AAAGATTGACTCCACTTCA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATAAACACTGAAAGATTGACTCCTCTTCA
* *
1186744 CGAGAGAGTCAAG-A-ATAACA
66 CGAGAAAGTCAAGAAGACAACA
* * * * *
1186764 ---AAA-ATTGACTTCTCTTCATGAGGAAGTCAAGAAT-AACATTGAAAGATTGACTCATCTTCA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATAAACACTGAAAGATTGACTCCTCTTCA
** ** *
1186824 TAAGGGAGTCAAG-A-ATAAC-
66 CGAGAAAGTCAAGAAGACAACA
* * * **
1186843 C---AAGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-AACATTGAAAGATTGACTAATCTTCA
1 CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATAAACACTGAAAGATTGACTCCTCTTCA
*
1186904 CGAGGAAGTCAAGAA
66 CGAGAAAGTCAAGAA
1186919 TAACATATAT
Statistics
Matches: 565, Mismatches: 96, Indels: 43
0.80 0.14 0.06
Matches are distributed among these distances:
76 30 0.05
77 4 0.01
78 1 0.00
79 2 0.00
80 132 0.23
81 1 0.00
82 2 0.00
83 1 0.00
86 1 0.00
87 105 0.19
88 5 0.01
89 72 0.13
90 205 0.36
91 4 0.01
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (87 bp):
CTGAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATAAACACTGAAAGATTGACTCCTCTTCA
CGAGAAAGTCAAGAAGACAACA
Found at i:1186743 original size:38 final size:37
Alignment explanation
Indices: 1186649--1187069 Score: 342
Period size: 38 Copynumber: 10.7 Consensus size: 37
1186639 ACACTGAAAT
* *
1186649 ATTGACTCCTCTTCATGAGAAAGTCAATAATAACATTGAAAG
1 ATTGACT-CTCTTCATGAGGAAGTCAAGAATAAC----AAAG
1186691 ATTGACTCCTCTTCATGAGGAAGTCAAGAATAACAAAG
1 ATTGACT-CTCTTCATGAGGAAGTCAAGAATAACAAAG
* * *
1186729 ATTGACTCCACTTCACGA-GAGAGTCAAGAATAACAAAA
1 ATTGACT-CTCTTCATGAGGA-AGTCAAGAATAACAAAG
1186767 ATTGACTTCTCTTCATGAGGAAGTCAAGAATAACATTGAAAG
1 ATTGAC-TCTCTTCATGAGGAAGTCAAGAATAAC----AAAG
* * *
1186809 ATTGACTCATCTTCATAAGGGAGTCAAGAATAACCAAG
1 ATTGACTC-TCTTCATGAGGAAGTCAAGAATAACAAAG
*
1186847 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAG
1 ATTGAC-TCTCTTCATGAGGAAGTCAAGAATAAC----AAAG
* * * *
1186889 ATTGACTAATCTTCACGAGGAAGTCAAGAATAACATAT
1 ATTGACT-CTCTTCATGAGGAAGTCAAGAATAACAAAG
* *
1186927 ATTGACATCTCTTCACGAGGAAGTCGAGAATAACAAAG
1 ATTGAC-TCTCTTCATGAGGAAGTCAAGAATAACAAAG
** * *
1186965 ATCAACTTCTCTTCATGAGGAAGTCAAGAATGAAAAAAA
1 ATTGAC-TCTCTTCATGAGGAAGTCAAGAAT-AACAAAG
* * * * * * *
1187004 ATCGACTTCTTTTTACGAGTAAGTTAAGAATGAA-AAAC
1 ATTGAC-TCTCTTCATGAGGAAGTCAAGAAT-AACAAAG
* *
1187042 ATTTACTCCTCTTCATGAGGGAGTCAAG
1 ATTGACT-CTCTTCATGAGGAAGTCAAG
1187070 TTGAAGCTTC
Statistics
Matches: 318, Mismatches: 44, Indels: 38
0.80 0.11 0.09
Matches are distributed among these distances:
37 3 0.01
38 175 0.55
39 39 0.12
41 3 0.01
42 98 0.31
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.26
Consensus pattern (37 bp):
ATTGACTCTCTTCATGAGGAAGTCAAGAATAACAAAG
Found at i:1186809 original size:80 final size:79
Alignment explanation
Indices: 1186525--1186961 Score: 391
Period size: 80 Copynumber: 5.3 Consensus size: 79
1186515 ATATTGACAA
* * * ** *
1186525 CTCTTCACGAGAAAGTCAAGAATAACATTAAAAGATTGATTGTTCTTCACGAGGGAGTCAATATG
1 CTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACT-CACTTCACGAGAGAGTC-A-A--
*
1186590 GACA-ACACAAAAATATTGACTC
61 GA-ATA-AC-AAAA-ATTGACTT
* * * * * * * *
1186612 CTCTTCACGAGAAAGTCAAGGATGACAACACTGAAATATTGACTCCTCTTCATGAGAAAGTCAAT
1 CTCTTCACGAGGAAGTCAA-GA--ATAACATTGAAAGATTGACT-CACTTCACGAGAGAGTCAAG
*
1186677 AATAACATTGAAAGATTGACTC
62 AATAACA---AAA-ATTGACTT
*
1186699 CTCTTCATGAGGAAGTCAAGAATAAC----AAAGATTGACTCCACTTCACGAGAGAGTCAAGAAT
1 CTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACT-CACTTCACGAGAGAGTCAAGAAT
1186760 AACAAAAATTGACTT
65 AACAAAAATTGACTT
* ** *
1186775 CTCTTCATGAGGAAGTCAAGAATAACATTGAAAGATTGACTCATCTTCATAAGGGAGTCAAGAAT
1 CTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCA-CTTCACGAGAGAGTCAAGAAT
* *
1186840 AACCAAGATTGACTT
65 AACAAAAATTGACTT
*
1186855 CTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTAATCTTCACGAG-GAAGTCAAGAA
1 CTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCA-CTTCACGAGAG-AGTCAAGAA
* * *
1186919 TAACATATATTGACAT
64 TAACAAAAATTGACTT
*
1186935 CTCTTCACGAGGAAGTCGAGAATAACA
1 CTCTTCACGAGGAAGTCAAGAATAACA
1186962 AAGATCAACT
Statistics
Matches: 302, Mismatches: 35, Indels: 33
0.82 0.09 0.09
Matches are distributed among these distances:
76 33 0.11
77 3 0.01
79 3 0.01
80 172 0.57
84 5 0.02
85 3 0.01
86 4 0.01
87 47 0.16
88 3 0.01
89 1 0.00
90 28 0.09
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (79 bp):
CTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCACTTCACGAGAGAGTCAAGAATA
ACAAAAATTGACTT
Found at i:1186822 original size:118 final size:119
Alignment explanation
Indices: 1186333--1186995 Score: 451
Period size: 118 Copynumber: 5.3 Consensus size: 119
1186323 GACAGCACTA
* * * *
1186333 AAAGATTGACTCCTCTTCACGAGAAAGTCAAGAAGTACAACACTAAAATATTGACTCCTCTTCAC
1 AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAA-T--AACA-T-AAAGATTGACTTCTCTTCAT
* ** * ** ** * *
1186398 GAGAAAGTCAAGGAAGATAACACCGAAAGATTGGCTGCTCTTCGCGATAAAGTCAATAAGGACAA
61 GAGGAAGTCAA-G-A-ATAACATTGAAAGATTGACT-CTCTTCATGAGGAAGTC---AAGAATAA
1186463 C
119 C
* * * * * **
1186464 ACTAAAATATAGACCCCTCTTCACGAGAAAGTCAAGGATGACAACACTGAAATATTGACAACTCT
1 A--AAGAT-T-GACTCCTCTTCACGAGGAAGTCAA-GA--ATAACA-T-AAAGATTGACTTCTCT
* * * * * * *
1186529 TCACGAGAAAGTCAAGAATAACATTAAAAGATTGATTGTTCTTCACGAGGGAGTCAATATGGACA
57 TCATGAGGAAGTCAAGAATAACATTGAAAGATTGACT-CTCTTCATGAGGAAGTC-A-A--GA-A
1186594 -ACAC
116 TA-AC
* * * * *
1186598 AAAAATATTGACTCCTCTTCACGAGAAAGTCAAGGATGACAACACTGAAATATTGACTCCTCTTC
1 --AAAGATTGACTCCTCTTCACGAGGAAGTCAA-GA--ATAACA-T-AAAGATTGACTTCTCTTC
* *
1186663 ATGAGAAAGTCAATAATAACATTGAAAGATTGACTCCTCTTCATGAGGAAGTCAAGAATAAC
59 ATGAGGAAGTCAAGAATAACATTGAAAGATTGACT-CTCTTCATGAGGAAGTCAAGAATAAC
*
1186725 AAAGATTGACTCCACTTCACGA-GAGAGTCAAGAATAACA-AAA-ATTGACTTCTCTTCATGAGG
1 AAAGATTGACTCCTCTTCACGAGGA-AGTCAAGAATAACATAAAGATTGACTTCTCTTCATGAGG
* *
1186787 AAGTCAAGAATAACATTGAAAGATTGACTCATCTTCATAAGGGAGTCAAGAATAAC
65 AAGTCAAGAATAACATTGAAAGATTGACTC-TCTTCATGAGGAAGTCAAGAATAAC
* * ** *
1186843 CAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTAATCTTCACGAG
1 AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAACA-T-AAAGATTGACTTCTCTTCATGAG
* * *
1186908 GAAGTCAAGAATAACA-T---ATATTGACATCTCTTCACGAGGAAGTCGAGAATAAC
64 GAAGTCAAGAATAACATTGAAAGATTGAC-TCTCTTCATGAGGAAGTCAAGAATAAC
** * *
1186961 AAAGATCAACTTCTCTTCATGAGGAAGTCAAGAAT
1 AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAAT
1186996 GAAAAAAAAT
Statistics
Matches: 455, Mismatches: 54, Indels: 59
0.80 0.10 0.10
Matches are distributed among these distances:
117 1 0.00
118 161 0.35
119 7 0.02
121 4 0.01
122 37 0.08
124 3 0.01
125 26 0.06
127 3 0.01
128 3 0.01
130 2 0.00
131 3 0.01
132 126 0.28
133 8 0.02
134 9 0.02
135 58 0.13
136 3 0.01
138 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.23
Consensus pattern (119 bp):
AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAACATAAAGATTGACTTCTCTTCATGAGGA
AGTCAAGAATAACATTGAAAGATTGACTCTCTTCATGAGGAAGTCAAGAATAAC
Done.