Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_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: 4978262
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 24
Found at i:1583223 original size:258 final size:257
Alignment explanation
Indices: 1582900--1583390 Score: 759
Period size: 258 Copynumber: 1.9 Consensus size: 257
1582890 GGGAGCTTTT
* * * *
1582900 TGATGTTTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAATCCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAGCCTTCG
*
1582965 GGTCATCTGTAAGCCCTTCAGAGCCTGATGTTTTCAAAACCTTCGGGTAATCCATAAGACCTACA
66 GGTCATCTGTAAGCCCTTCAGAGCATGATGTTTTCAAAACCTTCGGGTAATCCATAAGACCTACA
* * *
1583030 GTGCAGGATGTTTTCAAAAAAGCCTTCGGGAGCTTTTTTGATATTTTCAAAGCCTTCGGGTTATC
131 GTGCAGGATGTTTTC-AAAAAGCCTTCAGGAGC-TTTTTGATATTTTCAAAACCTTCGGGTCATC
** * *
1583095 TGCAAGCCCTTCAGTTCATGATGTTTTC-AAAGCCTTCGAGTCATCTGTAATCCCTTCAGTGCA
194 TGCAAGCCCTAAAGTGCAGGATGTTTTCAAAAGCCTTCGAGTCATCTGTAATCCCTTCAGTGCA
*
1583158 TGATGTTTTTAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAGCCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAGCCTTCG
* * * * **
1583223 GGTCATCTGTAAGCCCTTTAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACA
66 GGTCATCTGTAAGCCCTTCAGAGCATGATGTTTTCAAAACCTTCGGGTAATCCATAAGACCTACA
*
1583288 GTGCAGGATGTTTTCAAAAAGCCTTTAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTG
131 GTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTG
*
1583353 TAAGCCCTAAAGTGCAGGATGTTTTCAAAAAGCCTTCG
196 CAAGCCCTAAAGTGCAGGATGTTTTC-AAAAGCCTTCG
1583391 GGAGCTTTTT
Statistics
Matches: 210, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
256 52 0.25
257 15 0.07
258 143 0.68
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (257 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAGCCTTCG
GGTCATCTGTAAGCCCTTCAGAGCATGATGTTTTCAAAACCTTCGGGTAATCCATAAGACCTACA
GTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTG
CAAGCCCTAAAGTGCAGGATGTTTTCAAAAGCCTTCGAGTCATCTGTAATCCCTTCAGTGCA
Found at i:1583379 original size:76 final size:76
Alignment explanation
Indices: 1583248--1583455 Score: 314
Period size: 76 Copynumber: 2.8 Consensus size: 76
1583238 CTTTAGTGCA
* *
1583248 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTAAAGTGCAGGATGTTTTCAAAAAGCCTT
*
1583313 TAGGAGCTTTT
66 CAGGAGCTTTT
* *
1583324 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTAAAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTAAAGTGCAGGATGTTTTCAAAAAGCCTT
*
1583389 CGGGAGCTTTT
66 CAGGAGCTTTT
* *
1583400 TGATA-TTT-AAAGCCTTCGGGTCATCTGTAAGACTTACAA-TGCAGGATGGTTTCAAA
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTA-AAGTGCAGGATGTTTTCAAA
1583456 TGAGATTTTA
Statistics
Matches: 121, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
74 41 0.34
75 5 0.04
76 75 0.62
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (76 bp):
TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTAAAGTGCAGGATGTTTTCAAAAAGCCTT
CAGGAGCTTTT
Found at i:1584456 original size:21 final size:21
Alignment explanation
Indices: 1584412--1584456 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1584402 TTACTTTGCA
* *
1584412 ATTTAAATTTTATTTTTATAT
1 ATTTAAATTGTAATTTTATAT
1584433 ATTTAAATTAGTAATTTTAT-T
1 ATTTAAATT-GTAATTTTATAT
1584454 ATT
1 ATT
1584457 ATTATATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTTAAATTGTAATTTTATAT
Found at i:1587279 original size:29 final size:29
Alignment explanation
Indices: 1587244--1587325 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
1587234 AAACTAAATT
*
1587244 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
1587273 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
1587302 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1587326 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:1592021 original size:28 final size:29
Alignment explanation
Indices: 1591980--1592060 Score: 128
Period size: 28 Copynumber: 2.8 Consensus size: 29
1591970 AAACTAAATT
*
1591980 GATGTCATTACTTACATCATTTAA-TAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
1592008 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
1592037 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1592061 GTTAGAGTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
28 23 0.47
29 21 0.43
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:1595802 original size:2 final size:2
Alignment explanation
Indices: 1595784--1595841 Score: 59
Period size: 2 Copynumber: 30.0 Consensus size: 2
1595774 TTATGCAATC
* * *
1595784 AT AT AA AT AT AT A- AT AT AT A- AT AT TT AT TT ACT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
1595824 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
1595842 TAAATAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
1 3 0.07
2 42 0.91
3 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1596168 original size:127 final size:124
Alignment explanation
Indices: 1595918--1596164 Score: 378
Period size: 127 Copynumber: 2.0 Consensus size: 124
1595908 TAACATGTAT
* * *
1595918 TTTTAAAAGGGTTGTCTTAAAGCATCTAGAAGTCATTTTCTGATATTCTTAAATAAATAAATATC
1 TTTTAAAAGGGTTGTCTTAAAGAACCTAGAAGTCATTTTCTAATATTCTTAAATAAATAAATATC
*
1595983 CTATTTTTATAAATTATATATTAATTTATTTTAATTATTTTTAGAGAAATGTTTTATTAA
66 CTATTTTTATAAATTATACATTAATTTATTTT-ATTATTTTTAGAGAAATGTTTTATTAA
*
1596043 TTTTAGAAATGGGTTGTCTTAAAGAACCTAGAAGTCCTTTTCTAATATTCTTAAATAAATAAATA
1 TTTTA-AAA-GGGTTGTCTTAAAGAACCTAGAAGTCATTTTCTAATATTCTTAAATAAATAAATA
*
1596108 TCCTA-TTTTAT-AATTATACATTAA-TT-TTTT-TTATTTTTAGAGAAATATTTTATTAA
64 TCCTATTTTTATAAATTATACATTAATTTATTTTATTATTTTTAGAGAAATGTTTTATTAA
1596164 T
1 T
1596165 ATTATTTATT
Statistics
Matches: 114, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
121 26 0.23
123 4 0.04
124 2 0.02
125 17 0.15
126 9 0.08
127 56 0.49
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (124 bp):
TTTTAAAAGGGTTGTCTTAAAGAACCTAGAAGTCATTTTCTAATATTCTTAAATAAATAAATATC
CTATTTTTATAAATTATACATTAATTTATTTTATTATTTTTAGAGAAATGTTTTATTAA
Found at i:1608029 original size:52 final size:52
Alignment explanation
Indices: 1607941--1608141 Score: 197
Period size: 52 Copynumber: 3.8 Consensus size: 52
1607931 TTGACCAGAA
* * *
1607941 ATCTATGCATAAGCCACA-ACTGGATGAATGTATTGTCAAATGTTTTACAAAT
1 ATCTGTGCAGAAGCCACAGA-TGGATGAATGTATTGTCAAATGTTTTACAAAC
*
1607993 ATCTGTGCAGAAGCCACAGTTGGATGAATGTATTGTCAAATGTTTTACAAAC
1 ATCTGTGCAGAAGCCACAGATGGATGAATGTATTGTCAAATGTTTTACAAAC
* * * ** * * *
1608045 ATCTGTTCATAAACCACAGGAAAAGATGAATGTGTTGTAAAATGTTTTACGAAC
1 ATCTGTGCAGAAGCCACA-G-ATGGATGAATGTATTGTCAAATGTTTTACAAAC
* * * * *
1608099 ATCTGGGAAGAAGCCACGGGAAAGGATGAATGTGTTGTCAAAT
1 ATCTGTGCAGAAGCCAC-AG-ATGGATGAATGTATTGTCAAAT
1608142 ATTCTATAAA
Statistics
Matches: 124, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
52 62 0.50
53 1 0.01
54 61 0.49
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (52 bp):
ATCTGTGCAGAAGCCACAGATGGATGAATGTATTGTCAAATGTTTTACAAAC
Found at i:1608100 original size:54 final size:54
Alignment explanation
Indices: 1607962--1608141 Score: 220
Period size: 54 Copynumber: 3.4 Consensus size: 54
1607952 AGCCACAACT
* **
1607962 GGATGAATGTATTGTCAAATGTTTTACAAATATCTGTGCAGAAGCCACA-G-TT
1 GGATGAATGTATTGTCAAATGTTTTACAAACATCTGTGCAGAAGCCACAGGAAA
* * *
1608014 GGATGAATGTATTGTCAAATGTTTTACAAACATCTGTTCATAAACCACAGGAAA
1 GGATGAATGTATTGTCAAATGTTTTACAAACATCTGTGCAGAAGCCACAGGAAA
* * * * * * *
1608068 AGATGAATGTGTTGTAAAATGTTTTACGAACATCTGGGAAGAAGCCACGGGAAA
1 GGATGAATGTATTGTCAAATGTTTTACAAACATCTGTGCAGAAGCCACAGGAAA
*
1608122 GGATGAATGTGTTGTCAAAT
1 GGATGAATGTATTGTCAAAT
1608142 ATTCTATAAA
Statistics
Matches: 108, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 45 0.42
53 1 0.01
54 62 0.57
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (54 bp):
GGATGAATGTATTGTCAAATGTTTTACAAACATCTGTGCAGAAGCCACAGGAAA
Found at i:1608561 original size:20 final size:22
Alignment explanation
Indices: 1608516--1608570 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
1608506 ACATCTACAT
1608516 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
1608538 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
1608560 TTTTCAAAGAT
1 TCTTCAAAGAT
1608571 AAAAGCTTTA
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:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:1609313 original size:45 final size:45
Alignment explanation
Indices: 1609249--1609459 Score: 278
Period size: 45 Copynumber: 4.7 Consensus size: 45
1609239 TCCCACATTC
*
1609249 GTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCT
1 GTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
**
1609294 GTAAGCCCTTCAGTGCATGATGTTTTCAAAGTCTTCGGGTCATCT
1 GTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
*
1609339 GTAAGCCCTTCAGTGTATGATGTTTTCAAAACCTTCGGGTCATCT
1 GTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
* * * * * * *
1609384 TTAAGACCTACAATGCATGATATTTTCAAAACCTTCGCGTCATCC
1 GTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
* * * * *
1609429 ATAAGACATACATTGCATGATGTTTTCAAAA
1 GTAAGCCCTTCAGTGCATGATGTTTTCAAAA
1609460 AGGCCTTCGG
Statistics
Matches: 150, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 150 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (45 bp):
GTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
Found at i:1609531 original size:45 final size:45
Alignment explanation
Indices: 1609478--1609808 Score: 477
Period size: 45 Copynumber: 7.3 Consensus size: 45
1609468 GGGAGCTTTT
1609478 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
1609523 TGATGTTTTCAAATCCTTCGGGTCATCTATAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* ** *
1609568 TGATGTTTTCAAAACCTTCGGGTCATCCATAAG-ACTTACAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTT-CAGTGCA
*
1609613 GGATGTTTTCAAAAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTC---AAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
1609661 TAATGTTTTCAAAACATTCGGGTCATCTGTAAGCCCTAT-AGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCT-TCAGTGCA
1609706 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
1609751 TGATTTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
1609796 GGATGTTTTCAAA
1 TGATGTTTTCAAA
1609809 AAGCCTTTAG
Statistics
Matches: 257, Mismatches: 22, Indels: 14
0.88 0.08 0.05
Matches are distributed among these distances:
44 4 0.02
45 214 0.83
46 1 0.00
48 35 0.14
49 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:1609587 original size:167 final size:166
Alignment explanation
Indices: 1609311--1609930 Score: 765
Period size: 167 Copynumber: 3.6 Consensus size: 166
1609301 CTTCAGTGCA
** *
1609311 TGATGTTTTCAAAGTCTTCGGGTCATCTGTAAGCCCTTCAGTGTATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
* * * *
1609376 GGTCATCTTTAAGACCTACAATGCATGATATTTTCAAAACCTTCGCGTCATCCATAAGACATACA
66 GGTCATCTATAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACATACA
* *
1609441 TTGCATGATGTTTTCAAAAAGGCCTTCGGGAGCTTTT
131 GTGCAGGATGTTTTCAAAAA-GCCTTCGGGAGCTTTT
* *
1609478 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAATCCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
* * *
1609543 GGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACTTACA
66 GGTCATCTATAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACATACA
*
1609608 GTGCAGGATGTTTTCAAAAAAGCCTTCGGGTCATCTGTAAGCCCTT
131 GTGCAGGATGTTTTC-AAAAAGCCTTCGGG--AGCT-T------TT
*
1609654 CAGTGCATAATGTTTTCAAAACATTCGGGTCATCTGTAAGCCCTAT-AGTGCATGATGTTTTCAA
1 ---TG----ATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCT-TCAGTGCATGATGTTTTCAA
* * * * * * **
1609718 AGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATTTTTTCAAAGCCTTCGGGTCATCTGTAA
58 AACCTTCGGGTCATCTATAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAA
* ** *
1609783 GACCTACAGTGCAGGATGTTTTCAAAAAGCCTTTAGGAGTTTTT
123 GACATACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
* *
1609827 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
* * *
1609892 GGTCATCCATAAGACCTACAGTGCAGGATGCTTTCAAAA
66 GGTCATCTATAAGACCTACAGTGCATGATGTTTTCAAAA
1609931 AGCCTTTGGG
Statistics
Matches: 396, Mismatches: 38, Indels: 39
0.84 0.08 0.08
Matches are distributed among these distances:
166 89 0.22
167 142 0.36
168 5 0.01
169 3 0.01
170 3 0.01
173 2 0.01
176 2 0.01
179 3 0.01
180 2 0.01
182 12 0.03
183 132 0.33
184 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (166 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
GGTCATCTATAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACATACA
GTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
Found at i:1609793 original size:183 final size:182
Alignment explanation
Indices: 1609480--1609930 Score: 578
Period size: 183 Copynumber: 2.6 Consensus size: 182
1609470 GAGCTTTTTG
* * *
1609480 ATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAATCCTTCGGG
1 ATGTTTTCAAAACATTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGG
*
1609545 TCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACTTACAGT
66 TCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGT
1609610 GCAGGATGTTTTCAAAAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATA
131 GCAGGATGTTTTC-AAAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATA
1609663 ATGTTTTCAAAACATTCGGGTCATCTGTAAGCCCTAT-AGTGCATGATGTTTTCAAAGCCTTCGG
1 ATGTTTTCAAAACATTCGGGTCATCTGTAAGCCCT-TCAGTGCATGATGTTTTCAAAGCCTTCGG
* * * **
1609727 GTCATCTGTAAGCCCTTCAGTGCATGATTTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAG
65 GTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAG
**
1609792 TGCAGGATGTTTTCAAAAAGCCTTTAGG--AGT-T-T------TT---TG-AT-
130 TGCAGGATGTTTTCAAAAAGCCTTCGGGTCA-TCTGTAAGCCCTTCAGTGCATA
* * *
1609831 A--TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGG
1 ATGTTTTCAAAACATTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGG
* * * * *
1609894 TCATCCATAAGACCTACAGTGCAGGATGCTTTCAAAA
66 TCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAA
1609931 AGCCTTTGGG
Statistics
Matches: 243, Mismatches: 22, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
166 87 0.36
168 1 0.00
169 2 0.01
170 2 0.01
173 2 0.01
179 1 0.00
180 2 0.01
181 1 0.00
182 12 0.05
183 132 0.54
184 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (182 bp):
ATGTTTTCAAAACATTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGG
TCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGT
GCAGGATGTTTTCAAAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATA
Found at i:1609883 original size:45 final size:45
Alignment explanation
Indices: 1609827--1609930 Score: 154
Period size: 45 Copynumber: 2.3 Consensus size: 45
1609817 AGGAGTTTTT
* ** *
1609827 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
1609872 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
* *
1609917 GGATGCTTTCAAAA
1 TGATGTTTTCAAAA
1609931 AGCCTTTGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
Found at i:1609927 original size:121 final size:121
Alignment explanation
Indices: 1609706--1610003 Score: 456
Period size: 121 Copynumber: 2.5 Consensus size: 121
1609696 CTATAGTGCA
* * * * *
1609706 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATTTTTTCAAAGCCTTCG
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
** * *
1609771 GGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTTAGGAGTTTTT
66 GGTCATCCATAAGACCTACAGTGCAGGATGCTTTCAAAAAGCCTTTAGGAGCTTTT
1609827 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
*
1609892 GGTCATCCATAAGACCTACAGTGCAGGATGCTTTCAAAAAGCCTTTGGGAGCTTTT
66 GGTCATCCATAAGACCTACAGTGCAGGATGCTTTCAAAAAGCCTTTAGGAGCTTTT
* * * *
1609948 TGATA-TTT-AAAACCTTCGGGTCATCTGTAAGACCTACAATGCAGGATGGTTTCAAA
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAA
1610004 TGAGATTTTA
Statistics
Matches: 163, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
119 44 0.27
120 3 0.02
121 116 0.71
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (121 bp):
TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
GGTCATCCATAAGACCTACAGTGCAGGATGCTTTCAAAAAGCCTTTAGGAGCTTTT
Found at i:1610261 original size:3 final size:3
Alignment explanation
Indices: 1610253--1610340 Score: 140
Period size: 3 Copynumber: 28.7 Consensus size: 3
1610243 ATTTTTCATC
* *
1610253 TTA TTA TTA TTA TTA TTA ATA TTA CTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1610301 TTA TATA TTA TTA TTA TTA TATA TTA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TT
1610341 TAAATAAATA
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
3 73 0.92
4 6 0.08
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:1611588 original size:21 final size:21
Alignment explanation
Indices: 1611544--1611588 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1611534 TTACTTTGCA
* *
1611544 ATTTAAATTTTATTTTTATAT
1 ATTTAAATTGTAATTTTATAT
1611565 ATTTAAATTAGTAATTTTAT-T
1 ATTTAAATT-GTAATTTTATAT
1611586 ATT
1 ATT
1611589 ATTTTATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTTAAATTGTAATTTTATAT
Found at i:1623235 original size:3 final size:3
Alignment explanation
Indices: 1623227--1623275 Score: 71
Period size: 3 Copynumber: 15.7 Consensus size: 3
1623217 TTCAGTTTGC
*
1623227 TAT TAT TAT TAT TAT ACAT TAT TAT TAT TAT TATT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
1623274 TA
1 TA
1623276 AATAAATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 37 0.88
4 5 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1623249 original size:13 final size:12
Alignment explanation
Indices: 1623231--1623275 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
1623221 GTTTGCTATT
1623231 ATTATTATTATAC
1 ATTATTATTAT-C
*
1623244 ATTATTATTATT
1 ATTATTATTATC
*
1623256 ATTATTTATTATT
1 ATTA-TTATTATC
1623269 ATTATTA
1 ATTATTA
1623276 AATAAATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 7 0.23
13 23 0.77
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:1623251 original size:19 final size:19
Alignment explanation
Indices: 1623227--1623275 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1623217 TTCAGTTTGC
1623227 TATTATTATTATTATACAT
1 TATTATTATTATTATACAT
**
1623246 TATTATTATTATTATTTAT
1 TATTATTATTATTATACAT
1623265 TATTATTATTA
1 TATTATTATTA
1623276 AATAAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TATTATTATTATTATACAT
Found at i:1623274 original size:16 final size:17
Alignment explanation
Indices: 1623227--1623275 Score: 75
Period size: 16 Copynumber: 3.0 Consensus size: 17
1623217 TTCAGTTTGC
1623227 TATTATTATTATTA-TA
1 TATTATTATTATTATTA
*
1623243 CATTATTATTATTATTA
1 TATTATTATTATTATTA
1623260 T-TTATTATTATTATTA
1 TATTATTATTATTATTA
1623276 AATAAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 28 0.93
17 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTATTATTATTATTA
Found at i:1625014 original size:128 final size:128
Alignment explanation
Indices: 1624869--1625115 Score: 440
Period size: 128 Copynumber: 1.9 Consensus size: 128
1624859 TTAAAAGGGC
* *
1624869 TGTCTTAAAGCATCTAGAAGTCATTTTCTGATATTCTTAAATAAATAAATATCCTATTTTTATAA
1 TGTCTTAAAGCACCTAGAAGTCATTTTCTAATATTCTTAAATAAATAAATATCCTATTTTTATAA
*
1624934 ATTATATATTAATTTATTTTAATTATTTTTAGAGAAATGTTTTATTAATATTTAGAAATGGAT
66 ATTATACATTAATTTATTTTAATTATTTTTAGAGAAATGTTTTATTAATATTTAGAAATGGAT
* *
1624997 TGTCTTAAAGCACCTAGAAGTCCTTTTCTAATATTCTTAAATAAATAAATATCTTATTTTTATAA
1 TGTCTTAAAGCACCTAGAAGTCATTTTCTAATATTCTTAAATAAATAAATATCCTATTTTTATAA
*
1625062 ATTATACATTAATTTATTTTTATTATTTTTAGAGAAATGTTTTATTAATATTTA
66 ATTATACATTAATTTATTTTAATTATTTTTAGAGAAATGTTTTATTAATATTTA
1625116 TTTATTTTTT
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 113 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (128 bp):
TGTCTTAAAGCACCTAGAAGTCATTTTCTAATATTCTTAAATAAATAAATATCCTATTTTTATAA
ATTATACATTAATTTATTTTAATTATTTTTAGAGAAATGTTTTATTAATATTTAGAAATGGAT
Found at i:1634651 original size:45 final size:45
Alignment explanation
Indices: 1634587--1634788 Score: 269
Period size: 45 Copynumber: 4.5 Consensus size: 45
1634577 GTTTTTCATA
* *
1634587 TCAGTGCATGATGTTTTCAAAGCCTTCGGGTTATCTGTAAGCCCT
1 TCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCT
* *
1634632 TCAGTGCATAATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCT
1 TCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCT
* *
1634677 TCAGTGTATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCT
1 TCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCT
* * * ** *
1634722 ACAATGCATGATGTTTTCAAAACCTTCGCGTCATCCATAAGACCT
1 TCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCT
* * *
1634767 ACACTGCGTGATGTTTTCAAAA
1 TCAGTGCATGATGTTTTCAAAA
1634789 AAGCCTTCGG
Statistics
Matches: 143, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 143 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (45 bp):
TCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCT
Found at i:1634856 original size:45 final size:45
Alignment explanation
Indices: 1634807--1634955 Score: 217
Period size: 45 Copynumber: 3.3 Consensus size: 45
1634797 GGAAGCTTTT
* * *
1634807 TGATGTTTTCAAAGCCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
* *
1634852 TGATGTTTTCAAATCCTTCGGGACATCTATAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
* * *
1634897 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
*
1634942 AGATGTTTTCAAAA
1 TGATGTTTTCAAAA
1634956 AAGCCTTCGG
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 94 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
Found at i:1634902 original size:122 final size:122
Alignment explanation
Indices: 1634685--1634910 Score: 335
Period size: 122 Copynumber: 1.9 Consensus size: 122
1634675 CTTCAGTGTA
*
1634685 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCAGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCG
* *
1634750 CGTCATCCATAAGACCTACACTGCGTGATGTTTTCAAAAAAGCCTTCGGAAGCTTTT
66 CGACATCCATAAGACCTACACTGCATGATGTTTTCAAAAAAGCCTTCGGAAGCTTTT
* * * * *
1634807 TGATGTTTTCAAAGCCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAATCCTTCG
1 TGATGTTTTCAAAACCTTCAGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCG
* * * * *
1634872 GGACATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAA
66 CGACATCCATAAGACCTACACTGCATGATGTTTTCAAAA
1634911 CCTTCGGGTC
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
122 91 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (122 bp):
TGATGTTTTCAAAACCTTCAGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCG
CGACATCCATAAGACCTACACTGCATGATGTTTTCAAAAAAGCCTTCGGAAGCTTTT
Found at i:1634924 original size:167 final size:167
Alignment explanation
Indices: 1634642--1635121 Score: 773
Period size: 167 Copynumber: 2.9 Consensus size: 167
1634632 TCAGTGCATA
*
1634642 ATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGTATGATGTTTTCAAAACCTTCGGG
1 ATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGG
* * * * *
1634707 TCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCGCGTCATCCATAAGACCTACACT
66 TCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAAT
*
1634772 GCGTGATGTTTTCAAAAAAGCCTTCGGAAGCTTTTTG
131 GCATGATGTTTTCAAAAAAGCCTTCGGAAGCTTTTTG
* *
1634809 ATGTTTTCAAAGCCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAATCCTTCGGG
1 ATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGG
* * *
1634874 ACATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGT
66 TCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAAT
* *
1634939 GCAAGATGTTTTCAAAAAAGCCTTCGGGAGCTTTTTG
131 GCATGATGTTTTCAAAAAAGCCTTCGGAAGCTTTTTG
* * *
1634976 ATGTTTTCAAAGCCTTCGGGTCATCTGTATGCCCTTCAGTTCATGATGTTTTCAAAGCCTTCGGG
1 ATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGG
* *
1635041 TCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACATTCGGGTCATCTC-TAAGCCCTACAA
66 TCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATC-CATAAGACCTACAA
1635105 TGCATGATGTTTTCAAA
130 TGCATGATGTTTTCAAA
1635122 GCCTTCGGGT
Statistics
Matches: 289, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
167 288 1.00
168 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (167 bp):
ATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGG
TCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAAT
GCATGATGTTTTCAAAAAAGCCTTCGGAAGCTTTTTG
Found at i:1635025 original size:212 final size:209
Alignment explanation
Indices: 1634587--1635333 Score: 722
Period size: 212 Copynumber: 3.5 Consensus size: 209
1634577 GTTTTTCATA
* * *
1634587 TCAGTGCATGATGTTTTCAAAGCCTTCGGGTTATCTGTAAGCCCTTCAGTGCATAATGTTTTCAA
1 TCAGTTCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
* * *
1634652 AGCCTTCGGGTCATCTGTAAGCCCTTCAGTGTATGATGTTTTCAAAACCTTCGGGTCATCTGTAA
66 AACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAA
* * *
1634717 GACCTACAATGCATGATGTTTTC--AAAACCTTCGCGTCATCCATAAGACCTACACTGCGTGATG
131 GACCTACAGTGCATGATGTTTTCAAAAAACCTTCGCGGCATCCATAAGACCTAAACTGCGTGA-G
**
1634780 TTTTCAAAAAAGCCT
195 TCATCAAAAAAGCCT
** *
1634795 TCGGAAGCTTTTTGATGTTTTCAAAGCCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
1 TC---AG-TTCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
* * *
1634860 TCAAATCCTTCGGGACATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCC
62 TCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
* * * *** * ***
1634925 ATAAGACCTACAGTGCAAGATGTTTTCAAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCAAAGC
127 GTAAGACCTACAGTGCATGATGTTTTCAAAAAA-CCTTCGCG-GCATCCAT-AAGACCT-AAA--
* *** *
1634989 CTTCG-G-GTCATC-TGTATGCCCT
186 CTGCGTGAGTCATCAAAAAAG-CCT
1635011 TCAGTTCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
1 TCAGTTCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
* * * * *
1635076 AACATTCGGGTCATCTCTAAGCCCTACAATGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAA
66 AACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAA
* * * * ** * * **
1635141 GCCCTTCAGTGCATGATGTTTTC--AAAGCCTTCAG-GTCATCTGTAAGACCTACAGTGCAAGAT
131 GACCTACAGTGCATGATGTTTTCAAAAAACCTTC-GCGGCATCCATAAGACCTAAACTGCGTGA-
** *
1635203 GTTTTC-AAAAATCCT
194 GTCATCAAAAAAGCCT
** * * *
1635218 TCAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTT
1 TC---AG-TTCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
* * * * *
1635283 TCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGCTTTCAAAA
62 TCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAA
1635334 AGCCTTTGGG
Statistics
Matches: 439, Mismatches: 78, Indels: 41
0.79 0.14 0.07
Matches are distributed among these distances:
205 2 0.00
206 1 0.00
207 7 0.02
208 11 0.03
209 9 0.02
210 6 0.01
211 97 0.22
212 269 0.61
213 2 0.00
214 4 0.01
215 11 0.03
216 13 0.03
217 2 0.00
218 1 0.00
219 4 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (209 bp):
TCAGTTCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
AACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAA
GACCTACAGTGCATGATGTTTTCAAAAAACCTTCGCGGCATCCATAAGACCTAAACTGCGTGAGT
CATCAAAAAAGCCT
Found at i:1635027 original size:45 final size:45
Alignment explanation
Indices: 1634974--1635211 Score: 377
Period size: 45 Copynumber: 5.3 Consensus size: 45
1634964 GGGAGCTTTT
* *
1634974 TGATGTTTTCAAAGCCTTCGGGTCATCTGTATGCCCTTCAGTTCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1635019 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * * * *
1635064 TGATGTTTTCAAAACATTCGGGTCATCTCTAAGCCCTACAATGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1635109 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
1635154 TGATGTTTTCAAAGCCTTCAGGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
1635199 AGATGTTTTCAAA
1 TGATGTTTTCAAA
1635212 AATCCTTCAG
Statistics
Matches: 177, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 177 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:1635044 original size:25 final size:25
Alignment explanation
Indices: 1634974--1635044 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 25
1634964 GGGAGCTTTT
1634974 TGATGTTTTCAAAGCCTTCGGGTCA
1 TGATGTTTTCAAAGCCTTCGGGTCA
* * * * *
1634999 T-CTGTATGC----CCTTCAGTTCA
1 TGATGTTTTCAAAGCCTTCGGGTCA
1635019 TGATGTTTTCAAAGCCTTCGGGTCA
1 TGATGTTTTCAAAGCCTTCGGGTCA
1635044 T
1 T
1635045 CTGTAAGCCC
Statistics
Matches: 31, Mismatches: 10, Indels: 10
0.61 0.20 0.20
Matches are distributed among these distances:
20 10 0.32
21 5 0.16
24 5 0.16
25 11 0.35
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (25 bp):
TGATGTTTTCAAAGCCTTCGGGTCA
Found at i:1635070 original size:257 final size:256
Alignment explanation
Indices: 1634807--1635333 Score: 802
Period size: 257 Copynumber: 2.1 Consensus size: 256
1634797 GGAAGCTTTT
* * * * * *
1634807 TGATGTTTTCAAAGCCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAATCCTTCG
1 TGATGTTTTCAAAACATTCAGGTCATCTCTAAGCCCTACAATGCATGATGTTTTCAAAGCCTTCG
*
1634872 GGACATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACA
66 GGACATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTACA
* * *
1634937 GTGCAAGATGTTTTCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCT
131 GTGCAAGATGTTTTC-AAAAAGCCTTCAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCT
* * * * ** * *
1635002 GTATGCCCTTCAGTTCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
195 GTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
*
1635064 TGATGTTTTCAAAACATTCGGGTCATCTCTAAGCCCTACAATGCATGATGTTTTCAAAGCCTTCG
1 TGATGTTTTCAAAACATTCAGGTCATCTCTAAGCCCTACAATGCATGATGTTTTCAAAGCCTTCG
* * * **
1635129 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCAGGTCATCTGTAAGACCTACA
66 GGACATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTACA
*
1635194 GTGCAAGATGTTTTCAAAAATCCTTCAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTG
131 GTGCAAGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTG
1635259 TAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
196 TAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
* *
1635320 GGATGCTTTCAAAA
1 TGATGTTTTCAAAA
1635334 AGCCTTTGGG
Statistics
Matches: 243, Mismatches: 27, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
256 111 0.46
257 132 0.54
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (256 bp):
TGATGTTTTCAAAACATTCAGGTCATCTCTAAGCCCTACAATGCATGATGTTTTCAAAGCCTTCG
GGACATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTACA
GTGCAAGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTG
TAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
Found at i:1635299 original size:45 final size:45
Alignment explanation
Indices: 1635230--1635333 Score: 154
Period size: 45 Copynumber: 2.3 Consensus size: 45
1635220 AGGAGCTTTT
* ** *
1635230 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
1635275 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
* *
1635320 GGATGCTTTCAAAA
1 TGATGTTTTCAAAA
1635334 AGCCTTTGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
Found at i:1635330 original size:121 final size:121
Alignment explanation
Indices: 1635109--1635406 Score: 438
Period size: 121 Copynumber: 2.5 Consensus size: 121
1635099 CTACAATGCA
* * *
1635109 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCA
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCA
** * *
1635174 GGTCATCTGTAAGACCTACAGTGCAAGATGTTTTCAAAAATCCTTCAGGAGCTTTT
66 GGTCATCCATAAGACCTACAGTGCAAGATGCTTTCAAAAAGCCTTCAGGAGCTTTT
* *
1635230 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCA
* **
1635295 GGTCATCCATAAGACCTACAGTGCAGGATGCTTTCAAAAAGCCTTTGGGAGCTTTT
66 GGTCATCCATAAGACCTACAGTGCAAGATGCTTTCAAAAAGCCTTCAGGAGCTTTT
* * * *
1635351 TGATA-TTT-AAAGCCTTCGGGTCATCTGTAAGACCTACAATGCAGGATGGTTTCAAA
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAA
1635407 TGAGATTTTA
Statistics
Matches: 160, Mismatches: 17, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
119 43 0.27
120 3 0.02
121 114 0.71
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (121 bp):
TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCA
GGTCATCCATAAGACCTACAGTGCAAGATGCTTTCAAAAAGCCTTCAGGAGCTTTT
Found at i:1635665 original size:3 final size:3
Alignment explanation
Indices: 1635657--1635726 Score: 122
Period size: 3 Copynumber: 22.7 Consensus size: 3
1635647 TTTTTTCATC
1635657 TTA TTA TTA TTA TTA TTA TATA TTA TTA TTA TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA
1635704 TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
1635727 TAAATAAATA
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
3 59 0.91
4 6 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1636974 original size:21 final size:21
Alignment explanation
Indices: 1636930--1636974 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1636920 TTACTTTGCA
* *
1636930 ATTTAAATTTTATTTTTATAT
1 ATTTAAATTGTAATTTTATAT
1636951 ATTTAAATTAGTAATTTTAT-T
1 ATTTAAATT-GTAATTTTATAT
1636972 ATT
1 ATT
1636975 ATTTTATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTTAAATTGTAATTTTATAT
Found at i:1641784 original size:20 final size:20
Alignment explanation
Indices: 1641732--1641787 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
1641722 GCTCTTTTAT
*
1641732 AGAGTTTTGAAAATTTCCCC
1 AGAGTTTTGAAAGTTTCCCC
1641752 AGAGTTTTGAAAGTTTCCCC
1 AGAGTTTTGAAAGTTTCCCC
1641772 AGAGTTTTGAAAGTTT
1 AGAGTTTTGAAAGTTT
1641788 GTGTGCATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.38
Consensus pattern (20 bp):
AGAGTTTTGAAAGTTTCCCC
Found at i:1645874 original size:3 final size:3
Alignment explanation
Indices: 1645866--1645901 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
1645856 TTCAGTTTTC
*
1645866 TAT TAT TAT TAT TAT ACAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA
1645902 AATAAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 28 0.93
4 2 0.07
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:1647373 original size:2 final size:2
Alignment explanation
Indices: 1647360--1647423 Score: 55
Period size: 2 Copynumber: 33.5 Consensus size: 2
1647350 TTATGCAATC
* * * *
1647360 AT AT AA AT AT AT AT A- AT AA AT A- AT AT TT AT TT ACT -T AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
1647399 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1647424 AAATAAAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
1 4 0.08
2 44 0.90
3 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1647656 original size:128 final size:127
Alignment explanation
Indices: 1647511--1647754 Score: 443
Period size: 128 Copynumber: 1.9 Consensus size: 127
1647501 TTAAAAGGGC
* *
1647511 TGTCTTAAAGCATCTAGAAGTCATTTTCTGATATTCTTAAATAAATAAATATCCTATTTTTATAA
1 TGTCTTAAAGCACCTAGAAGTCATTTTCTAATATTCTTAAATAAATAAATATCCTATTTTTATAA
*
1647576 ATTATATATTAATTTATTTTAATTATTTTTAGAGAAATGTTTTATTAATATTTAGAAATGGGT
66 ATTATACATTAATTTATTTT-ATTATTTTTAGAGAAATGTTTTATTAATATTTAGAAATGGGT
*
1647639 TGTCTTAAAGCACCTAGAAGTCCTTTTCTAATATTCTTAAATAAATAAATATCCTATTTTTATAA
1 TGTCTTAAAGCACCTAGAAGTCATTTTCTAATATTCTTAAATAAATAAATATCCTATTTTTATAA
1647704 ATTATACATTAATTTATTTTATTATTTTTAGAGAAATGTTTTATTAATATT
66 ATTATACATTAATTTATTTTATTATTTTTAGAGAAATGTTTTATTAATATT
1647755 ATTTATTTTT
Statistics
Matches: 112, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
127 31 0.28
128 81 0.72
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (127 bp):
TGTCTTAAAGCACCTAGAAGTCATTTTCTAATATTCTTAAATAAATAAATATCCTATTTTTATAA
ATTATACATTAATTTATTTTATTATTTTTAGAGAAATGTTTTATTAATATTTAGAAATGGGT
Found at i:1659658 original size:54 final size:54
Alignment explanation
Indices: 1659520--1659710 Score: 242
Period size: 54 Copynumber: 3.6 Consensus size: 54
1659510 AGCCACAACT
* **
1659520 GGATGAATGTATTGTCAAATGTTTTACAAATATCTGTGCAGAAGCCACA-G-TT
1 GGATGAATGTATTGTCAAATGTTTTACAAACATCTGTGCAGAAGCCACAGGAAA
* * *
1659572 GGATGAATGTATTGTCAAATGTTTTACAAACATCTGTTCATAAACCACAGGAAA
1 GGATGAATGTATTGTCAAATGTTTTACAAACATCTGTGCAGAAGCCACAGGAAA
* * * * *
1659626 AGATGAATGTGTTGTCAAATGTTTTACGAACATCTGGGAAGAAGCCACAGGAAA
1 GGATGAATGTATTGTCAAATGTTTTACAAACATCTGTGCAGAAGCCACAGGAAA
* * *
1659680 GGATGAATGTGTTGTCAAATATTCTACAAAC
1 GGATGAATGTATTGTCAAATGTTTTACAAAC
1659711 CAGTTATTAT
Statistics
Matches: 119, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
52 45 0.38
53 1 0.01
54 73 0.61
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (54 bp):
GGATGAATGTATTGTCAAATGTTTTACAAACATCTGTGCAGAAGCCACAGGAAA
Found at i:1660102 original size:22 final size:22
Alignment explanation
Indices: 1660074--1660150 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
1660064 ACATCTACAT
1660074 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
1660096 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
1660118 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* *
1660140 TTTTTAAAGAT
1 TCTTCAAAGAT
1660151 AAAAGCTTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:1660894 original size:45 final size:45
Alignment explanation
Indices: 1660830--1661035 Score: 277
Period size: 45 Copynumber: 4.6 Consensus size: 45
1660820 TTTCCCACAC
* *
1660830 CCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAG
1 CCCTTCAGTGCATGATGTTTTCAAAACCTTCGCGTCATCTGTAAG
**
1660875 CCCTTCAGTGCATGATGTTTTCAAAGTCTTCGCGTCATCTGTAAG
1 CCCTTCAGTGCATGATGTTTTCAAAACCTTCGCGTCATCTGTAAG
* * *
1660920 CCCTTTAGTGTATGATGTTTTCAAAACCTTCGGGTCATCTGTAAG
1 CCCTTCAGTGCATGATGTTTTCAAAACCTTCGCGTCATCTGTAAG
* * * * *
1660965 ACCTACAATGCATGATATTTTCAAAACCTTCGCGTCATCCGTAAG
1 CCCTTCAGTGCATGATGTTTTCAAAACCTTCGCGTCATCTGTAAG
* * *
1661010 ACATACAGTGCATGATGTTTTCAAAA
1 CCCTTCAGTGCATGATGTTTTCAAAA
1661036 AAGCCTTCGG
Statistics
Matches: 143, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 143 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (45 bp):
CCCTTCAGTGCATGATGTTTTCAAAACCTTCGCGTCATCTGTAAG
Found at i:1661103 original size:45 final size:45
Alignment explanation
Indices: 1661054--1661384 Score: 493
Period size: 45 Copynumber: 7.3 Consensus size: 45
1661044 GGGAGCTTTT
1661054 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
1661099 TGATGTTTTCAAATCCTTCGGGTCATCTATAACCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* ** * *
1661144 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
1661189 GGATGTTTTCAAAAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTC---AAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
1661237 TGATGTTTTCAAAACATTCGGGTCATCTGTAAGCCCTAT-AGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCT-TCAGTGCA
1661282 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
1661327 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
1661372 GGATGTTTTCAAA
1 TGATGTTTTCAAA
1661385 AAGCCTTCAG
Statistics
Matches: 259, Mismatches: 22, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
44 1 0.00
45 218 0.84
46 1 0.00
48 39 0.15
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:1661163 original size:167 final size:167
Alignment explanation
Indices: 1660887--1661506 Score: 758
Period size: 167 Copynumber: 3.6 Consensus size: 167
1660877 CTTCAGTGCA
** * * *
1660887 TGATGTTTTCAAAGTCTTCGCGTCATCTGTAAGCCCTTTAGTGTATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
* * * * * *
1660952 GGTCATCTGTAAGACCTACAATGCATGATATTTTCAAAACCTTCGCGTCATCCGTAAGACATACA
66 GGTCATCTATAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCGTAAGACCTACA
*
1661017 GTGCATGATGTTTTCAAAAAAGCCTTCGGGAGCTTTT
131 GTGCAGGATGTTTTCAAAAAAGCCTTCGGGAGCTTTT
* *
1661054 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAATCCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
* * *
1661119 GGTCATCTATAACCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACA
66 GGTCATCTATAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCGTAAGACCTACA
*
1661184 GTGCAGGATGTTTTCAAAAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
131 GTGCAGGATGTTTTCAAAAAAGCCTTC-GG------G--AG--CTT---T--T
* *
1661237 TGATGTTTTCAAAACATTCGGGTCATCTGTAAGCCCTAT-AGTGCATGATGTTTTCAAAGCCTTC
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCT-TCAGTGCATGATGTTTTCAAAACCTTC
* * * *
1661301 GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTAC
65 GGGTCATCTATAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCGTAAGACCTAC
* *
1661366 AGTGCAGGATGTTTTC-AAAAAGCCTTCAGGAGTTTTT
130 AGTGCAGGATGTTTTCAAAAAAGCCTTCGGGAGCTTTT
* * * *
1661403 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTTAAAACCTTTG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
* * * * *
1661468 GGTCATCCATAAGTCCTACAGTGTAGGATGCTTTCAAAA
66 GGTCATCTATAAGCCCTACAGTGCATGATGTTTTCAAAA
1661507 AGCCTTTGGG
Statistics
Matches: 394, Mismatches: 41, Indels: 37
0.83 0.09 0.08
Matches are distributed among these distances:
166 89 0.23
167 142 0.36
168 3 0.01
171 2 0.01
173 2 0.01
174 1 0.00
175 1 0.00
176 2 0.01
178 3 0.01
181 2 0.01
182 11 0.03
183 135 0.34
184 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (167 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
GGTCATCTATAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCGTAAGACCTACA
GTGCAGGATGTTTTCAAAAAAGCCTTCGGGAGCTTTT
Found at i:1661362 original size:183 final size:182
Alignment explanation
Indices: 1661054--1661392 Score: 581
Period size: 183 Copynumber: 1.9 Consensus size: 182
1661044 GGGAGCTTTT
* * *
1661054 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAATCCTTCG
1 TGATGTTTTCAAAACATTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCG
1661119 GGTCATCTATAACCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACA
66 GGTCATCTATAACCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACA
1661184 GTGCAGGATGTTTTCAAAAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
131 GTGCAGGATGTTTTC-AAAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1661237 TGATGTTTTCAAAACATTCGGGTCATCTGTAAGCCCTAT-AGTGCATGATGTTTTCAAAGCCTTC
1 TGATGTTTTCAAAACATTCGGGTCATCTGTAAGCCCT-TCAGTGCATGATGTTTTCAAAGCCTTC
* * * **
1661301 GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTAC
65 GGGTCATCTATAACCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTAC
1661366 AGTGCAGGATGTTTTCAAAAAGCCTTC
130 AGTGCAGGATGTTTTCAAAAAGCCTTC
1661393 AGGAGTTTTT
Statistics
Matches: 147, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
182 11 0.07
183 135 0.92
184 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (182 bp):
TGATGTTTTCAAAACATTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCG
GGTCATCTATAACCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACA
GTGCAGGATGTTTTCAAAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:1661464 original size:45 final size:45
Alignment explanation
Indices: 1661403--1661490 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
1661393 AGGAGTTTTT
**
1661403 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCA
1 TGATATTTTCAAAACCTTCGGGTCATCCATAAGCCCTACAGTGCA
* * * *
1661448 TGATGTTTTTAAAACCTTTGGGTCATCCATAAGTCCTACAGTG
1 TGATATTTTCAAAACCTTCGGGTCATCCATAAGCCCTACAGTG
1661491 TAGGATGCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (45 bp):
TGATATTTTCAAAACCTTCGGGTCATCCATAAGCCCTACAGTGCA
Found at i:1661503 original size:121 final size:122
Alignment explanation
Indices: 1661282--1661579 Score: 415
Period size: 121 Copynumber: 2.5 Consensus size: 122
1661272 CTATAGTGCA
* * *
1661282 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCG
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
** *
1661347 GGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAG-TTTTT
66 GGTCATCCATAAGACCTACAGTGCAGGATGCTTTCAAAAAGCCTTCAGGAGCTTTTT
* * *
1661403 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTTAAAACCTTTG
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
* * **
1661468 GGTCATCCATAAGTCCTACAGTGTAGGATGCTTTCAAAAAGCCTTTGGGAGCTTTTT
66 GGTCATCCATAAGACCTACAGTGCAGGATGCTTTCAAAAAGCCTTCAGGAGCTTTTT
* * * *
1661525 T-ATA-TTT-AAAGCCTTCGGGTCATCTGTAAGACCTACAATGCAGGATGGTTTCAAA
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAA
1661580 TGAGATTTTA
Statistics
Matches: 157, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
119 42 0.27
120 3 0.02
121 106 0.68
122 6 0.04
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (122 bp):
TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
GGTCATCCATAAGACCTACAGTGCAGGATGCTTTCAAAAAGCCTTCAGGAGCTTTTT
Found at i:1661838 original size:3 final size:3
Alignment explanation
Indices: 1661830--1661881 Score: 86
Period size: 3 Copynumber: 16.7 Consensus size: 3
1661820 TTTTTTCATC
1661830 TTA TTA TTA TATA TTA TTA TTA TATA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
1661877 TTA TT
1 TTA TT
1661882 TAAATAAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 41 0.87
4 6 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1661848 original size:13 final size:12
Alignment explanation
Indices: 1661830--1661881 Score: 86
Period size: 13 Copynumber: 4.2 Consensus size: 12
1661820 TTTTTTCATC
1661830 TTATTATTATATA
1 TTATTATTAT-TA
1661843 TTATTATTATATA
1 TTATTATTAT-TA
1661856 TTATTATTATTA
1 TTATTATTATTA
1661868 TTATTATTATTA
1 TTATTATTATTA
1661880 TT
1 TT
1661882 TAAATAAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
12 16 0.41
13 23 0.59
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATTATTATTA
Found at i:1663838 original size:20 final size:20
Alignment explanation
Indices: 1663786--1663841 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
1663776 GCTCTTTCAT
*
1663786 AGAGTTTTGAAAATTTCCCC
1 AGAGTTTTGAAAGTTTCCCC
1663806 AGAGTTTTGAAAGTTTCCCC
1 AGAGTTTTGAAAGTTTCCCC
1663826 AGAGTTTTGAAAGTTT
1 AGAGTTTTGAAAGTTT
1663842 GTGTGCATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.38
Consensus pattern (20 bp):
AGAGTTTTGAAAGTTTCCCC
Found at i:1666103 original size:2 final size:2
Alignment explanation
Indices: 1666096--1666120 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1666086 TTTTTAAAAC
1666096 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1666121 CCCCCATCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1666307 original size:24 final size:24
Alignment explanation
Indices: 1666280--1666352 Score: 96
Period size: 24 Copynumber: 3.0 Consensus size: 24
1666270 GTAAACGGAG
*
1666280 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
1666304 ATATCA-AATATCAGAACAGAA-TC
1 ATATCAGAA-ATCAGAACAGAATTC
*
1666327 AAGATCAGAAATCAGAACAGAATTC
1 -ATATCAGAAATCAGAACAGAATTC
1666352 A
1 A
1666353 GGTAATGTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
23 4 0.09
24 35 0.81
25 4 0.09
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.19
Consensus pattern (24 bp):
ATATCAGAAATCAGAACAGAATTC
Found at i:1666347 original size:12 final size:12
Alignment explanation
Indices: 1666284--1666353 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
1666274 ACGGAGATAT
*
1666284 CAGAAATCAAAA
1 CAGAAATCAGAA
* * *
1666296 CAGAATTCATAT
1 CAGAAATCAGAA
1666308 CA-AATATCAGAA
1 CAGAA-ATCAGAA
*
1666320 CAG-AATCAAGAT
1 CAGAAATC-AGAA
1666332 CAGAAATCAGAA
1 CAGAAATCAGAA
*
1666344 CAGAATTCAG
1 CAGAAATCAG
1666354 GTAATGTATC
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
11 5 0.11
12 36 0.80
13 4 0.09
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (12 bp):
CAGAAATCAGAA
Found at i:1666364 original size:48 final size:49
Alignment explanation
Indices: 1666282--1666390 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 49
1666272 AAACGGAGAT
* * *
1666282 ATCAGAAATCAAAACAGAATTCATATCAAATATCAGAACAGAA-TCAAG
1 ATCAGAAATCAGAACAGAATTCAGATCAAATATCAGAAAAGAATTCAAG
* * *
1666330 ATCAGAAATCAGAACAGAATTCAGGT-AATGTATCATAAAAGAATTCAAG
1 ATCAGAAATCAGAACAGAATTCAGATCAA-ATATCAGAAAAGAATTCAAG
1666379 -TCAGAAATCAGA
1 ATCAGAAATCAGA
1666391 TAAAATATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
47 2 0.04
48 46 0.87
49 5 0.09
ACGTcount: A:0.51, C:0.15, G:0.14, T:0.20
Consensus pattern (49 bp):
ATCAGAAATCAGAACAGAATTCAGATCAAATATCAGAAAAGAATTCAAG
Found at i:1666388 original size:24 final size:24
Alignment explanation
Indices: 1666283--1666390 Score: 82
Period size: 24 Copynumber: 4.5 Consensus size: 24
1666273 AACGGAGATA
1666283 TCAGAAATCA-AAACAGAATTCATA-
1 TCAGAAATCAGAAA-AGAATTCA-AG
*
1666307 TCA-AATATCAGAACAGAA-TCAAG
1 TCAGAA-ATCAGAAAAGAATTCAAG
* *
1666330 ATCAGAAATCAGAACAGAATTCAGG
1 -TCAGAAATCAGAAAAGAATTCAAG
* * *
1666355 TAATG-TATCATAAAAGAATTCAAG
1 TCA-GAAATCAGAAAAGAATTCAAG
1666379 TCAGAAATCAGA
1 TCAGAAATCAGA
1666391 TAAAATATTT
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
22 1 0.02
23 6 0.09
24 50 0.76
25 9 0.14
ACGTcount: A:0.51, C:0.15, G:0.14, T:0.20
Consensus pattern (24 bp):
TCAGAAATCAGAAAAGAATTCAAG
Found at i:1667531 original size:18 final size:18
Alignment explanation
Indices: 1667510--1667545 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1667500 CTGCCATCCG
*
1667510 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
1667528 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
1667546 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:1668568 original size:13 final size:13
Alignment explanation
Indices: 1668550--1668581 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1668540 CAACAGTCAA
1668550 CGGGTCAACAGGT
1 CGGGTCAACAGGT
*
1668563 CGGGTCAACGGGT
1 CGGGTCAACAGGT
1668576 CGGGTC
1 CGGGTC
1668582 GGGTAAACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.25, G:0.44, T:0.16
Consensus pattern (13 bp):
CGGGTCAACAGGT
Found at i:1668591 original size:31 final size:31
Alignment explanation
Indices: 1668550--1668616 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
1668540 CAACAGTCAA
* *
1668550 CGGGTCAACAGGTCGGGTCAACGGGTCGGGT
1 CGGGTAAACAGGTCGGGTAAACGGGTCGGGT
1668581 CGGGTAAACAGGTCGGGTAAACGGGTCGGGT
1 CGGGTAAACAGGTCGGGTAAACGGGTCGGGT
1668612 CGGGT
1 CGGGT
1668617 CGGGTTATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.18, C:0.19, G:0.46, T:0.16
Consensus pattern (31 bp):
CGGGTAAACAGGTCGGGTAAACGGGTCGGGT
Found at i:1668594 original size:13 final size:13
Alignment explanation
Indices: 1668578--1668611 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
1668568 CAACGGGTCG
1668578 GGTCGGGTAAACA
1 GGTCGGGTAAACA
*
1668591 GGTCGGGTAAACG
1 GGTCGGGTAAACA
1668604 GGTCGGGT
1 GGTCGGGT
1668612 CGGGTCGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.15, G:0.47, T:0.18
Consensus pattern (13 bp):
GGTCGGGTAAACA
Found at i:1668612 original size:18 final size:18
Alignment explanation
Indices: 1668560--1668616 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
1668550 CGGGTCAACA
*
1668560 GGTCGGGTCAACGGGTCG
1 GGTCGGGTAAACGGGTCG
*
1668578 GGTCGGGTAAA-----CA
1 GGTCGGGTAAACGGGTCG
1668591 GGTCGGGTAAACGGGTCG
1 GGTCGGGTAAACGGGTCG
1668609 GGTCGGGT
1 GGTCGGGT
1668617 CGGGTTATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
13 12 0.39
18 19 0.61
ACGTcount: A:0.16, C:0.18, G:0.49, T:0.18
Consensus pattern (18 bp):
GGTCGGGTAAACGGGTCG
Found at i:1670761 original size:48 final size:49
Alignment explanation
Indices: 1670679--1670787 Score: 141
Period size: 48 Copynumber: 2.3 Consensus size: 49
1670669 AAACGGAGAT
* * * *
1670679 ATCAGAAATCAAAACAGAATTCATATCATATATCATAATAGAA-TCAAG
1 ATCAGAAATCAGAACAGAATTCAGATAATATATCATAACAGAATTCAAG
* * *
1670727 ATCAGAAAACAGAACAGAATTCAGGTAATGTATCATAACAGAATTCAAG
1 ATCAGAAATCAGAACAGAATTCAGATAATATATCATAACAGAATTCAAG
1670776 -TCAGAAATCAGA
1 ATCAGAAATCAGA
1670788 TAAAATATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 47 0.90
49 5 0.10
ACGTcount: A:0.50, C:0.15, G:0.13, T:0.22
Consensus pattern (49 bp):
ATCAGAAATCAGAACAGAATTCAGATAATATATCATAACAGAATTCAAG
Found at i:1670785 original size:24 final size:24
Alignment explanation
Indices: 1670680--1670785 Score: 83
Period size: 24 Copynumber: 4.4 Consensus size: 24
1670670 AACGGAGATA
*
1670680 TCAGAAATCAAAACAGAATTCATA-
1 TCAGAAATCATAACAGAATTCA-AG
* * *
1670704 TCATATATCATAATAGAA-TCAAG
1 TCAGAAATCATAACAGAATTCAAG
* * *
1670727 ATCAGAAAACAGAACAGAATTCAGG
1 -TCAGAAATCATAACAGAATTCAAG
* *
1670752 TAATG-TATCATAACAGAATTCAAG
1 TCA-GAAATCATAACAGAATTCAAG
1670776 TCAGAAATCA
1 TCAGAAATCA
1670786 GATAAAATAT
Statistics
Matches: 60, Mismatches: 17, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
22 1 0.02
23 4 0.07
24 50 0.83
25 5 0.08
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (24 bp):
TCAGAAATCATAACAGAATTCAAG
Found at i:1671928 original size:18 final size:18
Alignment explanation
Indices: 1671907--1671942 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1671897 CTGCCATCCG
*
1671907 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
1671925 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
1671943 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:1672974 original size:17 final size:16
Alignment explanation
Indices: 1672942--1672988 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
1672932 TCAAAGTTTT
1672942 GGTCAACAGTGGTCAACG
1 GGTCAACA--GGTCAACG
1672960 CCGGTCAAC-GGTCAACG
1 --GGTCAACAGGTCAACG
1672977 GGTCAACAGGTC
1 GGTCAACAGGTC
1672989 GAGTCAACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 7 0.27
16 4 0.15
17 8 0.31
20 7 0.27
ACGTcount: A:0.26, C:0.28, G:0.32, T:0.15
Consensus pattern (16 bp):
GGTCAACAGGTCAACG
Found at i:1676767 original size:3 final size:3
Alignment explanation
Indices: 1676759--1676794 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
1676749 TTCGGTTTGC
*
1676759 TAT TAT TAT TAT TAT ACAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA
1676795 AATAAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 28 0.93
4 2 0.07
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:1678506 original size:126 final size:128
Alignment explanation
Indices: 1678376--1678620 Score: 404
Period size: 128 Copynumber: 1.9 Consensus size: 128
1678366 TTAAAAGGGC
* * * * *
1678376 TGTCTTAAAGCATCTAGAAGTTATTTTCTGATATTCTTAAAT-AATAAA-ATCCTATTTTTATAA
1 TGTCTTAAAGCACCTAGAAGTCACTTTCTAATATTCTTAAATAAATAAATATCCTACTTTTATAA
*
1678439 ATTATATATTAATTTATTTTAATTATTTTTAGAGAAATGTTTTATTAATATTTAGAAATGGAT
66 ATTATACATTAATTTATTTTAATTATTTTTAGAGAAATGTTTTATTAATATTTAGAAATGGAT
*
1678502 TGTCTTAAAGCACCTAGAAGTCCCTTTCTAATATTCTTAAATAAATAAATATCCTACTTTTATAA
1 TGTCTTAAAGCACCTAGAAGTCACTTTCTAATATTCTTAAATAAATAAATATCCTACTTTTATAA
*
1678567 ATTATACATTAATTTATTTTTATTATTTTTAGAGAAATGTTTTATTAATATTTA
66 ATTATACATTAATTTATTTTAATTATTTTTAGAGAAATGTTTTATTAATATTTA
1678621 TTTATTTTTT
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
126 37 0.34
127 6 0.06
128 66 0.61
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.48
Consensus pattern (128 bp):
TGTCTTAAAGCACCTAGAAGTCACTTTCTAATATTCTTAAATAAATAAATATCCTACTTTTATAA
ATTATACATTAATTTATTTTAATTATTTTTAGAGAAATGTTTTATTAATATTTAGAAATGGAT
Found at i:1691037 original size:35 final size:35
Alignment explanation
Indices: 1690991--1691065 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
1690981 CGTCACGAAC
*
1690991 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTGCA
1 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
*
1691026 AGTAAGGCCCTGAGCACAAAGCCGATGAGCCTCCA
1 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
1691061 AGTAA
1 AGTAA
1691066 TCTTCCTCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.33, C:0.28, G:0.28, T:0.11
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
Found at i:1691170 original size:24 final size:24
Alignment explanation
Indices: 1691143--1691233 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
1691133 CATAATTCAA
*
1691143 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* *
1691167 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAG
1691191 GTCAA-TATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* * *
1691214 GTCAGGTATCATAACAGAAT
1 GTCAAGTATCAGATCAGAAT
1691234 TCAAATTTGA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 21 0.36
24 37 0.64
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:1691213 original size:47 final size:48
Alignment explanation
Indices: 1691143--1691233 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
1691133 CATAATTCAA
* * *
1691143 GTCAAGTATCATATCAGAATCCAGGTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAGGTCAGGTATCAGAACAGAATCCAT
*
1691191 GTCAA-TATCAGATCAGAATCCAGGTCAGGTATCATAACAGAAT
1 GTCAAGTATCAGATCAGAATCCAGGTCAGGTATCAGAACAGAAT
1691234 TCAAATTTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 34 0.87
48 5 0.13
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (48 bp):
GTCAAGTATCAGATCAGAATCCAGGTCAGGTATCAGAACAGAATCCAT
Found at i:1693869 original size:29 final size:29
Alignment explanation
Indices: 1693818--1693944 Score: 146
Period size: 29 Copynumber: 4.3 Consensus size: 29
1693808 ATTTTATACA
* * *
1693818 AATAGCACCCAAACAGTATTTAATTCCCAG
1 AATAGCACCAAAACCG-AATTAATTCCCAG
** *
1693848 AATAGCACCAAAATTGAATTAATTCCCAT
1 AATAGCACCAAAACCGAATTAATTCCCAG
*
1693877 AATAGCACCAAAACCGAATAAATTCCCAG
1 AATAGCACCAAAACCGAATTAATTCCCAG
* ** *
1693906 AATAGCACCAAAACCGAATTATTTATCAA
1 AATAGCACCAAAACCGAATTAATTCCCAG
1693935 AATAGCACCA
1 AATAGCACCA
1693945 GTTTCGAATT
Statistics
Matches: 83, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
29 70 0.84
30 13 0.16
ACGTcount: A:0.46, C:0.24, G:0.09, T:0.21
Consensus pattern (29 bp):
AATAGCACCAAAACCGAATTAATTCCCAG
Found at i:1694723 original size:52 final size:53
Alignment explanation
Indices: 1694645--1694813 Score: 189
Period size: 54 Copynumber: 3.2 Consensus size: 53
1694635 GGATGTTACA
* **
1694645 TTTACAAACATATGTGT-AGAAGCCACAG-TTGGATGAATGTATTGTCAAATGT
1 TTTACAAACATCTGT-TCAGAAGCCACAGAAAGGATGAATGTATTGTCAAATGT
* * * *
1694697 TTTACAAACATCTGTTCATAAACCACAGGAAAAGATGAATGTGTTGTCAAATGT
1 TTTACAAACATCTGTTCAGAAGCCACA-GAAAGGATGAATGTATTGTCAAATGT
* ** *
1694751 TTTACGAACATCTGGGCAGAAGCCACGGGAAAGGATGAATGTATTGTCAAATGT
1 TTTACAAACATCTGTTCAGAAGCCAC-AGAAAGGATGAATGTATTGTCAAATGT
*
1694805 TCTACAAAC
1 TTTACAAAC
1694814 TAGTGATTAT
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
51 1 0.01
52 22 0.23
53 1 0.01
54 72 0.75
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (53 bp):
TTTACAAACATCTGTTCAGAAGCCACAGAAAGGATGAATGTATTGTCAAATGT
Found at i:1694747 original size:54 final size:54
Alignment explanation
Indices: 1694676--1694813 Score: 195
Period size: 54 Copynumber: 2.6 Consensus size: 54
1694666 GCCACAGTTG
** *
1694676 GATGAATGTATTGTCAAATGTTTTACAAACATCTGTTCATAAACCACAGGAAAA
1 GATGAATGTATTGTCAAATGTTTTACAAACATCTGGGCAGAAACCACAGGAAAA
* * * * *
1694730 GATGAATGTGTTGTCAAATGTTTTACGAACATCTGGGCAGAAGCCACGGGAAAG
1 GATGAATGTATTGTCAAATGTTTTACAAACATCTGGGCAGAAACCACAGGAAAA
*
1694784 GATGAATGTATTGTCAAATGTTCTACAAAC
1 GATGAATGTATTGTCAAATGTTTTACAAAC
1694814 TAGTGATTAT
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (54 bp):
GATGAATGTATTGTCAAATGTTTTACAAACATCTGGGCAGAAACCACAGGAAAA
Found at i:1695205 original size:22 final size:22
Alignment explanation
Indices: 1695177--1695255 Score: 131
Period size: 22 Copynumber: 3.6 Consensus size: 22
1695167 ACATTTACAT
1695177 TCTTCAAAGATGATAGATTCTA
1 TCTTCAAAGATGATAGATTCTA
*
1695199 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTA
*
1695221 TCTTCAAAGATGATAGATTCTT
1 TCTTCAAAGATGATAGATTCTA
*
1695243 TTTTCAAAGATGA
1 TCTTCAAAGATGA
1695256 AAGCTTTATT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTA
Found at i:1695993 original size:45 final size:45
Alignment explanation
Indices: 1695928--1696138 Score: 262
Period size: 45 Copynumber: 4.7 Consensus size: 45
1695918 TCCCATATCC
* *
1695928 GTAAGCCCTTCAGTGAATGATGTTTTCAAAGCCTTCGGGTCATCT
1 GTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
* *
1695973 GTAAGCCCTTCAGTGCATGATATTTTCAAAGCCTTCGGGTCATCT
1 GTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
** * *
1696018 GTAAGCCCTTCAACGTATGATGTTTTCAAAACCTTGGGGTCATCT
1 GTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
* * * * *
1696063 GTAAGACCTACAATGCATGATGTTTTCAAAACCTTCGCGTCATCC
1 GTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
* * *
1696108 ATAAGACCTAT-AGTGCAGGATGTTTTCAAAA
1 GTAAGCCCT-TCAGTGCATGATGTTTTCAAAA
1696139 AAGCCTTCGG
Statistics
Matches: 146, Mismatches: 19, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
45 146 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (45 bp):
GTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT
Found at i:1696206 original size:45 final size:45
Alignment explanation
Indices: 1696157--1696305 Score: 226
Period size: 45 Copynumber: 3.3 Consensus size: 45
1696147 GGGAGCTTTT
* *
1696157 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAATGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
1696202 TGATGTTTTCAAATCCTTTGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
** * *
1696247 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1696292 TGATGTTTTCAAAA
1 TGATGTTTTCAAAA
1696306 AAGCCTTCGG
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 95 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:1696252 original size:122 final size:122
Alignment explanation
Indices: 1696035--1696260 Score: 337
Period size: 122 Copynumber: 1.9 Consensus size: 122
1696025 CTTCAACGTA
*
1696035 TGATGTTTTCAAAACCTTGGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCG
1696100 CGTCATCCATAAGACCTATAGTGCAGGATGTTTTCAAAAAAGCCTTCGGGAGCTTTT
66 CGTCATCCATAAGACCTATAGTGCAGGATGTTTTCAAAAAAGCCTTCGGGAGCTTTT
* * * * *
1696157 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAATCCTTTG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCG
* ** * *
1696222 GGTCATCTGTAAGCCCT-TCAGTGCATGATGTTTTCAAAA
66 CGTCATCCATAAGACCTAT-AGTGCAGGATGTTTTCAAAA
1696261 CCTTCGGGTC
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
121 1 0.01
122 91 0.99
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (122 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCG
CGTCATCCATAAGACCTATAGTGCAGGATGTTTTCAAAAAAGCCTTCGGGAGCTTTT
Found at i:1696274 original size:167 final size:167
Alignment explanation
Indices: 1695990--1696471 Score: 793
Period size: 167 Copynumber: 2.9 Consensus size: 167
1695980 CTTCAGTGCA
* * * *
1695990 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAACGTATGATGTTTTCAAAACCTTGG
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCG
* * * *
1696055 GGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAACCTTCGCGTCATCCATAAGACCTATA
66 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGTCATCCATAAGACCTATA
*
1696120 GTGCAGGATGTTTTCAAAAAAGCCTTCGGGAGCTTTT
131 GTGCATGATGTTTTCAAAAAAGCCTTCGGGAGCTTTT
* *
1696157 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAATCCTTTG
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCG
* *
1696222 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACA
66 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGTCATCCATAAGACCTATA
1696287 GTGCATGATGTTTTCAAAAAAGCCTTCGGGAGCTTTT
131 GTGCATGATGTTTTCAAAAAAGCCTTCGGGAGCTTTT
* *
1696324 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCG
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCG
*** *
1696389 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGTCATTTGTAAGCCCTATA
66 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGTCATCCATAAGACCTATA
1696454 GTGCATGATGTTTTCAAA
131 GTGCATGATGTTTTCAAA
1696472 GCCTTCGGGT
Statistics
Matches: 295, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
167 295 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.34
Consensus pattern (167 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCG
GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGTCATCCATAAGACCTATA
GTGCATGATGTTTTCAAAAAAGCCTTCGGGAGCTTTT
Found at i:1696373 original size:45 final size:45
Alignment explanation
Indices: 1696324--1696561 Score: 406
Period size: 45 Copynumber: 5.3 Consensus size: 45
1696314 GGGAGCTTTT
1696324 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1696369 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
1696414 TGATGTTTTCAAAACCTTCGAGTCATTTGTAAGCCCTAT-AGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCT-TCAGTGCA
1696459 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
1696504 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
1696549 AGATGTTTTCAAA
1 TGATGTTTTCAAA
1696562 AAGCCTTCAG
Statistics
Matches: 182, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
44 1 0.01
45 180 0.99
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:1696375 original size:212 final size:210
Alignment explanation
Indices: 1695928--1696683 Score: 748
Period size: 212 Copynumber: 3.6 Consensus size: 210
1695918 TCCCATATCC
1695928 GTAAGCCCTTCAGTGAATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGA
1 GTAAGCCCTTCAGTGAATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGA
* * ** * *
1695993 TATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAACGTATGATGTTTTCAAAACCTTGGGGT
66 TGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
1696058 CATCTGTAAGACCTACAATGCATGATGTTTTC--AAAACCTTCGCGTCATCCATAAGACCTATAG
131 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAACCTTCGCGGCATCCATAAGACCTAAAG
**
1696121 TGCAGGATGTTTTCAA
196 TGCAGGA-GTCATCAA
** *** *
1696137 AAAAG-CCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAATGC
1 GTAAGCCCTTC---AG-TGAATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGC
* *
1696201 ATGATGTTTTCAAATCCTTTGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC
62 ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC
** * *** * *
1696266 GGGTCATCCATAAGACCTACAGTGCATGATGTTTTCAAAAAAGCCTTCGGGAGC-TTTTTGATGT
127 GGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAA-CCTTCGCG-GCATCCAT-AAGA
** * *
1696330 TTTCAAAGCCTTC-GG-GTCATC-T
189 CCT-AAAG--TGCAGGAGTCATCAA
*
1696352 GTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGA
1 GTAAGCCCTTCAGTGAATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGA
* * *
1696417 TGTTTTCAAAACCTTCGAGTCATTTGTAAGCCCTAT-AGTGCATGATGTTTTCAAAGCCTTCGGG
66 TGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCT-TCAGTGCATGATGTTTTCAAAACCTTCGGG
* * * ** *
1696481 TCATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAGCCTTCG-GGTCATCTGTAAGACCTAC
130 TCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAACCTTCGCGG-CATCCATAAGACCTAA
* **
1696543 AGTGCAAGATGTTTTCAA
194 AGTGCAGGA-GTCATCAA
* * * * *
1696561 -AAAG-CCTTCAG-GAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTG
1 GTAAGCCCTTCAGTGA-----ATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTG
* ** * * *
1696623 CATTATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAA
61 CATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA
1696684 AGCCTTCGAG
Statistics
Matches: 448, Mismatches: 73, Indels: 50
0.78 0.13 0.09
Matches are distributed among these distances:
205 2 0.00
206 2 0.00
207 11 0.02
208 17 0.04
209 12 0.03
210 3 0.01
211 93 0.21
212 269 0.60
213 3 0.01
214 4 0.01
215 12 0.03
216 13 0.03
217 3 0.01
218 2 0.00
219 2 0.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (210 bp):
GTAAGCCCTTCAGTGAATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGA
TGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAACCTTCGCGGCATCCATAAGACCTAAAG
TGCAGGAGTCATCAA
Found at i:1696420 original size:257 final size:256
Alignment explanation
Indices: 1696157--1696693 Score: 842
Period size: 257 Copynumber: 2.1 Consensus size: 256
1696147 GGGAGCTTTT
* * *
1696157 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCT-TCAATGCATGATGTTTTCAAATCCTTT
1 TGATGTTTTCAAAGCCTTCGAGTCATCTGTAAGCCCTAT-AATGCATGATGTTTTCAAAGCCTTC
1696221 GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTAC
65 GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTAC
* * * *
1696286 AGTGCATGATGTTTTCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATC
130 AGTGCAAGATGTTTTC-AAAAAGCCTTCAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATC
* * ** * *
1696351 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
194 TGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
* * *
1696414 TGATGTTTTCAAAACCTTCGAGTCATTTGTAAGCCCTATAGTGCATGATGTTTTCAAAGCCTTCG
1 TGATGTTTTCAAAGCCTTCGAGTCATCTGTAAGCCCTATAATGCATGATGTTTTCAAAGCCTTCG
* **
1696479 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACA
66 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACA
1696544 GTGCAAGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTG
131 GTGCAAGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTG
*
1696609 TAAGCCCTACAGTGCATTATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
196 TAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
*
1696670 GGATGTTTTCAAAAAGCCTTCGAG
1 TGATGTTTTC--AAAGCCTTCGAG
1696694 AGCTTTTTGA
Statistics
Matches: 255, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
256 110 0.43
257 133 0.52
258 12 0.05
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (256 bp):
TGATGTTTTCAAAGCCTTCGAGTCATCTGTAAGCCCTATAATGCATGATGTTTTCAAAGCCTTCG
GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACA
GTGCAAGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTG
TAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
Found at i:1696636 original size:45 final size:45
Alignment explanation
Indices: 1696585--1696683 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 45
1696575 CTTTTTGATA
** * **
1696585 TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCATTATG
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATG
1696630 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATG
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATG
1696675 TTTTCAAAA
1 TTTTCAAAA
1696684 AGCCTTCGAG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (45 bp):
TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATG
Found at i:1696678 original size:121 final size:121
Alignment explanation
Indices: 1696459--1696756 Score: 458
Period size: 121 Copynumber: 2.5 Consensus size: 121
1696449 CTATAGTGCA
* * *
1696459 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCG
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
**
1696524 GGTCATCTGTAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTC-AGGAGCTTTT
66 GGTCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTCGA-GAGCTTTT
* *
1696580 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCATTATGTTTTCAAAACCTTCG
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
*
1696645 GGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGAGAGCTTTT
66 GGTCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTCGAGAGCTTTT
* * * *
1696701 TGATA-TTT-AAAGCCTTCGGGTCATCTGTAAGACCTACAATGCAGGATGGTTTCAAA
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAA
1696757 TGAGATTTTA
Statistics
Matches: 162, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
119 42 0.26
120 3 0.02
121 116 0.72
122 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (121 bp):
TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
GGTCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTCGAGAGCTTTT
Found at i:1697016 original size:3 final size:3
Alignment explanation
Indices: 1697008--1697037 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
1696998 TTTTTTCATC
1697008 TTA TTA TTA TTA TTA TATA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT
1697038 TAAATAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1697551 original size:19 final size:19
Alignment explanation
Indices: 1697527--1697567 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
1697517 CACATCATCA
1697527 GAGCTTCCACGCACCACCG
1 GAGCTTCCACGCACCACCG
1697546 GAGCTTCCACGCACCACCG
1 GAGCTTCCACGCACCACCG
1697565 GAG
1 GAG
1697568 AACCGAAGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.22, C:0.44, G:0.24, T:0.10
Consensus pattern (19 bp):
GAGCTTCCACGCACCACCG
Found at i:1707225 original size:3 final size:3
Alignment explanation
Indices: 1707217--1707268 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
1707207 TTCAGTTTGC
* * *
1707217 TAT TAT TAT TAT TAT TGT TAT TAT ACAT TAT ACAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT TAT TAT TAT TAT
1707264 TAT TA
1 TAT TA
1707269 AATAAATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
3 37 0.90
4 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:1707279 original size:26 final size:29
Alignment explanation
Indices: 1707220--1707279 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
1707210 AGTTTGCTAT
* *
1707220 TATTATTATTATTGTTATTATACATTATA
1 TATTATTATTATTATTATTATACATTAAA
*
1707249 CATTATTATTATTATTATTA-A-A-TAAA
1 TATTATTATTATTATTATTATACATTAAA
1707275 TATTA
1 TATTA
1707280 CAAGGCCCGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 7 0.26
27 1 0.04
28 1 0.04
29 18 0.67
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (29 bp):
TATTATTATTATTATTATTATACATTAAA
Found at i:1708382 original size:28 final size:28
Alignment explanation
Indices: 1708340--1708427 Score: 72
Period size: 28 Copynumber: 3.0 Consensus size: 28
1708330 CGAATTAGAG
*
1708340 CACTAAGTTTAAATATTTTACATTTTAAT
1 CACTAA-TTTTAATATTTTACATTTTAAT
*
1708369 CACTAATTTTAATAGTTT-CATTTTTAA-
1 CACTAATTTTAATATTTTACA-TTTTAAT
* * *
1708396 CTACAAATTTTACTACTTTTTATATTTTAAT
1 C-ACTAATTTTAATA--TTTTACATTTTAAT
1708427 C
1 C
1708428 CTATTGTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
27 3 0.06
28 27 0.57
29 6 0.13
30 9 0.19
31 2 0.04
ACGTcount: A:0.34, C:0.12, G:0.02, T:0.51
Consensus pattern (28 bp):
CACTAATTTTAATATTTTACATTTTAAT
Found at i:1708575 original size:47 final size:45
Alignment explanation
Indices: 1708522--1708616 Score: 111
Period size: 45 Copynumber: 2.1 Consensus size: 45
1708512 ATTATTACTT
*
1708522 TAATTATCATGTTA-TTATTATGTAGTCATATAAATATATATAATAAA
1 TAATTATCAT-TTACTTATTATATA-T-ATATAAATATATATAATAAA
* * * *
1708569 TAATTATTATTTACTTATTTTATATATATATATATATATATTAAA
1 TAATTATCATTTACTTATTATATATATATAAATATATATAATAAA
1708614 TAA
1 TAA
1708617 AAATCCTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
45 21 0.50
46 4 0.10
47 17 0.40
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (45 bp):
TAATTATCATTTACTTATTATATATATATAAATATATATAATAAA
Found at i:1708808 original size:21 final size:22
Alignment explanation
Indices: 1708779--1708822 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1708769 TATTAATTTA
*
1708779 TTTTAATT-ATTTTTAGAGAATG
1 TTTTAATTAATATTTAGA-AATG
1708801 TTTT-ATTAATATTTAGAAATG
1 TTTTAATTAATATTTAGAAATG
1708822 T
1 T
1708823 GCTGTCTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (22 bp):
TTTTAATTAATATTTAGAAATG
Found at i:1722284 original size:85 final size:82
Alignment explanation
Indices: 1722138--1722302 Score: 267
Period size: 85 Copynumber: 2.0 Consensus size: 82
1722128 TTCAAATTCC
* * *
1722138 TAAAATAATATCTTAAATCCTAATTAAAACACTTAAAAGTATTTAAACTAAAATTCCTAAAGATA
1 TAAAATAATATCCTAAATCCTAATAAAAACACTTAAAACTATTTAAACTAAAATTCCTAAAGATA
1722203 AAGATAAAATATAATATAA
66 AA-ATAAAA-ATAATATAA
1722222 TAAAGATAATATCCTAAATCCTAATAAAAACACTTAAAACTATTTAAACTAAAATTCCTAAAGAT
1 TAAA-ATAATATCCTAAATCCTAATAAAAACACTTAAAACTATTTAAACTAAAATTCCTAAAGAT
*
1722287 AAAATTAAAATAATAT
65 AAAATAAAAATAATAT
1722303 CCTAAAAATG
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
83 7 0.09
84 9 0.12
85 60 0.79
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.30
Consensus pattern (82 bp):
TAAAATAATATCCTAAATCCTAATAAAAACACTTAAAACTATTTAAACTAAAATTCCTAAAGATA
AAATAAAAATAATATAA
Found at i:1724960 original size:44 final size:44
Alignment explanation
Indices: 1724897--1724985 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
1724887 ATGTCATGTG
1724897 TTTGTTATTGTCAGAATTGAAATATATGTTGTGCAATAAGGATA
1 TTTGTTATTGTCAGAATTGAAATATATGTTGTGCAATAAGGATA
*
1724941 TTTGTTATTGTCAGAATTGAAATATATGTTGTGCAATCAGGATA
1 TTTGTTATTGTCAGAATTGAAATATATGTTGTGCAATAAGGATA
1724985 T
1 T
1724986 GTGATTGTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.42
Consensus pattern (44 bp):
TTTGTTATTGTCAGAATTGAAATATATGTTGTGCAATAAGGATA
Found at i:1730117 original size:14 final size:14
Alignment explanation
Indices: 1730100--1730135 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1730090 ATTTTATTTA
*
1730100 TTTAATTTCAGTCC
1 TTTAATTTCAGTAC
*
1730114 TTTAATTTCATTAC
1 TTTAATTTCAGTAC
1730128 TTTAATTT
1 TTTAATTT
1730136 TCTATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.25, C:0.14, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTAATTTCAGTAC
Found at i:1730706 original size:30 final size:30
Alignment explanation
Indices: 1730583--1730733 Score: 103
Period size: 30 Copynumber: 5.1 Consensus size: 30
1730573 ATGTTGATTT
* * * *
1730583 TTTTTACTATTTTATTCATTAAAGTTTTTG
1 TTTTTACTATTTTAATCTTTTAAGTTTCTG
* * *
1730613 TTTTT-CTATTTTAAGCTTTTAAGTGTATG
1 TTTTTACTATTTTAATCTTTTAAGTTTCTG
* ** * * *
1730642 TTCTTGTTATTTTAGT-TTCTTAATTTTCTA
1 TTTTTACTATTTTAATCTT-TTAAGTTTCTG
* *
1730672 TTTTTACTATTTTAATCTTTTAACTATCTG
1 TTTTTACTATTTTAATCTTTTAAGTTTCTG
* *
1730702 TTTTTATTATTTTAATAC--TTAAGTTTTTG
1 TTTTTACTATTTTAAT-CTTTTAAGTTTCTG
1730731 TTT
1 TTT
1730734 GTGATATTTT
Statistics
Matches: 92, Mismatches: 25, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
29 35 0.38
30 54 0.59
31 3 0.03
ACGTcount: A:0.21, C:0.08, G:0.07, T:0.64
Consensus pattern (30 bp):
TTTTTACTATTTTAATCTTTTAAGTTTCTG
Found at i:1736134 original size:20 final size:20
Alignment explanation
Indices: 1736093--1736134 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1736083 TGAATGAATA
* **
1736093 ACAATATCGATACTATTTAT
1 ACAATATCGATACCATCGAT
1736113 ACAATATCGATACCATCGAT
1 ACAATATCGATACCATCGAT
1736133 AC
1 AC
1736135 TGGGTGCTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (20 bp):
ACAATATCGATACCATCGAT
Found at i:1740546 original size:13 final size:13
Alignment explanation
Indices: 1740528--1740579 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
1740518 GTCATAAATC
1740528 TATGACGCGCATT
1 TATGACGCGCATT
* *
1740541 TATGACACTCATT
1 TATGACGCGCATT
**
1740554 TATGACGCGCAGG
1 TATGACGCGCATT
*
1740567 TATGACGAGCATT
1 TATGACGCGCATT
1740580 GCGTGTCATT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:1743744 original size:20 final size:21
Alignment explanation
Indices: 1743719--1743789 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 21
1743709 TGGCTAAGGC
1743719 AGTATCGATACCCTAG-GATG
1 AGTATCGATACCCTAGTGATG
* * *
1743739 AGTATCGATGCTCTAGTGTTG
1 AGTATCGATACCCTAGTGATG
*
1743760 GGTATCGATA--CT--TGACTG
1 AGTATCGATACCCTAGTGA-TG
1743778 AGTATCGATACC
1 AGTATCGATACC
1743790 AAATTTCAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
17 2 0.05
18 11 0.28
19 2 0.05
20 14 0.35
21 11 0.28
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (21 bp):
AGTATCGATACCCTAGTGATG
Found at i:1748376 original size:13 final size:13
Alignment explanation
Indices: 1748358--1748409 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
1748348 GTCATAAATC
1748358 TATGACGCGCATT
1 TATGACGCGCATT
* *
1748371 TATGACACTCATT
1 TATGACGCGCATT
**
1748384 TATGACGCGCAGG
1 TATGACGCGCATT
*
1748397 TATGACGAGCATT
1 TATGACGCGCATT
1748410 GCGTGTCATT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:1748573 original size:2 final size:2
Alignment explanation
Indices: 1748566--1748592 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1748556 TGTCGTAAAT
1748566 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1748593 TGTAGATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1754616 original size:14 final size:14
Alignment explanation
Indices: 1754599--1754634 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1754589 ATTTTATTTA
*
1754599 TTTAATTTCAGTCC
1 TTTAATTTCAGTAC
*
1754613 TTTAATTTCATTAC
1 TTTAATTTCAGTAC
1754627 TTTAATTT
1 TTTAATTT
1754635 TCTATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.25, C:0.14, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTAATTTCAGTAC
Found at i:1760989 original size:12 final size:12
Alignment explanation
Indices: 1760959--1760993 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1760949 GTTTTACATC
*
1760959 AAGTTTTTCATT
1 AAGTTTTTCTTT
1760971 AAG-TTTTCTTT
1 AAGTTTTTCTTT
1760982 AAGTTTTTCTTT
1 AAGTTTTTCTTT
1760994 TGGTGTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.63
Consensus pattern (12 bp):
AAGTTTTTCTTT
Found at i:1765533 original size:21 final size:20
Alignment explanation
Indices: 1765509--1765550 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
1765499 ATTGACCATA
*
1765509 AGTTTTGAAACTTCCTACAAG
1 AGTTTCGAAACTTCCTA-AAG
*
1765530 AGTTTCGAAACTTTCTAAAG
1 AGTTTCGAAACTTCCTAAAG
1765550 A
1 A
1765551 AGTAGCCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (20 bp):
AGTTTCGAAACTTCCTAAAG
Found at i:1775770 original size:13 final size:12
Alignment explanation
Indices: 1775737--1775766 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1775727 TAAGAAGGAG
1775737 AGAAAAAGAAAC
1 AGAAAAAGAAAC
1775749 AGAAAAAGAAA-
1 AGAAAAAGAAAC
1775760 AGAAAAA
1 AGAAAAA
1775767 AAGAGGGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAAAC
Found at i:1778351 original size:43 final size:43
Alignment explanation
Indices: 1778282--1778626 Score: 496
Period size: 43 Copynumber: 8.0 Consensus size: 43
1778272 ATAAGAAACT
* * * *
1778282 AAGCTTGAGGAACCATCGTGACATGTAGGGGTTCCTTAATGAC
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
* ** *
1778325 AAGCTTAAGGGACCATTGTGATATGTACGGGTTCCTTGATGAC
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
* *
1778368 AAGCTTGAGGAACCAACGTGATATATAGGGGTTCCTTGATGAC
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
** * *
1778411 AAGCTTGAGAAACCATCGTAATATGTAGGGGTTCCTTGATGAC
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
1778454 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
*
1778497 AAGCTTAAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
* *
1778540 AAGCTTGAGGGACCAATGTGATATGTAGGGCTTCCTTGATGA-
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
* *
1778582 ACA-CTTGAGGGACCAACATGATATGTAGGGGTTCCTTGGTGAC
1 A-AGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
1778625 AA
1 AA
1778627 CTAAGAAACT
Statistics
Matches: 272, Mismatches: 28, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
42 37 0.14
43 235 0.86
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (43 bp):
AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
Found at i:1778931 original size:90 final size:89
Alignment explanation
Indices: 1778654--1779340 Score: 1042
Period size: 90 Copynumber: 7.7 Consensus size: 89
1778644 ATTTTCAAGA
* *
1778654 GTTTCTTGATGATGTAAGTCCTTCGGGCCATCCATAAGACCTTC-GGGCAGGATGTTTTCAAATG
1 GTTTCTTGAT-TTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATG
* *
1778718 AGATTTAAGAAACTAAGCCTTTGGGA
65 AGATTT-AGAAACTAAGCCTTCGGGG
* *
1778744 GTTTCTTGATTTGTAAGTCCTTCGAGCCATCCATAAGACCTTC-GGGCAGGATG-TTTCAAATGA
1 GTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
* *
1778807 GATTTAAAAAACTAAGACTTCGGGG
66 GATTT-AGAAACTAAGCCTTCGGGG
***
1778832 GTTTCTTGATTTGTAAGTCCTTCAATCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1778897 GATTATAGAAACTAAGCCTTCGGGG
66 GATT-TAGAAACTAAGCCTTCGGGG
* * *
1778922 GTTTCTTGATTTGTAAGTCCTTTGGGCCATCCATAAGACCTTCAGTACAAGATGTTTTCAAATGA
1 GTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
*
1778987 GATTATAGAAACTAAGCCTTC-GAG
66 GATT-TAGAAACTAAGCCTTCGGGG
* *
1779011 GTTTCTTGATTTGTAAGTCCTTCAGGCCATGCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1779076 GATTTAAGAAACTAAGCCTTCGGGG
66 GATTT-AGAAACTAAGCCTTCGGGG
* * *
1779101 GTTTCTTGAATTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGTATGATGTTTTCAAATGA
1 GTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
** *
1779166 GATTTTAGAAACTAAGCCTTTAGAG
66 GA-TTTAGAAACTAAGCCTTCGGGG
1779191 GTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1779256 GATTTTAGAAACTAAGCCTTCGGGG
66 GA-TTTAGAAACTAAGCCTTCGGGG
* *
1779281 GTTTCTTGATTTGTAAGTCCTTTGGGCCATCCATAAGACCTTC-GGGCAGGATGTTTTCAA
1 GTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAA
1779341 CATTTCCTTT
Statistics
Matches: 551, Mismatches: 40, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
88 73 0.13
89 147 0.27
90 327 0.59
91 4 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (89 bp):
GTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
GATTTAGAAACTAAGCCTTCGGGG
Found at i:1779078 original size:179 final size:177
Alignment explanation
Indices: 1778654--1779340 Score: 1056
Period size: 179 Copynumber: 3.8 Consensus size: 177
1778644 ATTTTCAAGA
* * *
1778654 GTTTCTTGATGATGTAAGTCCTTCGGGCCATCCATAAGACCTTC-GGGCAGGATGTTTTCAAATG
1 GTTTCTTGAT-TTGTAAGTCCTTCAGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATG
* * *
1778718 AGATTTAAGAAACTAAGCCTTTGGGAGTTTCTTGATTTGTAAGTCCTTCGAGCCATCCATAAGAC
65 AGATTTAAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGAC
* * *
1778783 CTTCGGGCAGGATG-TTTCAAATGAGATTTAAAAAACTAAGACTTCGGGG
130 CTTCGGGCAGGATGTTTTCAAATGAGATTT-AGAAACTAAGCCTTC-GAG
**
1778832 GTTTCTTGATTTGTAAGTCCTTCAATCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTGTAAGTCCTTCAGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
*
1778897 GA-TTATAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTTGGGCCATCCATAAGAC
66 GATTTA-AGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGAC
** *
1778961 CTTCAGTACAAGATGTTTTCAAATGAGATTATAGAAACTAAGCCTTCGAG
130 CTTC-GGGCAGGATGTTTTCAAATGAGATT-TAGAAACTAAGCCTTCGAG
*
1779011 GTTTCTTGATTTGTAAGTCCTTCAGGCCATGCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTGTAAGTCCTTCAGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
*
1779076 GATTTAAGAAACTAAGCCTTCGGGGGTTTCTTGAATTGTAAGTCCTTCGGGCCATCCATAAGACC
66 GATTTAAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACC
* * * *
1779141 TTCAGTGTATGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTTTAGAG
131 TTC-GGGCAGGATGTTTTCAAATGAGA-TTTAGAAACTAAGCC-TTCGAG
*
1779191 GTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTGTAAGTCCTTCAGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
* *
1779256 GATTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTTGGGCCATCCATAAGACC
66 GATTTAAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACC
1779321 TTCGGGCAGGATGTTTTCAA
131 TTCGGGCAGGATGTTTTCAA
1779341 CATTTCCTTT
Statistics
Matches: 469, Mismatches: 32, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
177 32 0.07
178 90 0.19
179 181 0.39
180 165 0.35
181 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (177 bp):
GTTTCTTGATTTGTAAGTCCTTCAGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
GATTTAAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACC
TTCGGGCAGGATGTTTTCAAATGAGATTTAGAAACTAAGCCTTCGAG
Found at i:1779137 original size:269 final size:266
Alignment explanation
Indices: 1778654--1779340 Score: 1072
Period size: 269 Copynumber: 2.6 Consensus size: 266
1778644 ATTTTCAAGA
* *
1778654 GTTTCTTGATGATGTAAGTCCTTCGGGCCATCCATAAGACCTTC-GGGCAGGATGTTTTCAAATG
1 GTTTCTTGAT-TTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATG
*
1778718 AGATTTAAGAAACTAAGCCTTTGGGAGTTTCTTGATTTGTAAGTCCTTCGAGCCATCCATAAGAC
65 AGATTT-AGAAACTAAGCCTTCGGG-GTTTCTTGATTTGTAAGTCCTTCG-GCCATCCATAAGAC
*
1778783 CTTCGGGCAGGATG-TTTCAAATGAGATTTAAAAAACTAAGACTTCGGGGGTTTCTTGATTTGTA
127 CTTCGGGCAGGATGTTTTCAAATGAGATTTAAAAAACTAAGACTTCGGGGGTTTCTTGAATTGTA
*
1778847 AGTCCTTCAATCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTATAGAAACTAA
192 AGTCCTTCAAGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTATAGAAACTAA
* *
1778912 GCCTTCGGGG
257 GCCTTCAGAG
* * *
1778922 GTTTCTTGATTTGTAAGTCCTTTGGGCCATCCATAAGACCTTCAGTACAAGATGTTTTCAAATGA
1 GTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
* *
1778987 GATTATAGAAACTAAGCCTTCGAGGTTTCTTGATTTGTAAGTCCTTCAGGCCATGCATAAGACCT
66 GATT-TAGAAACTAAGCCTTCGGGGTTTCTTGATTTGTAAGTCCTTC-GGCCATCCATAAGACCT
* * *
1779052 TCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACTAAGCCTTCGGGGGTTTCTTGAATTGTAA
129 TC-GGGCAGGATGTTTTCAAATGAGATTTAAAAAACTAAGACTTCGGGGGTTTCTTGAATTGTAA
** * * *
1779117 GTCCTTCGGGCCATCCATAAGACCTTCAGTGTATGATGTTTTCAAATGAGATTTTAGAAACTAAG
193 GTCCTTCAAGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTATAGAAACTAAG
*
1779182 CCTTTAGAG
258 CCTTCAGAG
1779191 GTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
*
1779256 GATTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTTGGGCCATCCATAAGACC
66 GA-TTTAGAAACTAAGCCTTC-GGGGTTTCTTGATTTGTAAGTCC-TTCGGCCATCCATAAGACC
1779321 TTCGGGCAGGATGTTTTCAA
128 TTCGGGCAGGATGTTTTCAA
1779341 CATTTCCTTT
Statistics
Matches: 383, Mismatches: 28, Indels: 15
0.90 0.07 0.04
Matches are distributed among these distances:
267 71 0.19
268 58 0.15
269 210 0.55
270 42 0.11
271 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (266 bp):
GTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
GATTTAGAAACTAAGCCTTCGGGGTTTCTTGATTTGTAAGTCCTTCGGCCATCCATAAGACCTTC
GGGCAGGATGTTTTCAAATGAGATTTAAAAAACTAAGACTTCGGGGGTTTCTTGAATTGTAAGTC
CTTCAAGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTATAGAAACTAAGCCT
TCAGAG
Found at i:1781296 original size:60 final size:59
Alignment explanation
Indices: 1781166--1781299 Score: 148
Period size: 60 Copynumber: 2.3 Consensus size: 59
1781156 TAAATGTTGG
* * * *
1781166 GTTTTTACTATTTTAGTCATTAAAGTTTTTATTTTTCTATTTTAAGCTTTTAAGTGTTT
1 GTTTTTATTATTTTAGTCATTAAAGTTTTTATTTTTCTATTTTAAGCTTTTAACTATCT
* * *
1781225 GTTCTTGTTATTTTAGTTTC-TT-AA-TTTTCTATTTTTACTATTTTAATCTTTTAACTATCT
1 GTTTTTATTATTTTAG--TCATTAAAGTTTT-TATTTTT-CTATTTTAAGCTTTTAACTATCT
1781285 GTTTTTATTATTTTA
1 GTTTTTATTATTTTA
1781300 ATACTTAAGT
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
58 4 0.06
59 22 0.35
60 34 0.55
61 2 0.03
ACGTcount: A:0.21, C:0.08, G:0.07, T:0.63
Consensus pattern (59 bp):
GTTTTTATTATTTTAGTCATTAAAGTTTTTATTTTTCTATTTTAAGCTTTTAACTATCT
Found at i:1786580 original size:15 final size:15
Alignment explanation
Indices: 1786543--1786581 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1786533 CAGATCAAAC
*
1786543 ATCAGATATATTTTA
1 ATCAGATATATGTTA
* *
1786558 TTCGGATATATGTTA
1 ATCAGATATATGTTA
1786573 ATCAGATAT
1 ATCAGATAT
1786582 GTATGTCATT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (15 bp):
ATCAGATATATGTTA
Found at i:1787349 original size:20 final size:20
Alignment explanation
Indices: 1787324--1787368 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
1787314 CGTGGCTATT
1787324 GATACTGAAA-ATTTAGTATC
1 GATACT-AAACATTTAGTATC
*
1787344 GATACTAAACATTTGGTATC
1 GATACTAAACATTTAGTATC
1787364 GATAC
1 GATAC
1787369 CCACCTGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (20 bp):
GATACTAAACATTTAGTATC
Found at i:1787379 original size:20 final size:19
Alignment explanation
Indices: 1787356--1787394 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
1787346 TACTAAACAT
1787356 TTGGTATCGATACCCACCTG
1 TTGGTATCGATACCC-CCTG
1787376 TTGGTATCGATACCCCCTG
1 TTGGTATCGATACCCCCTG
1787395 ACTAATGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.18, C:0.31, G:0.21, T:0.31
Consensus pattern (19 bp):
TTGGTATCGATACCCCCTG
Found at i:1787446 original size:20 final size:20
Alignment explanation
Indices: 1787421--1787491 Score: 133
Period size: 20 Copynumber: 3.5 Consensus size: 20
1787411 TGGTTAAGGC
1787421 AGTATCGATACCCTAGGATG
1 AGTATCGATACCCTAGGATG
1787441 AGTATCGATACCCTAGGATG
1 AGTATCGATACCCTAGGATG
*
1787461 AGTATCGATACCCTATGATG
1 AGTATCGATACCCTAGGATG
1787481 AGTATCGATAC
1 AGTATCGATAC
1787492 TCTGGTGTTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (20 bp):
AGTATCGATACCCTAGGATG
Found at i:1792303 original size:2 final size:2
Alignment explanation
Indices: 1792264--1792295 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1792254 ATATGAAGAA
1792264 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
1792296 TGTATATAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1794597 original size:27 final size:27
Alignment explanation
Indices: 1794555--1794622 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
1794545 CTGTAGGAAT
1794555 TATAGAG--ATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
1794580 TATAGAGATATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
1794607 TATAGAGATATGATTT
1 TATAGAGATATGATTT
1794623 TGTAAATAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 7 0.17
27 34 0.83
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (27 bp):
TATAGAGATATGATTTGTTACCATTCC
Found at i:1796912 original size:17 final size:17
Alignment explanation
Indices: 1796890--1796925 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1796880 AGCTGTTGGC
1796890 TGTAAATGGATCTTTAA
1 TGTAAATGGATCTTTAA
1796907 TGTAAATGGATCTTTAA
1 TGTAAATGGATCTTTAA
1796924 TG
1 TG
1796926 GTAGCATCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (17 bp):
TGTAAATGGATCTTTAA
Found at i:1811755 original size:2 final size:2
Alignment explanation
Indices: 1811744--1811777 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
1811734 CACATTTGGT
*
1811744 TA TA -A TA TA TA TA TA TA TA TA TA GA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1811778 TAGTTTGCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1812745 original size:25 final size:23
Alignment explanation
Indices: 1812711--1812767 Score: 80
Period size: 22 Copynumber: 2.4 Consensus size: 23
1812701 AGTAATCTAC
1812711 ACCAATCTTCCTCCTCTTCCTTATG
1 ACCAATCTT--TCCTCTTCCTTATG
1812736 ACCAATC-TTCCTCTTCCTTATG
1 ACCAATCTTTCCTCTTCCTTATG
*
1812758 ACCACTCTTT
1 ACCAATCTTT
1812768 GTCACAAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 20 0.67
23 2 0.07
24 1 0.03
25 7 0.23
ACGTcount: A:0.18, C:0.39, G:0.04, T:0.40
Consensus pattern (23 bp):
ACCAATCTTTCCTCTTCCTTATG
Found at i:1812750 original size:22 final size:22
Alignment explanation
Indices: 1812722--1812766 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
1812712 CCAATCTTCC
1812722 TCCTCTTCCTTATGACCAATCT
1 TCCTCTTCCTTATGACCAATCT
*
1812744 TCCTCTTCCTTATGACCACTCT
1 TCCTCTTCCTTATGACCAATCT
1812766 T
1 T
1812767 TGTCACAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.16, C:0.38, G:0.04, T:0.42
Consensus pattern (22 bp):
TCCTCTTCCTTATGACCAATCT
Found at i:1814366 original size:19 final size:19
Alignment explanation
Indices: 1814342--1814379 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1814332 ATTTGTTACC
1814342 ATTCCTATAGAGATATGAT
1 ATTCCTATAGAGATATGAT
1814361 ATTCCTATAGAGATATGAT
1 ATTCCTATAGAGATATGAT
1814380 TTTGTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
ATTCCTATAGAGATATGAT
Found at i:1817378 original size:157 final size:157
Alignment explanation
Indices: 1817198--1817521 Score: 607
Period size: 157 Copynumber: 2.1 Consensus size: 157
1817188 CCGTAATATC
1817198 ATAAATTAATCTCAATTTCCAAATAAAAATAAGACTCATAAATATTATTTTAGTGTAAATTATAT
1 ATAAATTAATCTCAATTTCCAAATAAAAATAAGACTCATAAATATTATTTTAGTGTAAATTATAT
1817263 TATATAGTTTTTATACTATAAGAAATAACCTCGTAAGCCATCATTTAATTTTTTTAACAAGATAA
66 TATATAGTTTTTATACTATAAGAAATAACCTCGTAAGCCATCATTTAATTTTTTTAACAAGATAA
1817328 AAACTGTTAATTTATT-AAAATAATATAA
131 AAACTGTTAATTTATTAAAAATAA-A-AA
1817356 ATAAATTAATCTC-ATTTCCAAATAAAAATAAGACTCATAAATATTATTTTAGTGTAAATTATAT
1 ATAAATTAATCTCAATTTCCAAATAAAAATAAGACTCATAAATATTATTTTAGTGTAAATTATAT
1817420 TATATAGTTTTTATACTATAAGAAATAACCTCGTAAGCCATCATTTAATTTTTTTAACAAGATAA
66 TATATAGTTTTTATACTATAAGAAATAACCTCGTAAGCCATCATTTAATTTTTTTAACAAGATAA
1817485 AAACTGTTAATTTATTAAAAATAAAAA
131 AAACTGTTAATTTATTAAAAATAAAAA
*
1817512 TTAAATTAAT
1 ATAAATTAAT
1817522 AAAAAAATTT
Statistics
Matches: 164, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
156 11 0.07
157 133 0.81
158 20 0.12
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (157 bp):
ATAAATTAATCTCAATTTCCAAATAAAAATAAGACTCATAAATATTATTTTAGTGTAAATTATAT
TATATAGTTTTTATACTATAAGAAATAACCTCGTAAGCCATCATTTAATTTTTTTAACAAGATAA
AAACTGTTAATTTATTAAAAATAAAAA
Found at i:1830111 original size:25 final size:25
Alignment explanation
Indices: 1830077--1830136 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
1830067 AGTAATCTAC
1830077 ACCAATCTTCCTCCTCTTCCTTATG
1 ACCAATCTTCCTCCTCTTCCTTATG
1830102 ACCAATCTTCCTCCTCTTCCTTATG
1 ACCAATCTTCCTCCTCTTCCTTATG
*
1830127 ACCACTCTTC
1 ACCAATCTTC
1830137 GTCACAAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.17, C:0.42, G:0.03, T:0.38
Consensus pattern (25 bp):
ACCAATCTTCCTCCTCTTCCTTATG
Done.