Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007744.1 Hibiscus syriacus cultivar Beakdansim tig00110007_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: 4276731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 16
Found at i:1759567 original size:15 final size:15
Alignment explanation
Indices: 1759547--1759579 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1759537 GGTCAACTCC
1759547 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
1759562 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
1759577 GGT
1 GGT
1759580 GGGGTCAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.36, T:0.15
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:1759599 original size:18 final size:18
Alignment explanation
Indices: 1759576--1759610 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1759566 AACGGTCAAC
1759576 GGGTGGGGTCAACGGGTT
1 GGGTGGGGTCAACGGGTT
1759594 GGGTGGGGTCAACGGGT
1 GGGTGGGGTCAACGGGT
1759611 CAGGTAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.57, T:0.20
Consensus pattern (18 bp):
GGGTGGGGTCAACGGGTT
Found at i:1761761 original size:24 final size:24
Alignment explanation
Indices: 1761734--1761785 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1761724 AACGGATATA
*
1761734 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
1761758 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
1761782 TCAA
1 TCAA
1761786 GTAACAGATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:1761786 original size:24 final size:24
Alignment explanation
Indices: 1761754--1761871 Score: 159
Period size: 24 Copynumber: 4.9 Consensus size: 24
1761744 AAACATAAAT
*
1761754 CAGGTCAAGTATCATATCAGAAAT-
1 CAGGTCAAGTATCAGATCAG-AATC
*
1761778 CAGGTCAAGTAACAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
1761802 CAAGTCAAGTATCAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
1761826 CATGTC-AGATATCAGATCAGAATC
1 CAGGTCAAG-TATCAGATCAGAATC
*
1761850 CATGTCAAGTATCAGATCAGAA
1 CAGGTCAAGTATCAGATCAGAA
1761872 ATCAAATCGA
Statistics
Matches: 86, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
23 5 0.06
24 79 0.92
25 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (24 bp):
CAGGTCAAGTATCAGATCAGAATC
Found at i:1761888 original size:48 final size:47
Alignment explanation
Indices: 1761757--1761888 Score: 151
Period size: 48 Copynumber: 2.7 Consensus size: 47
1761747 CATAAATCAG
* *
1761757 GTCAAGTATCATATCAGAAATCAGGTCAAGTAA-CAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAAATCAAGTCAA--AATCAGATCAGAATCCAA
* * *
1761805 GTCAAGTATCAGATCAG-AATCCATGTCAGATATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAAAT-CAAGTCA-AAATCAGATCAGAATCCAA
*
1761853 GTCAAGTATCAGATCAGAAATCAAATCGAAAATCAG
1 GTCAAGTATCAGATCAGAAATCAAGTC-AAAATCAG
1761889 GTAAAATATT
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
47 4 0.06
48 63 0.88
49 5 0.07
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (47 bp):
GTCAAGTATCAGATCAGAAATCAAGTCAAAATCAGATCAGAATCCAA
Found at i:1764338 original size:8 final size:7
Alignment explanation
Indices: 1764317--1764348 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
1764307 TGGTCAACTC
1764317 CGGTCAA
1 CGGTCAA
1764324 CGGTCAA
1 CGGTCAA
1764331 CGGGTCAA
1 C-GGTCAA
1764339 CGGTCAA
1 CGGTCAA
1764346 CGG
1 CGG
1764349 GTGGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.25, C:0.28, G:0.34, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:1764338 original size:15 final size:15
Alignment explanation
Indices: 1764318--1764350 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1764308 GGTCAACTCC
1764318 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
1764333 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
1764348 GGT
1 GGT
1764351 GGGGTCAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.36, T:0.15
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:1764369 original size:18 final size:18
Alignment explanation
Indices: 1764346--1764382 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1764336 CAACGGTCAA
1764346 CGGGTGGGGTCAACGGGT
1 CGGGTGGGGTCAACGGGT
1764364 CGGGTGGGGTCAACGGGT
1 CGGGTGGGGTCAACGGGT
1764382 C
1 C
1764383 AGGTAAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.19, G:0.54, T:0.16
Consensus pattern (18 bp):
CGGGTGGGGTCAACGGGT
Found at i:1764378 original size:31 final size:31
Alignment explanation
Indices: 1764340--1764418 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
1764330 ACGGGTCAAC
* * *
1764340 GGTCAACGGGTGGGGTCAACGGGTCGGGTGG
1 GGTCAACGGGTCGGGTCAACGGGTCCGGTCG
* * * *
1764371 GGTCAACGGGTCAGGTAAATGTGTCCGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCCGGTCG
1764402 GGTCAACGGGTCGGGTC
1 GGTCAACGGGTCGGGTC
1764419 GGGTTATGAC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.15, C:0.19, G:0.47, T:0.19
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTCAACGGGTCCGGTCG
Found at i:1764381 original size:13 final size:13
Alignment explanation
Indices: 1764325--1764368 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
1764315 TCCGGTCAAC
*
1764325 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
*
1764340 GGTCAACGGGTGG
1 GGTCAACGGGTCG
1764353 GGTCAACGGGTCG
1 GGTCAACGGGTCG
1764366 GGT
1 GGT
1764369 GGGGTCAACG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 15 0.58
15 11 0.42
ACGTcount: A:0.18, C:0.20, G:0.45, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:1766529 original size:24 final size:24
Alignment explanation
Indices: 1766502--1766553 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1766492 AACGGATATA
*
1766502 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
1766526 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
1766550 TCAA
1 TCAA
1766554 GTAACAGATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:1766554 original size:24 final size:24
Alignment explanation
Indices: 1766522--1766639 Score: 159
Period size: 24 Copynumber: 4.9 Consensus size: 24
1766512 AAACATAAAT
*
1766522 CAGGTCAAGTATCATATCAGAAAT-
1 CAGGTCAAGTATCAGATCAG-AATC
*
1766546 CAGGTCAAGTAACAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
1766570 CAAGTCAAGTATCAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
1766594 CATGTC-AGATATCAGATCAGAATC
1 CAGGTCAAG-TATCAGATCAGAATC
*
1766618 CATGTCAAGTATCAGATCAGAA
1 CAGGTCAAGTATCAGATCAGAA
1766640 ATCAAATCGA
Statistics
Matches: 86, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
23 5 0.06
24 79 0.92
25 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (24 bp):
CAGGTCAAGTATCAGATCAGAATC
Found at i:1766656 original size:48 final size:47
Alignment explanation
Indices: 1766525--1766656 Score: 151
Period size: 48 Copynumber: 2.7 Consensus size: 47
1766515 CATAAATCAG
* *
1766525 GTCAAGTATCATATCAGAAATCAGGTCAAGTAA-CAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAAATCAAGTCAA--AATCAGATCAGAATCCAA
* * *
1766573 GTCAAGTATCAGATCAG-AATCCATGTCAGATATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAAAT-CAAGTCA-AAATCAGATCAGAATCCAA
*
1766621 GTCAAGTATCAGATCAGAAATCAAATCGAAAATCAG
1 GTCAAGTATCAGATCAGAAATCAAGTC-AAAATCAG
1766657 GTAAAATATT
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
47 4 0.06
48 63 0.88
49 5 0.07
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (47 bp):
GTCAAGTATCAGATCAGAAATCAAGTCAAAATCAGATCAGAATCCAA
Found at i:1769140 original size:18 final size:18
Alignment explanation
Indices: 1769113--1769189 Score: 74
Period size: 18 Copynumber: 4.6 Consensus size: 18
1769103 CAACGGTCAA
1769113 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
1769131 CGGGTGGGGTCAA-----
1 CGGGTCGGGTCAACGGGT
* * *
1769144 CGGGTCAGGTAAATGGGT
1 CGGGTCGGGTCAACGGGT
*
1769162 CCGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
1769180 CGGGTCGGGT
1 CGGGTCGGGT
1769190 TATGACCGGT
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
13 10 0.22
18 35 0.78
ACGTcount: A:0.13, C:0.19, G:0.49, T:0.18
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:1769145 original size:31 final size:31
Alignment explanation
Indices: 1769107--1769185 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
1769097 ACGGGTCAAC
* *
1769107 GGTCAACGGGTCGGGTCAACGGGTCGGGTGG
1 GGTCAACGGGTCGGGTCAACGGGTCCGGTCG
* * *
1769138 GGTCAACGGGTCAGGTAAATGGGTCCGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCCGGTCG
1769169 GGTCAACGGGTCGGGTC
1 GGTCAACGGGTCGGGTC
1769186 GGGTTATGAC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.15, C:0.20, G:0.47, T:0.18
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTCAACGGGTCCGGTCG
Found at i:1769148 original size:13 final size:13
Alignment explanation
Indices: 1769090--1769135 Score: 65
Period size: 13 Copynumber: 3.4 Consensus size: 13
1769080 CTCCGGTCAA
1769090 CGGGTCAACGGGT
1 CGGGTCAACGGGT
*
1769103 CAACGGTCAACGGGT
1 C--GGGTCAACGGGT
1769118 CGGGTCAACGGGT
1 CGGGTCAACGGGT
1769131 CGGGT
1 CGGGT
1769136 GGGGTCAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.17, C:0.24, G:0.43, T:0.15
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:1769150 original size:8 final size:8
Alignment explanation
Indices: 1769084--1769131 Score: 68
Period size: 8 Copynumber: 6.5 Consensus size: 8
1769074 GGTCAACTCC
1769084 GGTCAACG
1 GGTCAACG
1769092 GGTCAACG
1 GGTCAACG
1769100 GGTCAAC-
1 GGTCAACG
1769107 GGTCAACG
1 GGTCAACG
1769115 GGT---CG
1 GGTCAACG
1769120 GGTCAACG
1 GGTCAACG
1769128 GGTC
1 GGTC
1769132 GGGTGGGGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.14
7 7 0.19
8 24 0.67
ACGTcount: A:0.21, C:0.25, G:0.40, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:1771827 original size:26 final size:26
Alignment explanation
Indices: 1771787--1771845 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
1771777 AAGGCACTAA
*
1771787 GTGTA-TATAGTGGGCACGACCTTAT
1 GTGTATTATAGTGGGCACGACATTAT
*
1771812 GTGTATTATGGTGGGCACGACATTAT
1 GTGTATTATAGTGGGCACGACATTAT
*
1771838 ATGTATTA
1 GTGTATTA
1771846 GCACTTCAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (26 bp):
GTGTATTATAGTGGGCACGACATTAT
Found at i:1773677 original size:17 final size:17
Alignment explanation
Indices: 1773640--1773703 Score: 92
Period size: 17 Copynumber: 3.7 Consensus size: 17
1773630 TGTTTCTGAG
* *
1773640 GGAATTGGAAACTGTGAA
1 GGAATTGGAATCTGT-CA
*
1773658 GGAATTGAAATCTGTCA
1 GGAATTGGAATCTGTCA
1773675 GGAATTGGAATCTGTCA
1 GGAATTGGAATCTGTCA
1773692 GGAATTGGAATC
1 GGAATTGGAATC
1773704 CAATTCCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
17 29 0.69
18 13 0.31
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (17 bp):
GGAATTGGAATCTGTCA
Found at i:1773732 original size:38 final size:38
Alignment explanation
Indices: 1773690--1773774 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 38
1773680 TGGAATCTGT
1773690 CAGGAATTGGAATCCAATTCCATATTCTGTTTGGTTGGCAGG
1 CAGGAATTGGAATCCAATTCCATATTCTGTTTGGTT--C--G
*
1773732 AAATGGAATTGGAATCCAATTCCATATTCTGTTTGGTTCG
1 -CA-GGAATTGGAATCCAATTCCATATTCTGTTTGGTTCG
1773772 CAG
1 CAG
1773775 ACATGTCAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
38 1 0.03
39 1 0.03
40 1 0.03
42 1 0.03
43 1 0.03
44 34 0.87
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (38 bp):
CAGGAATTGGAATCCAATTCCATATTCTGTTTGGTTCG
Found at i:1779088 original size:105 final size:105
Alignment explanation
Indices: 1778906--1779258 Score: 526
Period size: 105 Copynumber: 3.4 Consensus size: 105
1778896 TTTGTCAGAT
* * * *
1778906 GAGTTCTTCTCATTATGAACTCTTCTAGAAATATTGATTCACCTCCTTCTGGGGTGAATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTGCGGTGGATTTGAAA
* * **
1778971 GGAACAAGCTCTTCTTATTACAAACCTTCTCCTTTAAAAC
66 GGAACAAGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
* * *
1779011 GAGTTATTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGATA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTGCGGTGGATTTGAAA
* * *
1779076 GGAACATGCTCTTCTCATTATGAACCTTCTCATTTAGGAC
66 GGAACAAGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
*
1779116 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTTACCTCCTTCTGCGGTGGATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTGCGGTGGATTTGAAA
* * *
1779181 GGAACAAGTTCTTCTCATTGCGAACTTTCTCCTTTAGGAC
66 GGAACAAGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
* *
1779221 GAGTTTTTCTCATTATGAACTCTTATGGAAATGTTGAT
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGAT
1779259 CGGTTTAACC
Statistics
Matches: 222, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
105 222 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.38
Consensus pattern (105 bp):
GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTGCGGTGGATTTGAAA
GGAACAAGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
Found at i:1780355 original size:52 final size:52
Alignment explanation
Indices: 1780295--1780488 Score: 203
Period size: 52 Copynumber: 3.8 Consensus size: 52
1780285 TGAATATCAT
1780295 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTAAAAACTCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTAAAAACTCATTTGAAAA
* * * * * ** * *
1780347 TATCAAGAAATCTCTAAAAATTAGGCTTAATTTCTTTAAATTCATTTAAAAA
1 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTAAAAACTCATTTGAAAA
* * * * *** *
1780399 CATTAAGAAACCCCT-AAAATTAGGTTTAGCTTCTTTCAAGTCCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTAAAAACT-CATTTGAAAA
*
1780451 CA-CGAGAAACCCCTAAAAATCAGGCTTAGTTTCTAAAA
1 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTAAAA
1780489 GTGTTCTTTT
Statistics
Matches: 113, Mismatches: 27, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
51 31 0.27
52 82 0.73
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.30
Consensus pattern (52 bp):
CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTAAAAACTCATTTGAAAA
Found at i:1780688 original size:74 final size:75
Alignment explanation
Indices: 1780554--1780732 Score: 193
Period size: 74 Copynumber: 2.4 Consensus size: 75
1780544 AGGGAAACTA
* * * * * * *
1780554 TCTCAAGCGAGATAAATTTTGGTTTTAAGAAAAACAATTTTGAGTGAAATGAATATTCTTGTTTT
1 TCTCAAGCGAGACAAAATAT-GTTTTAAGAAAAACAATTGTGAATGAAACGAATATTCTTGTTGT
*
1780619 GAG-CAAAATG
65 GAGAAAAAATG
* *
1780629 TCTTAAGCGAGACAAAATATGTTTTAAGAAAAATAAGTTGT-AATGAAACGAA-ATGTCTTGTTG
1 TCTCAAGCGAGACAAAATATGTTTTAAGAAAAACAA-TTGTGAATGAAACGAATAT-TCTTGTTG
1780692 TGAGAAAAAAATG
64 TGAG-AAAAAATG
* *
1780705 TCTCAAGCGAGACAAAGTCTGTTTTAAG
1 TCTCAAGCGAGACAAAATATGTTTTAAG
1780733 GGAAACTATC
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
73 2 0.02
74 35 0.40
75 19 0.22
76 31 0.36
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.32
Consensus pattern (75 bp):
TCTCAAGCGAGACAAAATATGTTTTAAGAAAAACAATTGTGAATGAAACGAATATTCTTGTTGTG
AGAAAAAATG
Found at i:1780753 original size:36 final size:35
Alignment explanation
Indices: 1780705--1780818 Score: 122
Period size: 36 Copynumber: 3.2 Consensus size: 35
1780695 GAAAAAAATG
* *
1780705 TCTCAAGCGAGACAAAGTCTGTTTTAAGGGAAACTA
1 TCTCAAGAGAGACAAA-TTTGTTTTAAGGGAAACTA
* * *
1780741 TCTCAAGAGAGACAAAATTTGTTTTAAGAGAAATTG
1 TCTCAAGAGAGAC-AAATTTGTTTTAAGGGAAACTA
* *
1780777 TCTCAAGGGAGACAAATTTTTTTTCAAGGGAAACATA
1 TCTCAAGAGAGACAAATTTGTTTT-AAGGGAAAC-TA
1780814 T-TCAA
1 TCTCAA
1780819 AGATTTTGTT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
35 10 0.15
36 50 0.77
37 5 0.08
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (35 bp):
TCTCAAGAGAGACAAATTTGTTTTAAGGGAAACTA
Found at i:1780986 original size:37 final size:37
Alignment explanation
Indices: 1780945--1781318 Score: 194
Period size: 37 Copynumber: 10.8 Consensus size: 37
1780935 GAGATGATGC
*
1780945 TTGTTTTGAGAGAAAAATATCTCAAGTGAAACAAAAT
1 TTGTTTTAAGAGAAAAATATCTCAAGTGAAACAAAAT
* * *
1780982 TTGTTTTAAGAGAAAAATGTCTCAAGCGAGACAAAAT
1 TTGTTTTAAGAGAAAAATATCTCAAGTGAAACAAAAT
* * * * **
1781019 TTGTTTTTA-AGAAAAACAACT---TTG-AA-ATTA-
1 TTGTTTTAAGAGAAAAATATCTCAAGTGAAACAAAAT
* *
1781049 TTG--TTACGAAGAAAAATGTCTCAAGTGAAACAAAAT
1 TTGTTTTAAG-AGAAAAATATCTCAAGTGAAACAAAAT
*
1781085 TTGTTTCAAGAGAAAAATGA-CTCAAGTGAAACAAAAT
1 TTGTTTTAAGAGAAAAAT-ATCTCAAGTGAAACAAAAT
* * * *
1781122 TTGTTTTTA-AGAAAAACAACT---TTG-----AAAT
1 TTGTTTTAAGAGAAAAATATCTCAAGTGAAACAAAAT
* ** **
1781150 TTGTGTTCCGAAGAAAAATGA-CTCAAGTGAAATGAAAT
1 TTGTTTTAAG-AGAAAAAT-ATCTCAAGTGAAACAAAAT
* * *
1781188 TTGTTTTAAGAGAAAAATGTCTCAAGTTAGACAAAAT
1 TTGTTTTAAGAGAAAAATATCTCAAGTGAAACAAAAT
* * * *
1781225 TTGTTTTTA-AGAAAAACAACT---TTG-----AAAT
1 TTGTTTTAAGAGAAAAATATCTCAAGTGAAACAAAAT
* ** *
1781253 TTGTGTTCCGACGAAAAATGTCTCAAGTGAAACAAAAT
1 TTGTTTTAAGA-GAAAAATATCTCAAGTGAAACAAAAT
*
1781291 TTGTTTTAAGAGAAAAATGTCTCAAGTG
1 TTGTTTTAAGAGAAAAATATCTCAAGTG
1781319 GGACGACATT
Statistics
Matches: 246, Mismatches: 57, Indels: 68
0.66 0.15 0.18
Matches are distributed among these distances:
28 22 0.09
29 1 0.00
30 29 0.12
31 3 0.01
32 1 0.00
33 10 0.04
34 2 0.01
35 3 0.01
36 30 0.12
37 119 0.48
38 26 0.11
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (37 bp):
TTGTTTTAAGAGAAAAATATCTCAAGTGAAACAAAAT
Found at i:1781094 original size:21 final size:21
Alignment explanation
Indices: 1781069--1781127 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 21
1781059 GAAAAATGTC
1781069 TCAAGTGAAACAAAATTTGTT
1 TCAAGTGAAACAAAATTTGTT
* **
1781090 TCAA--GAGA-AAAA--TGAC
1 TCAAGTGAAACAAAATTTGTT
1781106 TCAAGTGAAACAAAATTTGTT
1 TCAAGTGAAACAAAATTTGTT
1781127 T
1 T
1781128 TTAAGAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 10
0.63 0.14 0.23
Matches are distributed among these distances:
16 6 0.22
18 7 0.26
19 7 0.26
21 7 0.26
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (21 bp):
TCAAGTGAAACAAAATTTGTT
Found at i:1781251 original size:65 final size:67
Alignment explanation
Indices: 1781182--1781307 Score: 184
Period size: 66 Copynumber: 1.9 Consensus size: 67
1781172 TCAAGTGAAA
* * * *
1781182 TGAAATTTGTTTTAAGA-GAAAAATGTCTCAAGTTAGACAAAATTTGTTTTTA-AGAAAAACAAC
1 TGAAATTTGTGTTAAGACGAAAAATGTCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAACAAC
1781245 TT
66 TT
**
1781247 TGAAATTTGTGTTCCGACGAAAAATGTCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAA
1 TGAAATTTGTGTTAAGACGAAAAATGTCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAA
1781308 TGTCTCAAGT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 14 0.26
66 32 0.60
67 7 0.13
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.33
Consensus pattern (67 bp):
TGAAATTTGTGTTAAGACGAAAAATGTCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAACAAC
TT
Found at i:1781347 original size:103 final size:103
Alignment explanation
Indices: 1780955--1781318 Score: 613
Period size: 103 Copynumber: 3.5 Consensus size: 103
1780945 TTGTTTTGAG
* *
1780955 AGAAAAATATCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATGTCTCAAGCGAGACAAAATT
1 AGAAAAATGTCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATT
*
1781020 TGTTTTTAAGAAAAACAACTTTGAAATTAT-TGTTACGA
66 TGTTTTTAAGAAAAACAACTTTGAAATT-TGTGTTCCGA
* * *
1781058 AGAAAAATGTCTCAAGTGAAACAAAATTTGTTTCAAGAGAAAAATGACTCAAGTGAAACAAAATT
1 AGAAAAATGTCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATT
1781123 TGTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGA
66 TGTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGA
* ** *
1781161 AGAAAAATGACTCAAGTGAAATGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTTAGACAAAATT
1 AGAAAAATGTCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATT
1781226 TGTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGA
66 TGTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGA
*
1781264 CGAAAAATGTCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATGTCTCAAGTG
1 AGAAAAATGTCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATGTCTCAAGTG
1781319 GGACGACATT
Statistics
Matches: 242, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
102 1 0.00
103 241 1.00
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (103 bp):
AGAAAAATGTCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATT
TGTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGA
Found at i:1785191 original size:6 final size:6
Alignment explanation
Indices: 1785164--1785241 Score: 102
Period size: 6 Copynumber: 13.0 Consensus size: 6
1785154 AAATGTAATG
* * * * * *
1785164 ATGCAA ATGCAG ATACAA ATGCAT ATGCAA ATACAT ATGCAA ATGCAG
1 ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA
1785212 ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA
1 ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA
1785242 TGAAGGTGTT
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (6 bp):
ATGCAA
Found at i:1792748 original size:21 final size:21
Alignment explanation
Indices: 1792723--1792762 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1792713 AGTATGTCCA
1792723 GGGGGTATCGATTCCCCCCCG
1 GGGGGTATCGATTCCCCCCCG
*
1792744 GGGGGTATCGATTTCCCCC
1 GGGGGTATCGATTCCCCCC
1792763 TAAAGGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.35, G:0.33, T:0.23
Consensus pattern (21 bp):
GGGGGTATCGATTCCCCCCCG
Found at i:1798506 original size:21 final size:21
Alignment explanation
Indices: 1798481--1798521 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1798471 AGTATGTCCA
1798481 GGGGGTATCGATTCCCCCCTG
1 GGGGGTATCGATTCCCCCCTG
*
1798502 GGGGGTATCGATTTCCCCCT
1 GGGGGTATCGATTCCCCCCT
1798522 AAAGGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.32, G:0.32, T:0.27
Consensus pattern (21 bp):
GGGGGTATCGATTCCCCCCTG
Found at i:1802763 original size:15 final size:16
Alignment explanation
Indices: 1802745--1802778 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1802735 TTTGAATCTT
*
1802745 TGAGGTTTA-GGGTTA
1 TGAGATTTAGGGGTTA
1802760 TGAGATTTAGGGGTTA
1 TGAGATTTAGGGGTTA
1802776 TGA
1 TGA
1802779 AAAATAGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGAGATTTAGGGGTTA
Found at i:1804594 original size:35 final size:35
Alignment explanation
Indices: 1804533--1804803 Score: 249
Period size: 35 Copynumber: 7.7 Consensus size: 35
1804523 AGAATGAAAG
* * *
1804533 GAAGTATCACACATGCGATTCAAGTCGAACGGAAT
1 GAAGCATCACACTTTCGATTCAAGTCGAACGGAAT
* * * *
1804568 GAAACATCTCACTTTCGATTTAAGTCGAACAGAAT
1 GAAGCATCACACTTTCGATTCAAGTCGAACGGAAT
* * * * *
1804603 GAGGTATCACACTTTTGATTCAAGTAGAATGGAAAT
1 GAAGCATCACACTTTCGATTCAAGTCGAACGG-AAT
* * * *
1804639 -AAACATCCCACTTTCGATTCAAGTAGAACGGAAG
1 GAAGCATCACACTTTCGATTCAAGTCGAACGGAAT
** * * *
1804673 GAAGCATTGCACTTTCGATTTAAGTCGAATGGAAA
1 GAAGCATCACACTTTCGATTCAAGTCGAACGGAAT
* * *
1804708 GAAGGATCATACTTTCGATTCAAGTCCAACGGAAT
1 GAAGCATCACACTTTCGATTCAAGTCGAACGGAAT
* * * * *
1804743 GAGGCATCACCCTTTCAATTCAAGTAGAAC-GAAA
1 GAAGCATCACACTTTCGATTCAAGTCGAACGGAAT
1804777 GAAAGCATCACACTTTCGATTCAAGTC
1 G-AAGCATCACACTTTCGATTCAAGTC
1804804 AAAAGAAAGG
Statistics
Matches: 183, Mismatches: 50, Indels: 6
0.77 0.21 0.03
Matches are distributed among these distances:
34 6 0.03
35 174 0.95
36 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (35 bp):
GAAGCATCACACTTTCGATTCAAGTCGAACGGAAT
Found at i:1804651 original size:70 final size:70
Alignment explanation
Indices: 1804538--1804803 Score: 282
Period size: 70 Copynumber: 3.8 Consensus size: 70
1804528 GAAAGGAAGT
* * * * * * * *
1804538 ATCACACATGCGATTCAAGTCGAACGGAATGAAACATCTCACTTTCGATTTAAGTCGAACAGAAT
1 ATCACACTTTCGATTCAAGTAGAATGGAAAGAAACATCACACTTTCGATTCAAGTCGAACGGAAT
*
1804603 GAGGT
66 GAGGC
* * * * *
1804608 ATCACACTTTTGATTCAAGTAGAATGGAAATAAACATCCCACTTTCGATTCAAGTAGAACGGAAG
1 ATCACACTTTCGATTCAAGTAGAATGGAAAGAAACATCACACTTTCGATTCAAGTCGAACGGAAT
*
1804673 GAAGC
66 GAGGC
** * * ** * *
1804678 ATTGCACTTTCGATTTAAGTCGAATGGAAAGAAGGATCATACTTTCGATTCAAGTCCAACGGAAT
1 ATCACACTTTCGATTCAAGTAGAATGGAAAGAAACATCACACTTTCGATTCAAGTCGAACGGAAT
1804743 GAGGC
66 GAGGC
* * *
1804748 ATCACCCTTTCAATTCAAGTAGAA-CGAAAGAAAGCATCACACTTTCGATTCAAGTC
1 ATCACACTTTCGATTCAAGTAGAATGGAAAGAAA-CATCACACTTTCGATTCAAGTC
1804804 AAAAGAAAGG
Statistics
Matches: 157, Mismatches: 38, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
69 7 0.04
70 150 0.96
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (70 bp):
ATCACACTTTCGATTCAAGTAGAATGGAAAGAAACATCACACTTTCGATTCAAGTCGAACGGAAT
GAGGC
Found at i:1804722 original size:105 final size:104
Alignment explanation
Indices: 1804548--1804812 Score: 277
Period size: 105 Copynumber: 2.5 Consensus size: 104
1804538 ATCACACATG
* * * *
1804548 CGATTCAAGTCGAACGGAATGAAACATCTCACTTTCGATTTAAGTCGAACAGAATGAGGTATCAC
1 CGATTCAAGTAGAACGGAAGGAAGCAT-TCACTTTCGATTTAAGTCGAACAGAAAGAGGTATCAC
* * *
1804613 ACTTTTGATTCAAGTAGAATGGAAAT-AAACATC-CCACTTT
65 ACTTTCGATTCAAGTACAACGG-AATGAAACATCACC-CTTT
**
1804653 CGATTCAAGTAGAACGGAAGGAAGCATTGCACTTTCGATTTAAGTCGAATGGAAAGAAGG-ATCA
1 CGATTCAAGTAGAACGGAAGGAAGCATT-CACTTTCGATTTAAGTCGAACAGAAAG-AGGTATCA
* * **
1804717 TACTTTCGATTCAAGTCCAACGGAATGAGGCATCACCCTTT
64 CACTTTCGATTCAAGTACAACGGAATGAAACATCACCCTTT
* * * * * *
1804758 CAATTCAAGTAGAACGAAAGAAAGCATCACACTTTCGATTCAAGTC-AAAAGAAAG
1 CGATTCAAGTAGAACGGAAGGAAGCAT-TCACTTTCGATTTAAGTCGAACAGAAAG
1804813 GAATCATTGC
Statistics
Matches: 135, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
104 11 0.08
105 119 0.88
106 5 0.04
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (104 bp):
CGATTCAAGTAGAACGGAAGGAAGCATTCACTTTCGATTTAAGTCGAACAGAAAGAGGTATCACA
CTTTCGATTCAAGTACAACGGAATGAAACATCACCCTTT
Found at i:1804834 original size:70 final size:70
Alignment explanation
Indices: 1804548--1804837 Score: 210
Period size: 70 Copynumber: 4.1 Consensus size: 70
1804538 ATCACACATG
* * * * * * * * *
1804548 CGATTCAAGTCGAA-CGGAATGAAACATCTCACTTTCGATTTAAGTCGAACAG-AATGAGGTATC
1 CGATTCAAGTAGAATC-GAAAGAAACATCACACTTTCGATTCAAGTC-AAAAGAAAGGAAGCATT
*
1804611 ACACTTT
64 GCACTTT
* * * * * *
1804618 TGATTCAAGTAGAATGGAAATAAACATCCCACTTTCGATTCAAGT-AGAACGGAAGGAAGCATTG
1 CGATTCAAGTAGAATCGAAAGAAACATCACACTTTCGATTCAAGTCA-AAAGAAAGGAAGCATTG
1804682 CACTTT
65 CACTTT
* * * ** * * * * * * **
1804688 CGATTTAAGTCGAATGGAAAGAAGGATCATACTTTCGATTCAAGTCCAACGGAATGAGGCATCAC
1 CGATTCAAGTAGAATCGAAAGAAACATCACACTTTCGATTCAAGTCAAAAGAAAGGAAGCATTGC
*
1804753 CCTTT
66 ACTTT
* *
1804758 CAATTCAAGTAGAA-CGAAAGAAAGCATCACACTTTCGATTCAAGTCAAAAGAAAGGAATCATTG
1 CGATTCAAGTAGAATCGAAAGAAA-CATCACACTTTCGATTCAAGTCAAAAGAAAGGAAGCATTG
*
1804822 CATTTT
65 CACTTT
*
1804828 TGATTCAAGT
1 CGATTCAAGT
1804838 GTTCATCTTT
Statistics
Matches: 168, Mismatches: 47, Indels: 10
0.75 0.21 0.04
Matches are distributed among these distances:
68 1 0.01
69 9 0.05
70 158 0.94
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (70 bp):
CGATTCAAGTAGAATCGAAAGAAACATCACACTTTCGATTCAAGTCAAAAGAAAGGAAGCATTGC
ACTTT
Found at i:1805534 original size:20 final size:20
Alignment explanation
Indices: 1805502--1805543 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1805492 AAAATCATAA
1805502 AAAATCAACTTATATTA-AAT
1 AAAATCAACTTAT-TTACAAT
1805522 AAAA-CAACATTATTTACAAT
1 AAAATCAAC-TTATTTACAAT
1805542 AA
1 AA
1805544 TTTAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATCAACTTATTTACAAT
Found at i:1806147 original size:23 final size:22
Alignment explanation
Indices: 1806117--1806256 Score: 163
Period size: 23 Copynumber: 6.1 Consensus size: 22
1806107 TGTCATATAA
1806117 AATTGTCCCAAAGGACCTCGTAG
1 AATTGTCCCAAA-GACCTCGTAG
*
1806140 AATTGTCCCGAATGACCTCGTAG
1 AATTGTCCC-AAAGACCTCGTAG
*
1806163 AATTGTCCTGAAAGACCTCGTAG
1 AATTGTCC-CAAAGACCTCGTAG
* *
1806186 AATTATCCCGAATGACCTCGTAG
1 AATTGTCCC-AAAGACCTCGTAG
* *
1806209 AATTGTCCTGAAAGACCTCATAG
1 AATTGTCC-CAAAGACCTCGTAG
*
1806232 AATTGTCCCGAAGGACCTCGTAG
1 AATTGTCCC-AAAGACCTCGTAG
1806255 AA
1 AA
1806257 CCCTCGACTC
Statistics
Matches: 99, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
23 97 0.98
24 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (22 bp):
AATTGTCCCAAAGACCTCGTAG
Found at i:1806167 original size:46 final size:46
Alignment explanation
Indices: 1806117--1806256 Score: 228
Period size: 46 Copynumber: 3.0 Consensus size: 46
1806107 TGTCATATAA
*
1806117 AATTGTCC-CAAAGGACCTCGTAGAATTGTCCCGAATGACCTCGTAG
1 AATTGTCCTGAAA-GACCTCGTAGAATTGTCCCGAATGACCTCGTAG
*
1806163 AATTGTCCTGAAAGACCTCGTAGAATTATCCCGAATGACCTCGTAG
1 AATTGTCCTGAAAGACCTCGTAGAATTGTCCCGAATGACCTCGTAG
* *
1806209 AATTGTCCTGAAAGACCTCATAGAATTGTCCCGAAGGACCTCGTAG
1 AATTGTCCTGAAAGACCTCGTAGAATTGTCCCGAATGACCTCGTAG
1806255 AA
1 AA
1806257 CCCTCGACTC
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
46 85 0.97
47 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (46 bp):
AATTGTCCTGAAAGACCTCGTAGAATTGTCCCGAATGACCTCGTAG
Found at i:1811802 original size:134 final size:134
Alignment explanation
Indices: 1811533--1812780 Score: 952
Period size: 134 Copynumber: 9.4 Consensus size: 134
1811523 AATCGAGTGT
* * * * *
1811533 GATTTGCTTCACTGTTCTTCAGGAAGACCAAATCTGAAAGAAG--GCATGTGTGCTTCACTACTC
1 GATTTGCTTCACTGCTCTTCAAGAAGACCAAATCTGAAAGAAGAAG-A-ATCTGCTCCACTACTC
* * * *
1811596 TTTAGGGGAGATCAGA--C-ATG-CAATTTTGATCCACTTCGCTGCTCTT-TAGTGAAGATTGAA
64 TTTAGGGGAGATCAGACTCGA-GAAAACTTTGATCCACTTCACTGCTCTTCAAG-GAAGATTGAA
1811656 TCATAATC
127 TCATAATC
* * * * *
1811664 GATTTGCATCGCTGCTCTTCAAGAAGACTAAATCT-AAACGAAGAAGAATCTGCTCCACTATTTT
1 GATTTGCTTCACTGCTCTTCAAGAAGACCAAATCTGAAA-GAAGAAGAATCTGCTCCACTACTCT
* * *
1811728 TTAAGGGAGATCAGACTCGAGAAAACTTTGATCGACTTCACTACTCTTCAAGGAAGATTGAATCA
65 TTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTGCTCTTCAAGGAAGATTGAATCA
*
1811793 TAATT
130 TAATC
* * * * * * *
1811798 GATTTGCTTCACGGCTCTTCAGGAACATCAAATCTTAAATAAG--GCATATATGCTCCACTAC-C
1 GATTTGCTTCACTGCTCTTCAAGAAGACCAAATCTGAAAGAAGAAG-A-ATCTGCTCCACTACTC
* * * ** * *
1811860 TTTTAGGGGAGATTAGA--C-ATG-TAATTTTGATCCACTTCGTTGCTCTTAAAGGGAGATTGAA
64 -TTTAGGGGAGATCAGACTCGA-GAAAACTTTGATCCACTTCACTGCTCTTCAAGGAAGATTGAA
*
1811921 TCAGAATC
127 TCATAATC
* * * ** * * * *
1811929 AATTTGCTTCGCTACTCTTCCGGAAGGCCAAATCTGATAGAAGAAGAATCTAG-TCCATTACTTT
1 GATTTGCTTCACTGCTCTTCAAGAAGACCAAATCTGAAAGAAGAAGAATCT-GCTCCACTACTCT
* * * * * * * *
1811993 TTATGGGAGACCAGACTCGAGAAAACTTTTATCCACTTTATTGCTCTTTAGGGAAGGTTGAATCA
65 TTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTGCTCTTCAAGGAAGATTGAATCA
1812058 TAATC
130 TAATC
* * ** * * *
1812063 GATTTTCTTCACTACTCTTC-AGAAAGACCAAATCTGAAAGAAGGTGGATCTGTTCCACTATTCT
1 GATTTGCTTCACTGCTCTTCAAG-AAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCT
* * * ** * *
1812127 TTAGGGGAGATCA-A-AC-ATG-TAATTTTGATCTGCTTCACAGCTCTT-AAGGGAATATTGAAT
65 TTAGGGGAGATCAGACTCGA-GAAAACTTTGATCCACTTCACTGCTCTTCAA-GGAAGATTGAAT
*
1812187 CAGAATC
128 CATAATC
* * * * ** * *
1812194 AATTTGCTTCACTGCTCTTCGAGAAGACCAAATATGAAAGAAGTATCATTTACTCCACTACTCTT
1 GATTTGCTTCACTGCTCTTCAAGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTT
* * * * * * * *
1812259 TATGGGATATCAGACTCGAGAAATCTTTGATCTACTTCATTGCTCTTTATGAAAGA--GAATCGA
66 TAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTGCTCTTCAAGGAAGATTGAATC-A
1812322 -AGAT-
130 TA-ATC
* * * * * *
1812326 GATTTGCTTCGCTGCTATTCAGGAAGACGAAATCTGAAAGAAGAAGAATCTGTTCCACTACTATT
1 GATTTGCTTCACTGCTCTTCAAGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTT
* ** **
1812391 TAGGGGAGATCAGACTCGAGAAAACTTTGATCCACCTCACTATTCTTCTGGGAAGATTGAATCAT
66 TAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTGCTCTTCAAGGAAGATTGAATCAT
1812456 AATC
131 AATC
* * * * *
1812460 GATTTTCTTCAATACTATT-AAGGAAGA-CAAATCTGAAAGAAGACACG--CCTGCTCCACTACT
1 GATTTGCTTCACTGCTCTTCAA-GAAGACCAAATCTGAAAGAAGA-A-GAATCTGCTCCACTACT
* * * **
1812521 CTTTAGGGGAAATCAGACTCGAGAAAATTTTGACCCACTTCACTGCTCTTCGGGGAAGATTGAAT
63 CTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTGCTCTTCAAGGAAGATTGAAT
* *
1812586 C-GAATGT
128 CATAAT-C
** * * *
1812593 GATTTGCTT-ATCTTTTATTCAGGAAGACCAAAGCTGAAAGAAGAAGAATCTGCTCCACTACTCT
1 GATTTGCTTCA-CTGCTCTTCAAGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCT
* * * *
1812657 TTAGGGGAGATCAGACTCGAGAAAA-TTTGATCCACTTCCCTGCTCTTCATA-AAAGAGTAAATC
65 TTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTGCTCTTCA-AGGAAGATTGAATC
*
1812720 -GAA-C
129 ATAATC
* * * *
1812724 GTGATTTGCTTCGCTGCTCTTCAGGAAG-CCAAATCTGAAA-ATCGAAGAATCTTCTCC
1 --GATTTGCTTCACTGCTCTTCAAGAAGACCAAATCTGAAAGA-AGAAGAATCTGCTCC
1812781 CCTATTCTGT
Statistics
Matches: 880, Mismatches: 186, Indels: 101
0.75 0.16 0.09
Matches are distributed among these distances:
130 4 0.00
131 250 0.28
132 141 0.16
133 177 0.20
134 301 0.34
135 7 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (134 bp):
GATTTGCTTCACTGCTCTTCAAGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTT
TAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTGCTCTTCAAGGAAGATTGAATCAT
AATC
Found at i:1812010 original size:265 final size:264
Alignment explanation
Indices: 1811532--1812763 Score: 1000
Period size: 265 Copynumber: 4.6 Consensus size: 264
1811522 GAATCGAGTG
* * * *
1811532 TGATTTGCTTCACTGTTCTTCAGGAAGACCAAATCTGAAAGAAGGCATGTGTGCTTCACTACTCT
1 TGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGGCATATATGCTCCACTACTCT
* * * *
1811597 TTAGGGGAGATCAGACATGCAATTTTGATCCACTTCGCTGCTCTTTAGTGAAGATTGAATCATAA
66 TTAGGGGAGATCAGACATGTAATTTTGATCCACTTCGCTGCTCTTAAG-GGAGATTGAATCAGAA
* * ** * *
1811662 TCGATTTGCATCGCTGCTCTTCAAGAAGACTAAATCT-AAACGAAGAAGAATCT-GCTCCACTAT
130 TCAATTTGCTTCGCTGCTCTTCCGGAAGACCAAATCTGAAA-GAAGAAGAATCTAG-TCCACTAC
* *
1811725 TTTTTAAGGGAGATCAGACTCGAGAAAACTTTGATCGACTTCACTACTCTTCAAGGAAGATTGAA
193 TTTTTATGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTACTCTTCAAGGAAGATTGAA
1811790 TCATAAT
258 TCATAAT
* * * * *
1811797 TGATTTGCTTCACGGCTCTTCAGGAACATCAAATCTTAAATAAGGCATATATGCTCCACTAC-CT
1 TGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGGCATATATGCTCCACTACTC-
* *
1811861 TTTAGGGGAGATTAGACATGTAATTTTGATCCACTTCGTTGCTCTTAAAGGGAGATTGAATCAGA
65 TTTAGGGGAGATCAGACATGTAATTTTGATCCACTTCGCTGCTCTT-AAGGGAGATTGAATCAGA
* * * *
1811926 ATCAATTTGCTTCGCTACTCTTCCGGAAGGCCAAATCTGATAGAAGAAGAATCTAGTCCATTACT
129 ATCAATTTGCTTCGCTGCTCTTCCGGAAGACCAAATCTGAAAGAAGAAGAATCTAGTCCACTACT
* * * * * * * *
1811991 TTTTATGGGAGACCAGACTCGAGAAAACTTTTATCCACTTTATTGCTCTTTAGGGAAGGTTGAAT
194 TTTTATGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTACTCTTCAAGGAAGATTGAAT
1812056 CATAAT
259 CATAAT
* * * * *** * * *
1812062 CGATTTTCTTCACTACTCTTCAGAAAGACCAAATCTGAAAGAAGGTGGATCTGTTCCACTATTCT
1 TGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGGCATATATGCTCCACTACTCT
* ** * * *
1812127 TTAGGGGAGATCAAACATGTAATTTTGATCTGCTTCACAGCTCTTAAGGGAATATTGAATCAGAA
66 TTAGGGGAGATCAGACATGTAATTTTGATCCACTTCGCTGCTCTTAAGGG-AGATTGAATCAGAA
* * * ** * *
1812192 TCAATTTGCTTCACTGCTCTT-CGAGAAGACCAAATATGAAAGAAGTATCATTTACTCCACTACT
130 TCAATTTGCTTCGCTGCTCTTCCG-GAAGACCAAATCTGAAAGAAGAAGAATCTAGTCCACTACT
* * * * * * * * *
1812256 CTTTATGGGATATCAGACTCGAGAAATCTTTGATCTACTTCATTGCTCTTTATGAAAGA--GAAT
194 TTTTATGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTACTCTTCAAGGAAGATTGAAT
1812319 CGA-AGA-
259 C-ATA-AT
* * * * *
1812325 TGATTTGCTTCGCTGCTATTCAGGAAGACGAAATCTGAAAGAAGAAG-A-ATCTGTTCCACTACT
1 TGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAG--GCATATATGCTCCACTACT
* * * * * ** **
1812388 ATTTAGGGGAGATCAGAC-TCGAGAAAACTTTGATCCACCTCACTATTCTTCTGGGAAGATTGAA
64 CTTTAGGGGAGATCAGACAT---G-TAATTTTGATCCACTTCGCTGCTCTTAAGGG-AGATTGAA
* * * ** * * ** *
1812452 TCATAATCGATTTTCTTCAATACTATTAAGGAAGA-CAAATCTGAAAGAAGACACG--CCT-GCT
124 TCAGAATCAATTTGCTTCGCTGCTCTTCCGGAAGACCAAATCTGAAAGAAGA-A-GAATCTAG-T
* * * * * * **
1812513 CCACTACTCTTTAGGGGAAATCAGACTCGAGAAAATTTTGACCCACTTCACTGCTCTTCGGGGAA
186 CCACTACTTTTTATGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTACTCTTCAAGGAA
*
1812578 GATTGAATC-GAAT
251 GATTGAATCATAAT
** * * *
1812591 GTGATTTGCTT-ATCTTTTATTCAGGAAGACCAAAGCTGAAAGAAGAAG-A-ATCTGCTCCACTA
1 -TGATTTGCTTCA-CTGCTCTTCAGGAAGACCAAATCTGAAAGAAG--GCATATATGCTCCACTA
* * * ** * *
1812653 CTCTTTAGGGGAGATCAGAC-TCGAGAAAATTTGATCCACTTCCCTGCTCTTCATA-AAAGAGTA
62 CTCTTTAGGGGAGATCAGACAT---GTAATTTTGATCCACTTCGCTGCTCTT-A-AGGGAGATTG
* *
1812716 AATC-GAA-CGTGATTTGCTTCGCTGCTCTTCAGGAAG-CCAAATCTGAAA
122 AATCAGAATC--AATTTGCTTCGCTGCTCTTCCGGAAGACCAAATCTGAAA
1812764 ATCGAAGAAT
Statistics
Matches: 787, Mismatches: 150, Indels: 59
0.79 0.15 0.06
Matches are distributed among these distances:
262 1 0.00
263 73 0.09
264 11 0.01
265 495 0.63
266 123 0.16
267 84 0.11
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (264 bp):
TGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGGCATATATGCTCCACTACTCT
TTAGGGGAGATCAGACATGTAATTTTGATCCACTTCGCTGCTCTTAAGGGAGATTGAATCAGAAT
CAATTTGCTTCGCTGCTCTTCCGGAAGACCAAATCTGAAAGAAGAAGAATCTAGTCCACTACTTT
TTATGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTACTCTTCAAGGAAGATTGAATCA
TAAT
Found at i:1812540 original size:530 final size:528
Alignment explanation
Indices: 1811518--1812669 Score: 1163
Period size: 530 Copynumber: 2.2 Consensus size: 528
1811508 ATTCTTCCCT
* * *
1811518 GATTGAATCGAGTGTGATTTGCTTCACTGTTCTTCAGGAAGACCAAATCTGAAAGAAGGCAT-G-
1 GATTGAATCGAATGCGATTTGCTTCACTATTCTTCAGGAAGACCAAATCTGAAAGAAGG--TGGA
* * * * *
1811581 TGTGCTT-CACTACTCTTTAGGGGAGATCAGACATGCAATTTTGATCCACTTCGCTGCTCTTTAG
64 TCTG-TTCCACTACTCTTTAGGGGAGATCAAACATGCAATTTTGATCCACTTCACAGCTCTTAAG
* * * * * *
1811645 TGAAGATTGAATCATAATCGATTTGCATCGCTGCTCTTCAAGAAGACTAAATCTAAACGAAGAAG
128 GGAAGATTGAATCAGAATCAATTTGCATCACTGCTCTTCAAGAAGACCAAATATAAACGAAGAAG
* * *
1811710 AATCTGCTCCACTATTTTTTAAGGGAGATCAGACTCGAGAAAACTTTGATCGACTTCACTACTCT
193 AATCTACTCCACTACTCTTTAAGGGAGATCAGACTCGAGAAAACTTTGATCGACTTCACTACTCT
* * * *
1811775 TCAAGGAAGATTGAATCATAATTGATTTGCTTCACGGCTCTTCAGGAACATCAAATCTTAAATAA
258 TCAAGAAAGA-TGAATCATAATTGATTTGCTTCACGGCTATTCAGGAACATCAAATCTGAAAGAA
* * * * ** *
1811840 GGCATATATGCTCCACTACCTTTTAGGGGAGATTAGACATGTAATTTTGATCCACTTCGTTGCTC
322 GGCATATATGCTCCACTACCTTTTAGGGGAGATCAGACATGAAACTTTGATCCACCTCACTACTC
** * ** * *
1811905 TTAAAGGGAGATTGAATCAGAATCAATTTGCTTCGCTACTCTTCCGGAAGGCCAAATCTGATAGA
387 TTAAAGGGAGATTGAATCAGAATCAATTTGCTTCAATACTATTAAGGAAGGACAAATCTGAAAGA
* * * * * * * *
1811970 AGAAGAATCTAGTCCATTACTTTTTATGGGAGACCAGACTCGAGAAAACTTTT-ATCCACTTTAT
452 AGAAG-ACCTAGTCCACTACTCTTTAGGGGAAACCAGACTCGAGAAAA-TTTTGACCCACTTCAC
*
1812034 TGCTCTTTAGGGAA
515 TGCTCTTCAGGGAA
* * * * *
1812048 GGTTGAATCATAAT-CGATTTTCTTCACTACTCTTCAGAAAGACCAAATCTGAAAGAAGGTGGAT
1 GATTGAATC-GAATGCGATTTGCTTCACTATTCTTCAGGAAGACCAAATCTGAAAGAAGGTGGAT
* * **
1812112 CTGTTCCACTATTCTTTAGGGGAGATCAAACATGTAATTTTGATCTGCTTCACAGCTCTTAAGGG
65 CTGTTCCACTACTCTTTAGGGGAGATCAAACATGCAATTTTGATCCACTTCACAGCTCTTAAGGG
* * * * **
1812177 AATATTGAATCAGAATCAATTTGCTTCACTGCTCTTCGAGAAGACCAAATATGAAA-GAAGTATC
130 AAGATTGAATCAGAATCAATTTGCATCACTGCTCTTCAAGAAGACCAAATAT-AAACGAAGAAGA
* * * * * * *
1812241 ATTTACTCCACTACTCTTTATGGGATATCAGACTCGAGAAATCTTTGATCTACTTCATTGCTCTT
194 ATCTACTCCACTACTCTTTAAGGGAGATCAGACTCGAGAAAACTTTGATCGACTTCACTACTCTT
* * * * *
1812306 TATGAAAGA-GAATCGA-AGA-TGATTTGCTTCGCTGCTATTCAGGAAGA-CGAAATCTGAAAGA
259 CAAGAAAGATGAATC-ATA-ATTGATTTGCTTCACGGCTATTCAGGAACATC-AAATCTGAAAGA
* *
1812367 AGAAG-A-ATCTGTTCCACTA-CTATTTAGGGGAGATCAGAC-TCGAGAAAACTTTGATCCACCT
321 AG--GCATATATGCTCCACTACCT-TTTAGGGGAGATCAGACAT---G-AAACTTTGATCCACCT
* ** * * *
1812428 CACTATTCTT-CTGGGAAGATTGAATCATAATCGATTTTCTTCAATACTATTAAGGAA-GACAAA
379 CACTACTCTTAAAGGG-AGATTGAATCAGAATCAATTTGCTTCAATACTATTAAGGAAGGACAAA
*
1812491 TCTGAAAGAAGACACG-CCT-GCTCCACTACTCTTTAGGGGAAATCAGACTCGAGAAAATTTTGA
443 TCTGAAAGAAGA-A-GACCTAG-TCCACTACTCTTTAGGGGAAACCAGACTCGAGAAAATTTTGA
*
1812554 CCCACTTCACTGCTCTTCGGGGAA
505 CCCACTTCACTGCTCTTCAGGGAA
* * * * ** *
1812578 GATTGAATCGAATGTGATTTGCTT-ATCTTTTATTCAGGAAGACCAAAGCTGAAAGAAGAAGAAT
1 GATTGAATCGAATGCGATTTGCTTCA-CTATTCTTCAGGAAGACCAAATCTGAAAGAAGGTGGAT
*
1812642 CTGCTCCACTACTCTTTAGGGGAGATCA
65 CTGTTCCACTACTCTTTAGGGGAGATCA
1812670 GACTCGAGAA
Statistics
Matches: 505, Mismatches: 95, Indels: 44
0.78 0.15 0.07
Matches are distributed among these distances:
527 4 0.01
528 70 0.14
529 15 0.03
530 357 0.71
531 58 0.11
532 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (528 bp):
GATTGAATCGAATGCGATTTGCTTCACTATTCTTCAGGAAGACCAAATCTGAAAGAAGGTGGATC
TGTTCCACTACTCTTTAGGGGAGATCAAACATGCAATTTTGATCCACTTCACAGCTCTTAAGGGA
AGATTGAATCAGAATCAATTTGCATCACTGCTCTTCAAGAAGACCAAATATAAACGAAGAAGAAT
CTACTCCACTACTCTTTAAGGGAGATCAGACTCGAGAAAACTTTGATCGACTTCACTACTCTTCA
AGAAAGATGAATCATAATTGATTTGCTTCACGGCTATTCAGGAACATCAAATCTGAAAGAAGGCA
TATATGCTCCACTACCTTTTAGGGGAGATCAGACATGAAACTTTGATCCACCTCACTACTCTTAA
AGGGAGATTGAATCAGAATCAATTTGCTTCAATACTATTAAGGAAGGACAAATCTGAAAGAAGAA
GACCTAGTCCACTACTCTTTAGGGGAAACCAGACTCGAGAAAATTTTGACCCACTTCACTGCTCT
TCAGGGAA
Found at i:1813634 original size:90 final size:90
Alignment explanation
Indices: 1813535--1814142 Score: 557
Period size: 90 Copynumber: 6.8 Consensus size: 90
1813525 GGTTGGCTCT
* * **
1813535 TTTTCGTGAGAAAGT-AATAAAGGACAACACTAAAAGATCGACATC-TCTTCGTGAGAAAGTCAA
1 TTTTCGTGAGAAAGTCAAGAAA-GACAACACTAAAAGATTGAC-TCATCTTCACGAGAAAGTCAA
1813598 GAAGGACAACACTAAAAGATTGACTCC
64 GAAGGACAACACTAAAAGATTGACTCC
* * * * * *
1813625 TTTTCGTGAGAAAGTCAAGAAGGACAATAGTAAAATATTGACTCATCTTCACAAGAAAGTCAAGG
1 TTTTCGTGAGAAAGTCAAGAAAGACAACACTAAAAGATTGACTCATCTTCACGAGAAAGTCAAGA
* *
1813690 AGAACAACACTAAAAGATTGAATCC
66 AGGACAACACTAAAAGATTGACTCC
* * * *
1813715 TCTTCGTAAGAAAGTCAAGAAAGACAACACTAAAAGATTGAATCATCTTCACGAGAAAGTCAATA
1 TTTTCGTGAGAAAGTCAAGAAAGACAACACTAAAAGATTGACTCATCTTCACGAGAAAGTCAAGA
* * *
1813780 AGGACAAGACTAAAACATTGACTCA
66 AGGACAACACTAAAAGATTGACTCC
* * * * * * *
1813805 TTTTCATGAAAAAGTCAAGGAAGACAACATTGAAATATTGACTCCA-CTTCACGATAAAGTCAAT
1 TTTTCGTGAGAAAGTCAAGAAAGACAACACTAAAAGATTGACT-CATCTTCACGAGAAAGTCAA-
*
1813869 G-AGGACAACACTAAAATATTGACTCC
64 GAAGGACAACACTAAAAGATTGACTCC
* * * * * * *
1813895 TCTTGGTGAGAAAGTCAAGGAAGACAACACTGAAATATTAACTTATCTTCACGAGAAAGTCAAGA
1 TTTTCGTGAGAAAGTCAAGAAAGACAACACTAAAAGATTGACTCATCTTCACGAGAAAGTCAAGA
* * * * * *
1813960 ATGACAATACTGAGAGATTTACTTC
66 AGGACAACACTAAAAGATTGACTCC
* *** * * * * *
1813985 TCTTCACAAGAAAGTCAAGAATGAAAATACTGAAAGATTGACTTATCTTCACGAGAAAGTCAAG-
1 TTTTCGTGAGAAAGTCAAGAAAGACAACACTAAAAGATTGACTCATCTTCACGAGAAAGTCAAGA
* * *
1814049 A--ATAACATTGAAAGATTGACTCC
66 AGGACAACACTAAAAGATTGACTCC
* ** ** * * * *
1814072 TCTTCACGAGGGAGTCAAGAAAGGCAATACTTAAAGATTGAATTC-TCTTCACGAGAAAGTCAAG
1 TTTTCGTGAGAAAGTCAAGAAAGACAACACTAAAAGATTG-ACTCATCTTCACGAGAAAGTCAAG
*
1814136 AATGACA
65 AAGGACA
1814143 TTGAAAGATT
Statistics
Matches: 426, Mismatches: 82, Indels: 20
0.81 0.16 0.04
Matches are distributed among these distances:
87 68 0.16
88 3 0.01
89 5 0.01
90 344 0.81
91 6 0.01
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (90 bp):
TTTTCGTGAGAAAGTCAAGAAAGACAACACTAAAAGATTGACTCATCTTCACGAGAAAGTCAAGA
AGGACAACACTAAAAGATTGACTCC
Found at i:1814213 original size:38 final size:38
Alignment explanation
Indices: 1814104--1814700 Score: 388
Period size: 38 Copynumber: 15.0 Consensus size: 38
1814094 GGCAATACTT
* * *
1814104 AAAGATTGAATTCTCTTCACGAGAAAGTCAAGAATGACATTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-A-A--C
* * * *
1814146 AAAGATTGA-TACCTATTCGCGAATG-AGTCAAGAATAAC
1 AAAGATTGACT-TCTCTTCACG-AGGAAGTCAAGAATAAC
*
1814184 AAAGATTGACTTCTCTTCATGAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
1814222 ATTGGGAGATTGACTTCTCTTCACAAGGAAGTCGAGCAAGACAATAATG
1 A----AAGATTGACTTCTCTTCACGAGGAAGT----CAAG--AATAA-C
* * *
1814271 AAAGATTGACTTCTCTTCACAAGAAAGTCAAGGATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
1814309 AAATATTGACTTCTCTTCACGAGGAAGTCAAGAATGAAATTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAT--AA--C
* *
1814351 AAAGATTGACTCCTCTTCACGA-GAGAGTCAAGAATAGC
1 AAAGATTGACTTCTCTTCACGAGGA-AGTCAAGAATAAC
* *
1814389 AAAGAATGACTTCTCTTCACGAGGATGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * * * *
1814427 ATTGGGAGATTGAGTTCTCTTCATGAGGAAGTTAAGAAAGACAACAC
1 A----AAGATTGACTTCTCTTCACGAGGAAGTCAAG--A-A-TA-AC
* * * *
1814474 TGAAAGATTGACTTCTCTTCATGAGAAAGTCAAGGATGAC
1 --AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
1814514 AAAGATTGACTTCTATTCACGAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
1814552 AATGAAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATAAAA
1 ----AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-AAC
* * * * *
1814595 AAAGATTAACCTCACTTTACGAGG-A--C-----TAAA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
1814625 AAATATTAACTTCTCTTCACGAAGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
1814663 AAAGGTTGACTTCTTTTCACGAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
1814701 TTTGAAAGAT
Statistics
Matches: 439, Mismatches: 71, Indels: 94
0.73 0.12 0.16
Matches are distributed among these distances:
30 22 0.05
31 2 0.00
33 1 0.00
36 1 0.00
37 2 0.00
38 162 0.37
39 26 0.06
40 6 0.01
41 8 0.02
42 138 0.31
43 3 0.01
44 1 0.00
45 53 0.12
46 5 0.01
47 2 0.00
48 5 0.01
49 2 0.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.25
Consensus pattern (38 bp):
AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
Found at i:1814273 original size:125 final size:121
Alignment explanation
Indices: 1813935--1814590 Score: 467
Period size: 125 Copynumber: 5.2 Consensus size: 121
1813925 TGAAATATTA
* * * *
1813935 ACTTATCTTCACGAGAAAGTCAAGAATGACAATACTGAGAGATTTACTTCTCTTCACAAGAAAGT
1 ACTTCTCTTCACGAGGAAGTCAAGAATGA-AAT--TGAAAGATTGACTTCTCTTCACAAGAAAGT
* ** * *
1814000 CAAGAATGAAAATACTGAAAGATTGACTTATCTTCACGAGAAAGTCAAGAATAACATTGAAAGAT
63 CAAGAATG-ACAT--TGAAAGATTGACTCCTATTCACAAG-AAGTCAAGAATAAC----AAAGAT
1814065 TG
120 TG
* * * * *
1814067 ACTCCTCTTCACGAGGGAGTCAAGAAAGGCAATACTT-AAAGATTGAATTCTCTTCACGAGAAAG
1 ACTTCTCTTCACGAGGAAGTCAAG-AATG-AA-A-TTGAAAGATTGACTTCTCTTCACAAGAAAG
*
1814131 TCAAGAATGACATTGAAAGATTGA-TACCTATTCGCGAATG-AGTCAAGAATAACAAAGATTG
62 TCAAGAATGACATTGAAAGATTGACT-CCTATTCAC-AA-GAAGTCAAGAATAACAAAGATTG
* ** * *
1814192 ACTTCTCTTCATGAGGAAGTCAAGAAT-AACATTGGGAGATTGACTTCTCTTCACAAGGAAGTCG
1 ACTTCTCTTCACGAGGAAGTCAAGAATGAA-ATTGAAAGATTGACTTCTCTTCACAAGAAAGTCA
* * * *
1814256 AGCAA-GACAATAATGAAAGATTGACTTCTCTTCACAAGAAAGTCAAGGATAACAAATATTG
65 AG-AATGAC-AT--TGAAAGATTGACTCCTATTCACAAG-AAGTCAAGAATAACAAAGATTG
* * *
1814317 ACTTCTCTTCACGAGGAAGTCAAGAATGAAATTGAAAGATTGACTCCTCTTCACGAGAGAGTCAA
1 ACTTCTCTTCACGAGGAAGTCAAGAATGAAATTGAAAGATTGACTTCTCTTCACAAGAAAGTCAA
* * * * * *
1814382 GAAT---A--GCAAAGAATGACTTCTCTTCACGAGGATGTCAAGAATAACATTGGGAGATTG
66 GAATGACATTG-AAAGATTGACTCCTATTCAC-AAGAAGTCAAGAATAACA----AAGATTG
* * * * * **
1814439 AGTTCTCTTCATGAGGAAGTTAAGAAAGACAACACTGAAAGATTGACTTCTCTTCATGAGAAAGT
1 ACTTCTCTTCACGAGGAAGTCAAGAATG--AA-ATTGAAAGATTGACTTCTCTTCACAAGAAAGT
* * *
1814504 CAAGGATGAC----AAAGATTGACTTCTATTCACGAGGAAGTCAAGAATAACAATGAAAGATTG
63 CAAGAATGACATTGAAAGATTGACTCCTATTCAC-AAGAAGTCAAGAATAAC----AAAGATTG
* *
1814564 ACTCCTCTTCACGAGGGAGTCAAGAAT
1 ACTTCTCTTCACGAGGAAGTCAAGAAT
1814591 AAAAAAAGAT
Statistics
Matches: 427, Mismatches: 64, Indels: 73
0.76 0.11 0.13
Matches are distributed among these distances:
117 1 0.00
118 32 0.07
119 2 0.00
121 3 0.01
122 61 0.14
123 5 0.01
124 8 0.02
125 216 0.51
126 3 0.01
128 1 0.00
129 30 0.07
130 1 0.00
131 4 0.01
132 52 0.12
133 5 0.01
134 2 0.00
135 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (121 bp):
ACTTCTCTTCACGAGGAAGTCAAGAATGAAATTGAAAGATTGACTTCTCTTCACAAGAAAGTCAA
GAATGACATTGAAAGATTGACTCCTATTCACAAGAAGTCAAGAATAACAAAGATTG
Found at i:1814286 original size:45 final size:42
Alignment explanation
Indices: 1813567--1814589 Score: 475
Period size: 45 Copynumber: 23.8 Consensus size: 42
1813557 GACAACACTA
* * ** * *
1813567 AAAGATCGACATCTCTTCGTGAGAAAGTCAAGAAGGACAACACTA
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA-GA-AATA-TG
* * ** *
1813612 AAAGATTGACTCCTTTTCGTGAGAAAGTCAAGAAGGACAATAGTA
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA-GA-AATA-TG
* * * * *
1813657 AAATATTGAC-TCATCTTCACAAGAAAGTCAAGGAGAACAACACTA
1 AAAGATTGACTTC-TCTTCACGAGAAAGTCAAGAAG-A-AATA-TG
* * *** * *
1813702 AAAGATTGAATCCTCTTCGTAAGAAAGTCAAGAAAGACAACACTA
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAG-AAGA-AATA-TG
* * * *
1813747 AAAGATTGA-ATCATCTTCACGAGAAAGTCAATAAGGACAAGACTA
1 AAAGATTGACTTC-TCTTCACGAGAAAGTCAAGAA-GA-AATA-TG
* * * * *
1813792 AAACATTGAC-TCATTTTCATGAAAAAGTCAAGGAAGACAACATTG
1 AAAGATTGACTTC-TCTTCACGAGAAAGTCAA-GAAGA-AATA-TG
* * * * * * *
1813837 AAATATTGACTCCACTTCACGATAAAGTCAATGAGGACAACACTA
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAA-GAAGA-AATA-TG
* * *** *
1813882 AAATATTGACTCCTCTTGGTGAGAAAGTCAAGGAAGACAACACTG
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAA-GAAGA-AATA-TG
* * *
1813927 AAATATTAACTTATCTTCACGAGAAAGTCAAGAATGACAATACTG
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA-GA-AATA-TG
* * *
1813972 AGAGATTTACTTCTCTTCACAAGAAAGTCAAGAATGAAAATACTG
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA-G-AAATA-TG
* *
1814017 AAAGATTGACTTATCTTCACGAGAAAGTCAAGAATAACAT-TG
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAGAA-ATATG
* ** * *
1814059 AAAGATTGACTCCTCTTCACGAGGGAGTCAAGAAAGGCAATACTT
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAG-AA-GAAATA-TG
* *
1814104 AAAGATTGAATTCTCTTCACGAGAAAGTCAAGAATGACAT-TG
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA-GAAATATG
* * * * **
1814146 AAAGATTGA-TACCTATTCGCGA-ATGAGTC---AAG-AATAAC
1 AAAGATTGACT-TCTCTTCACGAGA-AAGTCAAGAAGAAATATG
* * *
1814184 AAAGATTGACTTCTCTTCATGAGGAAGTCAAGAATAACAT-TG
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAGAA-ATATG
** * * *
1814226 GGAGATTGACTTCTCTTCACAAGGAAGTCGAGCAAGACAATAATG
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAG-AAGA-AAT-ATG
* **
1814271 AAAGATTGACTTCTCTTCACAAGAAAGTCAAG--G--ATAAC
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAGAAATATG
* *
1814309 AAATATTGACTTCTCTTCACGAGGAAGTCAAGAATGAAAT-TG
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA-GAAATATG
* *
1814351 AAAGATTGACTCCTCTTCACGAGAGAGTC---AAG-AATA-G
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAGAAATATG
* * * *
1814388 CAAAGAATGACTTCTCTTCACGAGGATGTCAAGAATAACAT-TG
1 -AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAGAA-ATATG
** * * * * *
1814431 GGAGATTGAGTTCTCTTCATGAGGAAGTTAAGAAAGACAACACTG
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAG-AAGA-AATA-TG
* *
1814476 AAAGATTGACTTCTCTTCATGAGAAAGTCAAG--G--ATGA-C
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAGAAAT-ATG
* * *
1814514 AAAGATTGACTTCTATTCACGAGGAAGTCAAGAATAACA-ATG
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAGAA-ATATG
* **
1814556 AAAGATTGACTCCTCTTCACGAGGGAGTCAAGAA
1 AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA
1814590 TAAAAAAAGA
Statistics
Matches: 771, Mismatches: 153, Indels: 111
0.74 0.15 0.11
Matches are distributed among these distances:
37 6 0.01
38 105 0.14
39 8 0.01
40 1 0.00
41 8 0.01
42 164 0.21
43 23 0.03
44 18 0.02
45 431 0.56
46 7 0.01
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (42 bp):
AAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAGAAATATG
Found at i:1814357 original size:167 final size:170
Alignment explanation
Indices: 1813702--1814589 Score: 550
Period size: 167 Copynumber: 5.2 Consensus size: 170
1813692 AACAACACTA
* ** * * * *
1813702 AAAGATTGAATCCTCTTCGTAAGAAAGTCAAGAAAGACAACACTAAAAGATTGAA-TCATCTTCA
1 AAAGATTGACTCCTCTTCACAAGGAAGTCAAGAAAGACAATAATGAAAGATTGAATTC-TCTTCA
* * * * * * * **
1813766 CGAGAAAGTCAATAAGGACAAGACTAAAACATTGAC-TCATTTTCATGAAAAAGTCAAGGAA-GA
65 CAAGAAAGTCAAGAATGAC---A-TCAAAGATTGACTTC-TCTTCACGAGGAAGTCAA-GAATG-
* * * ** * * *
1813829 CAACATTGAAATATTGACTCCACTTCACGATAAAGTCAATGAGGACAACACTA
123 -AA-ATTGAAAGATTGACTTCTCTTCACGAGGAAGTCAA-GA--ATAACATTG
* **** * * * * * *
1813882 AAATATTGACTCCTCTTGGTGAGAAAGTCAAGGAAGACAACACTGAAATATT-AACTTATCTTCA
1 AAAGATTGACTCCTCTTCACAAGGAAGTCAAGAAAGACAATAATGAAAGATTGAA-TTCTCTTCA
* * * * *
1813946 CGAGAAAGTCAAGAATGACAATACTGAGAGATTTACTTCTCTTCACAAGAAAGTCAAGAATGAAA
65 CAAGAAAGTCAAGAATGAC-AT-C--AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATG-AA
* *
1814011 ATACTGAAAGATTGACTTATCTTCACGAGAAAGTCAAGAATAACATTG
125 AT--TGAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTG
* * * * *
1814059 AAAGATTGACTCCTCTTCACGAGGGAGTCAAGAAAGGCAATACTTAAAGATTGAATTCTCTTCAC
1 AAAGATTGACTCCTCTTCACAAGGAAGTCAAGAAAGACAATAATGAAAGATTGAATTCTCTTCAC
* * * * * *
1814124 GAGAAAGTCAAGAATGACATTGAAAGATTGA-TACCTATTCGCGAATG-AGTCAAGAAT--AA--
66 AAGAAAGTCAAGAATGACA-TCAAAGATTGACT-TCTCTTCACG-AGGAAGTCAAGAATGAAATT
* *
1814183 CAAAGATTGACTTCTCTTCATGAGGAAGTCAAGAATAACATTG
128 GAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTG
** * * * *
1814226 GGAGATTGACTTCTCTTCACAAGGAAGTCGAGCAAGACAATAATGAAAGATTGACTTCTCTTCAC
1 AAAGATTGACTCCTCTTCACAAGGAAGTCAAGAAAGACAATAATGAAAGATTGAATTCTCTTCAC
* *
1814291 AAGAAAGTCAAGGAT-A-A-CAAATATTGACTTCTCTTCACGAGGAAGTCAAGAATGAAATTGAA
66 AAGAAAGTCAAGAATGACATCAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATGAAATTGAA
* *
1814353 AGATTGACTCCTCTTCACGA-GAGAGTCAAGAATAGC----
131 AGATTGACTTCTCTTCACGAGGA-AGTCAAGAATAACATTG
* * * * ** *
1814389 AAAGAATGACTTCTCTTCACGAGGATGTCAAGAATA-AC-AT--TGGGAGATTGAGTTCTCTTCA
1 AAAGATTGACTCCTCTTCACAAGGAAGTCAAGAA-AGACAATAATGAAAGATTGAATTCTCTTCA
** * * * * * * *
1814450 TGAGGAAGTTAAGAAAGACAACACTGAAAGATTGACTTCTCTTCATGAGAAAGTCAAGGATG--A
65 CAAGAAAGTCAAGAATG---ACA-TCAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATGAAA
* * *
1814513 --CAAAGATTGACTTCTATTCACGAGGAAGTCAAGAATAACAATG
126 TTGAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTG
* *
1814556 AAAGATTGACTCCTCTTCACGAGGGAGTCAAGAA
1 AAAGATTGACTCCTCTTCACAAGGAAGTCAAGAA
1814590 TAAAAAAAGA
Statistics
Matches: 570, Mismatches: 105, Indels: 79
0.76 0.14 0.10
Matches are distributed among these distances:
160 28 0.05
162 4 0.01
163 86 0.15
164 5 0.01
165 5 0.01
166 3 0.01
167 200 0.35
171 2 0.00
173 1 0.00
174 23 0.04
175 1 0.00
176 1 0.00
177 76 0.13
178 5 0.01
179 9 0.02
180 118 0.21
181 3 0.01
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (170 bp):
AAAGATTGACTCCTCTTCACAAGGAAGTCAAGAAAGACAATAATGAAAGATTGAATTCTCTTCAC
AAGAAAGTCAAGAATGACATCAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATGAAATTGAA
AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTG
Found at i:1814380 original size:80 final size:80
Alignment explanation
Indices: 1813974--1814590 Score: 432
Period size: 80 Copynumber: 7.4 Consensus size: 80
1813964 CAATACTGAG
* * * *
1813974 AGATTTACTTCTCTTCACAAGAAAGTCAAGAATGAAAATACTGAAAGATTGACTTATCTTCACGA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATG-AAAT--TGAAAGATTGACTTCTCTTCACGA
1814039 GAAAGTCAAGAATAACATTGAA
63 GAAAGTCAAGAATAAC----AA
* * * *
1814061 AGATTGACTCCTCTTCACGAGGGAGTCAAGAAAGGCAATACTT-AAAGATTGAATTCTCTTCACG
1 AGATTGACTTCTCTTCACGAGGAAGTCAAG-AATG-AA-A-TTGAAAGATTGACTTCTCTTCACG
*
1814125 AGAAAGTCAAGAATGACATTGAA
62 AGAAAGTCAAGAAT-A-A--CAA
* * * * * *
1814148 AGATTGA-TACCTATTCGCGAATG-AGTCAAGAAT--AA--CAAAGATTGACTTCTCTTCATGAG
1 AGATTGACT-TCTCTTCACG-AGGAAGTCAAGAATGAAATTGAAAGATTGACTTCTCTTCACGAG
* *
1814207 GAAGTCAAGAATAACATTGGG
64 AAAGTCAAGAATAACA----A
* * *
1814228 AGATTGACTTCTCTTCACAAGGAAGTCGAGCAA-GACAATAATGAAAGATTGACTTCTCTTCACA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAG-AATGA-AAT--TGAAAGATTGACTTCTCTTCACG
*
1814292 AGAAAGTCAAGGATAACAA
62 AGAAAGTCAAGAATAACAA
* * *
1814311 ATATTGACTTCTCTTCACGAGGAAGTCAAGAATGAAATTGAAAGATTGACTCCTCTTCACGAGAG
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATGAAATTGAAAGATTGACTTCTCTTCACGAGAA
*
1814376 AGTCAAGAATAGCAA
66 AGTCAAGAATAACAA
* * ** * * *
1814391 AGAATGACTTCTCTTCACGAGGATGTCAAGAAT-AACATTGGGAGATTGAGTTCTCTTCATGAGG
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATGAA-ATTGAAAGATTGACTTCTCTTCACGAGA
* *
1814455 AAGTTAAGAAAGACAACACTGAA
65 AAGTCAAG--A-A-TA-AC--AA
* * * * * *
1814478 AGATTGACTTCTCTTCATGAGAAAGTCAAGGATG--A--CAAAGATTGACTTCTATTCACGAGGA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATGAAATTGAAAGATTGACTTCTCTTCACGAGAA
1814539 AGTCAAGAATAACAATGAA
66 AGTCAAGAATAAC----AA
* *
1814558 AGATTGACTCCTCTTCACGAGGGAGTCAAGAAT
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAAT
1814591 AAAAAAAGAT
Statistics
Matches: 424, Mismatches: 70, Indels: 79
0.74 0.12 0.14
Matches are distributed among these distances:
76 1 0.00
78 3 0.01
79 6 0.01
80 179 0.42
81 4 0.01
82 7 0.02
83 59 0.14
84 1 0.00
85 2 0.00
86 3 0.01
87 147 0.35
88 9 0.02
89 2 0.00
90 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (80 bp):
AGATTGACTTCTCTTCACGAGGAAGTCAAGAATGAAATTGAAAGATTGACTTCTCTTCACGAGAA
AGTCAAGAATAACAA
Found at i:1814385 original size:205 final size:205
Alignment explanation
Indices: 1814104--1814619 Score: 714
Period size: 205 Copynumber: 2.5 Consensus size: 205
1814094 GGCAATACTT
* * * * *
1814104 AAAGATTGAATTCTCTTCACGAGAAAGTCAAGAATGACATTGAAAGATTGA-TACCTATTCGCGA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATGAAATTGAAAGATTGACT-CCTCTTCACGA
*
1814168 -ATGAGTCAAGAATAACAAAGATTGACTTCTCTTCATGAGGAAGTCAAGAATAACATTGGGAGAT
65 GA-GAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGGGAGAT
* * *
1814232 TGACTTCTCTTCACAAGGAAGTCGAGCAAGACAATAATGAAAGATTGACTTCTCTTCACAAGAAA
129 TGACTTCTCTTCACAAGGAAGTCAAGAAAGACAACAATGAAAGATTGACTTCTCTTCACAAGAAA
1814297 GTCAAGGATAAC
194 GTCAAGGATAAC
*
1814309 AAATATTGACTTCTCTTCACGAGGAAGTCAAGAATGAAATTGAAAGATTGACTCCTCTTCACGAG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATGAAATTGAAAGATTGACTCCTCTTCACGAG
* * *
1814374 AGAGTCAAGAATAGCAAAGAATGACTTCTCTTCACGAGGATGTCAAGAATAACATTGGGAGATTG
66 AGAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGGGAGATTG
* ** * * **
1814439 AGTTCTCTTCATGAGGAAGTTAAGAAAGACAACACTGAAAGATTGACTTCTCTTCATGAGAAAGT
131 ACTTCTCTTCACAAGGAAGTCAAGAAAGACAACAATGAAAGATTGACTTCTCTTCACAAGAAAGT
*
1814504 CAAGGATGAC
196 CAAGGATAAC
* *
1814514 AAAGATTGACTTCTATTCACGAGGAAGTCAAGAAT-AACAATGAAAGATTGACTCCTCTTCACGA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATGAA-ATTGAAAGATTGACTCCTCTTCACGA
* * * * * *
1814578 GGGAGTCAAGAATAAAAAAAGATTAACCTCACTTTACGAGGA
65 GAGAGTCAAGAAT-AACAAAGATTGACTTCTCTTCACGAGGA
1814620 CTAAAAAATA
Statistics
Matches: 275, Mismatches: 32, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
204 2 0.01
205 250 0.91
206 23 0.08
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (205 bp):
AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATGAAATTGAAAGATTGACTCCTCTTCACGAG
AGAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGGGAGATTG
ACTTCTCTTCACAAGGAAGTCAAGAAAGACAACAATGAAAGATTGACTTCTCTTCACAAGAAAGT
CAAGGATAAC
Found at i:1814590 original size:167 final size:168
Alignment explanation
Indices: 1813940--1814721 Score: 602
Period size: 167 Copynumber: 4.8 Consensus size: 168
1813930 TATTAACTTA
* * * *
1813940 TCTTCACGAGAAAGTCAAGAATGACAATACTGAGAGATTTACTTCTCTTCACAAGAAAGTCAAGA
1 TCTTCACGAGAAAGTCAAGAATGA-AACACTGAAAGATTGACTTCTCTTCACGAGAAAGTCAAGA
* *
1814005 ATGAAAATACTGAAAGATTGACTTATCTTCACGAGAAAGTCAAGAATAACATTGAAAGATTGACT
65 ATG---A-AC--AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACT
* *
1814070 CCTCTTCACGAGGGAGTCAAGAAAGGCAATACTTAAAGATTGAATTC
124 CCTCTTCACGAGGGAGTCAAGAAA-ACAATA-TGAAAGATTGAATTC
* * * * *
1814117 TCTTCACGAGAAAGTCAAGAATG--ACATTGAAAGATTGA-TACCTATTCGCGA-ATGAGTCAAG
1 TCTTCACGAGAAAGTCAAGAATGAAACACTGAAAGATTGACT-TCTCTTCACGAGA-AAGTCAAG
* ** *
1814178 AAT-AACAAAGATTGACTTCTCTTCATGAGGAAGTCAAGAATAACATTGGGAGATTGACTTCTCT
64 AATGAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCT
* * * * *
1814242 TCACAAGGAAGTCGAGCAAGACAATAATGAAAGATTGACTTC
129 TCACGAGGGAGTCAAG-AAAACAAT-ATGAAAGATTGAATTC
* * * *
1814284 TCTTCACAAGAAAGTCAAG---GATA-AC--AAATATTGACTTCTCTTCACGAGGAAGTCAAGAA
1 TCTTCACGAGAAAGTCAAGAATGAAACACTGAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA
* * * * *
1814343 TGAAATTGAAAGATTGACTCCTCTTCACGA-GAGAGTCAAGAATAGC----AAAGAATGACTTCT
66 TG-AA--CAAAGATTGACTTCTCTTCACGAGGA-AGTCAAGAATAACATTGAAAGATTGACTCCT
** *
1814403 CTTCACGA-GGATGTCAAGAATAAC-AT-TGGGAGATTGAGTTC
127 CTTCACGAGGGA-GTCAAGAA-AACAATATGAAAGATTGAATTC
* * * * * *
1814444 TCTTCATGAGGAAGTTAAGAAAGACAACACTGAAAGATTGACTTCTCTTCATGAGAAAGTCAAGG
1 TCTTCACGAGAAAGTCAAGAATGA-AACACTGAAAGATTGACTTCTCTTCACGAGAAAGTCAAGA
* *
1814509 ATG-ACAAAGATTGACTTCTATTCACGAGGAAGTCAAGAATAACAATGAAAGATTGACTCCTCTT
65 ATGAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTT
* *
1814573 CACGAGGGAGTCAAGAATA-AA-A--AAAGATT-AACCTC
130 CACGAGGGAGTCAAGAAAACAATATGAAAGATTGAA-TTC
* * * * *
1814608 ACTTTAC--G--AG----GACT--AA-A---AAATATTAACTTCTCTTCACGA-AGAAGTCAAGA
1 TCTTCACGAGAAAGTCAAGAATGAAACACTGAAAGATTGACTTCTCTTCACGAGA-AAGTCAAGA
* * * *
1814658 AT-AACAAAGGTTGACTTCTTTTCACGAGGAAGTCAAGAATAACTTTGAAAGATAGACTCCTCTT
65 ATGAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTT
1814722 TCAATATGTC
Statistics
Matches: 494, Mismatches: 78, Indels: 94
0.74 0.12 0.14
Matches are distributed among these distances:
148 1 0.00
149 85 0.17
152 1 0.00
153 2 0.00
156 2 0.00
160 29 0.06
162 7 0.01
163 86 0.17
164 16 0.03
165 6 0.01
166 5 0.01
167 192 0.39
168 6 0.01
169 2 0.00
170 1 0.00
173 2 0.00
174 28 0.06
177 23 0.05
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (168 bp):
TCTTCACGAGAAAGTCAAGAATGAAACACTGAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA
TGAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTC
ACGAGGGAGTCAAGAAAACAATATGAAAGATTGAATTC
Found at i:1814618 original size:39 final size:41
Alignment explanation
Indices: 1813926--1814604 Score: 248
Period size: 42 Copynumber: 16.3 Consensus size: 41
1813916 AGACAACACT
* ** * *
1813926 GAAATATTAACTTATCTTCACGAGAAAGTCAAGAATGACAATA
1 GAAAGATTAACTCCTCTTCACGAGGAAGTCAAGAATAAC-A-A
* * * * * *
1813969 CTGAGAGATTTACTTCTCTTCACAAGAAAGTCAAGAATGAAAATA
1 --GAAAGATTAACTCCTCTTCACGAGGAAGTCAAGAAT-AACA-A
* ** * *
1814014 CTGAAAGATTGACTTATCTTCACGAGAAAGTCAAGAATAACATT
1 --GAAAGATTAACTCCTCTTCACGAGGAAGTCAAGAATAACA-A
* * *
1814058 GAAAGATTGACTCCTCTTCACGAGGGAGTCAAGAA-AGGCAATA
1 GAAAGATTAACTCCTCTTCACGAGGAAGTCAAGAATA-AC-A-A
* * * * *
1814101 CTTAAAGATTGAA-TTCTCTTCACGAGAAAGTCAAGAATGACATT
1 --GAAAGATT-AACTCCTCTTCACGAGGAAGTCAAGAATAACA-A
* * * *
1814145 GAAAGATTGA-TACCTATTCGCGAATG-AGTCAAGAATAAC--
1 GAAAGATTAACT-CCTCTTCACG-AGGAAGTCAAGAATAACAA
* * * *
1814184 -AAAGATTGACTTCTCTTCATGAGGAAGTCAAGAATAACATT
1 GAAAGATTAACTCCTCTTCACGAGGAAGTCAAGAATAACA-A
** * * * * * *
1814225 GGGAGATTGACTTCTCTTCACAAGGAAGTCGAGCAAGACAATAA
1 GAAAGATTAACTCCTCTTCACGAGGAAGTCAAG--A-ATAACAA
* * * * *
1814269 TGAAAGATTGACTTCTCTTCACAAGAAAGTCAAGGATAAC--
1 -GAAAGATTAACTCCTCTTCACGAGGAAGTCAAGAATAACAA
* * * *
1814309 -AAATATTGACTTCTCTTCACGAGGAAGTCAAGAATGAA-ATT
1 GAAAGATTAACTCCTCTTCACGAGGAAGTCAAGAAT-AACA-A
* *
1814350 GAAAGATTGACTCCTCTTCACGA-GAGAGTCAAGAATAGC--
1 GAAAGATTAACTCCTCTTCACGAGGA-AGTCAAGAATAACAA
* * * * *
1814389 -AAAGAATGACTTCTCTTCACGAGGATGTCAAGAATAACATT
1 GAAAGATTAACTCCTCTTCACGAGGAAGTCAAGAATAACA-A
** * * * * *
1814430 GGGAGATTGAGTTCTCTTCATGAGGAAGTTAAGAA-AGACAACA
1 GAAAGATTAACTCCTCTTCACGAGGAAGTCAAGAATA-AC-A-A
* * * * * *
1814473 CTGAAAGATTGACTTCTCTTCATGAGAAAGTCAAGGATGAC--
1 --GAAAGATTAACTCCTCTTCACGAGGAAGTCAAGAATAACAA
* * *
1814514 -AAAGATTGACTTCTATTCACGAGGAAGTCAAGAATAACAA
1 GAAAGATTAACTCCTCTTCACGAGGAAGTCAAGAATAACAA
* *
1814554 TGAAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATAA-AA
1 -GAAAGATTAACTCCTCTTCACGAGGAAGTCAAGAATAACAA
1814595 -AAAGATTAAC
1 GAAAGATTAAC
1814605 CTCACTTTAC
Statistics
Matches: 503, Mismatches: 91, Indels: 86
0.74 0.13 0.13
Matches are distributed among these distances:
37 2 0.00
38 123 0.24
39 14 0.03
41 9 0.02
42 181 0.36
43 4 0.01
44 7 0.01
45 161 0.32
46 2 0.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (41 bp):
GAAAGATTAACTCCTCTTCACGAGGAAGTCAAGAATAACAA
Found at i:1815350 original size:41 final size:42
Alignment explanation
Indices: 1815291--1815390 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
1815281 ACCCGAAGGT
* * *
1815291 CTTACAGATGGCCCGAAGGAATT-ATCATC-TCGTTTGAAAGA
1 CTTACAGATGGCCTGAAGGAATTAATCATCAT-GCTCGAAAGA
* *
1815332 CTTACAGATGACCTGAAGGATTTAATCATCATGCTCGAAAGA
1 CTTACAGATGGCCTGAAGGAATTAATCATCATGCTCGAAAGA
*
1815374 CTTACTGATGGCCTGAA
1 CTTACAGATGGCCTGAA
1815391 TGACTTACTA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 20 0.40
42 29 0.58
43 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (42 bp):
CTTACAGATGGCCTGAAGGAATTAATCATCATGCTCGAAAGA
Found at i:1815538 original size:42 final size:42
Alignment explanation
Indices: 1815491--1815570 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
1815481 CGAAGGACTT
*
1815491 ATCATC-TCACTCGAAAGACTTACTGATGACCCAAATGATTTA
1 ATCATCATCA-TCAAAAGACTTACTGATGACCCAAATGATTTA
* * *
1815533 ATCATCATGATCAAAAGACTTACTGATGGCCCGAATGA
1 ATCATCATCATCAAAAGACTTACTGATGACCCAAATGA
1815571 CTTACTAAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 31 0.94
43 2 0.06
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (42 bp):
ATCATCATCATCAAAAGACTTACTGATGACCCAAATGATTTA
Found at i:1815556 original size:177 final size:177
Alignment explanation
Indices: 1815220--1815615 Score: 582
Period size: 177 Copynumber: 2.2 Consensus size: 177
1815210 TTTCTAAAAA
* * * * *
1815220 TACTAAATGAGAAACTTTAGAAATCATTTTCTCA-TTTTTCAAATTCATGTGAAAACATCCTACC
1 TACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTTCAAATTCATGTGAAAACATCCTACC
* ** * **
1815284 CGAAGGTCTTACAGATGGCCCGAAGGAATTATCATCTCGTTTGAAAGACTTACAGATGACCTGAA
66 CGAAGATCTTACAGATGGCCCGAAGGAATTATCATCTCACTCGAAAGACTTACAGATGACCCAAA
* * *
1815349 GGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCTGAATGACT
131 GGATTTAATCATCATGATCAAAAGACTTACTGATGGCCCGAATGACT
*
1815396 TACTAAGTAAGAAACTTTGGAAATCGTTTTTTTTACTTTTT-AAATTCATGTGAAAACATCCTAC
1 TACTAAGTAAGAAACTTTGGAAATCG-TTTTCTTACTTTTTCAAATTCATGTGAAAACATCCTAC
* * *
1815460 CCGAAGATCTTACGGATGGCCCGAAGGACTTATCATCTCACTCGAAAGACTTACTGATGACCCAA
65 CCGAAGATCTTACAGATGGCCCGAAGGAATTATCATCTCACTCGAAAGACTTACAGATGACCCAA
*
1815525 ATGATTTAATCATCATGATCAAAAGACTTACTGATGGCCCGAATGACT
130 AGGATTTAATCATCATGATCAAAAGACTTACTGATGGCCCGAATGACT
*
1815573 TACTAAGTAAGAAACTTTGGAAATTGTTTTCTTAC-TTTTCAAA
1 TACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTTCAAA
1815616 AATTTCATTT
Statistics
Matches: 196, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
175 4 0.02
176 33 0.17
177 154 0.79
178 5 0.03
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (177 bp):
TACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTTCAAATTCATGTGAAAACATCCTACC
CGAAGATCTTACAGATGGCCCGAAGGAATTATCATCTCACTCGAAAGACTTACAGATGACCCAAA
GGATTTAATCATCATGATCAAAAGACTTACTGATGGCCCGAATGACT
Found at i:1825518 original size:3 final size:3
Alignment explanation
Indices: 1825488--1825545 Score: 57
Period size: 3 Copynumber: 19.7 Consensus size: 3
1825478 GTAATATGAA
* * * *
1825488 AAT AAA AAT AAT ATT AAT AAAT AGT AAT AAT AAT GAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
1825533 AAT -AT AAT AAT AA
1 AAT AAT AAT AAT AA
1825546 ATTATAACCC
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
2 4 0.09
3 37 0.84
4 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1825520 original size:28 final size:25
Alignment explanation
Indices: 1825479--1825546 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 25
1825469 TTGTAATTTG
1825479 TAATATGAA-AATAAAAATAATATTAA
1 TAATAT-AATAATAAAAATAATA-TAA
**
1825505 TAAATAGTAATAATAATGATAATATAA
1 T-AATA-TAATAATAAAAATAATATAA
1825532 TAATATAATAATAAA
1 TAATATAATAATAAA
1825547 TTATAACCCG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
25 9 0.25
26 5 0.14
27 10 0.28
28 12 0.33
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.32
Consensus pattern (25 bp):
TAATATAATAATAAAAATAATATAA
Found at i:1825527 original size:22 final size:22
Alignment explanation
Indices: 1825494--1825544 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
1825484 TGAAAATAAA
*
1825494 AATAATATTAATA-AATAGTAAT
1 AATAATATTAATATAATAAT-AT
1825516 AATAATGA-TAATATAATAATAT
1 AATAAT-ATTAATATAATAATAT
1825538 AATAATA
1 AATAATA
1825545 AATTATAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.04
22 19 0.73
23 6 0.23
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (22 bp):
AATAATATTAATATAATAATAT
Found at i:1827315 original size:23 final size:24
Alignment explanation
Indices: 1827277--1827321 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
1827267 GATAAAGTGC
1827277 TAAAAGACAGAAGAAAATATGTTA
1 TAAAAGACAGAAGAAAATATGTTA
*
1827301 TAAAAG-CAGAGGAAAATATGT
1 TAAAAGACAGAAGAAAATATGT
1827322 CACAAAGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.56, C:0.04, G:0.20, T:0.20
Consensus pattern (24 bp):
TAAAAGACAGAAGAAAATATGTTA
Found at i:1832875 original size:3 final size:3
Alignment explanation
Indices: 1832869--1832954 Score: 136
Period size: 3 Copynumber: 28.3 Consensus size: 3
1832859 TAAAAAAAGT
1832869 TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * *
1832915 TAA TAA TAA TAA TAA GAA TAA GAA TAA TAA TGA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1832955 TAGTTTTGAT
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
3 73 0.96
4 3 0.04
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1833443 original size:134 final size:133
Alignment explanation
Indices: 1833138--1834439 Score: 1480
Period size: 134 Copynumber: 9.6 Consensus size: 133
1833128 ATGATAATGA
* * * * * * * *
1833138 TTTGATTCATTTCACTGCTCCTCCGGGGAGATTGAATCGTAA-TCGATTTGTTTCACTACTCTTC
1 TTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATCG-AACT-GATTTGCTTCACTGCTCTTC
* *
1833202 AGGAAGATCAAATCTGAAAGAAAAAGAATCAGAATCGATTTGCTCCATTACTCTTTAGGGGAGAT
64 AGGAAGACCAAATCTGAAAG--AAAG----AGAATC----TGCTCCACTACTCTTTAGGGGAGAT
*
1833267 CAGACTCGAGAAAAC
119 CAGACTCGAGAAAAT
* ** *
1833282 TTTGATCCACTTCACTATTCTTTAGGGAAGATTGAATCAGAA-TCGATTTGCTTCACTGCTCTTC
1 TTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATC-GAACT-GATTTGCTTCACTGCTCTTC
* * *
1833346 AGGAAGACCAAATCTGAAAGAAGGAGAATCTGCTCTACTACTCTTTAGGGGAGATTAGACTCGAG
64 AGGAAGACCAAATCTGAAAGAAAGAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAG
1833411 AAAAT
129 AAAAT
* * * * * *
1833416 TTTAATCCACTTCACTGCTCTTCAGGGAAGATTGAAACGAACATGATTTGCTTCATTGCTATTTA
1 TTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAAC-TGATTTGCTTCACTGCTCTTCA
*
1833481 GGAAGACCAAATCTGAAAGAAAGAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTTGAGA
65 GGAAGACCAAATCTGAAAGAAAGAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGA
1833546 AAAT
130 AAAT
* * * * * * *
1833550 TTTGATCCACTTTGCTCCTCTTTAGGGATGATTGAATCGAACGTGATTTGCTTCGCTTCTCTCCA
1 TTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAAC-TGATTTGCTTCACTGCTCTTCA
* * * * * * *
1833615 TGAATACCAAATCTGAAGGAAAGGGAATCTACTCCACTATTCTTTAGGGGAGATCAGACTTGAGA
65 GGAAGACCAAATCTGAAAGAAAGAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGA
1833680 AAAT
130 AAAT
* * * * * *
1833684 TTTGATCCATTTCGTTACTCTTCAAGGAAGATTGAATCGAACGTGATTTGCTTCGCTTCTCTTCA
1 TTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAAC-TGATTTGCTTCACTGCTCTTCA
* * * *
1833749 GGAATACCAAATCTGAAAGAAAGATAATATGCTCCACTACTCTTTAGGAGAGATCAGACTCGAGA
65 GGAAGACCAAATCTGAAAGAAAGAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGA
1833814 AAAT
130 AAAT
* *
1833818 TTTGATCTACTTCGCTGCTCTTCAGGGAAGATTGAA-CTGAACATGATTTGCTTCATTGCTCTTC
1 TTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATC-GAAC-TGATTTGCTTCACTGCTCTTC
* * * * *
1833882 AGGAAGACCAAATCTGAAAGAAACAAAATCTGCTCCACTACTCTTTAGGGGAGATCAGGCTTGAT
64 AGGAAGACCAAATCTGAAAGAAAGAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAG
1833947 AAAAT
129 AAAAT
* * * *
1833952 TTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAATGTGATTTGCTTCATTTCTCTTTA
1 TTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAA-CTGATTTGCTTCACTGCTCTTCA
** * * *
1834017 GGAAGA-CAAAAGTGAAAGAAATAGAATCTGCTCCACTACTCTTTAGGGGAGATCATAATCGAGA
65 GGAAGACCAAATCTGAAAGAAAGAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGA
1834081 AAAT
130 AAAT
* ** * * * *
1834085 TTTGATCCACTACATTGCTCTTCAAGGAAGATTGAATCAAACGTGATTTGCTTCGCTTCTCTTCA
1 TTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAAC-TGATTTGCTTCACTGCTCTTCA
* * * * *
1834150 GGAAGACCAAATCTGAAAGAAAGATAATATGCTCTACTACTCATTAGGGGAGATCAAACTCGAGA
65 GGAAGACCAAATCTGAAAGAAAGAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGA
1834215 AAAT
130 AAAT
* * * * *
1834219 TTTGATCCACTTCGCTGCTCTTCAGGAAAGATTGAATTGAATGTGATTTGGTTCGCTGCTCTTCA
1 TTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAA-CTGATTTGCTTCACTGCTCTTCA
* * * * * * *
1834284 GGAAGACCAGATGTAAAAGAAAGAGAATATGCTCCACAACTCTTTAGGGAAGATCAGACTCGATA
65 GGAAGACCAAATCTGAAAGAAAGAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGA
1834349 AAAT
130 AAAT
* * * * *
1834353 TTTGATCTACTTCGTTGCTTTTCAGGGAAGATTGAAAT-GAACGTGATTTGCTTCGCTACTCTTC
1 TTTGATCCACTTCGCTGCTCTTCAGGGAAGATTG-AATCGAAC-TGATTTGCTTCACTGCTCTTC
* * *
1834417 AGCAAGACCAAATGTAAAAGAAA
64 AGGAAGACCAAATCTGAAAGAAA
1834440 AATAGGGATA
Statistics
Matches: 1005, Mismatches: 142, Indels: 32
0.85 0.12 0.03
Matches are distributed among these distances:
133 118 0.12
134 801 0.80
135 5 0.00
138 6 0.01
142 3 0.00
144 71 0.07
145 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (133 bp):
TTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAACTGATTTGCTTCACTGCTCTTCAG
GAAGACCAAATCTGAAAGAAAGAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAA
AAT
Found at i:1834222 original size:401 final size:402
Alignment explanation
Indices: 1833242--1834428 Score: 1646
Period size: 401 Copynumber: 3.0 Consensus size: 402
1833232 AGAATCGATT
* * * * * *
1833242 TGCTCCATTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTATTCTTTAG
1 TGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCATTACTCTTCAA
* * *
1833307 GGAAGATTGAATCAGAA--TCGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGG
66 GGAAGATTGAATCA-AACGT-GATTTGCTTCGCTTCTCTTCAGGAAGACCAAATCTGAAAGAAAG
* * * * *
1833370 AGAATCTGCTCTACTACTCTTTAGGGGAGATTAGACTCGAGAAAATTTTAATCCACTTCACTGCT
129 ATAATATGCTCTACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCGCTGCT
* *
1833435 CTTCAGGGAAGATTGAAAC-GAACATGATTTGCTTCATTGCTATTTAGGAAGACCAAATCTGAAA
194 CTTCAGGGAAGATTG-AACTGAACATGATTTGCTTCATTGCTCTTCAGGAAGACCAAATCTGAAA
* *
1833499 GAAAGAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTTGAGAAAATTTTGATCCACTTTG
258 GAAAGAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTTGATAAAATTTTGATCCACTTCG
* * * * * * *
1833564 CTCCTCTTTAGGGATGATTGAATCGAACGTGATTTGCTTCGCTTCTCTCCATGAATACCAAATCT
323 CTGCTCTTCAGGGAAGATTGAATCGAACGTGATTTGCTTCACTTCTCTCCAGGAAGACCAAAACT
* *
1833629 GAAGGAAAGGGAATC
388 GAAAGAAAGAGAATC
* * * * *
1833644 TACTCCACTATTCTTTAGGGGAGATCAGACTTGAGAAAATTTTGATCCATTTCGTTACTCTTCAA
1 TGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCATTACTCTTCAA
* *
1833709 GGAAGATTGAATCGAACGTGATTTGCTTCGCTTCTCTTCAGGAATACCAAATCTGAAAGAAAGAT
66 GGAAGATTGAATCAAACGTGATTTGCTTCGCTTCTCTTCAGGAAGACCAAATCTGAAAGAAAGAT
* * *
1833774 AATATGCTCCACTACTCTTTAGGAGAGATCAGACTCGAGAAAATTTTGATCTACTTCGCTGCTCT
131 AATATGCTCTACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCGCTGCTCT
1833839 TCAGGGAAGATTGAACTGAACATGATTTGCTTCATTGCTCTTCAGGAAGACCAAATCTGAAAGAA
196 TCAGGGAAGATTGAACTGAACATGATTTGCTTCATTGCTCTTCAGGAAGACCAAATCTGAAAGAA
* * *
1833904 ACAAAATCTGCTCCACTACTCTTTAGGGGAGATCAGGCTTGATAAAATTTTGATCCACTTCGCTG
261 AGAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTTGATAAAATTTTGATCCACTTCGCTG
* * ** *
1833969 CTCTTCAGGGAAGATTGAATCGAATGTGATTTGCTTCATTTCTCTTTAGGAAGA-CAAAAGTGAA
326 CTCTTCAGGGAAGATTGAATCGAACGTGATTTGCTTCACTTCTCTCCAGGAAGACCAAAACTGAA
*
1834033 AGAAATAGAATC
391 AGAAAGAGAATC
* * * *
1834045 TGCTCCACTACTCTTTAGGGGAGATCATAATCGAGAAAATTTTGATCCACTACATTGCTCTTCAA
1 TGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCATTACTCTTCAA
1834110 GGAAGATTGAATCAAACGTGATTTGCTTCGCTTCTCTTCAGGAAGACCAAATCTGAAAGAAAGAT
66 GGAAGATTGAATCAAACGTGATTTGCTTCGCTTCTCTTCAGGAAGACCAAATCTGAAAGAAAGAT
* *
1834175 AATATGCTCTACTACTCATTAGGGGAGATCAAACTCGAGAAAATTTTGATCCACTTCGCTGCTCT
131 AATATGCTCTACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCGCTGCTCT
* * ** * ** * * *
1834240 TCAGGAAAGATTGAATTGAATGTGATTTGGTTCGCTGCTCTTCAGGAAGACCAGATGTAAAAGAA
196 TCAGGGAAGATTGAACTGAACATGATTTGCTTCATTGCTCTTCAGGAAGACCAAATCTGAAAGAA
* * * * * *
1834305 AGAGAATATGCTCCACAACTCTTTAGGGAAGATCAGACTCGATAAAATTTTGATCTACTTCGTTG
261 AGAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTTGATAAAATTTTGATCCACTTCGCTG
* * * * *
1834370 CTTTTCAGGGAAGATTGAAAT-GAACGTGATTTGCTTCGCTACTCTTCAGCAAGACCAAA
326 CTCTTCAGGGAAGATTG-AATCGAACGTGATTTGCTTCACTTCTCTCCAGGAAGACCAAA
1834429 TGTAAAAGAA
Statistics
Matches: 692, Mismatches: 88, Indels: 10
0.88 0.11 0.01
Matches are distributed among these distances:
401 355 0.51
402 336 0.49
403 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (402 bp):
TGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCATTACTCTTCAA
GGAAGATTGAATCAAACGTGATTTGCTTCGCTTCTCTTCAGGAAGACCAAATCTGAAAGAAAGAT
AATATGCTCTACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCGCTGCTCT
TCAGGGAAGATTGAACTGAACATGATTTGCTTCATTGCTCTTCAGGAAGACCAAATCTGAAAGAA
AGAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTTGATAAAATTTTGATCCACTTCGCTG
CTCTTCAGGGAAGATTGAATCGAACGTGATTTGCTTCACTTCTCTCCAGGAAGACCAAAACTGAA
AGAAAGAGAATC
Found at i:1834549 original size:535 final size:533
Alignment explanation
Indices: 1833242--1834549 Score: 1339
Period size: 535 Copynumber: 2.4 Consensus size: 533
1833232 AGAATCGATT
** * * * * ** *
1833242 TGCTCCATTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTTGATCCACTTCACTATTCTTTAG
1 TGCTCCACAACTCTTTAGGAGAGATCAGACTCGAGAAAATTTTGATCTACTTCGCTGCTCTTCAG
* * * * **
1833307 GGAAGATTG-AATCAGA-ATCGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGG
66 GGAAGATTGAAATGA-ACAT-GATTTGCTTCACTACTCTTCAGCAAGACCAAATCTAAAAGAAAC
* * * * ** * ** * * **
1833370 AGAATCTGCTCTACTACTCTTTAGGGGAGATTAGA-C-TCGAGAAAATTTTAATCCACTTCACTG
129 AAAATATGCTCCACTACTCTTTAGGGAAGACCA-ACCTTC-ATAAAAAATTGATCCACTCCACCA
* * * * * * * *
1833433 CTCTTCAGGGAAGATTGAAACGAA-CATGATTTGCTTCATTGCTATTTAGGAAGACCAAATCTGA
192 CTCTTCAGGAAAAAATGAATCGAATC-CGATTTG---CATTTCTCTTTAGGAAGACCAAAACTGA
* * *
1833497 AAGAAAGAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTTGAGAAAATTTTGATCCACTT
253 AAGAAAGAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGAATCGAGAAAATTTTGATCCACTA
** * * * * * *
1833562 TGCTCCTCTTTAGGGATGATTGAATCGAACGTGATTTGCTTCGCTTCTCTCCATGAATACCAAAT
318 CACTCCTCTTCAAGGAAGATTGAATCAAACGTGATTTGCTTCGCTTCTCTCCAGGAAGACCAAAT
* * * * * * *
1833627 CTGAAGGAAAGGGAATCTACTCCACTATTCTTTAGGGGAGATCAGACTTGAGAAAATTTTGATCC
383 CTGAAAGAAAGAGAATATACTCCACTACTCATTAGGGGAGATCAAACTCGAGAAAATTTTGATCC
* * * *
1833692 ATTTCGTTACTCTTCAAGGAAGATTGAATCGAACGTGATTTGCTTCGCTTCTCTTCAGGAATACC
448 ACTTCGCTACTCTTCAAGGAAGATTGAATCGAACGTGATTTGCTTCGCTGCTCTTCAGGAAGACC
* *
1833757 AAATCTGAAAGAAAGATAATA
513 AAATCTAAAAGAAAGAGAATA
*
1833778 TGCTCCACTACTCTTTAGGAGAGATCAGACTCGAGAAAATTTTGATCTACTTCGCTGCTCTTCAG
1 TGCTCCACAACTCTTTAGGAGAGATCAGACTCGAGAAAATTTTGATCTACTTCGCTGCTCTTCAG
* * * * *
1833843 GGAAGATTGAACTGAACATGATTTGCTTCATTGCTCTTCAGGAAGACCAAATCTGAAAGAAACAA
66 GGAAGATTGAAATGAACATGATTTGCTTCACTACTCTTCAGCAAGACCAAATCTAAAAGAAACAA
* * * ** * ** * * **
1833908 AATCTGCTCCACTACTCTTTAGGGGAGATCAGGCTTGATAAAATTTTGATCCACTTCGCTGCTCT
131 AATATGCTCCACTACTCTTTAGGGAAGACCAACCTTCATAAAAAATTGATCCACTCCACCACTCT
* * * ** *
1833973 TCAGGGAAGATTGAATCGAATGTGATTTGCTTCATTTCTCTTTAGGAAGA-CAAAAGTGAAAGAA
196 TCAGGAAAAAATGAATCGAATCCGATTTG---CATTTCTCTTTAGGAAGACCAAAACTGAAAGAA
* * * *
1834037 ATAGAATCTGCTCCACTACTCTTTAGGGGAGATCATAATCGAGAAAATTTTGATCCACTACATTG
258 AGAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGAATCGAGAAAATTTTGATCCACTACACTC
*
1834102 CTCTTCAAGGAAGATTGAATCAAACGTGATTTGCTTCGCTTCTCTTCAGGAAGACCAAATCTGAA
323 CTCTTCAAGGAAGATTGAATCAAACGTGATTTGCTTCGCTTCTCTCCAGGAAGACCAAATCTGAA
* * *
1834167 AGAAAGATAATATGCTCTACTACTCATTAGGGGAGATCAAACTCGAGAAAATTTTGATCCACTTC
388 AGAAAGAGAATATACTCCACTACTCATTAGGGGAGATCAAACTCGAGAAAATTTTGATCCACTTC
* * * * *
1834232 GCTGCTCTTC-AGGAAAGATTGAATTGAATGTGATTTGGTTCGCTGCTCTTCAGGAAGACCAGAT
453 GCTACTCTTCAAGG-AAGATTGAATCGAACGTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAAT
*
1834296 GTAAAAGAAAGAGAATA
517 CTAAAAGAAAGAGAATA
* * *
1834313 TGCTCCACAACTCTTTAGG-GAAGATCAGACTCGATAAAATTTTGATCTACTTCGTTGCTTTTCA
1 TGCTCCACAACTCTTTAGGAG-AGATCAGACTCGAGAAAATTTTGATCTACTTCGCTGCTCTTCA
* * *
1834377 GGGAAGATTGAAATGAACGTGATTTGCTTCGCTACTCTTCAGCAAGACCAAATGTAAAAGAAA-A
65 GGGAAGATTGAAATGAACATGATTTGCTTCACTACTCTTCAGCAAGACCAAATCTAAAAGAAACA
* * *
1834441 ATAGGGATATGCTCCACTCCTCTTTATGGAAGACCATACCTTTCA-AAGAAAATTGATTCACTCC
130 A-A---ATATGCTCCACTACTCTTTAGGGAAGACCA-ACC-TTCATAA-AAAATTGATCCACTCC
* *
1834505 ACCATTCTT-TGGAAAAAAATGAATCGAGA-CCGATTTG-A-TTCTCTT
188 ACCACTCTTCAGG-AAAAAATGAATCGA-ATCCGATTTGCATTTCTCTT
1834550 GTCTTCAAGA
Statistics
Matches: 657, Mismatches: 99, Indels: 33
0.83 0.13 0.04
Matches are distributed among these distances:
534 6 0.01
535 367 0.56
536 210 0.32
537 6 0.01
538 25 0.04
539 5 0.01
540 37 0.06
541 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (533 bp):
TGCTCCACAACTCTTTAGGAGAGATCAGACTCGAGAAAATTTTGATCTACTTCGCTGCTCTTCAG
GGAAGATTGAAATGAACATGATTTGCTTCACTACTCTTCAGCAAGACCAAATCTAAAAGAAACAA
AATATGCTCCACTACTCTTTAGGGAAGACCAACCTTCATAAAAAATTGATCCACTCCACCACTCT
TCAGGAAAAAATGAATCGAATCCGATTTGCATTTCTCTTTAGGAAGACCAAAACTGAAAGAAAGA
GAATCTGCTCCACTACTCTTTAGGGGAGATCAGAATCGAGAAAATTTTGATCCACTACACTCCTC
TTCAAGGAAGATTGAATCAAACGTGATTTGCTTCGCTTCTCTCCAGGAAGACCAAATCTGAAAGA
AAGAGAATATACTCCACTACTCATTAGGGGAGATCAAACTCGAGAAAATTTTGATCCACTTCGCT
ACTCTTCAAGGAAGATTGAATCGAACGTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATCTAA
AAGAAAGAGAATA
Found at i:1835085 original size:45 final size:45
Alignment explanation
Indices: 1835036--1835444 Score: 308
Period size: 45 Copynumber: 9.2 Consensus size: 45
1835026 TCCTCTTTCT
* *
1835036 GAGAAAGTCAAGAATCACGACACTGAAAAATTGATTTCTCTTCAC
1 GAGAAAGTCAAGAATGACAACACTGAAAAATTGATTTCTCTTCAC
* * * * * *
1835081 GAGAAAGTCAAGAATGAAAATACT-AAAAGATTGATTCCTCCTAAA
1 GAGAAAGTCAAGAATGACAACACTGAAAA-ATTGATTTCTCTTCAC
* * *
1835126 GCGAAAGTCAAGGAA-GACAACACT-AAAATATTAACTTCTCTTCAC
1 GAGAAAGTCAA-GAATGACAACACTGAAAA-ATTGATTTCTCTTCAC
* * * **
1835171 GAGAAAGTCAAAGAA-GACAACACCGAAAGATTGA-CTC-CTTTTC
1 GAGAAAGTC-AAGAATGACAACACTGAAAAATTGATTTCTCTTCAC
* * * * *
1835214 GAGAAAGTCAAGAAGGAGAACACTGAAAGATTGA-CTCATCTTCGC
1 GAGAAAGTCAAGAATGACAACACTGAAAAATTGATTTC-TCTTCAC
* * *
1835259 AAGAAAGTCAAGAATGACAATACTG--AGATTGATTTCTCTTCAC
1 GAGAAAGTCAAGAATGACAACACTGAAAAATTGATTTCTCTTCAC
* * * * *
1835302 GAGAAAGTCAAGAATGCCAATACTGAGAGATTGACTTCTCTTCAC
1 GAGAAAGTCAAGAATGACAACACTGAAAAATTGATTTCTCTTCAC
* * * *
1835347 AAGAAAGTCAAGCATGACAATACT-AAAAGATTGA-CTCATCTTCAC
1 GAGAAAGTCAAGAATGACAACACTGAAAA-ATTGATTTC-TCTTCAC
* * *
1835392 GAGAAAGTCAAGAAT---AACATTGAAATATTTACTTT-TCTTCAC
1 GAGAAAGTCAAGAATGACAACACTGAAAAATTGA-TTTCTCTTCAC
*
1835434 GAGGAAGTCAA
1 GAGAAAGTCAA
1835445 TAATAGAAAA
Statistics
Matches: 297, Mismatches: 52, Indels: 33
0.78 0.14 0.09
Matches are distributed among these distances:
42 30 0.10
43 72 0.24
44 13 0.04
45 174 0.59
46 8 0.03
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (45 bp):
GAGAAAGTCAAGAATGACAACACTGAAAAATTGATTTCTCTTCAC
Found at i:1835268 original size:88 final size:87
Alignment explanation
Indices: 1835036--1835444 Score: 353
Period size: 88 Copynumber: 4.6 Consensus size: 87
1835026 TCCTCTTTCT
* * * * * *
1835036 GAGAAAGTCAAGAATCACGACACTGAAAAATTGATTTCTCTTCACGAGAAAGTCAAGAATGAAAA
1 GAGAAAGTCAAGAA-GACAACACTGAAAGATTGACTTCTCTTCACAAGAAAGTCAAGAA-GACAA
* * * * *
1835101 TACTAAAAGATTGATTCCTCCTAAA
64 TACTGAAAGATTGACT-CTCTTCAC
* * * * *
1835126 GCGAAAGTCAAGGAAGACAACACTAAAATATTAACTTCTCTTCACGAGAAAGTCAAAGAAGACAA
1 GAGAAAGTCAA-GAAGACAACACTGAAAGATTGACTTCTCTTCACAAGAAAGTC-AAGAAGACAA
* * **
1835191 CACCGAAAGATTGACTC-CTTTTC
64 TACTGAAAGATTGACTCTCTTCAC
* *
1835214 GAGAAAGTCAAGAAGGAGAACACTGAAAGATTGAC-TCATCTTCGCAAGAAAGTCAAGAATGACA
1 GAGAAAGTCAAGAA-GACAACACTGAAAGATTGACTTC-TCTTCACAAGAAAGTCAAGAA-GACA
*
1835278 ATACTG--AGATTGATTTCTCTTCAC
63 ATACTGAAAGATTGA-CTCTCTTCAC
* * * *
1835302 GAGAAAGTCAAGAATGCCAATACTGAGAGATTGACTTCTCTTCACAAGAAAGTCAAGCATGACAA
1 GAGAAAGTCAAGAA-GACAACACTGAAAGATTGACTTCTCTTCACAAGAAAGTCAAG-AAGACAA
*
1835367 TACTAAAAGATTGACTCATCTTCAC
64 TACTGAAAGATTGACTC-TCTTCAC
* * * * * * *
1835392 GAGAAAGTCAAG-A-ATAACATTGAAATATTTACTTTTCTTCACGAGGAAGTCAA
1 GAGAAAGTCAAGAAGACAACACTGAAAGATTGACTTCTCTTCACAAGAAAGTCAA
1835445 TAATAGAAAA
Statistics
Matches: 260, Mismatches: 47, Indels: 27
0.78 0.14 0.08
Matches are distributed among these distances:
86 7 0.03
87 42 0.16
88 111 0.43
89 7 0.03
90 85 0.33
91 8 0.03
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (87 bp):
GAGAAAGTCAAGAAGACAACACTGAAAGATTGACTTCTCTTCACAAGAAAGTCAAGAAGACAATA
CTGAAAGATTGACTCTCTTCAC
Found at i:1835278 original size:133 final size:135
Alignment explanation
Indices: 1835001--1835444 Score: 376
Period size: 133 Copynumber: 3.3 Consensus size: 135
1834991 AGTCAAGTTG
* * * * * *
1835001 AGAATGACATCACTAAA-AGGTTAACTCCTCTTTC-TGAGAAAGTC-AAGAATCACGACACTGAA
1 AGAATGACAACACTAAATA--TTAACTTCTC-TTCACGAGAAAGTCAAAGAATGACAACACCGAA
* * * * * * * * *
1835063 AAATTGATTTCTCTTCACGAGAAAGTCAAGAATGAAAATACTAAAAGATTGATTCCTCCT-A-AA
63 AGATTGACTTCTCTTCACAAGAAAGTCAAGAAGGACAACACTAAAAGATTGACTCATCTTCACAA
1835126 GCGAAAGTCA
128 --GAAAGTCA
1835136 AGGAA-GACAACACTAAAATATTAACTTCTCTTCACGAGAAAGTCAAAGAA-GACAACACCGAAA
1 A-GAATGACAACACT-AAATATTAACTTCTCTTCACGAGAAAGTCAAAGAATGACAACACCGAAA
** * * * *
1835199 GATTGAC-TC-CTTTTCGAGAAAGTCAAGAAGGAGAACACTGAAAGATTGACTCATCTTCGCAAG
64 GATTGACTTCTCTTCACAAGAAAGTCAAGAAGGACAACACTAAAAGATTGACTCATCTTCACAAG
1835262 AAAGTCA
129 AAAGTCA
* * * * * * * * *
1835269 AGAATGACAATACT-GAGATTGATTTCTCTTCACGAGAAAGTC-AAGAATGCCAATACTGAGAGA
1 AGAATGACAACACTAAATATTAACTTCTCTTCACGAGAAAGTCAAAGAATGACAACACCGAAAGA
* * * *
1835332 TTGACTTCTCTTCACAAGAAAGTCAAGCATGACAATACTAAAAGATTGACTCATCTTCACGAGAA
66 TTGACTTCTCTTCACAAGAAAGTCAAGAAGGACAACACTAAAAGATTGACTCATCTTCACAAGAA
1835397 AGTCA
131 AGTCA
* * * *
1835402 AGAAT---AACATTGAAATATTTACTTTTCTTCACGAGGAAGTCAA
1 AGAATGACAACACT-AAATATTAACTTCTCTTCACGAGAAAGTCAA
1835445 TAATAGAAAA
Statistics
Matches: 250, Mismatches: 45, Indels: 30
0.77 0.14 0.09
Matches are distributed among these distances:
130 9 0.04
131 40 0.16
132 27 0.11
133 113 0.45
134 5 0.02
135 44 0.18
136 11 0.04
137 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (135 bp):
AGAATGACAACACTAAATATTAACTTCTCTTCACGAGAAAGTCAAAGAATGACAACACCGAAAGA
TTGACTTCTCTTCACAAGAAAGTCAAGAAGGACAACACTAAAAGATTGACTCATCTTCACAAGAA
AGTCA
Found at i:1835549 original size:118 final size:115
Alignment explanation
Indices: 1835239--1836153 Score: 663
Period size: 118 Copynumber: 7.7 Consensus size: 115
1835229 GAGAACACTG
* * * * *
1835239 AAAGATTGAC-TCATCTTCGCAAGAAAGTCAAGAATGACAATACTGAGATTGATTTCTCTTCACG
1 AAAGATTGACTTC-TCTTCACGAGGAAGTCAAGAATAACAA-A--G-GATTGACTTCTCTTCACG
* * * *
1835303 AGAAAGTCAAGAATGCCAATACTGAGAGATTGACTTCTCTTCACAAGAAAGTCAAGCATGACAAT
61 AGGAAGTCAAGAAT---AATA---A-AGATTGACTTCTCTTCACGAGGAAGTCAAG-A--A-TA-
1835368 AC
114 AC
* ** * *
1835370 TAAAAGATTGAC-TCATCTTCACGAGAAAGTCAAGAATAACATTGAAATATTTACTTTTCTTCAC
1 --AAAGATTGACTTC-TCTTCACGAGGAAGTCAAGAATAACA---AAGGATTGACTTCTCTTCAC
* * *
1835434 GAGGAAGTCAATAATAGA-AAAGATTGACTTCTCTTCATGAGGAAGTCAAGAATAGC
60 GAGGAAGTCAAGAATA-ATAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
1835490 AAAGATTAACTTCTCTTTACGAGGAAGTCAAGAATAAGAAAGATAGATTGAC-TCATCTTCACGA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG---GATTGACTTC-TCTTCACGA
* * * *
1835554 GGAAGTCAAGAATAACAAAGATAGATTGACTCCTCTTCACGAGGGAGTCACA-AATAAA
62 GGAAGTCAAGAAT-A-ATA-A-AGATTGACTTCTCTTCACGAGGAAGTCA-AGAATAAC
* * * * * * * *
1835612 AAAGATTGACTTCTCTTCATGAGGAAGCCAAAAATAATAGA-GATTCACTTATCTTCACGACGAA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGGATTGACTTCTCTTCACGAGGAA
* * ** * * * *
1835676 GTCAATAATAATATTGAAAGATTGTC-TCATCTTCGTGAGGGAGCCAACAATAAT
66 GTCAAGAAT-A-A-T-AAAGATTGACTTC-TCTTCACGAGGAAGTCAAGAATAAC
* * *
1835730 AAAGATTGACTTCTCTTCACTAGAAAGTCAAGAATAACAAA-GATTGA-TTTTGCTTCACGAGGA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGGATTGACTTCT-CTTCACGAGGA
* * * * *
1835793 AGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGAAAGCCAATAATAAT
65 AGTCAAGAATAATAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * * * * *
1835844 AGAA-ATTGAGTTCTCTTCCCGAGGAAGTTAAGAATAACAAAGG-TTGACTTCTCTTTACAATGA
1 A-AAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGGATTGACTTCTCTTCACGAGGA
* *
1835907 AGTCAAGAATACCATTGAAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATAAC
65 AGTCAAGAATA--A-T-AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* ** *
1835962 AAAGATTGACTTCACTTCACGAGGAAGTC-TTAATAACAAAGG-TTGACTTCTCTTCATGAGGAA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGGATTGACTTCTCTTCACGAGGAA
* * * *
1836025 GTCAAGAATAACAAAGATTGCCTTCTCTTCATGAGGAAGTCAATAATAAC
66 GTCAAGAATAATAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * * * *
1836075 ATTGAAAGGTTAACTCCTCTTCGCGAGGCAA-TCAAGAATAACAAA-TATTGACTTCTCTTCACG
1 ----AAAGATTGACTTCTCTTCACGAGG-AAGTCAAGAATAACAAAGGATTGACTTCTCTTCACG
1836138 AGGAAGTCAAGAATAA
61 AGGAAGTCAAGAATAA
1836154 CATTGAAAGA
Statistics
Matches: 638, Mismatches: 108, Indels: 87
0.77 0.13 0.10
Matches are distributed among these distances:
113 33 0.05
114 85 0.13
115 11 0.02
116 2 0.00
117 68 0.11
118 267 0.42
119 6 0.01
120 3 0.00
121 2 0.00
122 64 0.10
123 1 0.00
124 1 0.00
125 27 0.04
126 1 0.00
129 2 0.00
130 1 0.00
132 26 0.04
133 36 0.06
135 1 0.00
136 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (115 bp):
AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGGATTGACTTCTCTTCACGAGGAA
GTCAAGAATAATAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
Found at i:1836154 original size:38 final size:38
Alignment explanation
Indices: 1835372--1836155 Score: 677
Period size: 38 Copynumber: 20.0 Consensus size: 38
1835362 GACAATACTA
*
1835372 AAAGATTGAC-TCATCTTCACGAGAAAGTCAAGAATAAC
1 AAAGATTGACTTC-TCTTCACGAGGAAGTCAAGAATAAC
* * * *
1835410 ATTGAAATATTTACTTTTCTTCACGAGGAAGTCAATAATAGA-
1 ----AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATA-AC
* *
1835452 AAAGATTGACTTCTCTTCATGAGGAAGTCAAGAATAGC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
1835490 AAAGATTAACTTCTCTTTACGAGGAAGTCAAGAATAAGAA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-A-AC
1835530 AGATAGATTGAC-TCATCTTCACGAGGAAGTCAAGAATAAC
1 A-A-AGATTGACTTC-TCTTCACGAGGAAGTCAAGAATAAC
* * *
1835570 AAAGATAGATTGACTCCTCTTCACGAGGGAGTCACA-AATAAA
1 --A-A-AGATTGACTTCTCTTCACGAGGAAGTCA-AGAATAAC
* * * *
1835612 AAAGATTGACTTCTCTTCATGAGGAAGCCAAAAATAAT
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * * * * *
1835650 AGAGATTCACTTATCTTCACGACGAAGTCAATAATAATATTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-A-A--C
* ** * * * *
1835692 AAAGATTGTC-TCATCTTCGTGAGGGAGCCAACAATAAT
1 AAAGATTGACTTC-TCTTCACGAGGAAGTCAAGAATAAC
* *
1835730 AAAGATTGACTTCTCTTCACTAGAAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
1835768 AAAGATTGA-TTTTGCTTCACGAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCT-CTTCACGAGGAAGTCAAGAATAAC
* * * *
1835806 AAAGATTGACTTCTCTTCACGAGAAAGCCAATAATAAT
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
1835844 AGAA-ATTGAGTTCTCTTCCCGAGGAAGTTAAGAATAAC
1 A-AAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * * * *
1835882 AAAGGTTGACTTCTCTTTACAATGAAGTCAAGAATACCATTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATA--A--C
* *
1835924 AAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* **
1835962 AAAGATTGACTTCACTTCACGAGGAAGTC-TTAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
1835999 AAAGGTTGACTTCTCTTCATGAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
1836037 AAAGATTGCCTTCTCTTCATGAGGAAGTCAATAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * * *
1836075 ATTGAAAGGTTAACTCCTCTTCGCGAGGCAA-TCAAGAATAAC
1 ----AAAGATTGACTTCTCTTCACGAGG-AAGTCAAGAATAAC
*
1836117 AAATATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
1836155 A
1 A
1836156 TTGAAAGATT
Statistics
Matches: 598, Mismatches: 110, Indels: 72
0.77 0.14 0.09
Matches are distributed among these distances:
37 40 0.07
38 358 0.60
39 10 0.02
40 7 0.01
41 6 0.01
42 171 0.29
43 6 0.01
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (38 bp):
AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
Found at i:1836154 original size:118 final size:114
Alignment explanation
Indices: 1835371--1836155 Score: 670
Period size: 118 Copynumber: 6.7 Consensus size: 114
1835361 TGACAATACT
* * * *
1835371 AAAAGATTGAC-TCATCTTCACGAGAAAGTCAAGAATAACATTGAAATATTTACTTTTCTTCACG
1 AAAAGATTGACTTC-TCTTCACGAGGAAGTCAAGAATAAC----AAAGATTGACTTCTCTTCACG
* * *
1835435 AGGAAGTCAATAATAGA-AAAGATTGACTTCTCTTCATGAGGAAGTCAAGAATAG
61 AGGAAGTCAAGAATA-ACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAA
* * * *
1835489 CAAAGATTAACTTCTCTTTACGAGGAAGTCAAGAATAAGAAAGATAGATTGAC-TCATCTTCACG
1 AAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-A-ACA-A-AGATTGACTTC-TCTTCACG
* *
1835553 AGGAAGTCAAGAATAACAAAGATAGATTGACTCCTCTTCACGAGGGAGTCACA-AATAA
61 AGGAAGTCAAGAATAAC--A-A-AGATTGACTTCTCTTCACGAGGAAGTCA-AGAATAA
* * * * * * * *
1835611 AAAAGATTGACTTCTCTTCATGAGGAAGCCAAAAATAATAGAGATTCACTTATCTTCACGACGAA
1 AAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAA
* * * ** * * *
1835676 GTCAATAATAATATTGAAAGATTGTC-TCATCTTCGTGAGGGAGCCAACAATAA
66 GTCAAGAAT-A-A--CAAAGATTGACTTC-TCTTCACGAGGAAGTCAAGAATAA
* * * *
1835729 TAAAGATTGACTTCTCTTCACTAGAAAGTCAAGAATAACAAAGATTGA-TTTTGCTTCACGAGGA
1 AAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCT-CTTCACGAGGA
* * *
1835793 AGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGAAAGCCAATAATAA
65 AGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAA
* * * * * * * *
1835843 TAGAA-ATTGAGTTCTCTTCCCGAGGAAGTTAAGAATAACAAAGGTTGACTTCTCTTTACAATGA
1 -AAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGA
* * *
1835907 AGTCAAGAATACCATTGAAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATAA
65 AGTCAAGAATA--A--CAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAA
* * ** * *
1835961 CAAAGATTGACTTCACTTCACGAGGAAGTC-TTAATAACAAAGGTTGACTTCTCTTCATGAGGAA
1 AAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAA
* * *
1836025 GTCAAGAATAACAAAGATTGCCTTCTCTTCATGAGGAAGTCAATAATAA
66 GTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAA
* * * * *
1836074 CATTGAAAGGTTAACTCCTCTTCGCGAGGCAA-TCAAGAATAACAAATATTGACTTCTCTTCACG
1 -A---AAAGATTGACTTCTCTTCACGAGG-AAGTCAAGAATAACAAAGATTGACTTCTCTTCACG
1836138 AGGAAGTCAAGAATAACA
61 AGGAAGTCAAGAATAACA
1836156 TTGAAAGATT
Statistics
Matches: 536, Mismatches: 97, Indels: 68
0.76 0.14 0.10
Matches are distributed among these distances:
113 32 0.06
114 84 0.16
115 8 0.01
116 3 0.01
117 70 0.13
118 265 0.49
119 6 0.01
120 6 0.01
121 2 0.00
122 59 0.11
123 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (114 bp):
AAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAA
GTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAA
Found at i:1836156 original size:80 final size:79
Alignment explanation
Indices: 1835372--1836190 Score: 722
Period size: 80 Copynumber: 10.4 Consensus size: 79
1835362 GACAATACTA
* * * * *
1835372 AAAGATTGACTCATCTTCACGAGAAAGTCAAGAATAACATTGAAATATTTACTTTTCTTCACGAG
1 AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAAC----AAAGATTGACTTCTCTTCACGAG
*
1835437 GAAGTCAATAAT-AGA--
62 GAAGTCAATAATAACATG
* * * * *
1835452 AAAGATTGACTTCTCTTCATGAGGAAGTCAAGAATAGCAAAGATTAACTTCTCTTTACGAGGAAG
1 AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAG
* * *
1835517 TCAAGAATAAGAAAG
66 TCAATAATAA-CATG
* * *
1835532 ATAGATTGACTCATCTTCACGAGGAAGTCAAGAATAACAAAGATAGATTGACTCCTCTTCACGAG
1 AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAAC--A-A-AGATTGACTTCTCTTCACGAG
*
1835597 GGAGTCACA-AATAA-A--
62 GAAGTCA-ATAATAACATG
* * * * * * * * *
1835612 AAAGATTGACTTCTCTTCATGAGGAAGCCAAAAATAATAGAGATTCACTTATCTTCACGACGAAG
1 AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAG
*
1835677 TCAATAATAATATTG
66 TCAATAATAACA-TG
* * ** * * * * * *
1835692 AAAGATTGTCTCATCTTCGTGAGGGAGCCAACAATAATAAAGATTGACTTCTCTTCACTAGAAAG
1 AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAG
*
1835757 TCAAGAATAAC---
66 TCAATAATAACATG
** *
1835768 AAAGATTGA-TTTTGCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGAAA
1 AAAGATTGACTCCT-CTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAA
* *
1835832 GCCAATAATAATA-G
65 GTCAATAATAACATG
* * * * * * * *
1835846 -AA-ATTGAGTTCTCTTCCCGAGGAAGTTAAGAATAACAAAGGTTGACTTCTCTTTACAATGAAG
1 AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAG
* *
1835909 TCAAGAATACCATTG
66 TCAATAATAACA-TG
* *
1835924 AAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCACTTCACGAGGAAG
1 AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAG
*
1835989 TC-TTAATAAC---
66 TCAATAATAACATG
* * * * *
1835999 AAAGGTTGACTTCTCTTCATGAGGAAGTCAAGAATAACAAAGATTGCCTTCTCTTCATGAGGAAG
1 AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAG
1836064 TCAATAATAACATTG
66 TCAATAATAACA-TG
* * * *
1836079 AAAGGTTAACTCCTCTTCGCGAGGCAA-TCAAGAATAACAAATATTGACTTCTCTTCACGAGGAA
1 AAAGATTGACTCCTCTTCACGAGG-AAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAA
*
1836143 GTCAAGAATAACATTG
65 GTCAATAATAACA-TG
** * *
1836159 AAAGATTTCCTCCTCTTCGCGAGGGAGTCAAG
1 AAAGATTGACTCCTCTTCACGAGGAAGTCAAG
1836191 TTGAAGCTTC
Statistics
Matches: 605, Mismatches: 105, Indels: 58
0.79 0.14 0.08
Matches are distributed among these distances:
75 63 0.10
76 182 0.30
77 7 0.01
78 3 0.00
79 8 0.01
80 307 0.51
81 2 0.00
82 2 0.00
83 1 0.00
84 29 0.05
85 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (79 bp):
AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAG
TCAATAATAACATG
Found at i:1842969 original size:3 final size:3
Alignment explanation
Indices: 1842963--1843017 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
1842953 AAAAAATAGT
* * *
1842963 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA -AGA TGA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
*
1843008 TGA TAA TAA T
1 TAA TAA TAA T
1843018 TGGGTTCGAT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:1843386 original size:21 final size:22
Alignment explanation
Indices: 1843351--1843391 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1843341 AATTTGAATT
*
1843351 TGCATGGTGTCGATACCATATG
1 TGCATGGTATCGATACCATATG
*
1843373 TGCAT-GTATCGATAGCATA
1 TGCATGGTATCGATACCATA
1843392 CACAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (22 bp):
TGCATGGTATCGATACCATATG
Found at i:1844861 original size:130 final size:131
Alignment explanation
Indices: 1844509--1844862 Score: 473
Period size: 131 Copynumber: 2.7 Consensus size: 131
1844499 TAAAAGCGAC
* *
1844509 AATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATCCCTTAAAGTAGTCATTTATTACT
1 AATATCTAATTATTTCCAATCGAGAATAAATGACCTCTTATGCCTTAAAGTAGTCATTTATTACT
* * * * **
1844574 CCGATCGAAACGAAGAGATATCATTATTTCGTCTTAAAATTCAATATTGATTCCAATGAAAATGA
66 CCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAAACAATATTGATTCCAATGAAAATGA
1844639 T
131 T
* * * *
1844640 AATATCTAATAATTTCCAATCGAGAATAAATGGCCT-TTCATGCCTTAAAGCAATCATTTATTAC
1 AATATCTAATTATTTCCAATCGAGAATAAATGACCTCTT-ATGCCTTAAAGTAGTCATTTATTAC
*
1844704 TCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAAACAATATTGATTCGAGA-GAAAAT
65 TCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAAACAATATTGATTCCA-ATGAAAAT
1844768 GAT
129 GAT
* * * * *
1844771 AATATCTAATTATTT-CTATCGTGAATAAGTGACCTCTTATGCCTTGAAGTAGTCATTTATTATT
1 AATATCTAATTATTTCCAATCGAGAATAAATGACCTCTTATGCCTTAAAGTAGTCATTTATTACT
* *
1844835 CCAA-CTGAAATGAAAAGATATTACTATT
66 CCAATC-GAAATGAAGAGATATCACTATT
1844863 TCAATATCGA
Statistics
Matches: 195, Mismatches: 24, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
129 1 0.01
130 63 0.32
131 130 0.67
132 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (131 bp):
AATATCTAATTATTTCCAATCGAGAATAAATGACCTCTTATGCCTTAAAGTAGTCATTTATTACT
CCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAAACAATATTGATTCCAATGAAAATGA
T
Found at i:1846917 original size:3 final size:3
Alignment explanation
Indices: 1846911--1846945 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
1846901 AACATTATAT
**
1846911 TAA TAA TAA TAA TAA CGA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1846946 CCGAGATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1847109 original size:14 final size:14
Alignment explanation
Indices: 1847090--1847118 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1847080 TGAGACTATC
1847090 AGGTGAGATTTTTG
1 AGGTGAGATTTTTG
1847104 AGGTGAGATTTTTG
1 AGGTGAGATTTTTG
1847118 A
1 A
1847119 TGATGTAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.34, T:0.41
Consensus pattern (14 bp):
AGGTGAGATTTTTG
Found at i:1847430 original size:133 final size:133
Alignment explanation
Indices: 1847189--1847529 Score: 441
Period size: 133 Copynumber: 2.6 Consensus size: 133
1847179 CGATGATTAC
* * * * *
1847189 TCCGTTGTTCTTTAGGGAATATTGAATCGAAGTAGAATTGTTCCACTACTACTTAGGGAATATCA
1 TCCGTTGTTCTTCAGGGAATATTGAATCGAGGCAGACTTGTTCCACTACTACTCAGGGAATATCA
* * *
1847254 AATCTGGAAAGAGGGGATCTGTTCCGTTGCTTCTTCAGGGAAAATCAAACCTGGAGACGTTAATT
66 AATCTGGAAAGAGGGGATCTGTTCCGCTACTTCTTCAGGGAAAATCAAACCTAGAGACGTTAATT
1847319 CAT
131 CAT
* * * *
1847322 TCTGTTGTTCTTCAGTGAATATTGAATCGAGGCGGACTTGTTCCACTACTACTCAGGGAAGATCA
1 TCCGTTGTTCTTCAGGGAATATTGAATCGAGGCAGACTTGTTCCACTACTACTCAGGGAATATCA
* * * * * *
1847387 AATCTGGAAAGAGGGGATCTGTTCTGCTACTTCTTCATGGAAAATCATATCTAGAGATGTTGATT
66 AATCTGGAAAGAGGGGATCTGTTCCGCTACTTCTTCAGGGAAAATCAAACCTAGAGACGTTAATT
1847452 CAT
131 CAT
** * * * * *
1847455 TCCACTATTCTTCAGGGAAGATTGAATCAAGGCAAACTTGTTCCA-TTCATACTCAGGGAATATC
1 TCCGTTGTTCTTCAGGGAATATTGAATCGAGGCAGACTTGTTCCACTAC-TACTCAGGGAATATC
1847519 AAATCTGGAAA
65 AAATCTGGAAA
1847530 CGTTGATTTA
Statistics
Matches: 178, Mismatches: 29, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
132 2 0.01
133 176 0.99
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (133 bp):
TCCGTTGTTCTTCAGGGAATATTGAATCGAGGCAGACTTGTTCCACTACTACTCAGGGAATATCA
AATCTGGAAAGAGGGGATCTGTTCCGCTACTTCTTCAGGGAAAATCAAACCTAGAGACGTTAATT
CAT
Found at i:1848674 original size:11 final size:11
Alignment explanation
Indices: 1848648--1848680 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
1848638 CCTGAACCCC
1848648 TTTTTA-TTTA
1 TTTTTATTTTA
1848658 -TTTTATTTTA
1 TTTTTATTTTA
1848668 TTTTTATTTTA
1 TTTTTATTTTA
1848679 TT
1 TT
1848681 CTTTCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.24
10 4 0.19
11 12 0.57
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:1848698 original size:21 final size:21
Alignment explanation
Indices: 1848674--1848735 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 21
1848664 TTTATTTTTA
1848674 TTTT-ATTCTTTCTTTTTC-TCT
1 TTTTCATT-TTTCTTTTTCAT-T
*
1848695 TTTTCATTTCTCTTTTTCATT
1 TTTTCATTTTTCTTTTTCATT
1848716 TTTTCATTTTTCTTTCTTCA
1 TTTTCATTTTTCTTT-TTCA
1848736 GTCGAAGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 28 0.78
22 8 0.22
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTCATTTTTCTTTTTCATT
Found at i:1848704 original size:13 final size:13
Alignment explanation
Indices: 1848688--1848716 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1848678 ATTCTTTCTT
1848688 TTTCTCTTTTTCA
1 TTTCTCTTTTTCA
1848701 TTTCTCTTTTTCA
1 TTTCTCTTTTTCA
1848714 TTT
1 TTT
1848717 TTTCATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTCTTTTTCA
Found at i:1852168 original size:19 final size:18
Alignment explanation
Indices: 1852127--1852194 Score: 65
Period size: 17 Copynumber: 3.9 Consensus size: 18
1852117 AATTGGAGTG
1852127 CAAAAAGAA-AGAAAAGA
1 CAAAAAGAAGAGAAAAGA
1852144 CAAAAAGAAGAGAAAA-A
1 CAAAAAGAAGAGAAAAGA
1852161 TCATAAAAG-A-AGAAAAGA
1 -CA-AAAAGAAGAGAAAAGA
*
1852179 -AGAAAAGAAAAGAAAA
1 CA-AAAAGAAGAGAAAA
1852195 AGAGAAGTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
16 6 0.14
17 17 0.39
18 16 0.36
19 5 0.11
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.03
Consensus pattern (18 bp):
CAAAAAGAAGAGAAAAGA
Found at i:1852473 original size:11 final size:11
Alignment explanation
Indices: 1852457--1852482 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1852447 AAGGAATTAA
1852457 CTTGTTATAAT
1 CTTGTTATAAT
1852468 CTTGTTATAAT
1 CTTGTTATAAT
1852479 CTTG
1 CTTG
1852483 AGTAAGTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.54
Consensus pattern (11 bp):
CTTGTTATAAT
Found at i:1853349 original size:28 final size:29
Alignment explanation
Indices: 1853318--1853373 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
1853308 TTTGTTTTGC
*
1853318 AGGACA-ATTCAAGAGTCATATCTTTTCA
1 AGGACAGATTCAAGAATCATATCTTTTCA
* *
1853346 AGGAGATGATTCAAGAATCATTTCTTTT
1 AGGACA-GATTCAAGAATCATATCTTTT
1853374 GGAGGACTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 5 0.22
30 18 0.78
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (29 bp):
AGGACAGATTCAAGAATCATATCTTTTCA
Found at i:1862065 original size:19 final size:20
Alignment explanation
Indices: 1862026--1862071 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
1862016 TCATTGAATC
1862026 ATTA-TTTTTAGCTCCTTAAT
1 ATTAGTTTTTAGCT-CTTAAT
1862046 ATTAGTTTTTAGCT-TTAAT
1 ATTAGTTTTTAGCTCTTAAT
1862065 ACTTAGT
1 A-TTAGT
1862072 AGTATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (20 bp):
ATTAGTTTTTAGCTCTTAAT
Found at i:1867416 original size:70 final size:70
Alignment explanation
Indices: 1867303--1867447 Score: 283
Period size: 70 Copynumber: 2.1 Consensus size: 70
1867293 CAAGCTAGTA
1867303 TATGGAAAATAATGTCATCTACCGGTGGAACTCGAACTCAAAGCTTATTGGGCCATCAAAAAAGA
1 TATGGAAAATAATGTCATCTACCGGTGGAACTCGAACTCAAAGCTTATTGGGCCATCAAAAAAGA
1867368 TAAAC
66 TAAAC
1867373 TATGGAAAATAATGTCATCTACCGGTGGAACTCGAACTCAAAGCTTATTGGGCCATCAAAAAAGA
1 TATGGAAAATAATGTCATCTACCGGTGGAACTCGAACTCAAAGCTTATTGGGCCATCAAAAAAGA
1867438 TAAAC
66 TAAAC
1867443 -ATGGA
1 TATGGA
1867448 TGCTCAGCTT
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
69 5 0.07
70 70 0.93
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (70 bp):
TATGGAAAATAATGTCATCTACCGGTGGAACTCGAACTCAAAGCTTATTGGGCCATCAAAAAAGA
TAAAC
Found at i:1868096 original size:16 final size:16
Alignment explanation
Indices: 1868075--1868109 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
1868065 CAAGTGATTT
1868075 AAAATTTATTTTCTTA
1 AAAATTTATTTTCTTA
1868091 AAAATTTATTTTCTTA
1 AAAATTTATTTTCTTA
1868107 AAA
1 AAA
1868110 TGGTAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (16 bp):
AAAATTTATTTTCTTA
Found at i:1868697 original size:45 final size:45
Alignment explanation
Indices: 1868640--1868771 Score: 158
Period size: 45 Copynumber: 2.9 Consensus size: 45
1868630 CATTTATTAA
* **
1868640 CCATAAGCTCATAAGCTTATTTTATCAAAATACTTACCATTTATC
1 CCATAAGCTCATAAGCTTATTTTACCATTATACTTACCATTTATC
* * * *
1868685 CCATAATG-TCATAAGCTTATCTTACCATTATACTTATCATTTGTT
1 CCATAA-GCTCATAAGCTTATTTTACCATTATACTTACCATTTATC
* * *
1868730 CCATAAGCTCGTAAACTTATTTTACCATTATACTTACAATTT
1 CCATAAGCTCATAAGCTTATTTTACCATTATACTTACCATTT
1868772 TTTCCGTAAG
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 1 0.01
45 71 0.97
46 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (45 bp):
CCATAAGCTCATAAGCTTATTTTACCATTATACTTACCATTTATC
Found at i:1868951 original size:33 final size:33
Alignment explanation
Indices: 1868914--1868980 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
1868904 ACCGTAGTTC
1868914 TAATCCGTATGACACATAAGGTCGTGTCCACCA
1 TAATCCGTATGACACATAAGGTCGTGTCCACCA
*
1868947 TAATCTGTATGACACATAAGGTCGTGTCCACCA
1 TAATCCGTATGACACATAAGGTCGTGTCCACCA
1868980 T
1 T
1868981 CTGTACTAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (33 bp):
TAATCCGTATGACACATAAGGTCGTGTCCACCA
Found at i:1885496 original size:32 final size:32
Alignment explanation
Indices: 1885436--1885496 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
1885426 AGGAAATTAC
* * *
1885436 TTAGTTTTCGAGAGAAACTAAGTAGTTCATCT
1 TTAGTGTTCAAGAGAAACTAAGGAGTTCATCT
1885468 TTAGTGTTCAAGAG-AACTAAGGAGGTTCA
1 TTAGTGTTCAAGAGAAACTAAGGA-GTTCA
1885497 ACATAAGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 8 0.32
32 17 0.68
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (32 bp):
TTAGTGTTCAAGAGAAACTAAGGAGTTCATCT
Found at i:1887023 original size:20 final size:20
Alignment explanation
Indices: 1886998--1887036 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1886988 TTTTCAAGGG
1886998 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
* *
1887018 CATGCATCGATGCATCAAT
1 CATGCACCGATGCACCAAT
1887037 TAATTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:1887105 original size:45 final size:46
Alignment explanation
Indices: 1887056--1887146 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
1887046 GAACATCGAA
* *
1887056 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
1887101 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
1887147 GCTTTTTCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 21 0.49
46 22 0.51
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
Found at i:1897039 original size:20 final size:20
Alignment explanation
Indices: 1897014--1897052 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1897004 TTTTCAAGGG
1897014 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
* *
1897034 CATGCATCGATGCATCAAT
1 CATGCACCGATGCACCAAT
1897053 TAATTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:1897121 original size:45 final size:46
Alignment explanation
Indices: 1897072--1897162 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
1897062 GAACATTGAA
* *
1897072 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
1897117 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
1897163 GATTTTTCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 21 0.49
46 22 0.51
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
Found at i:1904728 original size:22 final size:22
Alignment explanation
Indices: 1904703--1904746 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1904693 AACCATTTCG
* *
1904703 TTTTATTTTCATTTTATTTTTA
1 TTTTAATTTCACTTTATTTTTA
*
1904725 TTTTAATTTCGCTTTATTTTTA
1 TTTTAATTTCACTTTATTTTTA
1904747 GCAAAATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTAATTTCACTTTATTTTTA
Found at i:1905678 original size:50 final size:50
Alignment explanation
Indices: 1905623--1905722 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
1905613 CACTGTTTCG
1905623 AATTACACATTCAAGAACTTGAAGAAATCCGAAAAAATGCATATGACAGT
1 AATTACACATTCAAGAACTTGAAGAAATCCGAAAAAATGCATATGACAGT
1905673 AATTACACATTCAAGAACTTGAAGAAATCCGAAAAAATGCATATGACAGT
1 AATTACACATTCAAGAACTTGAAGAAATCCGAAAAAATGCATATGACAGT
1905723 GCTCGGATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (50 bp):
AATTACACATTCAAGAACTTGAAGAAATCCGAAAAAATGCATATGACAGT
Found at i:1906100 original size:11 final size:11
Alignment explanation
Indices: 1906081--1906127 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
1906071 AGGCAACCCA
*
1906081 TTTCGTTTTAT
1 TTTCATTTTAT
1906092 TTTCATTTTAT
1 TTTCATTTTAT
*
1906103 TTTCATTTTAA
1 TTTCATTTTAT
1906114 TTTC-TCTTTAT
1 TTTCAT-TTTAT
1906125 TTT
1 TTT
1906128 TAGCAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
10 1 0.03
11 31 0.97
ACGTcount: A:0.15, C:0.11, G:0.02, T:0.72
Consensus pattern (11 bp):
TTTCATTTTAT
Found at i:1908093 original size:85 final size:86
Alignment explanation
Indices: 1907908--1908098 Score: 269
Period size: 85 Copynumber: 2.2 Consensus size: 86
1907898 TAAACTCAAG
1907908 TTTTAGGATATTATTTTAAATATTATATTTGTTTTAGGAATTTTAGTTTAAATAGTTTTAAGTAT
1 TTTTAGGATATTATTTT--ATATTATATTTGTTTTAGGAATTTTAGTTTAAATAGTTTTAAGTAT
*
1907973 TACAATTAGGATTTAGGATATTA
64 TACAATTAGGATTTAAGATATTA
* * * * * *
1907996 TTTTA-AATATTATTTTATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAAGTGTTT
1 TTTTAGGATATTATTTTATATTATATTTGTTTTAGGAATTTTAGTTTAAATAGTTTTAAGTATTA
*
1908060 TAATTAGGATTTAAGATATTA
66 CAATTAGGATTTAAGATATTA
1908081 TTTTAGGA-ATTATCTTTA
1 TTTTAGGATATTAT-TTTA
1908099 GCTTCTTTTT
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
85 72 0.78
86 5 0.05
87 10 0.11
88 5 0.05
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.54
Consensus pattern (86 bp):
TTTTAGGATATTATTTTATATTATATTTGTTTTAGGAATTTTAGTTTAAATAGTTTTAAGTATTA
CAATTAGGATTTAAGATATTA
Found at i:1910693 original size:26 final size:25
Alignment explanation
Indices: 1910664--1910723 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
1910654 ACCGATTTCT
1910664 TACACATAAGGTCATGCCCACCATAA
1 TACACATAAGGTCATGCCCACCAT-A
** *
1910690 TACACATAAGGTTGTGCCCACTATA
1 TACACATAAGGTCATGCCCACCATA
1910715 TACAC-TAAG
1 TACACATAAG
1910724 TGCCCTTACA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 4 0.13
25 6 0.19
26 21 0.68
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (25 bp):
TACACATAAGGTCATGCCCACCATA
Found at i:1912119 original size:21 final size:21
Alignment explanation
Indices: 1912093--1912132 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1912083 CCATATTGCC
1912093 CATAGGCTATCGATACCCCCT
1 CATAGGCTATCGATACCCCCT
*
1912114 CATAGGGTATCGATACCCC
1 CATAGGCTATCGATACCCC
1912133 TATGCAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (21 bp):
CATAGGCTATCGATACCCCCT
Found at i:1917484 original size:23 final size:24
Alignment explanation
Indices: 1917458--1917504 Score: 87
Period size: 23 Copynumber: 2.0 Consensus size: 24
1917448 TTGATACCCC
1917458 CTTTGAATGGGTACCGATA-CCAT
1 CTTTGAATGGGTACCGATATCCAT
1917481 CTTTGAATGGGTACCGATATCCAT
1 CTTTGAATGGGTACCGATATCCAT
1917505 GAGGGTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (24 bp):
CTTTGAATGGGTACCGATATCCAT
Found at i:1920155 original size:23 final size:23
Alignment explanation
Indices: 1920092--1920156 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
1920082 CCAGATTGCC
* * *
1920092 CATAGGCTATCGATACCACCCCT
1 CATAGGGTACCGATACCCCCCCT
1920115 CATAGGGTACCGATACCCCCCCT
1 CATAGGGTACCGATACCCCCCCT
1920138 CATAGGGTACCGATACCCC
1 CATAGGGTACCGATACCCC
1920157 TATGAAAGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.25, C:0.40, G:0.17, T:0.18
Consensus pattern (23 bp):
CATAGGGTACCGATACCCCCCCT
Found at i:1922307 original size:19 final size:20
Alignment explanation
Indices: 1922285--1922341 Score: 55
Period size: 24 Copynumber: 2.7 Consensus size: 20
1922275 TTCCTTTTAT
1922285 TTTTATTATTTCTAATTCA-
1 TTTTATTATTTCTAATTCAC
1922304 TTTTAATTTTTAATTTCTAATTCAC
1 TTTT-A---TT-ATTTCTAATTCAC
1922329 TTTT-TTATTTCTA
1 TTTTATTATTTCTA
1922342 TTTTGTCCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
19 11 0.34
20 3 0.09
23 2 0.06
24 12 0.38
25 4 0.12
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTATTATTTCTAATTCAC
Found at i:1922324 original size:24 final size:25
Alignment explanation
Indices: 1922278--1922332 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 25
1922268 GTCCCTTTTC
1922278 CTTTTATTTTTATTATTTCTAATTCA
1 CTTTTATTTTTA-TATTTCTAATTCA
1922304 -TTTTAATTTTTA-ATTTCTAATTCA
1 CTTTT-ATTTTTATATTTCTAATTCA
1922328 CTTTT
1 CTTTT
1922333 TTATTTCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 12 0.44
25 8 0.30
26 7 0.26
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (25 bp):
CTTTTATTTTTATATTTCTAATTCA
Found at i:1927946 original size:14 final size:15
Alignment explanation
Indices: 1927927--1927955 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1927917 TTTCAATGTA
1927927 TGCAAAAAT-TATTT
1 TGCAAAAATATATTT
1927941 TGCAAAAATATATTT
1 TGCAAAAATATATTT
1927956 CACAAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (15 bp):
TGCAAAAATATATTT
Found at i:1944312 original size:45 final size:45
Alignment explanation
Indices: 1944263--1944350 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
1944253 GAACATCGAA
* * *
1944263 TGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAACCATGCATCGATACACTCAG
1944308 TGCATTTGATGCATCGATGCACAAACCATGCATCGATACACTC
1 TGCATTTGATGCATCGATGCACAAACCATGCATCGATACACTC
1944351 TGGCTATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (45 bp):
TGCATTTGATGCATCGATGCACAAACCATGCATCGATACACTCAG
Found at i:1952554 original size:45 final size:45
Alignment explanation
Indices: 1952505--1952592 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
1952495 GAACATCGAA
* * *
1952505 TGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAACCATGCATCAATGCACTCAG
1952550 TGCATTTGATGCATCGATGCACAAACCATGCATCAATGCACTC
1 TGCATTTGATGCATCGATGCACAAACCATGCATCAATGCACTC
1952593 TGGCTATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (45 bp):
TGCATTTGATGCATCGATGCACAAACCATGCATCAATGCACTCAG
Found at i:1954470 original size:54 final size:54
Alignment explanation
Indices: 1954404--1955012 Score: 710
Period size: 54 Copynumber: 11.4 Consensus size: 54
1954394 TTCGTTGAGA
* * * * * * *
1954404 TGCACACGTAGTGCCTGTAGGGTCATTCATAAACATATTATGAATTTTAT-GGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTATGGGT
* ** * *
1954457 TCGCACACATAGTGCCTATACAATCATTCATCAACATATGATGAATTCCATGGGT
1 T-GCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTATGGGT
* *
1954512 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTATGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTATGGGT
* * *
1954566 TGCACACTTAGTGCATATA-TGTCATTCATCAACATATGATGAATT-TCATGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCT-ATGGGT
* * * * *
1954619 TGCACAATTAGTGCCTATATGGTCGCTCATCAACATGTGATGAATT-TCGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCT-ATGGGT
* * * * * *
1954673 TGCACACTTAGTGCTTGTACGGTCATTCATCAATAAATGATGAATTCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTATGGGT
* * *
1954727 TGCAAACTTAGTGCCTATACAGTCGTTCATCAACATATGATAAATTCTATGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTATGGGT
* * * *
1954781 TGCACACTTAGTACCTATACGGTCGTTCATCAACACATGATGCATTCCATGGG-
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTATGGGT
* * * * *
1954834 T-CACACTTAGTTCCTATACAGTCGTTCATCAACATATGATGAATTTTGTAGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTATGGGT
* * *
1954887 TGCACACTTAGTACCTATACGGTCATTCAT-AACATATGATGAATTCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTATGGGT
* * * * *
1954940 TGCACACGTAGTGCCTATACGGTCGTTCATCAACATATGATTAATTCCAAGGGA
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTATGGGT
1954994 TGCACACTTAGTGCCTATA
1 TGCACACTTAGTGCCTATA
1955013 GTACACATAT
Statistics
Matches: 474, Mismatches: 74, Indels: 15
0.84 0.13 0.03
Matches are distributed among these distances:
52 44 0.09
53 97 0.20
54 328 0.69
55 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (54 bp):
TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTATGGGT
Found at i:1960664 original size:25 final size:25
Alignment explanation
Indices: 1960606--1960656 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
1960596 TTAATATTAG
*
1960606 ACCCTTATTGATCTTATCAATATTC
1 ACCCTTATTGATCTCATCAATATTC
1960631 ACCCTTATTGATCTCATCAATATTC
1 ACCCTTATTGATCTCATCAATATTC
1960656 A
1 A
1960657 TTCTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.25, G:0.04, T:0.41
Consensus pattern (25 bp):
ACCCTTATTGATCTCATCAATATTC
Found at i:1969148 original size:75 final size:75
Alignment explanation
Indices: 1969025--1969171 Score: 294
Period size: 75 Copynumber: 2.0 Consensus size: 75
1969015 ATGACTACCT
1969025 TTTTCATGATCGGGTTGAGTCTTCTTTGTGGTTCCACTGAAGTGTTATGACTGTCTTCTAAGTTG
1 TTTTCATGATCGGGTTGAGTCTTCTTTGTGGTTCCACTGAAGTGTTATGACTGTCTTCTAAGTTG
1969090 ATTTTGTGCC
66 ATTTTGTGCC
1969100 TTTTCATGATCGGGTTGAGTCTTCTTTGTGGTTCCACTGAAGTGTTATGACTGTCTTCTAAGTTG
1 TTTTCATGATCGGGTTGAGTCTTCTTTGTGGTTCCACTGAAGTGTTATGACTGTCTTCTAAGTTG
1969165 ATTTTGT
66 ATTTTGT
1969172 ATATGCATAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.46
Consensus pattern (75 bp):
TTTTCATGATCGGGTTGAGTCTTCTTTGTGGTTCCACTGAAGTGTTATGACTGTCTTCTAAGTTG
ATTTTGTGCC
Found at i:1975648 original size:159 final size:160
Alignment explanation
Indices: 1975359--1975679 Score: 635
Period size: 159 Copynumber: 2.0 Consensus size: 160
1975349 TTTGCATCGC
1975359 ATCATACATCGTTTATTTATTAGTTGTATTAATGTTTGATTTACATGTTTCAGATTTATGACATT
1 ATCATACATCGTTTATTTATTAGTTGTATTAATGTTTGATTTACATGTTTCAGATTTATGACATT
1975424 TCTTTTAGTTTGTTTGTTTTTAGATCAAGGCAAAGGATTGTGAGTTTCCCCTTACATATGCTAAA
66 TCTTTTAGTTTGTTTGTTTTTAGATCAAGGCAAAGGATTGTGAGTTTCCCCTTACATATGCTAAA
1975489 GCC-TGCTTATTTAGAGCGTTCTAATTGTG
131 GCCATGCTTATTTAGAGCGTTCTAATTGTG
1975518 ATCATACATCGTTTATTTATTAGTTGTATTAATGTTTGATTTACATGTTTCAGATTTATGACATT
1 ATCATACATCGTTTATTTATTAGTTGTATTAATGTTTGATTTACATGTTTCAGATTTATGACATT
1975583 TCTTTTAGTTTGTTTGTTTTTAGATCAAGGCAAAGGATTGTGAGTTTCCCCTTACATATGCTAAA
66 TCTTTTAGTTTGTTTGTTTTTAGATCAAGGCAAAGGATTGTGAGTTTCCCCTTACATATGCTAAA
1975648 GCCATGCTTATTTAGAGCGTTCTAATTGTG
131 GCCATGCTTATTTAGAGCGTTCTAATTGTG
1975678 AT
1 AT
1975680 ATGTCCCGTT
Statistics
Matches: 161, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
159 133 0.83
160 28 0.17
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (160 bp):
ATCATACATCGTTTATTTATTAGTTGTATTAATGTTTGATTTACATGTTTCAGATTTATGACATT
TCTTTTAGTTTGTTTGTTTTTAGATCAAGGCAAAGGATTGTGAGTTTCCCCTTACATATGCTAAA
GCCATGCTTATTTAGAGCGTTCTAATTGTG
Found at i:1982785 original size:42 final size:41
Alignment explanation
Indices: 1982738--1982833 Score: 102
Period size: 42 Copynumber: 2.3 Consensus size: 41
1982728 AATTGGTAAG
* *
1982738 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAA
1 TCCTTCGAGCCATCAGTAAGTCTTTCGAGCAAGATGA-TAAA
* * ** * *
1982780 TCCTTCTAGTCATTTGTATGTCTTTCGAGCAAGATGATAAG
1 TCCTTCGAGCCATCAGTAAGTCTTTCGAGCAAGATGATAAA
*
1982821 TCCTTCGAACCAT
1 TCCTTCGAGCCAT
1982834 TCGTAAGACC
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
41 13 0.30
42 30 0.70
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (41 bp):
TCCTTCGAGCCATCAGTAAGTCTTTCGAGCAAGATGATAAA
Found at i:1982875 original size:196 final size:195
Alignment explanation
Indices: 1982534--1982900 Score: 533
Period size: 196 Copynumber: 1.9 Consensus size: 195
1982524 TGTTTCTTGC
*
1982534 TTGGCAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATTATTAAATCCTTCAGGTCATCT
1 TTGGCAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCT
* * ** *
1982599 GTAAGTCTTTCGAGGAAGATGATAATTCCTTCGGGCCATCTCTAAGACCTTCGGTTAGGATGTTT
66 GTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGAACCATCTCTAAGACCTTCGGGTAGGATGTTT
* *
1982664 TCACATGAATTTGAAAAATGAGAAAGTGATATCCAAAGTTTCTTACCTAGTAAACTATTTCCAAA
131 TCAAATGAATTTG-AAAATGAGAAAGCGATATCCAAAGTTTCTTACCTAGTAAACTATTTCCAAA
1982729 A
195 A
* * *
1982730 TTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCTA-GTCATT
1 TTGGCAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTC-AGGTCATC
* *
1982794 TGTATGTCTTTCGAGCAAGATGATAAGTCCTTCGAACCAT-TCGTAAGACCTTCGGGTATGATGT
65 TGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGAACCATCTC-TAAGACCTTCGGGTAGGATGT
* * *
1982858 TTTCAAAT-AATTTTGAAAATGGGAAAGCGATTTTCAAAGTTTC
129 TTTCAAATGAA-TTTGAAAATGAGAAAGCGATATCCAAAGTTTC
1982901 CCATAATGAG
Statistics
Matches: 152, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
195 28 0.18
196 123 0.81
197 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (195 bp):
TTGGCAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCT
GTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGAACCATCTCTAAGACCTTCGGGTAGGATGTTT
TCAAATGAATTTGAAAATGAGAAAGCGATATCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAA
Found at i:1983345 original size:42 final size:42
Alignment explanation
Indices: 1983281--1983377 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
1983271 AATTGGTAAG
* * **
1983281 TCCTTCGGGCCAT-TAGTAAGTCTTTGGAGCATTATGATTAAA
1 TCCTTCGGGCCATCTAGTAAGTCTATCGAGCAAGATGA-TAAA
* * *
1983323 TCCTTCGGGTCATCT-GTTAGTCTATCGAGCAAGATGATAAG
1 TCCTTCGGGCCATCTAGTAAGTCTATCGAGCAAGATGATAAA
1983364 TCCTTCGGGCCATC
1 TCCTTCGGGCCATC
1983378 CGAAAGTCAT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 16 0.35
42 29 0.63
43 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.33
Consensus pattern (42 bp):
TCCTTCGGGCCATCTAGTAAGTCTATCGAGCAAGATGATAAA
Found at i:1983361 original size:257 final size:257
Alignment explanation
Indices: 1982905--1983452 Score: 810
Period size: 257 Copynumber: 2.1 Consensus size: 257
1982895 AGTTTCCCAT
*
1982905 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTTAGAAAATCAAATTTTTGAAAAGTA
1 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTTAGAAAATCAAATTTTCGAAAAGTA
* ** * *
1982970 AGAAAGCGATTTCCAAAGTTTCTTATCCAGTAAACTATTTCTTAAATTGGTAAGTCTTTCTGGCC
66 AGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCC
*
1983035 ATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTATCAGTCTTTCGAGCAAGA
131 ATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTATCAGTCTATCGAGCAAGA
* * * *
1983100 TGATAAGTCCTTCAGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATGAATTTGAAA
196 TGATAAGTCCTTCAGGCCATCCGAAAGACATTCGGGTAAGATGTTTTCACATGAATTTCAAA
*
1983162 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGT-TTTTTCAGAAAATGAAATTTTCGAAAAGT
1 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTT-AGAAAATCAAATTTTCGAAAAGT
* *
1983226 AAGAAAGTGATTTCCAAAGTTTCTTACCCATTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGC
65 AAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGC
* * * * * * *
1983291 CATTAGTAAGTCTTTGGAGCATTATGATTAAATCCTTCGGGTCATCTGTTAGTCTATCGAGCAAG
130 CATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTATCAGTCTATCGAGCAAG
* * * *
1983356 ATGATAAGTCCTTCGGGCCATCCGAAAGTCATTTGGGTAAGATGTTTTCACATGATTTTCAAA
195 ATGATAAGTCCTTCAGGCCATCCGAAAGACATTCGGGTAAGATGTTTTCACATGAATTTCAAA
* ***
1983419 AGATGATAAATAAATTTCCAAAGTTTCTCATTTA
1 A-ATGAGAAAGCGATTTCCAAAGTTTCTCATTTA
1983453 ATATAAGAAG
Statistics
Matches: 260, Mismatches: 29, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
256 5 0.02
257 227 0.87
258 28 0.11
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (257 bp):
AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTTAGAAAATCAAATTTTCGAAAAGTA
AGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCC
ATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTATCAGTCTATCGAGCAAGA
TGATAAGTCCTTCAGGCCATCCGAAAGACATTCGGGTAAGATGTTTTCACATGAATTTCAAA
Found at i:1983487 original size:11 final size:11
Alignment explanation
Indices: 1983460--1983497 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1983450 TTAATATAAG
1983460 AAGAAAAT-GA
1 AAGAAAATAGA
*
1983470 AGTGAAAATAGA
1 A-AGAAAATAGA
1983482 AAGAAAATAGA
1 AAGAAAATAGA
1983493 AAGAA
1 AAGAA
1983498 GCGAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 1 0.04
11 20 0.83
12 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.21, T:0.11
Consensus pattern (11 bp):
AAGAAAATAGA
Found at i:1983942 original size:20 final size:20
Alignment explanation
Indices: 1983914--1983956 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1983904 CTCTTCCAAG
* *
1983914 GCAGCACCAAATCTACGGCA
1 GCAGCACCAAATCCACAGCA
*
1983934 GCAGTACCAAATCCACAGCA
1 GCAGCACCAAATCCACAGCA
1983954 GCA
1 GCA
1983957 ATAGCCTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.35, G:0.19, T:0.09
Consensus pattern (20 bp):
GCAGCACCAAATCCACAGCA
Found at i:1986219 original size:105 final size:103
Alignment explanation
Indices: 1986034--1986242 Score: 359
Period size: 105 Copynumber: 2.0 Consensus size: 103
1986024 AACATATGAA
1986034 ATAAGCATCTATAGGTTAAAGATAGAAAGTTTTTCCTGGAGAGGTTGGAATAGCCATGGTAAATG
1 ATAAGCATCTATAGGTTAAAGATAGAAAGTTTTTCCTGGAGAGGTTGGAATAGCCATGGTAAATG
*
1986099 CTGATGCTGAATGGATCACATCATCCT-CCCTTCTTTT
66 ATGATGCTGAATGGATCACATCATCCTCCCCTTCTTTT
1986136 ATAAGCATCTATAGGTATAAAGATAGAAAGTTTCTTCCCTGGAGAGGTTGGAATAGCCATGGTAA
1 ATAAGCATCTATAGGT-TAAAGATAGAAAGTTT-TT-CCTGGAGAGGTTGGAATAGCCATGGTAA
1986201 AT-ATGATGCTGAATTGGATCACATCATCCTCCCCTTCTTTT
63 ATGATGATGCTGAA-TGGATCACATCATCCTCCCCTTCTTTT
1986242 A
1 A
1986243 ATCGATTTTC
Statistics
Matches: 101, Mismatches: 1, Indels: 6
0.94 0.01 0.06
Matches are distributed among these distances:
102 16 0.16
103 16 0.16
104 12 0.12
105 46 0.46
106 11 0.11
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (103 bp):
ATAAGCATCTATAGGTTAAAGATAGAAAGTTTTTCCTGGAGAGGTTGGAATAGCCATGGTAAATG
ATGATGCTGAATGGATCACATCATCCTCCCCTTCTTTT
Found at i:1988786 original size:8 final size:8
Alignment explanation
Indices: 1988775--1988843 Score: 52
Period size: 8 Copynumber: 8.4 Consensus size: 8
1988765 TCTTTTTGAA
1988775 TTTTTCTT
1 TTTTTCTT
1988783 TTTTTCTTT
1 TTTTTC-TT
1988792 TCTTTTCTT
1 T-TTTTCTT
* *
1988801 CTTTTCTGA
1 TTTTTCT-T
1988810 TTTTTC--
1 TTTTTCTT
*
1988816 TTCTTCTT
1 TTTTTCTT
*
1988824 TTTGTCTT
1 TTTTTCTT
1988832 TTCTTTCTT
1 TT-TTTCTT
1988841 TTT
1 TTT
1988844 GTGCTCCAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
6 5 0.10
8 21 0.44
9 17 0.35
10 5 0.10
ACGTcount: A:0.01, C:0.17, G:0.03, T:0.78
Consensus pattern (8 bp):
TTTTTCTT
Found at i:1988792 original size:13 final size:13
Alignment explanation
Indices: 1988776--1988842 Score: 80
Period size: 13 Copynumber: 4.9 Consensus size: 13
1988766 CTTTTTGAAT
1988776 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
*
1988789 TTTTCTTTTCTTC
1 TTTTCTTTTTTTC
*
1988802 TTTTCTGATTTTTC
1 TTTTCT-TTTTTTC
*
1988816 TTCTTCTTTTTGTC
1 TT-TTCTTTTTTTC
1988830 TTTTCTTTCTTTT
1 TTTTCTTT-TTTT
1988843 TGTGCTCCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
13 24 0.53
14 17 0.38
15 4 0.09
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.78
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:1988822 original size:28 final size:27
Alignment explanation
Indices: 1988783--1988835 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 27
1988773 AATTTTTCTT
1988783 TTTTTCTTTTCTTTTCT-TCTTTTCTGA
1 TTTTTCTTTTCTTTT-TGTCTTTTCTGA
1988810 TTTTTCTTCTTCTTTTTGTCTTTTCT
1 TTTTTCTT-TTCTTTTTGTCTTTTCT
1988836 TTCTTTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.02, C:0.19, G:0.04, T:0.75
Consensus pattern (27 bp):
TTTTTCTTTTCTTTTTGTCTTTTCTGA
Found at i:1993074 original size:18 final size:18
Alignment explanation
Indices: 1993053--1993088 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1993043 TCACGGGCTG
1993053 ATAATTCTTTATTTACCT
1 ATAATTCTTTATTTACCT
1993071 ATAATTCTTTATTTACCT
1 ATAATTCTTTATTTACCT
1993089 TTGTTCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.56
Consensus pattern (18 bp):
ATAATTCTTTATTTACCT
Found at i:1996156 original size:12 final size:14
Alignment explanation
Indices: 1996129--1996163 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
1996119 TACATCATAC
1996129 ATTGCATAATATAT
1 ATTGCATAATATAT
1996143 ATTGCATAATATAT
1 ATTGCATAATATAT
1996157 ATTGCAT
1 ATTGCAT
1996164 CTTAACATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.43
Consensus pattern (14 bp):
ATTGCATAATATAT
Done.