Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008935.1 Hibiscus syriacus cultivar Beakdansim tig00112253_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: 1775090
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 9
Found at i:1596213 original size:77 final size:77
Alignment explanation
Indices: 1596086--1596240 Score: 310
Period size: 77 Copynumber: 2.0 Consensus size: 77
1596076 AATTACCCGA
1596086 GCAAGGGTTAAGCTTCAGACAGCTCCAGACATGGTGGGTTTCAGTGCATGAGTAACGCTTTTACG
1 GCAAGGGTTAAGCTTCAGACAGCTCCAGACATGGTGGGTTTCAGTGCATGAGTAACGCTTTTACG
1596151 TACGTATTCTAG
66 TACGTATTCTAG
1596163 GCAAGGGTTAAGCTTCAGACAGCTCCAGACATGGTGGGTTTCAGTGCATGAGTAACGCTTTTACG
1 GCAAGGGTTAAGCTTCAGACAGCTCCAGACATGGTGGGTTTCAGTGCATGAGTAACGCTTTTACG
1596228 TACGTATTCTAG
66 TACGTATTCTAG
1596240 G
1 G
1596241 TTGTTCCACC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (77 bp):
GCAAGGGTTAAGCTTCAGACAGCTCCAGACATGGTGGGTTTCAGTGCATGAGTAACGCTTTTACG
TACGTATTCTAG
Found at i:1601739 original size:79 final size:76
Alignment explanation
Indices: 1601612--1601766 Score: 267
Period size: 79 Copynumber: 2.0 Consensus size: 76
1601602 AACCTTTAGT
1601612 TAATTACAGACAACCATCCCAAACGGCGTCGTTCGGGGAGGGCTATTTAAGTCCCTAACCGGCTG
1 TAATTACAGACAACCATCCCAAACGGCGTCGTTCGGGGAGGGCTATTTAAGTCCCTAACCGGCTG
1601677 G-CCGAAGGGC
66 GCCCGAAGGGC
1601687 TAATTACAGACAGACCCATCCCCAAAACGGCGTCGTTCGGGGAGGGCTATTTAAGTCCCTAACCG
1 TAATTACAGACA-A-CCAT-CCC-AAACGGCGTCGTTCGGGGAGGGCTATTTAAGTCCCTAACCG
1601752 GCTGGCCCGAAGGGC
62 GCTGGCCCGAAGGGC
1601767 CAACTCTCAA
Statistics
Matches: 75, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
75 12 0.16
76 1 0.01
77 4 0.05
78 3 0.04
79 46 0.61
80 9 0.12
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.18
Consensus pattern (76 bp):
TAATTACAGACAACCATCCCAAACGGCGTCGTTCGGGGAGGGCTATTTAAGTCCCTAACCGGCTG
GCCCGAAGGGC
Found at i:1602571 original size:35 final size:35
Alignment explanation
Indices: 1602511--1602581 Score: 83
Period size: 35 Copynumber: 2.0 Consensus size: 35
1602501 CATTGGGCCT
* *
1602511 ATAATATTTTTTATAATAATAATAATATATATATA
1 ATAATATTTTTTATAATAATAATAATAAATAAATA
*
1602546 ATAATAATTATTTTATTAT-AT-ATAATAAATAAATA
1 ATAAT-ATT-TTTTATAATAATAATAATAAATAAATA
1602581 A
1 A
1602582 AATGGGTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
35 18 0.58
36 5 0.16
37 8 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (35 bp):
ATAATATTTTTTATAATAATAATAATAAATAAATA
Found at i:1602833 original size:17 final size:17
Alignment explanation
Indices: 1602811--1602867 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
1602801 TTGAACAAGC
1602811 TCTTCTCATTGTGAACT
1 TCTTCTCATTGTGAACT
* * *
1602828 TCTTCTTATTCAT-ATGAGT
1 TCTTCTCATT-GTGA--ACT
1602847 TCTTCTCATTGTGAACT
1 TCTTCTCATTGTGAACT
1602864 TCTT
1 TCTT
1602868 ATGGAAATGC
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
17 16 0.53
18 2 0.07
19 12 0.40
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.51
Consensus pattern (17 bp):
TCTTCTCATTGTGAACT
Found at i:1603242 original size:114 final size:114
Alignment explanation
Indices: 1602913--1603778 Score: 1336
Period size: 114 Copynumber: 7.7 Consensus size: 114
1602903 ATAGAGTCAT
* ** * * *
1602913 GCAAAAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTTTTCTTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * * *
1602978 ATTATGAAC---TCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGA
66 ATTATGAACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* * * * *
1603024 GCGAAA-GTTGAACAAGTTCTTCTCATTATGAA-CTCTTCTT-CTACTTCAAATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
** ** * * **
1603086 ATTATGAACTCTTTCACTGGGGATGCTGATCCATCAAATGATGAATTCAA
66 ATTATGAACT-TTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* * *
1603136 ACAAAAGGTTGAACAATTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTTTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1603201 ATTATGAACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
66 ATTATGAACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* *
1603250 GCAAAAGGTTGAACAATTTCTTCTCATTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1603315 ATTATGAACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
66 ATTATGAACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
1603364 GC-AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
1603427 ATTATGTACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
66 ATTATGAACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
1603476 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1603541 ATTATGAACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
66 ATTATGAACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* *
1603590 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTTTTCTTCATTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1603655 ATTATGAAC-TTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
66 ATTATGAACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* *
1603703 GCAAAAGGTTGAACAATTTCTTCTCATTATGAATTTCTTCTTCATTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
1603768 ATTAAGAACTT
66 ATTATGAACTT
1603779 CTACTGGTAC
Statistics
Matches: 702, Mismatches: 43, Indels: 17
0.92 0.06 0.02
Matches are distributed among these distances:
108 28 0.04
109 6 0.01
110 24 0.03
111 5 0.01
112 102 0.15
113 216 0.31
114 292 0.42
115 29 0.04
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (114 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
Found at i:1603798 original size:226 final size:227
Alignment explanation
Indices: 1602913--1603813 Score: 1325
Period size: 226 Copynumber: 4.0 Consensus size: 227
1602903 ATAGAGTCAT
* ** * *
1602913 GCAAAAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTTTTCTTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTC-TTCTTCAGATGAGTTCTTCTC
* * * * * * *
1602978 ATTATGAAC---TCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCGAAA-GTTGAACAA
65 ATTATGAACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAA
* * * * *
1603039 GTTCTTCTCATTATGAA-CTCTTCTT-CTACTTCAAATGAGTTCTTCTCATTATGAACTCTTTCA
130 TTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTTTA
** * * **
1603102 CTGGGGATGCTGATCCATCAAATGATGAATTCAA
194 CTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* * *
1603136 ACAAAAGGTTGAACAATTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTTTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTT-CTTCTTCAGATGAGTTCTTCTC
1603201 ATTATGAACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAA
65 ATTATGAACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAA
* *
1603266 TTTCTTCTCATTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTTTTC
130 TTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTAC
1603331 TGGAAAAGCTGATCCATCAAATGATGGATTTGA
195 TGGAAAAGCTGATCCATCAAATGATGGATTTGA
*
1603364 GC-AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTCTTCAGATGAGTTCTTCTCA
* *
1603428 TTATGTACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAA
66 TTATGAACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAT
*
1603493 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCT
131 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTACT
1603558 GGAAAAGCTGATCCATCAAATGATGGATTTGA
196 GGAAAAGCTGATCCATCAAATGATGGATTTGA
*
1603590 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTTTTCTTCATTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTC-TTCTTCAGATGAGTTCTTCTC
1603655 ATTATGAAC-TTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAA
65 ATTATGAACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAA
* * *
1603719 TTTCTTCTCATTATGAATTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTAAGAAC-TTCTAC
130 TTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTAC
* ** * **
1603783 TGGTACTGTTGATCCATTGAATGATGGATTT
195 TGGAAAAGCTGATCCATCAAATGATGGATTT
1603814 AAATCTTTGC
Statistics
Matches: 621, Mismatches: 48, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
223 65 0.10
224 1 0.00
226 247 0.40
227 212 0.34
228 67 0.11
229 29 0.05
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (227 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAT
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTACT
GGAAAAGCTGATCCATCAAATGATGGATTTGA
Found at i:1603798 original size:340 final size:337
Alignment explanation
Indices: 1602913--1603816 Score: 1341
Period size: 340 Copynumber: 2.7 Consensus size: 337
1602903 ATAGAGTCAT
* ** * *
1602913 GCAAAAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTT-TTCTTTCTTCAGATGAGTTCTTCT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA-TTTTTTCTTCATTCTTCAGATGAGTTCTTCT
* * * * * *
1602977 CATTATGAAC--TCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCGAAA-GTTGAACAA
65 CATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGC-AAAGGTTGAACAA
* * * *
1603039 GTTCTTCTCATTATGAA-CTCTTCTTCTACTTCAAATGAGTTCTTCTCATTATGAACTCTTTCAC
129 ATTCTTCTCATTATGAATTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTT-AC
* * * *
1603103 TGGGGATGCTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAATTTCTTCTCATTATGA
192 T-GGAATGCTGATCCATCAAATGATGGATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGA
*
1603168 ATTTCTTCTTCCTTCTTCAGATGAGTTTTTCTCATTATGAACTTTTTTCTGGAAAAGCTGATCCA
256 ATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTGGAAAAGCTGATCCA
1603233 TCAAATGATGGATTTGA
321 TCAAATGATGGATTTGA
* * * *
1603250 GCAAAAGGTTGAACAATTTCTTCTCATTATGAATTTCTTCTTCCTTTTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTTTTCTTCATTCTTCAGATGAGTTCTTCTC
1603315 ATTATGAACTTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAGGTTGAACAAA
66 ATTATGAAC-TTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAGGTTGAACAAA
* * *
1603380 TTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGTACTTTTTTCTG
130 TTCTTCTCATTATGAATTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTTTACTG
* * *
1603445 GAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
194 G-AATGCTGATCCATCAAATGATGGATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAT
1603510 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTGGAAAAGCTGATCCATC
258 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTGGAAAAGCTGATCCATC
1603575 AAATGATGGATTTGA
323 AAATGATGGATTTGA
1603590 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTTTTCTTCATTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTTTTCTTCATTCTTCAGATGAGTTCTTCTC
*
1603655 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAT
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGC-AAAGGTTGAACAAA
* *
1603720 TTCTTCTCATTATGAATTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTAAGAACTTCTACTG
130 TTCTTCTCATTATGAATTTCTTCTTC-TTCTTCAGATGAGTTCTTCTCATTATGAACTTTTACTG
* * **
1603785 GTACTGTTGATCCATTGAATGATGGATTTAAA
194 G-AATGCTGATCCATCAAATGATGGATTTAAA
1603817 TCTTTGCTAA
Statistics
Matches: 511, Mismatches: 46, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
336 4 0.01
337 62 0.12
339 46 0.09
340 334 0.65
341 64 0.13
342 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (337 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTTTTCTTCATTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAGGTTGAACAAAT
TCTTCTCATTATGAATTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTACTGGA
ATGCTGATCCATCAAATGATGGATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTGGAAAAGCTGATCCATCAAA
TGATGGATTTGA
Found at i:1604662 original size:114 final size:114
Alignment explanation
Indices: 1604499--1604835 Score: 489
Period size: 114 Copynumber: 3.0 Consensus size: 114
1604489 GATCATGCAG
* * * * * * * *
1604499 TTCATCTTTT-AATTCCAATAATTGGTTCTGTGGTTCCTACCGAACCAGATCAGATGACTCAAAG
1 TTCATCTTTTAAATT-CAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAG
* * *
1604563 AAAACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTATTATGAGCAAA
65 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTCCTACTATGAGCAAA
1604613 TTCATCTTTTAAATTCAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTTAAATTCAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
*
1604678 ACACTTCCAGAAGATGCTATTTGGTCTT-TGTATTCCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCT-TATTCCTACTATGAGCAAA
* *
1604727 TTCATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTTAAATTCAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
* * *
1604792 ACACTTCCAGAATATGCTATTGGGTCTTCGTATTCCTACCATGA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTCCTACTATGA
1604836 TAACGTGGCA
Statistics
Matches: 202, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
113 1 0.00
114 197 0.98
115 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.34
Consensus pattern (114 bp):
TTCATCTTTTAAATTCAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTCCTACTATGAGCAAA
Found at i:1605157 original size:19 final size:17
Alignment explanation
Indices: 1605129--1605177 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
1605119 AAAATAAAAG
*
1605129 AATAAGTTGAATTTTCGAA
1 AATAAATTGAATTTTC--A
*
1605148 AATAAATTGAA-TCTCA
1 AATAAATTGAATTTTCA
1605164 AATAAATTGAATTT
1 AATAAATTGAATTT
1605178 AGAGAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 12 0.46
17 1 0.04
18 3 0.12
19 10 0.38
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (17 bp):
AATAAATTGAATTTTCA
Found at i:1605549 original size:14 final size:14
Alignment explanation
Indices: 1605530--1605601 Score: 66
Period size: 12 Copynumber: 5.3 Consensus size: 14
1605520 CTTGACCCCC
1605530 TTTTTTTCTTC--T
1 TTTTTTTCTTCTTT
1605542 TTTTTTT-TTC-TT
1 TTTTTTTCTTCTTT
1605554 TTTTTTTCTT-TTT
1 TTTTTTTCTTCTTT
1605567 TTTTCTTTC-TCTTT
1 TTTT-TTTCTTCTTT
1605581 TTCTCTTTTCTTTCTTT
1 TT-T-TTTTC-TTCTTT
1605598 TTTT
1 TTTT
1605602 CATTTTTTCT
Statistics
Matches: 51, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
11 3 0.06
12 15 0.29
13 9 0.18
14 9 0.18
15 6 0.12
16 2 0.04
17 7 0.14
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTTCTTCTTT
Found at i:1605561 original size:24 final size:24
Alignment explanation
Indices: 1605530--1605609 Score: 92
Period size: 24 Copynumber: 3.2 Consensus size: 24
1605520 CTTGACCCCC
1605530 TTTTTTTCTTCTTTTTTTTTTCTT
1 TTTTTTTCTTCTTTTTTTTTTCTT
1605554 TTTTTTTCTT-TTTTTTTCTTTCTCT
1 TTTTTTTCTTCTTTTTTT-TTTCT-T
*
1605579 TTTTCTCTT-TTCTTTCTTTTTTTCAT
1 TTTT-T-TTCTTCTTT-TTTTTTTCTT
1605605 TTTTT
1 TTTTT
1605610 CTTCAAGCAT
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
23 7 0.14
24 15 0.31
25 6 0.12
26 8 0.16
27 9 0.18
28 4 0.08
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.84
Consensus pattern (24 bp):
TTTTTTTCTTCTTTTTTTTTTCTT
Found at i:1605614 original size:11 final size:10
Alignment explanation
Indices: 1605529--1605601 Score: 92
Period size: 10 Copynumber: 6.8 Consensus size: 10
1605519 TCTTGACCCC
1605529 CTTTTTTTCTT
1 CTTTTTTT-TT
1605540 CTTTTTTTTTT
1 C-TTTTTTTTT
1605551 CTTTTTTTTT
1 CTTTTTTTTT
1605561 CTTTTTTTTT
1 CTTTTTTTTT
1605571 CTTTCTCTTTTT
1 CTTT-T-TTTTT
*
1605583 CTCTTTTCTTT
1 CT-TTTTTTTT
1605594 CTTTTTTT
1 CTTTTTTT
1605602 CATTTTTTCT
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
10 28 0.50
11 11 0.20
12 15 0.27
13 2 0.04
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:1619646 original size:3 final size:3
Alignment explanation
Indices: 1619638--1619697 Score: 95
Period size: 3 Copynumber: 20.0 Consensus size: 3
1619628 AATTATTTTT
*
1619638 TAA TAA TAA TAA TAA T-A TATA TAA TAA TAA TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
1619683 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
1619698 ATAAATAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 2 0.04
3 48 0.91
4 3 0.06
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1621531 original size:15 final size:16
Alignment explanation
Indices: 1621513--1621546 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1621503 AATAATAATA
1621513 TTTATTAATATTT-AT
1 TTTATTAATATTTGAT
*
1621528 TTTATTATTATTTGAT
1 TTTATTAATATTTGAT
1621544 TTT
1 TTT
1621547 TAAATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTATTAATATTTGAT
Found at i:1621549 original size:29 final size:30
Alignment explanation
Indices: 1621512--1621570 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
1621502 CAATAATAAT
1621512 ATTTATTAATATT-TATTTTATTA-TTATTTG
1 ATTTATTAA-ATTAT-TTTTATTAGTTATTTG
1621542 ATTT-TTAAATTATTTTTATTAGTTATTTG
1 ATTTATTAAATTATTTTTATTAGTTATTTG
1621571 TAGGTCAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 11 0.41
29 12 0.44
30 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (30 bp):
ATTTATTAAATTATTTTTATTAGTTATTTG
Found at i:1624881 original size:15 final size:15
Alignment explanation
Indices: 1624858--1624887 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1624848 TCAAAGGAAG
*
1624858 CCTATCTTACCAATT
1 CCTAGCTTACCAATT
1624873 CCTAGCTTACCAATT
1 CCTAGCTTACCAATT
1624888 GAACCCTGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.33, G:0.03, T:0.37
Consensus pattern (15 bp):
CCTAGCTTACCAATT
Found at i:1625497 original size:21 final size:21
Alignment explanation
Indices: 1625473--1625512 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1625463 ACGCGTAATT
1625473 TTTAAAAAATATCGATACAAA
1 TTTAAAAAATATCGATACAAA
* *
1625494 TTTAAAAAGTGTCGATACA
1 TTTAAAAAATATCGATACA
1625513 TTAAGTTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (21 bp):
TTTAAAAAATATCGATACAAA
Found at i:1625834 original size:199 final size:199
Alignment explanation
Indices: 1625476--1626440 Score: 1363
Period size: 198 Copynumber: 4.8 Consensus size: 199
1625466 CGTAATTTTT
* * * *
1625476 AAAAAATATCGATACAAATTTAAAAA-GTGTCGATACATTAAGTTGACCTATTTTCTAATTAAAT
1 AAAAAGTATCGACAC-AATTTAAAAATGTATCGATACATTATGTTGACCTATTTTCTAATTAAAT
* * *
1625540 CGGTATATTTCTACCGATTACATTGTAAATTTATCTATTACATTATAATTATCAGTTTCGATGTT
65 -GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* *
1625605 TTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCATGCACCTAGTTTGGCATTCATT
129 TTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATT
*
1625670 CTAGAC
194 CTGGAC
* *
1625676 AAAAAGTATCGACACATTTTAAAAATGTATTGATACATTATGTTGACCTATTTTCTAATTAACAT
1 AAAAAGTATCGACACAATTTAAAAATGTATCGATACATTATGTTGACCTATTTTCTAATTAA-AT
* *
1625741 GTTA-ATTTCTACCGGTTACATTGTCAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
65 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * *
1625805 TTGGGATCGATACTTTTAATAAATGTATCGGCACTTTATGCGTGCACCTCGTTTGGTATTCATTA
130 TTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATTC
1625870 TGGAC
195 TGGAC
* *
1625875 -AAAAGTATCGACACAATTTAAAAATGTATTGATACATTATGTTGACCTATTTTCTAATTAAACG
1 AAAAAGTATCGACACAATTTAAAAATGTATCGATACATTATGTTGACCTATTTTCTAATTAAATG
* *
1625939 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGATTTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * * *
1626004 TGAGATCGATACAATTT--TAAATGCATCGACACTTAATGTGTGCACCTC-TTTGGGCATTCATT
131 TGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTT-GGCATTCATT
* *
1626066 TTGGAG
194 CTGGAC
* * *
1626072 AAAAAGTATCGACACAAATTAAAAATGTATCGATACATTATGTTGACCTATTTTCTAATTAACTA
1 AAAAAGTATCGACACAATTTAAAAATGTATCGATACATTATGTTGACCTATTTTCTAATTAAATG
* * *
1626137 GTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTT
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
** * *
1626202 TGGGATCGATACTTACAATAAATATATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCT
131 TGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATTCT
*
1626267 TGAC
196 GGAC
*
1626271 AAAAAGTATCGACACAAATTTAAAAA-GTGTCGATACATTATGTTGACCTATTTTCTAATTAAAC
1 AAAAAGTATCGACAC-AATTTAAAAATGTATCGATACATTATGTTGACCTATTTTCTAATTAAA-
* **
1626335 TGGTATATTTCTACCGATTACATTGTAAATTTACCTATTACATTATAATTATCAATTTCGATGTT
64 TGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* * * *
1626400 TTTAGGATTGATACAATTTTAA-AAAT-TATCGATACATTATG
129 TTTGGGATCGATAC--TTTTAATAAATGTATCGACACTTTATG
1626441 TTTATCTATT
Statistics
Matches: 684, Mismatches: 68, Indels: 26
0.88 0.09 0.03
Matches are distributed among these distances:
196 3 0.00
197 45 0.07
198 261 0.38
199 222 0.32
200 143 0.21
201 6 0.01
202 4 0.01
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (199 bp):
AAAAAGTATCGACACAATTTAAAAATGTATCGATACATTATGTTGACCTATTTTCTAATTAAATG
GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
TGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATTCT
GGAC
Found at i:1627942 original size:24 final size:25
Alignment explanation
Indices: 1627885--1627942 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
1627875 GCCGAAATTT
1627885 ATATCGAAATTCAAACTCAAATTGAA
1 ATAT-GAAATTCAAACTCAAATTGAA
* *
1627911 AT-TTAAATTCAAACTCCAATT-AA
1 ATATGAAATTCAAACTCAAATTGAA
1627934 ATATGAAAT
1 ATATGAAAT
1627943 GAACATGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 4 0.14
24 21 0.75
25 1 0.04
26 2 0.07
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (25 bp):
ATATGAAATTCAAACTCAAATTGAA
Found at i:1630506 original size:18 final size:17
Alignment explanation
Indices: 1630485--1630543 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
1630475 TGATTTGTTC
1630485 AGAAGAAGCGATTGGTTG
1 AGAAGAAGCG-TTGGTTG
1630503 AGAAGAAG-GTTGTCGTTG
1 AGAAGAAGCGTTG--GTTG
*
1630521 AAAAG-AGC-TTGGTTG
1 AGAAGAAGCGTTGGTTG
1630536 AGAAGAAG
1 AGAAGAAG
1630544 TTTGAGAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 5 0.14
17 6 0.17
18 16 0.46
ACGTcount: A:0.36, C:0.05, G:0.37, T:0.22
Consensus pattern (17 bp):
AGAAGAAGCGTTGGTTG
Found at i:1631181 original size:199 final size:199
Alignment explanation
Indices: 1630836--1632001 Score: 1592
Period size: 199 Copynumber: 5.9 Consensus size: 199
1630826 GCGTAATTTA
* * *
1630836 ACAAAAA-TATCGATACAAATTTAAAAAGTGTTGATACATTATGTTGACCTATTCTCTAATTAAA
1 ACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAA
** * * * *
1630900 CATGTATATTTTTACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATTT
66 CCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
* * *
1630965 TTTTGGGATTGATACAATTT-TAAATGTATCGACACTTTATGCGTGTACCTCGTTGGGCATTCAT
131 TTTTAGGATCGATAC-ATTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCAT
1631029 TCTGG
195 TCTGG
* *
1631034 ACAAAAAATATCGACACAAATTTAAAAAGTGTCGATACATTATGTTAACCTATTTTCTAATTAAA
1 ACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAA
* *
1631099 CTGGTATATTTCTACCGGTTACATTTTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
66 CCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
**
1631164 TTTTAGGATATATACAATTT-TAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCAT
131 TTTTAGGATCGATAC-ATTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCAT
1631228 TCTGG
195 TCTGG
* *
1631233 ACAAAATGTATCGACACAAATTTAAAAAGTGTCAATACATTATGTTGACCTATTTTCTAATTAAA
1 ACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAA
* * * * * *
1631298 CTGATATATTTCTACCAGTTACATTGTAAATTTACCTATTATATTATAATTATCAGTTTCGATAT
66 CCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
** * * * * *
1631363 TTTTTTGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCATTTGACATTCAT
131 TTTTAGGATCGATACATTT-ATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCAT
1631428 TCTGG
195 TCTGG
** * * *
1631433 ACAAAAAGTATCGACACATTTTTAAAATGTATCGATACATTATGTTGATCTATTTTCTAATT-AA
1 ACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAA
* * **
1631497 CCGGT-TAATTTCTACCGGTTACATTGTCAATTTACCTATTATATTATAATTATCGGTTTTTATG
66 CCGGTAT-ATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATG
* * * *
1631561 TTTTTAGGATTGATACTTTTAATAAATGTATCGACACTTTATGCATGCACCTCGTTGGGCATTTA
130 TTTTTAGGATCGATACATTT-ATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCA
1631626 TTCTGG
194 TTCTGG
* * * * *
1631632 ACCAAAAGTATCGACACAAATTTAAAAAGTGTCGATATATTTTGTAGA-CTATTATCTAATTAAA
1 ACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAA
* * * * *
1631696 CCGATATATTTCTACCGGTTAAATTGTAAATTTACCTATTATATTATAATTATTGGTTTTGATGT
66 CCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
* * *
1631761 TTTT-GTGATCGATACAATTT-TAAATGTATGGACATTTTATGCGTGCACCTCGTTGTGCATTCA
131 TTTTAG-GATCGATAC-ATTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCA
1631824 TTCTGG
194 TTCTGG
* * * * * * *
1631830 ACCAAAAGTATCAACACAAATTTAAAAAGTGTTGATACATTATGTGGACCTATTCTCTCATAAAA
1 ACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAA
1631895 CCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
66 CCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
* *
1631960 TTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATG
131 TTTTAGGATCGATACATTT-ATAAATGTATCGACACTTTATG
1632002 TTGACCTATT
Statistics
Matches: 861, Mismatches: 95, Indels: 22
0.88 0.10 0.02
Matches are distributed among these distances:
198 114 0.13
199 623 0.72
200 124 0.14
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.41
Consensus pattern (199 bp):
ACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAA
CCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
TTTTAGGATCGATACATTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATT
CTGG
Found at i:1632184 original size:127 final size:128
Alignment explanation
Indices: 1631866--1632191 Score: 347
Period size: 128 Copynumber: 2.6 Consensus size: 128
1631856 AAGTGTTGAT
* * * * **
1631866 ACATTATGTGGACCTATTCTCTCAT-AAAACCGGTATATTTCTACCGGTTACATTGTAAATTTAC
1 ACATTATGTTGACCTATTTTCTAATGAAAA-AGGTATATTTCTACCACTTACATTGTAAATTTAC
* * *
1631930 CTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGAC
65 CTATTACATTATAATTATCGATTTCAATGTTTTTGGGATCGATACTTTTAATAAATGTATCAAC
* * ** ** *
1631994 ACTTTATGTTGACCTATTTTCTAATTAAATCGGTATATTTCTACCGGTTAAATTGTAAATTTACC
1 ACATTATGTTGACCTATTTTCTAATGAAAAAGGTATATTTCTACCACTTACATTGTAAATTTACC
* *
1632059 TATTACATTATAATTATCGATTTCAAT-TTTTTGGGATTGATACAATTTTAA-AAAT-TATCAAT
66 TATTACATTATAATTATCGATTTCAATGTTTTTGGGATCGATAC--TTTTAATAAATGTATCAAC
* * * * * * * *
1632121 ACATTGTGTTTA-CTAATTTTGTCATGAAAAATGTGTATTTTTACCACTTACATTGCAAATTTAC
1 ACATTATGTTGACCT-ATTTTCTAATGAAAAAGGTATATTTCTACCACTTACATTGTAAATTTAC
1632185 CTATTAC
65 CTATTAC
1632192 TTTAAAGTAA
Statistics
Matches: 168, Mismatches: 26, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
126 2 0.01
127 73 0.43
128 84 0.50
129 9 0.05
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (128 bp):
ACATTATGTTGACCTATTTTCTAATGAAAAAGGTATATTTCTACCACTTACATTGTAAATTTACC
TATTACATTATAATTATCGATTTCAATGTTTTTGGGATCGATACTTTTAATAAATGTATCAAC
Found at i:1636993 original size:22 final size:24
Alignment explanation
Indices: 1636966--1637018 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
1636956 AACATGAATT
*
1636966 TATAAATAA-AT-TTATCATTTTA
1 TATAAATAATATACTATCATTTTA
1636988 TATAAATAATTATACTATCATTTTA
1 TATAAATAA-TATACTATCATTTTA
1637013 TATAAA
1 TATAAA
1637019 AAGAAAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 9 0.33
24 2 0.07
25 16 0.59
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (24 bp):
TATAAATAATATACTATCATTTTA
Found at i:1639249 original size:21 final size:21
Alignment explanation
Indices: 1639223--1639264 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1639213 TAAAATTGTA
*
1639223 CATCGATGTACCT-CTACAGTG
1 CATCGATGCA-CTGCTACAGTG
1639244 CATCGATGCACTGCTACAGTG
1 CATCGATGCACTGCTACAGTG
1639265 ACTTTCGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (21 bp):
CATCGATGCACTGCTACAGTG
Found at i:1641397 original size:20 final size:20
Alignment explanation
Indices: 1641351--1641400 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1641341 CCAGTAGTGC
* *
1641351 TTTACCGGTTTTTTCATAAT
1 TTTACCTGTTTTGTCATAAT
** *
1641371 TAAACCTGTTTTGTCATATT
1 TTTACCTGTTTTGTCATAAT
1641391 TTTACCTGTT
1 TTTACCTGTT
1641401 ATATTGTTAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.16, G:0.10, T:0.54
Consensus pattern (20 bp):
TTTACCTGTTTTGTCATAAT
Found at i:1641705 original size:182 final size:181
Alignment explanation
Indices: 1641320--1641799 Score: 726
Period size: 182 Copynumber: 2.6 Consensus size: 181
1641310 GCGTATTAAA
* * * *
1641320 GTATCGACACTTTCAACATATCCAGTAGTGCTTTACCGGTTTTTTCATAATTAAACCTGTTTTGT
1 GTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATAA-TGAACCTGTTTTGT
* ** *
1641385 CATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATTGACACTTTATAAG
65 CATATTTTTACTTGTTATATTGTTATGGATCGATACATTTTTAT-TTGTATCGACACTTTATAAG
1641450 CGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCAATACTTATTTCAATG
129 CGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCAATACTTATTTCAATG
*
1641503 GAATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATAATGATACCTGTTTTGT
1 GTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATAATGA-ACCTGTTTTGT
* * * *
1641568 CATATTTTTACTTGTTTTATTATTATAGATCGATACATTTTTATTTGTATCGACACTTTATATGC
65 CATATTTTTACTTGTTATATTGTTATGGATCGATACATTTTTATTTGTATCGACACTTTATAAGC
* **
1641633 GCTATTTCTGCTTCTCTTTTAAATTCCAAAAGTGTTGATACTTATTTCAATG
130 GCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCAATACTTATTTCAATG
* * * *
1641685 GTATCGACACATTCAACATATCCGATAGCGCTTTACCGATTTTGTCATAATGAAACTGGTTTTGT
1 GTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATAATGAACCT-GTTTTGT
* *
1641750 CATATTTTTACTTGTTATATTGTTATGGATTGATACCTTTTTATTTGTAT
65 CATATTTTTACTTGTTATATTGTTATGGATCGATACATTTTTATTTGTAT
1641800 TGATACATAC
Statistics
Matches: 269, Mismatches: 26, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
181 3 0.01
182 169 0.63
183 97 0.36
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.44
Consensus pattern (181 bp):
GTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATAATGAACCTGTTTTGTC
ATATTTTTACTTGTTATATTGTTATGGATCGATACATTTTTATTTGTATCGACACTTTATAAGCG
CTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCAATACTTATTTCAATG
Found at i:1647851 original size:3 final size:3
Alignment explanation
Indices: 1647845--1647909 Score: 80
Period size: 3 Copynumber: 21.7 Consensus size: 3
1647835 TTCATTTAAA
*
1647845 TAT TAT T-T ATAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1647889 TAT TAT TAAT TAA TAT TAT TA
1 TAT TAT T-AT TAT TAT TAT TA
1647910 CAGGCCCAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 3 0.06
3 47 0.87
4 4 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1656504 original size:35 final size:35
Alignment explanation
Indices: 1656431--1656505 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
1656421 CGTCACTAAC
**
1656431 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
1656466 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
1656501 AGTAA
1 AGTAA
1656506 TCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:1656608 original size:24 final size:24
Alignment explanation
Indices: 1656581--1656655 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
1656571 CATAATTCAA
*
1656581 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* *
1656605 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAG
1656629 GTCAA-TATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
1656652 GTCA
1 GTCA
1656656 GGATCATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:1656661 original size:23 final size:23
Alignment explanation
Indices: 1656585--1656661 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
1656575 ATTCAAGTCA
*
1656585 AGTATCATATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
1656608 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
1656632 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
1656655 AGGATCA
1 AGTATCA
1656662 TAATAGAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:1656688 original size:47 final size:47
Alignment explanation
Indices: 1656564--1656677 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 47
1656554 TATATCAAAA
* * * * *
1656564 ATCAAAACATAATTCAAGTCAAGTATCATATCAGAATCCAGGTCATGT
1 ATCAAATCAGAATCCAAGTCAA-TATCAGATCAGAATCCAGGTCATGG
* *
1656612 ATCAGATCAGAATCCATGTCAATATCAGATCAGAATCCAGGTCA-GG
1 ATCAAATCAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
*
1656658 ATCATAAT-AGAATTCAAGTC
1 ATCA-AATCAGAATCCAAGTC
1656678 GGAAATCAGA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 15 0.27
47 23 0.42
48 17 0.31
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (47 bp):
ATCAAATCAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
Found at i:1657833 original size:18 final size:18
Alignment explanation
Indices: 1657812--1657847 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1657802 CTTCCATCCG
*
1657812 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
1657830 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
1657848 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:1659157 original size:7 final size:7
Alignment explanation
Indices: 1659145--1659184 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
1659135 TGGTCAACTC
1659145 CGGTCAA
1 CGGTCAA
1659152 CGGTCAA
1 CGGTCAA
1659159 CGGGTCAA
1 C-GGTCAA
1659167 CGGTCAA
1 CGGTCAA
1659174 CGGGTCAA
1 C-GGTCAA
1659182 CGG
1 CGG
1659185 GTCGGGTCGG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 17 0.55
8 14 0.45
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:1659166 original size:15 final size:15
Alignment explanation
Indices: 1659146--1659184 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
1659136 GGTCAACTCC
1659146 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
1659161 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
1659176 GGTCAACGG
1 GGTCAACGG
1659185 GTCGGGTCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.36, T:0.13
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:1659192 original size:13 final size:13
Alignment explanation
Indices: 1659187--1659223 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
1659177 GTCAACGGGT
1659187 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
*
1659200 TGGGTCGGGTCAA
1 CGGGTCGGGTCAA
1659213 CGGGTCGGGTC
1 CGGGTCGGGTC
1659224 GGGTTGTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.11, C:0.22, G:0.49, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:1659197 original size:18 final size:18
Alignment explanation
Indices: 1659174--1659227 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
1659164 CAACGGTCAA
1659174 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGT
1659192 CGGGTCAA----T-GGGT
1 CGGGTCAACGGGTCGGGT
1659205 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGT
1659223 CGGGT
1 CGGGT
1659228 TGTGACCGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 12 0.39
14 1 0.03
17 1 0.03
18 17 0.55
ACGTcount: A:0.11, C:0.20, G:0.50, T:0.19
Consensus pattern (18 bp):
CGGGTCAACGGGTCGGGT
Found at i:1659205 original size:8 final size:8
Alignment explanation
Indices: 1659146--1659187 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
1659136 GGTCAACTCC
1659146 GGTCAAC-
1 GGTCAACG
1659153 GGTCAACG
1 GGTCAACG
1659161 GGTCAAC-
1 GGTCAACG
1659168 GGTCAACG
1 GGTCAACG
1659176 GGTCAACG
1 GGTCAACG
1659184 GGTC
1 GGTC
1659188 GGGTCGGGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 14 0.42
8 19 0.58
ACGTcount: A:0.24, C:0.26, G:0.36, T:0.14
Consensus pattern (8 bp):
GGTCAACG
Found at i:1664103 original size:1 final size:1
Alignment explanation
Indices: 1664097--1664189 Score: 51
Period size: 1 Copynumber: 93.0 Consensus size: 1
1664087 ATTCTTGAAG
* ** * * * * * * *
1664097 AAAAAAAATAAAACGAAAAAAAATAAAAAAAAGAGAAAGAAAGAAAAAGAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
1664162 ATAGAAAGAAAGAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1664190 GGGGGGGTCA
Statistics
Matches: 63, Mismatches: 29, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.84, C:0.01, G:0.12, T:0.03
Consensus pattern (1 bp):
A
Found at i:1664116 original size:15 final size:13
Alignment explanation
Indices: 1664094--1664189 Score: 79
Period size: 15 Copynumber: 6.8 Consensus size: 13
1664084 ATTATTCTTG
1664094 AAGAAAAAAAATAA
1 AAGAAAAAAAA-AA
1664108 AACGAAAAAAAATAA
1 AA-GAAAAAAAA-AA
*
1664123 AA-AAAAGAGAAAGA
1 AAGAAAA-A-AAAAA
1664137 AAGAAAAAGAAAAAA
1 AAG-AAAA-AAAAAA
1664152 AAGAAAAAAAATAGA
1 AAGAAAAAAAA-A-A
*
1664167 AAG-AAAGAAAAA
1 AAGAAAAAAAAAA
1664179 AAGAAAAAAAA
1 AAGAAAAAAAA
1664190 GGGGGGGTCA
Statistics
Matches: 70, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
12 4 0.06
13 15 0.21
14 17 0.24
15 28 0.40
16 6 0.09
ACGTcount: A:0.83, C:0.01, G:0.12, T:0.03
Consensus pattern (13 bp):
AAGAAAAAAAAAA
Found at i:1664149 original size:34 final size:35
Alignment explanation
Indices: 1664106--1664190 Score: 127
Period size: 34 Copynumber: 2.4 Consensus size: 35
1664096 GAAAAAAAAT
* *
1664106 AAAACGAAAAAAAATAAAAAAAAGAGAAAGAAAG-
1 AAAAAGAAAAAAAAGAAAAAAAAGAGAAAGAAAGA
*
1664140 AAAAAGAAAAAAAAGAAAAAAAATAGAAAGAAAGAA
1 AAAAAGAAAAAAAAGAAAAAAAAGAGAAAGAAAG-A
1664176 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
1664191 GGGGGGTCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
34 31 0.67
36 15 0.33
ACGTcount: A:0.82, C:0.01, G:0.14, T:0.02
Consensus pattern (35 bp):
AAAAAGAAAAAAAAGAAAAAAAAGAGAAAGAAAGA
Found at i:1664189 original size:9 final size:9
Alignment explanation
Indices: 1664094--1664190 Score: 83
Period size: 9 Copynumber: 10.3 Consensus size: 9
1664084 ATTATTCTTG
1664094 AAGAAAAAA
1 AAGAAAAAA
*
1664103 AATAAAACGAA
1 AAGAAAA--AA
1664114 AA-AAAATAA
1 AAGAAAA-AA
1664123 AA-AAAAGAGA
1 AAGAAAA-A-A
1664133 AAGAAAGAAA
1 AAGAAA-AAA
1664143 AAGAAAAAA
1 AAGAAAAAA
1664152 AAGAAAAAA
1 AAGAAAAAA
* *
1664161 AATAGAAAGA
1 AAGA-AAAAA
1664171 AAG-AAAAA
1 AAGAAAAAA
1664179 AAGAAAAAA
1 AAGAAAAAA
1664188 AAG
1 AAG
1664191 GGGGGGTCAA
Statistics
Matches: 74, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
8 7 0.09
9 38 0.51
10 20 0.27
11 8 0.11
12 1 0.01
ACGTcount: A:0.82, C:0.01, G:0.13, T:0.03
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:1665341 original size:93 final size:93
Alignment explanation
Indices: 1665182--1665564 Score: 662
Period size: 93 Copynumber: 4.1 Consensus size: 93
1665172 ACAAGTGTCG
*
1665182 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTGTGAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
*
1665247 AAACCAATCATTGAATTTGGAAGATGAA
66 AAACCAATCATTGAATTTAGAAGATGAA
1665275 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
*
1665340 AAATCAATCATTGAATTTAGAAGATGAA
66 AAACCAATCATTGAATTTAGAAGATGAA
*
1665368 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCTCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
1665433 AAACCAATCATTGAATTTAGAAGATGAA
66 AAACCAATCATTGAATTTAGAAGATGAA
* *
1665461 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTCAGTTATCTGATCTGGTTTGGTATGAA-ACCAC
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCA-
* *
1665525 AGAACCAATCATTGGATTT-GAAAGATGAA
65 AAAACCAATCATTGAATTTAG-AAGATGAA
1665554 TGTGCTCATAG
1 TGTGCTCATAG
1665565 TAGAAATAAG
Statistics
Matches: 278, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
92 3 0.01
93 275 0.99
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (93 bp):
TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
AAACCAATCATTGAATTTAGAAGATGAA
Found at i:1666550 original size:36 final size:34
Alignment explanation
Indices: 1666503--1666591 Score: 151
Period size: 36 Copynumber: 2.6 Consensus size: 34
1666493 TTTCCAGAGA
1666503 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTG-A-AAGAAG
1666539 AAGTTCATAATGAGAAGAACTCATCTGAAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAAGAAG
*
1666573 AAATTCATAATGAGAAGAA
1 AAGTTCATAATGAGAAGAA
1666592 TTTGTTCAAC
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
34 24 0.46
35 1 0.02
36 27 0.52
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.20
Consensus pattern (34 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAAGAAG
Found at i:1666580 original size:34 final size:36
Alignment explanation
Indices: 1666500--1666591 Score: 152
Period size: 34 Copynumber: 2.6 Consensus size: 36
1666490 GCTTTTCCAG
1666500 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
1 AGAAA-TTCATAATGAGAAGAACTCATCTGAAGAAGA
*
1666537 AGAAGTTCATAATGAGAAGAACTCATCTG-A-AAGA
1 AGAAATTCATAATGAGAAGAACTCATCTGAAGAAGA
1666571 AGAAATTCATAATGAGAAGAA
1 AGAAATTCATAATGAGAAGAA
1666592 TTTGTTCAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
34 24 0.45
35 1 0.02
36 24 0.45
37 4 0.08
ACGTcount: A:0.50, C:0.10, G:0.21, T:0.20
Consensus pattern (36 bp):
AGAAATTCATAATGAGAAGAACTCATCTGAAGAAGA
Found at i:1666657 original size:143 final size:150
Alignment explanation
Indices: 1666389--1666704 Score: 477
Period size: 143 Copynumber: 2.1 Consensus size: 150
1666379 CTTTCCAGAG
1666389 GAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGT
1 GAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGT
* *
1666454 TCAACTTTTTGTTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAA
66 TCAACTTTTTGTTCAAAACCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAA
1666519 GAACTCATCTGAAGAA-GAA
131 GAACTCATCTGAAGAAGGAA
* *
1666538 GAAGTTCATAATGAGAAGAACTCATCTG-A-AA-GAAG-A-AA-TTCATAATGAGAAGAATTTGT
1 GAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGT
* *
1666597 TCAACTTTTTGTTCAAAACCATCACTTGATGGATCAAAC-TTTCCAGAGGAAGTTCGTAATGAGA
66 TCAACTTTTTGTTCAAAACCATCACTTGATGGATC-AACTTTTCCAGAGAAAGTTCATAATGAGA
*
1666661 AGAATTCATCTGAAGAAGGAA
130 AGAACTCATCTGAAGAAGGAA
1666682 GAAGAAATTCATAATGAGAAGAA
1 GAAG---TTCATAATGAGAAGAA
1666705 TTTGTTCAAC
Statistics
Matches: 155, Mismatches: 7, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
143 92 0.59
144 11 0.07
145 1 0.01
146 4 0.03
147 18 0.12
148 1 0.01
149 28 0.18
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (150 bp):
GAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGT
TCAACTTTTTGTTCAAAACCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAA
GAACTCATCTGAAGAAGGAA
Found at i:1666701 original size:24 final size:23
Alignment explanation
Indices: 1666658--1666702 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
1666648 GTTCGTAATG
*
1666658 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
1666681 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
1666703 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:1666707 original size:113 final size:112
Alignment explanation
Indices: 1666538--1667052 Score: 651
Period size: 113 Copynumber: 4.7 Consensus size: 112
1666528 TGAAGAAGAA
1666538 GAAGTTCATAATGAGAAGAACTCATCT---G-A-AAGAAGAAATTCATAATGAGAAGAATTTGTT
1 GAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTT
* *
1666598 CAACTTTTTGTTCAAAACCATCACTTGATGGATCAAAC-TTTCCAGAG
66 CAACCTTTTGCTCAAAACCATCACTTGATGGATC-AACTTTTCCAGAG
* *
1666645 GAAGTTCGTAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
1 GAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAATTCATAATGAGAAGAATTTGT
* * *
1666710 TCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAG
65 TCAACCTTTTGCTCAAAACCATCACTTGATGGATCAACTTTTCCAGAG
* *
1666758 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
1 GAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAATTCATAATGAGAAGAATTTGT
* * ** * * * *
1666823 TCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAG-G
65 TCAACCTTTTGCTCAAAACCATCACTTGATGGATCAACTTTTCCAGAG
* * **
1666870 TAGAGTTCATAATGAGAAGAACTCGTCAT-CTGAAGAAGAAGAAATTCATAATGAGAAGAATTTG
1 GA-AGTTCATAATGAGAAGAACTCATC-TGAAGAAGAAGAAGAAATTCATAATGAGAAGAATTTG
* *
1666934 TTCAACCTTTTGCTCAAATA-CATCACTTGATGGATCAGCTTTTCTAGA-
64 TTCAACCTTTTGCTCAAA-ACCATCACTTGATGGATCAACTTTTCCAGAG
* **
1666982 GAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAG---TTCACAATGAGAAGAGCTTGTT
1 GAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1667044 CAACCTTTT
66 CAACCTTTT
1667053 ACATAATTTT
Statistics
Matches: 357, Mismatches: 39, Indels: 23
0.85 0.09 0.05
Matches are distributed among these distances:
107 25 0.07
108 28 0.08
110 2 0.01
111 34 0.10
112 71 0.20
113 196 0.55
114 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (112 bp):
GAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTT
CAACCTTTTGCTCAAAACCATCACTTGATGGATCAACTTTTCCAGAG
Found at i:1666972 original size:225 final size:221
Alignment explanation
Indices: 1666537--1667052 Score: 737
Period size: 225 Copynumber: 2.3 Consensus size: 221
1666527 CTGAAGAAGA
1666537 AGAAGTTCATAATGAGAAGAACTCATCTGA-AAGAAG-A-AA-TTCATAATGAGAAGAATTTGTT
1 AGAAGTTCATAATGAGAAGAACTCATCTGAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * *
1666598 CAACTTTTTGTTCAAAACCATCACTTGATGGATCAAACTTTCCAGAGGAAGTTCGTAATGAGAAG
66 CAACCTTTTGTTCAAAACCATCACTTGATGGATCAAACTTGCCAGAGGAAGTTCATAATGAGAAG
1666663 AATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAAT
131 AATTCATCT--AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAAT
* *
1666728 CCATCATTTGATGGATCAGCTTTTCCAG
194 ACATCACTTGATGGATCAGCTTTTCCAG
1666756 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
1 AG-AAGTTCATAATGAGAAGAACTCATCTG-AGAA-GAAGAAGAAGTTCATAATGAGAAGAATTT
* ** * * *
1666821 GTTCAACCTTTTGTTTAAATTCATCATTTGATGGAT-TAACATTGCCAG-GTAGAGTTCATAATG
63 GTTCAACCTTTTGTTCAAAACCATCACTTGATGGATCAAAC-TTGCCAGAGGA-AGTTCATAATG
1666884 AGAAGAACTCGTCATCT-GAA-GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
126 AGAAGAA-T--TCATCTAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
1666947 TCAAATACATCACTTGATGGATCAGCTTTTCTAG
188 TCAAATACATCACTTGATGGATCAGCTTTTCCAG
* **
1666981 AGAAGTTCATAATGAGAAGAACTCATCT--GAAGAAGAAGAAGTTCACAATGAGAAGAGCTTGTT
1 AGAAGTTCATAATGAGAAGAACTCATCTGAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1667044 CAACCTTTT
66 CAACCTTTT
1667053 ACATAATTTT
Statistics
Matches: 270, Mismatches: 15, Indels: 23
0.88 0.05 0.07
Matches are distributed among these distances:
219 2 0.01
220 65 0.24
221 4 0.01
222 2 0.01
223 4 0.01
224 27 0.10
225 83 0.31
226 76 0.28
227 1 0.00
229 6 0.02
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (221 bp):
AGAAGTTCATAATGAGAAGAACTCATCTGAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
CAACCTTTTGTTCAAAACCATCACTTGATGGATCAAACTTGCCAGAGGAAGTTCATAATGAGAAG
AATTCATCTAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATAC
ATCACTTGATGGATCAGCTTTTCCAG
Found at i:1667126 original size:120 final size:118
Alignment explanation
Indices: 1666978--1667259 Score: 370
Period size: 120 Copynumber: 2.4 Consensus size: 118
1666968 TCAGCTTTTC
* *
1666978 TAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCACAATGAGAAGAGCTTGT
1 TAGA-AAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGAAGTTCACAATGAGAAGAGCTTAT
* * * * **
1667043 TCAACCTTTT-ACATAATTTTATCACAGAAGCAAATAGATTAGCATCAAACTTTCCA-
65 TCAACCTTTTGA-ATAACTCTATCACAGAAGCAAATAGATCAACATC--A-TCCCCAG
* *
1667099 TAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAATAAGAAGTTCATAATGAGAAGAGCTTATT
1 TAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGAAGTTCACAATGAGAAGAGCTTATT
* * *
1667164 CAACCTTTTGAATGACTCTATCACAGAAGGAAATAGGTCAACATCATCCCCAG
66 CAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCATCCCCAG
**
1667217 CGGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGAAG
1 TAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGAAG
1667260 AATTTAATCA
Statistics
Matches: 144, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
117 4 0.03
118 41 0.28
120 94 0.65
121 5 0.03
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (118 bp):
TAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGAAGTTCACAATGAGAAGAGCTTATT
CAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCATCCCCAG
Found at i:1667457 original size:3 final size:3
Alignment explanation
Indices: 1667399--1667444 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
1667389 TTCATTTAAA
1667399 TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1667443 TA
1 TA
1667445 ATAAATATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 3 0.08
3 36 0.90
4 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1672537 original size:29 final size:29
Alignment explanation
Indices: 1672504--1672585 Score: 121
Period size: 29 Copynumber: 2.8 Consensus size: 29
1672494 CCCAACCCAT
*
1672504 AGGTCGCCATGCCCTCCGGACGACCAAGG
1 AGGTCGCCATGCACTCCGGACGACCAAGG
* *
1672533 AGGTCGCCATGCACTCCGGGCGACTAAGG
1 AGGTCGCCATGCACTCCGGACGACCAAGG
1672562 AGGTCGCCATGCACTCTCGG-CGAC
1 AGGTCGCCATGCACTC-CGGACGAC
1672586 ATGGTAGGTC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
29 46 0.94
30 3 0.06
ACGTcount: A:0.20, C:0.35, G:0.32, T:0.13
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCGGACGACCAAGG
Found at i:1672594 original size:29 final size:27
Alignment explanation
Indices: 1672504--1672604 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 27
1672494 CCCAACCCAT
*
1672504 AGGTCGCCATGCCCTCCGGACGACCAAGG
1 AGGTCGCCATGCACTCCGG-CGA-CAAGG
1672533 AGGTCGCCATGCACTCCGGGCGACTAAGG
1 AGGTCGCCATGCACTCC-GGCGAC-AAGG
*
1672562 AGGTCGCCATGCACTCTCGGCGACATGG
1 AGGTCGCCATGCACTC-CGGCGACAAGG
* *
1672590 TAGGTCACCAAGCAC
1 -AGGTCGCCATGCAC
1672605 GCCCCGCGAC
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
28 4 0.06
29 57 0.89
30 3 0.05
ACGTcount: A:0.22, C:0.34, G:0.31, T:0.14
Consensus pattern (27 bp):
AGGTCGCCATGCACTCCGGCGACAAGG
Found at i:1672614 original size:58 final size:58
Alignment explanation
Indices: 1672504--1672614 Score: 127
Period size: 58 Copynumber: 1.9 Consensus size: 58
1672494 CCCAACCCAT
* * * * **
1672504 AGGTCGCCATGCCCTCCGGACGACCAAGGAGGTCGCCATGCACTCCGGGCGACTAAGG
1 AGGTCGCCATGCACTCCGGACGACCAAGGAGGTCACCAAGCACGCCCCGCGACTAAGG
*
1672562 AGGTCGCCATGCACTCTCGG-CGA-CATGGTAGGTCACCAAGCACGCCCCGCGAC
1 AGGTCGCCATGCACTC-CGGACGACCAAGG-AGGTCACCAAGCACGCCCCGCGAC
1672615 CAAGCTTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
57 4 0.09
58 37 0.84
59 3 0.07
ACGTcount: A:0.21, C:0.36, G:0.31, T:0.13
Consensus pattern (58 bp):
AGGTCGCCATGCACTCCGGACGACCAAGGAGGTCACCAAGCACGCCCCGCGACTAAGG
Found at i:1673074 original size:21 final size:21
Alignment explanation
Indices: 1673049--1673092 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1673039 AATTTAGTTA
1673049 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
1673070 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
1673091 AT
1 AT
1673093 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:1673102 original size:28 final size:30
Alignment explanation
Indices: 1673069--1673131 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
1673059 TAGTATAAAT
1673069 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATATTA
1673097 TATTAGTTTGTTAGTTTAAGTTATATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATATTA
1673127 TATTA
1 TATTA
1673132 TATATAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 20 0.61
29 1 0.03
30 12 0.36
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (30 bp):
TATTAGTTTGTTAGTTTAAGTTATATATTA
Found at i:1673691 original size:22 final size:23
Alignment explanation
Indices: 1673648--1673691 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1673638 TATTGTGTTT
**
1673648 AAAAATATTTAGTGTTGTTTTAA
1 AAAAATATTTAGTGTTAATTTAA
*
1673671 AAAAATATTTTGT-TTAATTTA
1 AAAAATATTTAGTGTTAATTTA
1673692 TATTATATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
AAAAATATTTAGTGTTAATTTAA
Found at i:1677099 original size:22 final size:22
Alignment explanation
Indices: 1677072--1677148 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
1677062 TGATTAGTAA
1677072 TAATGAAATTATTATTAATATT
1 TAATGAAATTATTATTAATATT
* *
1677094 TAATG-ATTTGA-TAGTAATGATTAGT
1 TAATGAAATT-ATTATTAAT-A-T--T
1677119 AATAATGAAATTATTATTAATATT
1 --TAATGAAATTATTATTAATATT
1677143 TAATGA
1 TAATGA
1677149 TTTGATAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
21 9 0.21
22 13 0.31
23 1 0.02
24 1 0.02
25 1 0.02
26 1 0.02
27 7 0.17
28 9 0.21
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.45
Consensus pattern (22 bp):
TAATGAAATTATTATTAATATT
Found at i:1677114 original size:49 final size:49
Alignment explanation
Indices: 1676997--1677364 Score: 542
Period size: 49 Copynumber: 7.6 Consensus size: 49
1676987 TTTGATTTAG
* * * *
1676997 TAATGATTTGATAATCATGATT--TAATAATGAATTTA-TATTTAAAATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTA-TTAATATT
* *
1677044 ATAATAATTAT-TTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1 -TAATGATT-TGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1677094 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1677143 TAATGATTTGATAGTAATGATTAGTAATAATG-AA--ATTATTAATATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
* *
1677189 TAATGATTT-AGTAGTTATGATTAGTAATAATAAAATTATTATTAATATT
1 TAATGATTTGA-TAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1677238 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1677287 TAATGATTT-AGTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1 TAATGATTTGA-TAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1677336 TAATGATTTGATAGTAATGATT--TAATAAT
1 TAATGATTTGATAGTAATGATTAGTAATAAT
1677365 TATTAGTAAT
Statistics
Matches: 296, Mismatches: 12, Indels: 25
0.89 0.04 0.08
Matches are distributed among these distances:
45 1 0.00
46 40 0.14
47 9 0.03
48 20 0.07
49 202 0.68
50 22 0.07
51 2 0.01
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.45
Consensus pattern (49 bp):
TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
Found at i:1677229 original size:144 final size:146
Alignment explanation
Indices: 1677056--1677364 Score: 531
Period size: 144 Copynumber: 2.1 Consensus size: 146
1677046 AATAATTATT
*
1677056 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAA
1 TAGTAATGATTAGTAATAATAAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAA
1677121 TAATGAAATTATTATTAATATTTAATGATTT-GATAGTAATGATTAGTAATAATG-AA-ATTATT
66 TAATGAAATTATTATTAATATTTAATGATTTAG-TAGTAATGATTAGTAATAATGAAATATTATT
1677183 AATATTTAATGATTT-A
130 AATATTTAATGATTTGA
*
1677199 GTAGTTATGATTAGTAATAATAAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTA
1 -TAGTAATGATTAGTAATAATAAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTA
1677264 ATAATGAAATTATTATTAATATTTAATGATTTAGTAGTAATGATTAGTAATAATGAAATTATTAT
65 ATAATGAAATTATTATTAATATTTAATGATTTAGTAGTAATGATTAGTAATAATGAAA-TATTAT
1677329 TAATATTTAATGATTTGA
129 TAATATTTAATGATTTGA
1677347 TAGTAATGATT--TAATAAT
1 TAGTAATGATTAGTAATAAT
1677365 TATTAGTAAT
Statistics
Matches: 157, Mismatches: 3, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
144 115 0.73
145 10 0.06
147 31 0.20
148 1 0.01
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (146 bp):
TAGTAATGATTAGTAATAATAAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAA
TAATGAAATTATTATTAATATTTAATGATTTAGTAGTAATGATTAGTAATAATGAAATATTATTA
ATATTTAATGATTTGA
Found at i:1677330 original size:21 final size:21
Alignment explanation
Indices: 1677306--1677385 Score: 60
Period size: 21 Copynumber: 4.0 Consensus size: 21
1677296 AGTAGTAATG
1677306 ATTAGTAATAATGAAATTATT
1 ATTAGTAATAATGAAATTATT
* * *
1677327 ATTAATATTTAATG--ATT-TG
1 ATTAGTA-ATAATGAAATTATT
* ** *
1677346 A-TAGTAATGATTTAATAATT
1 ATTAGTAATAATGAAATTATT
1677366 ATTAGTAATAATGAAATTAT
1 ATTAGTAATAATGAAATTAT
1677386 AATAACGATT
Statistics
Matches: 41, Mismatches: 13, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
17 3 0.07
18 4 0.10
19 4 0.10
20 5 0.12
21 20 0.49
22 5 0.12
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (21 bp):
ATTAGTAATAATGAAATTATT
Found at i:1677417 original size:19 final size:18
Alignment explanation
Indices: 1677392--1677442 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 18
1677382 TTATAATAAC
1677392 GATTTAATAATGATTTTA-
1 GATTT-ATAATGATTTTAT
1677410 -ATATT-TAATGATTTTAT
1 GAT-TTATAATGATTTTAT
1677427 GATTTAGTAATGATTT
1 GATTTA-TAATGATTT
1677443 GATAATAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
16 11 0.39
17 4 0.14
18 4 0.14
19 9 0.32
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (18 bp):
GATTTATAATGATTTTAT
Found at i:1677463 original size:26 final size:26
Alignment explanation
Indices: 1677434--1677553 Score: 125
Period size: 26 Copynumber: 4.6 Consensus size: 26
1677424 TATGATTTAG
*
1677434 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTAATAATAATCATTATAA
*
1677460 TAATGATTTAGTAATAATCATTATAA
1 TAATGATTTAATAATAATCATTATAA
* * * *
1677486 TAATTATTTAATAGTAATGATT-TAG
1 TAATGATTTAATAATAATCATTATAA
* * * *
1677511 TAATTATTTTATAATAATTATTTAATAC
1 TAATGATTTAATAATAATCA-TT-ATAA
1677539 TAATGATTTAATAAT
1 TAATGATTTAATAAT
1677554 TATTACTAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
25 19 0.24
26 44 0.56
28 15 0.19
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.47
Consensus pattern (26 bp):
TAATGATTTAATAATAATCATTATAA
Found at i:1677476 original size:14 final size:13
Alignment explanation
Indices: 1677336--1677553 Score: 103
Period size: 14 Copynumber: 16.1 Consensus size: 13
1677326 TATTAATATT
*
1677336 TAATGATTTGATAG
1 TAATGATTT-ATAA
1677350 TAATGA-TT-TAA
1 TAATGATTTATAA
*
1677361 TAATTA-TTAGTAA
1 TAATGATTTA-TAA
*
1677374 TAATGAAATTATAA
1 TAATG-ATTTATAA
*
1677388 TAACGA-TT-TAA
1 TAATGATTTATAA
*
1677399 TAATGATTTTAATATT
1 TAATGA-TTT-ATA-A
1677415 TAATGATTTTATGATTTA
1 TAATGA-TTTAT-A---A
1677433 GTAATGATTTGATAA
1 -TAATGATTT-ATAA
*
1677448 TAATCA-TTATAA
1 TAATGATTTATAA
1677460 TAATGATTTAGTAA
1 TAATGATTTA-TAA
*
1677474 TAATCA-TTATAA
1 TAATGATTTATAA
* *
1677486 TAATTATTTAATAG
1 TAATGATTT-ATAA
1677500 TAATGATTTAGTAA
1 TAATGATTTA-TAA
*
1677514 TTAT--TTTATAA
1 TAATGATTTATAA
* *
1677525 TAATTATTTAATAC
1 TAATGATTT-ATAA
1677539 TAATGATTTAATAA
1 TAATGATTT-ATAA
1677553 T
1 T
1677554 TATTACTAAT
Statistics
Matches: 163, Mismatches: 19, Indels: 44
0.72 0.08 0.19
Matches are distributed among these distances:
11 23 0.14
12 23 0.14
13 26 0.16
14 59 0.36
15 8 0.05
16 11 0.07
18 5 0.03
19 8 0.05
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (13 bp):
TAATGATTTATAA
Found at i:1677713 original size:59 final size:58
Alignment explanation
Indices: 1677638--1677765 Score: 154
Period size: 59 Copynumber: 2.2 Consensus size: 58
1677628 TCGAATTTAT
* *
1677638 TAATGATTT-TTAAATATTTAACGATTTGATACTAATGATT-TAGTAAT-TATTATTAA
1 TAATGATTTATTAAATATTTAACGATTTAATACTAATGATTATAGTAATAAATTA-TAA
**
1677694 TAATGATTTATTATTAATATTTAATTATTTAATACTAATGATTACTAGTAATGAAATTATAA
1 TAATGATTTATTA--AATATTTAACGATTTAATACTAATGATTA-TAGTAAT-AAATTATAA
1677756 TAATGATTTA
1 TAATGATTTA
1677766 GTAATAATCA
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
56 9 0.15
57 3 0.05
59 25 0.41
61 7 0.11
62 13 0.21
63 4 0.07
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (58 bp):
TAATGATTTATTAAATATTTAACGATTTAATACTAATGATTATAGTAATAAATTATAA
Found at i:1677721 original size:17 final size:17
Alignment explanation
Indices: 1677681--1677722 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
1677671 AATGATTTAG
1677681 TAATTATTATTAATAAT
1 TAATTATTATTAATAAT
* * *
1677698 GATTTATTATTAATATT
1 TAATTATTATTAATAAT
1677715 TAATTATT
1 TAATTATT
1677723 TAATACTAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TAATTATTATTAATAAT
Found at i:1677782 original size:26 final size:25
Alignment explanation
Indices: 1677749--1677934 Score: 197
Period size: 26 Copynumber: 7.4 Consensus size: 25
1677739 TAGTAATGAA
1677749 ATTATAATAATGATTTAGTAATAATC
1 ATTATAATAATGATTTA-TAATAATC
*
1677775 ATTATAATAATGA-TT-TAATAATA
1 ATTATAATAATGATTTATAATAATC
*
1677798 ATGATAATAATGATTTAATAATAATC
1 ATTATAATAATGATTT-ATAATAATC
1677824 ATTATAATAATGATTTAATAATAATC
1 ATTATAATAATGATTT-ATAATAATC
*
1677850 ATTATAATAATGA-TT-TAATAATG
1 ATTATAATAATGATTTATAATAATC
* *
1677873 ATT-TAGTAATGATTTTATAATAATG
1 ATTATAATAATGA-TTTATAATAATC
* *
1677898 ATTTAATACTAATGA-TT-TAATAATT
1 A-TT-ATAATAATGATTTATAATAATC
1677923 ATTACTAATAAT
1 ATTA-TAATAAT
1677935 TATGGAATAA
Statistics
Matches: 141, Mismatches: 9, Indels: 22
0.82 0.05 0.13
Matches are distributed among these distances:
22 8 0.06
23 30 0.21
24 12 0.09
25 21 0.15
26 62 0.44
28 8 0.06
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (25 bp):
ATTATAATAATGATTTATAATAATC
Found at i:1677805 original size:49 final size:48
Alignment explanation
Indices: 1677752--1677899 Score: 194
Period size: 49 Copynumber: 3.0 Consensus size: 48
1677742 TAATGAAATT
1677752 ATAATAATGATTTAGTAATAATCATTATAATAATGATTTAATAATAATG
1 ATAATAATGATTTA-TAATAATCATTATAATAATGATTTAATAATAATG
*
1677801 ATAATAATGATTTAATAATAATCATTATAATAATGATTTAATAATAATCATT
1 ATAATAATGATTT-ATAATAATCATTATAATAATGATTTAATAAT-A--ATG
* * *
1677853 ATAATAATGA-TT-TAATAATGATT-TAGTAATGATTTTATAATAATG
1 ATAATAATGATTTATAATAATCATTATAATAATGATTTAATAATAATG
1677898 AT
1 AT
1677900 TTAATACTAA
Statistics
Matches: 90, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
45 4 0.04
47 1 0.01
48 16 0.18
49 53 0.59
50 2 0.02
51 2 0.02
52 12 0.13
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (48 bp):
ATAATAATGATTTATAATAATCATTATAATAATGATTTAATAATAATG
Found at i:1677871 original size:3 final size:3
Alignment explanation
Indices: 1677767--1677860 Score: 50
Period size: 3 Copynumber: 32.3 Consensus size: 3
1677757 AATGATTTAG
* * * * * * *
1677767 TAA TAA TCA TTA TAA TAA TGA T-T TAA TAA TAA TGA TAA TAA TGA T-T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
1677813 TAA TAA TAA TCA TTA TAA TAA TGA T-T TAA TAA TAA TCA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1677860 T
1 T
1677861 GATTTAATAA
Statistics
Matches: 68, Mismatches: 20, Indels: 6
0.72 0.21 0.06
Matches are distributed among these distances:
2 3 0.04
3 65 0.96
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:1678021 original size:368 final size:371
Alignment explanation
Indices: 1677434--1678132 Score: 1278
Period size: 368 Copynumber: 1.9 Consensus size: 371
1677424 TATGATTTAG
* * *
1677434 TAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAATAATTATTTAATA
1 TAATGATTTAATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATGATTTAATA
* *
1677499 GTAATGATTTAGTAATTATTTTATAATAATTATTTAATACTAATGATTTAATAATTATTACTAAT
66 GTAATGATTTAGTAATGATTTTATAATAATGATTTAATACTAATGATTTAATAATTATTACTAAT
*
1677564 AATTATGGAATAATAACAAATGAGTGTAAAAGTGTGGAGTACTCGAATTTAAATTTATACATAGT
131 AATTATGGAATAATAACAAATGAGTGTAAAAGTGTGGACTACTCGAATTTAAATTTATACATAGT
* * *
1677629 CGAATTTATTAATGATTTTTAAATATTTAACGATTTGATACTAATGATTTAGTAATTATTATTAA
196 CGAATTTATCAATGATTTTTAAATATGTAACGATTTGATACTAATGATTTAGTAATTATTAATAA
1677694 TAATGATTTATTATTAATATTTAATTATTTAATACTAATGATTACTAGTAATGAAATTATAATAA
261 TAATGATTTATTATTAATATTTAATTATTTAATACTAATGATTACTAGTAATGAAATTATAATAA
1677759 TGATTTAGTAATAATCATTATAATAATGATTTAATAATAATGATAA
326 TGATTTAGTAATAATCATTATAATAATGATTTAATAATAATGATAA
1677805 TAATGATTTAATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATGATTT-A-A
1 TAATGATTTAATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATGATTTAATA
1677868 -TAATGATTTAGTAATGATTTTATAATAATGATTTAATACTAATGATTTAATAATTATTACTAAT
66 GTAATGATTTAGTAATGATTTTATAATAATGATTTAATACTAATGATTTAATAATTATTACTAAT
*
1677932 AATTATGGAATAATAACAAATGAGTGTACAAGTGTGGACTACTCGAATTTAAATTTATACATAGT
131 AATTATGGAATAATAACAAATGAGTGTAAAAGTGTGGACTACTCGAATTTAAATTTATACATAGT
*
1677997 CGAATTTATCAATGATTTTTAAATATGTAATGATTTGATACTAATGATTTAGTAATTATTAATAA
196 CGAATTTATCAATGATTTTTAAATATGTAACGATTTGATACTAATGATTTAGTAATTATTAATAA
1678062 TAATGATTTATTATTAATATTTAATTATTTAATACTAATGATTACTAGTAATGAAATTATAATAA
261 TAATGATTTATTATTAATATTTAATTATTTAATACTAATGATTACTAGTAATGAAATTATAATAA
1678127 TGATTT
326 TGATTT
1678133 TATACTAAAA
Statistics
Matches: 317, Mismatches: 11, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
368 257 0.81
369 1 0.00
370 1 0.00
371 58 0.18
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (371 bp):
TAATGATTTAATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATGATTTAATA
GTAATGATTTAGTAATGATTTTATAATAATGATTTAATACTAATGATTTAATAATTATTACTAAT
AATTATGGAATAATAACAAATGAGTGTAAAAGTGTGGACTACTCGAATTTAAATTTATACATAGT
CGAATTTATCAATGATTTTTAAATATGTAACGATTTGATACTAATGATTTAGTAATTATTAATAA
TAATGATTTATTATTAATATTTAATTATTTAATACTAATGATTACTAGTAATGAAATTATAATAA
TGATTTAGTAATAATCATTATAATAATGATTTAATAATAATGATAA
Found at i:1678097 original size:59 final size:57
Alignment explanation
Indices: 1678007--1678133 Score: 150
Period size: 59 Copynumber: 2.2 Consensus size: 57
1677997 CGAATTTATC
* *
1678007 AATGATTTTTAAATATGTAATGATTTGATACTAATGATT-TAGTAAT-TATTAATAAT
1 AATGATTTTTAAATATGTAATGATTTAATACTAATGATTATAGTAATAAATT-ATAAT
* *
1678063 AATGATTTATTATTAATATTTAATTATTTAATACTAATGATTACTAGTAATGAAATTATAAT
1 AATGATTT-TTA--AATATGTAATGATTTAATACTAATGATTA-TAGTAAT-AAATTATAAT
1678125 AATGATTTT
1 AATGATTTT
1678134 ATACTAAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
56 8 0.13
57 3 0.05
59 25 0.42
61 8 0.13
62 13 0.22
63 3 0.05
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (57 bp):
AATGATTTTTAAATATGTAATGATTTAATACTAATGATTATAGTAATAAATTATAAT
Found at i:1680675 original size:20 final size:20
Alignment explanation
Indices: 1680650--1680764 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
1680640 AATTGGGAAA
*
1680650 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
1680670 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
1680691 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
*
1680711 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1680731 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
1680751 TTCGCAACGTGATA
1 ATCGCAACGCGATA
1680765 ATACATAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1680692 original size:41 final size:41
Alignment explanation
Indices: 1680647--1680784 Score: 154
Period size: 41 Copynumber: 3.4 Consensus size: 41
1680637 ACGAATTGGG
* * *
1680647 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
1680688 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT-AC
** * *
1680730 --TTTCGCAACGCGATTCTGACTTTCGCAACGTGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
1680769 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
1680785 TTTCTAAGCG
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.03
40 31 0.39
41 45 0.56
42 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:1681237 original size:14 final size:14
Alignment explanation
Indices: 1681218--1681244 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1681208 ACGCGAAATG
1681218 AAAATCGCAACGAC
1 AAAATCGCAACGAC
1681232 AAAATCGCAACGA
1 AAAATCGCAACGA
1681245 GATTTTATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.26, G:0.15, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1681307 original size:20 final size:20
Alignment explanation
Indices: 1681258--1681316 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1681248 TTTATTCTCT
* **
1681258 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
1681278 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
1681298 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
1681317 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:1681505 original size:25 final size:24
Alignment explanation
Indices: 1681451--1681505 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
1681441 ATGTTATTAT
* *
1681451 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
1681475 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
1681501 TGTTT
1 TGTTT
1681506 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:1682655 original size:18 final size:18
Alignment explanation
Indices: 1682634--1682678 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1682624 TCCACTTCGG
*
1682634 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
1682652 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
1682670 GAGCCATCA
1 GAGCCATCA
1682679 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:1683214 original size:19 final size:20
Alignment explanation
Indices: 1683160--1683226 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
1683150 TAGTTTACTT
* *
1683160 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
1683180 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
1683200 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
1683219 TCGCAACG
1 TCGCAACG
1683227 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:1683234 original size:14 final size:14
Alignment explanation
Indices: 1683215--1683274 Score: 66
Period size: 14 Copynumber: 3.9 Consensus size: 14
1683205 ATGCGAAATG
1683215 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1683229 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
1683248 AAAATCGCAACGAC
1 AAAATCGCAACGAC
1683262 AAAATCGCAACGA
1 AAAATCGCAACGA
1683275 GAAATGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.59
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.50, C:0.23, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1683241 original size:33 final size:33
Alignment explanation
Indices: 1683199--1683290 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
1683189 GGAAATGGCT
1683199 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1683232 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
1683265 ATCGCAACGAGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
1683291 TGCGATTTGT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.49, C:0.21, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:1683253 original size:19 final size:19
Alignment explanation
Indices: 1683199--1683295 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
1683189 GGAAATGGCT
1683199 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1683218 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
1683232 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1683251 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
* *
1683265 ATCGCAACGAGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1683284 ATCGCAATGCGA
1 ATCGCAATGCGA
1683296 TTTGTGTTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 20 0.33
15 2 0.03
16 3 0.05
17 4 0.07
18 2 0.03
19 30 0.49
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1683329 original size:14 final size:14
Alignment explanation
Indices: 1683307--1683364 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
1683297 TTGTGTTTCA
1683307 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
* *
1683321 CGTTACGATTTCATTT
1 CGTTGCGATTT--TGT
1683337 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
1683353 CGTTGCGATTTT
1 CGTTGCGATTTT
1683365 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 8 0.22
18 8 0.22
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1683346 original size:32 final size:33
Alignment explanation
Indices: 1683309--1683380 Score: 128
Period size: 32 Copynumber: 2.2 Consensus size: 33
1683299 GTGTTTCACG
1683309 TTGCGATTTTGTCGTTACGA-TTTCATTTCGCA
1 TTGCGATTTTGTCGTTACGATTTTCATTTCGCA
*
1683341 TTGCGATTTTGTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTGTCGTTACGATTTTCATTTCGCA
1683374 TTGCGAT
1 TTGCGAT
1683381 AGCCATTTCC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 19 0.50
33 19 0.50
ACGTcount: A:0.14, C:0.18, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTGTCGTTACGATTTTCATTTCGCA
Found at i:1683399 original size:20 final size:19
Alignment explanation
Indices: 1683365--1683420 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
1683355 TTGCGATTTT
*
1683365 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1683384 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
1683404 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
1683421 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:1685492 original size:19 final size:19
Alignment explanation
Indices: 1685468--1685532 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
1685458 GCAACGAGAG
1685468 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1685487 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1685506 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
1685520 AATCGCAATGCGA
1 AATCGCAATGCGA
1685533 TTTTCATTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
14 11 0.26
15 1 0.02
16 2 0.05
17 2 0.05
19 27 0.63
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1685576 original size:20 final size:20
Alignment explanation
Indices: 1685551--1685607 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
1685541 TCGTATTGCG
*
1685551 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
1685571 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
1685591 ATTTTCGCGTTGCGATA
1 ATTTTCGCGTTGCGATA
1685608 ATCAAATGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:1685993 original size:61 final size:63
Alignment explanation
Indices: 1685924--1686059 Score: 154
Period size: 61 Copynumber: 2.2 Consensus size: 63
1685914 AACTTTGAAA
** * *
1685924 ATCGCATTGCGATTCTGT-ATTATCTCGTTGCGAAAGT-TAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTAAGTCAGTATCGCGTTGCGAAAGTGTAGAATCGCGTTGCGAAAGTCAGT
*** ** *
1685985 ATCGCATTGCGA--AAGTCAGTATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTAAGTCAGTATCGCGTTGCGAAAGTGTAGAATCGCGTTGCGAAAGTCAGT
1686046 ATCGCATTGCGATT
1 ATCGCATTGCGATT
1686060 TTCCCAATTC
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
59 2 0.03
60 14 0.23
61 45 0.74
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (63 bp):
ATCGCATTGCGATTAAGTCAGTATCGCGTTGCGAAAGTGTAGAATCGCGTTGCGAAAGTCAGT
Found at i:1686058 original size:20 final size:20
Alignment explanation
Indices: 1685944--1686057 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
1685934 GATTCTGTAT
* *
1685944 TATCTCGTTGCGAAAGTTAG
1 TATCGCGTTGCGAAAGTCAG
*
1685964 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
1685984 TATCGCATTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
** *
1686004 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
1686025 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
1686045 TATCGCATTGCGA
1 TATCGCGTTGCGA
1686058 TTTTCCCAAT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
19 3 0.04
20 60 0.76
21 14 0.18
22 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:1686072 original size:41 final size:41
Alignment explanation
Indices: 1685984--1686079 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 41
1685974 CGAAAGTCAG
* * * ** *
1685984 TATCGCATTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAA
1686025 TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTT-CCAA
1686067 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
1686080 TTACTTATTC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 46 0.96
42 2 0.04
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAA
Found at i:1686377 original size:30 final size:30
Alignment explanation
Indices: 1686343--1686440 Score: 139
Period size: 30 Copynumber: 3.3 Consensus size: 30
1686333 TCCCTTAAAC
1686343 AACTAATAAACTATTCTTTAATATAACTTT
1 AACTAATAAACTATTCTTTAATATAACTTT
*
1686373 AACTAATAAACTATTCTTTAATATAACTTA
1 AACTAATAAACTATTCTTTAATATAACTTT
*
1686403 AACTAATAAACGATT-TTTAATTATAA-TTT
1 AACTAATAAACTATTCTTTAA-TATAACTTT
*
1686432 -ACTACTAAA
1 AACTAATAAA
1686441 AAATTAATTA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
28 8 0.13
29 7 0.11
30 48 0.76
ACGTcount: A:0.46, C:0.12, G:0.01, T:0.41
Consensus pattern (30 bp):
AACTAATAAACTATTCTTTAATATAACTTT
Found at i:1686653 original size:21 final size:21
Alignment explanation
Indices: 1686627--1686666 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1686617 TTTCTATATG
1686627 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
1686648 ATATAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
1686667 ACTAATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:1686878 original size:46 final size:47
Alignment explanation
Indices: 1686772--1686863 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 47
1686762 TTATATAACT
* * * *
1686772 TAAACTAATAAACT-ATTTTTTATTATAATAAAACTTAAACTACTAA
1 TAAACTAATTAACTAAATTTTTATTATAATAAAACTTAAACAACCAA
1686818 TAAACTAATTAACTAAATTTTTA-TATAATATAAA-TTAAACAACCAA
1 TAAACTAATTAACTAAATTTTTATTATAATA-AAACTTAAACAACCAA
1686864 AATATAACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
46 30 0.75
47 10 0.25
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (47 bp):
TAAACTAATTAACTAAATTTTTATTATAATAAAACTTAAACAACCAA
Found at i:1687049 original size:21 final size:20
Alignment explanation
Indices: 1687001--1687049 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
1686991 ATATAACTTA
1687001 AACTAAACTAACAAAAATAT
1 AACTAAACTAACAAAAATAT
1687021 AACTTAAACTAACAAACTAAT-T
1 AAC-TAAACTAACAAA--AATAT
1687043 AACTAAA
1 AACTAAA
1687050 ATTTTGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.12
21 16 0.62
22 4 0.15
23 3 0.12
ACGTcount: A:0.61, C:0.16, G:0.00, T:0.22
Consensus pattern (20 bp):
AACTAAACTAACAAAAATAT
Found at i:1687075 original size:4 final size:4
Alignment explanation
Indices: 1687066--1687095 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
1687056 TTTTACCTTA
*
1687066 AACT AACT AACT AACT AACT AATT AACT AA
1 AACT AACT AACT AACT AACT AACT AACT AA
1687096 AATATTGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (4 bp):
AACT
Found at i:1687080 original size:47 final size:46
Alignment explanation
Indices: 1687025--1687134 Score: 159
Period size: 47 Copynumber: 2.4 Consensus size: 46
1687015 AAATATAACT
* *
1687025 TAAACTAACAAACTAATTAACTAAAATTTTGTTTTACCTTAAACTAA
1 TAAACTAACAAACTAATTAACTAAAATATTGGTTTACCTTAAAC-AA
* *
1687072 CT-AACTAACTAACTAATTAACTAAAATATTGGTTTACCTTAAACCA
1 -TAAACTAACAAACTAATTAACTAAAATATTGGTTTACCTTAAACAA
1687118 TAAACTAACAAACTAAT
1 TAAACTAACAAACTAAT
1687135 AATTTAAAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
45 1 0.02
46 15 0.27
47 39 0.70
48 1 0.02
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (46 bp):
TAAACTAACAAACTAATTAACTAAAATATTGGTTTACCTTAAACAA
Found at i:1687164 original size:9 final size:9
Alignment explanation
Indices: 1687132--1687169 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
1687122 CTAACAAACT
1687132 AATAATTTAA
1 AATAA-TTAA
1687142 AATAA-TAA
1 AATAATTAA
*
1687150 AGTAATTAA
1 AATAATTAA
1687159 AATAATTAA
1 AATAATTAA
1687168 AA
1 AA
1687170 AACTTACCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 7 0.28
9 13 0.52
10 5 0.20
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (9 bp):
AATAATTAA
Found at i:1687500 original size:29 final size:29
Alignment explanation
Indices: 1687467--1687523 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
1687457 CAAAGCATGC
* *
1687467 ATGTCGTTGGGATGCCCTGGCGACCTACA
1 ATGTCGCTGGGATGCCCTGACGACCTACA
1687496 ATGTCGCTGGGATGCCCTGACGACCTAC
1 ATGTCGCTGGGATGCCCTGACGACCTAC
1687524 CCAGAACCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.18, C:0.30, G:0.30, T:0.23
Consensus pattern (29 bp):
ATGTCGCTGGGATGCCCTGACGACCTACA
Found at i:1687638 original size:29 final size:28
Alignment explanation
Indices: 1687604--1687659 Score: 103
Period size: 29 Copynumber: 2.0 Consensus size: 28
1687594 AAACAGGTCA
1687604 CCCGGATGCCATGGCGACCTCCAAGCTCG
1 CCCGGATGCCATGGCGACCTCC-AGCTCG
1687633 CCCGGATGCCATGGCGACCTCCAGCTC
1 CCCGGATGCCATGGCGACCTCCAGCTC
1687660 ACTGTAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.16, C:0.43, G:0.27, T:0.14
Consensus pattern (28 bp):
CCCGGATGCCATGGCGACCTCCAGCTCG
Found at i:1688674 original size:19 final size:19
Alignment explanation
Indices: 1688618--1688674 Score: 96
Period size: 19 Copynumber: 3.0 Consensus size: 19
1688608 CAATTTTTGA
*
1688618 AAAATGTGTTGCGATAATT
1 AAAATGTGTTGCGATAGTT
1688637 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTT
*
1688656 AAAATGTGTTGCGAGAGTT
1 AAAATGTGTTGCGATAGTT
1688675 TGAAAAACGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTT
Found at i:1695046 original size:21 final size:21
Alignment explanation
Indices: 1695020--1695064 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1695010 GATTTCTGGG
* *
1695020 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1695041 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1695062 CAA
1 CAA
1695065 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1695961 original size:31 final size:31
Alignment explanation
Indices: 1695923--1696001 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
1695913 AGGGTCGAGG
1695923 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1695954 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
1695985 GATTACCTAGGTTCTTC
1 GTTTACCTATGTTCTTC
1696002 AGAATCTATG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1696012 original size:31 final size:31
Alignment explanation
Indices: 1695925--1696016 Score: 105
Period size: 31 Copynumber: 3.0 Consensus size: 31
1695915 GGTCGAGGGT
* * * *
1695925 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTAGGTTCTTCAGAACATATGGACTGA
* * *
1695956 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTAGGTTCTTCAGAACATATGGACTGA
1695987 TTACCTAGGTTCTTCAGAATC-TATGGACTG
1 TTACCTAGGTTCTTCAGAA-CATATGGACTG
1696017 GTCCTTCGGG
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
31 55 0.98
32 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (31 bp):
TTACCTAGGTTCTTCAGAACATATGGACTGA
Found at i:1700308 original size:5 final size:5
Alignment explanation
Indices: 1700298--1700330 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
1700288 TATCTTTGGG
*
1700298 TCCCC TCCCC TCCTC TCCCC TCCCC TCCCC TCC
1 TCCCC TCCCC TCCCC TCCCC TCCCC TCCCC TCC
1700331 ATTTGCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.76, G:0.00, T:0.24
Consensus pattern (5 bp):
TCCCC
Found at i:1702228 original size:112 final size:112
Alignment explanation
Indices: 1702031--1702493 Score: 764
Period size: 112 Copynumber: 4.1 Consensus size: 112
1702021 TTGCCGGTTT
* *
1702031 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
1702096 GGTATATAAATGACAAAACAGGTAAAGTGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
1702143 GTGTCGATACTTTATAAAAATTTATCGATCCATAAAAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
1702208 GGTCTATAAATGACAAAACAGGTAAAACACTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * *
1702255 GTGTTGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATAACCAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
1702320 GGTCTATAAATGACAAAACATGTAAAGCGCTACCGAATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
1702367 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * * *
1702432 GGTCTATAAATGATAAAACAGGTAAAGAGCTACCGGATATGTTGATA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
1702479 GTGTCGATATTTTAT
1 GTGTCGATACTTTAT
1702494 TATAAGTATC
Statistics
Matches: 325, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 325 1.00
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.26
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:1702672 original size:182 final size:183
Alignment explanation
Indices: 1702364--1702819 Score: 740
Period size: 182 Copynumber: 2.5 Consensus size: 183
1702354 GAATATATTG
* *
1702364 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAA
** * * *
1702429 ACCGGTCTATAAATGATAAAA-CAGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATATTTTA
66 ACCGGTCTCGAAATGACAAAACCAGGTAAAGAGCTACCGGATATGTTGAAAGTATCGATATTTTA
* *
1702493 TTATAAGTATCGACACTTTTGGAATTTAAAAGAGAATAAGTTATAGCG-CTAAT
131 TTATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGTC-AAT
* *
1702546 AAAGTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAGTTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAA
*
1702611 ACCGGTCTCGAAATGACAAAACCA-GTAAAGAGCTACCGGATATGTTGAAAGTATTGATATTTTA
66 ACCGGTCTCGAAATGACAAAACCAGGTAAAGAGCTACCGGATATGTTGAAAGTATCGATATTTTA
*
1702675 TTATAAGTATCGACACTTTTGGAATTTAAAATAAAAGAAGTTATAGCGTCAAT
131 TTATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGTCAAT
*
1702728 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGAAAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAA
*
1702793 ATCGGTCTCGAAATGACAAAACC-GGTA
66 ACCGGTCTCGAAATGACAAAACCAGGTA
1702820 GTAAAAAAGT
Statistics
Matches: 255, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
182 252 0.99
183 3 0.01
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (183 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAA
ACCGGTCTCGAAATGACAAAACCAGGTAAAGAGCTACCGGATATGTTGAAAGTATCGATATTTTA
TTATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGTCAAT
Found at i:1703094 original size:23 final size:23
Alignment explanation
Indices: 1703065--1703112 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
1703055 AAATAGGTCA
*
1703065 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTAATACATT
*
1703088 ATATAAGCGCTACCTAATATATT
1 ATATAAGCGCTACCTAATACATT
1703111 AT
1 AT
1703113 TGTACTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATACATT
Found at i:1703584 original size:18 final size:18
Alignment explanation
Indices: 1703561--1703617 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
1703551 TAAATCTAAA
1703561 TAATAATTATTAATATAT
1 TAATAATTATTAATATAT
* * *
1703579 TAATAAATAATAAAATA-
1 TAATAATTATTAATATAT
*
1703596 TAATAAATTAATGAATATAT
1 TAAT-AATT-ATTAATATAT
1703616 TA
1 TA
1703618 TTTTTTTAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
17 4 0.14
18 17 0.59
19 6 0.21
20 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TAATAATTATTAATATAT
Found at i:1703586 original size:25 final size:25
Alignment explanation
Indices: 1703557--1703654 Score: 75
Period size: 25 Copynumber: 4.1 Consensus size: 25
1703547 AAAATAAATC
1703557 TAAATAATAATTATTAATATATTAA
1 TAAATAATAATTATTAATATATTAA
* *
1703582 TAAATAATAA-AATATAATAAATTAA
1 TAAATAATAATTAT-TAATATATTAA
* *
1703607 TGAAT-AT-ATTATT--T-TTTTAA
1 TAAATAATAATTATTAATATATTAA
* *
1703627 TAAATAATAAAATATTATTA-ATTAA
1 TAAATAAT-AATTATTAATATATTAA
1703652 TAA
1 TAA
1703655 TATTATTTTA
Statistics
Matches: 56, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
20 8 0.14
21 3 0.05
23 7 0.12
24 6 0.11
25 32 0.57
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (25 bp):
TAAATAATAATTATTAATATATTAA
Found at i:1703665 original size:18 final size:18
Alignment explanation
Indices: 1703616--1703667 Score: 50
Period size: 21 Copynumber: 2.7 Consensus size: 18
1703606 ATGAATATAT
*
1703616 TATTTTTTTAATAAATAA
1 TATTATTTTAATAAATAA
* *
1703634 TAAAATATTATTAATTAATAA
1 T--ATTATT-TTAATAAATAA
1703655 TATTATTTTAATA
1 TATTATTTTAATA
1703668 CCAAAAAAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 6
0.70 0.14 0.16
Matches are distributed among these distances:
18 6 0.23
19 5 0.19
20 4 0.15
21 11 0.42
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TATTATTTTAATAAATAA
Found at i:1712562 original size:24 final size:24
Alignment explanation
Indices: 1712444--1712559 Score: 155
Period size: 24 Copynumber: 4.8 Consensus size: 24
1712434 TTCGATTTGA
1712444 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
* *
1712468 ATTCTGATATGATA-TCTGACATAG
1 ATTCTGATCTGATACT-TGACATGG
*
1712492 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
1712516 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
*
1712540 AGTT-TGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
1712560 CTGATTTATG
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
23 1 0.01
24 78 0.95
25 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.39
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:1712779 original size:2 final size:2
Alignment explanation
Indices: 1712772--1712798 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1712762 TGGATGGGGG
1712772 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1712799 GTTTTAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1714542 original size:23 final size:23
Alignment explanation
Indices: 1714511--1714583 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
1714501 ATAGGTAAAA
*
1714511 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
1714534 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1714557 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1714580 ATAT
1 ATAT
1714584 TGTAAAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1715004 original size:487 final size:488
Alignment explanation
Indices: 1714091--1719314 Score: 8714
Period size: 487 Copynumber: 10.8 Consensus size: 488
1714081 ATTTTACCTG
* **
1714091 TTATATTGTAAAGTATTTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTAAAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
1714156 AATTTAAGGTTATCTTTTGAGTAAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
1714221 TTATTTTTTACATTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
1714286 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
1714351 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAA-T--TATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
* * * *
1714413 CACTGTTAAAAAAATTAAAACATAAATTACATAACTTTAAAAAAAAATATTGATCATTTTTATAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAAC-TT-AAAAAAAATATCGATCCTTTTTATAA
*
1714478 AAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
389 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
1714543 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
454 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
1714578 TTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* **
1714643 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATATGTATCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
* *
1714708 TTATTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
1714773 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
* * *
1714838 ACAATCAAATAATGTTTTGTGCAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
*
1714903 CACTATT-AAAAAATTGAAACATAAATTACATAACATAAAAAAAATATCGATCCTTTTTATAAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTAAAAAAAATATCGATCCTTTTTATAAAA
1714967 AGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGC-T-TAT-A--TAA
391 AGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAA
1715027 T--GTAGCGTTT-TATAATGTAATAGGTAGTGC
456 TAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* *
1715057 TTATATTGTAAAGTATCTATCATTTTTATAAAAGCGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1715122 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
1715187 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAAC--ATATATTACATA-
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
1715249 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
1715314 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
*
1715379 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT-AA
326 CACTATTAAAAAAATTGAAACATAAATTACATAAC-TTAAAAAAAATATCGATCCTTTTTATAAA
1715443 AAGTATGGACACTTTCAATATAATA-GTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
390 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
1715507 ATAGGTAGCGTTTATATAATGTAATA-G-AGTGC
455 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
1715539 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
**
1715604 AATTTAATATTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
1715669 TTATTTTTTACATTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA-
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
1715733 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
* *
1715798 ACAATCAAATAATTTTTTGTGTAAATG--------AAATTAATATTGTAGGTAGAAAACATTAAA
261 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
1715855 CACTATT-AAAAAATTGAAACATAAATTACATAACTTAAAAAAAATATCGATCCTTTTTATAAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTAAAAAAAATATCGATCCTTTTTATAAAA
1715919 AGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAA
391 AGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAA
1715984 TAGGTAGCG-TT-TATAATGTAATAGGTAGTGC
456 TAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* *
1716015 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAATATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
**
1716080 AATTTAATATTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
1716145 TTATTTTTTACATTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
1716210 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
*
1716275 ACAATTAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
* *
1716340 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAAC-TTAAAAAAAATATCGATCCTTTTTATAAA
* *
1716405 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGATAACGCTTATATAATGTA
390 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
1716470 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
455 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* * * * *
1716504 TTATATTGTAAAGTATCTATCCTTTTTATAAAAATGTTCATACTTTTTTCACTATGAAAAATATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* *
1716569 AATTTATGGTTATCTTTTGAGTGAGTGTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
1716634 TTATTTTTTACGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATA-
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
1716698 TT-TTA-TATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
*
1716761 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATTAAA
261 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
*
1716826 CACTATTAAAAAAATTGAAACATAAATTACATAACTT-AAAAAAATATCGATCTTTTTTATAAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTAAAAAAAATATCGATCCTTTTTATAAAA
*
1716890 AGTATGGACACTTTCAATATAATAGGTAAAAATA-GATGTAATAGGTAACGC-TATATAATGTAA
391 AGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAA
1716953 TAGGTAGCGTTTATATAATGTAATAGGTAGTGC
456 TAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* * * *
1716986 TTATATTGTAAAGTATCTATCCTTTTTATAAAAATGTCCATACTTTTTTCACTATGAAAAATATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
1717051 AATTTAAGGTTATCTTTTGAGTGAGTGTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
1717116 TTATTTTTTACGTTACGGTATATATTATCATTAAATTAAAAAACAATAAACATATATATTACATA
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATT-AAAAACAATAAACATATATATTACATA
*
1717181 TTTATTATTATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAA
195 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAA
1717246 AACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
260 AACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
*
1717311 ACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAA
325 ACACTATTAAAAAAATTGAAACATAAATTACATAAC-TTAAAAAAAATATCGATCCTTTTTATAA
*
1717376 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT-T-ATAGGTAGCACTTATATAATGT
389 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
*
1717439 AATAGGTAGCGTTTATATAATGTAATAGATAGTGC
454 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
1717474 TTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
1717539 AATTTAAGGTTATCTTTTGAGTGAGTTTTAATATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
1717604 TTA-TTTTTACGTTACGG-ATATATTA-TATTAAATT-AAAACAATAAAC--ATATATTACATA-
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
1717662 TT-TTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
*
1717726 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
*
1717791 CACTATT-AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAAC-TTAAAAAAAATATCGATCCTTTTTATAAA
* *
1717855 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAAGTAGCGCTTGTATAATGTA
390 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
1717920 ATAGGTAGCGTTT-TATAATGTAATAGGTAGTGC
455 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
1717953 TTATATTGTAAAAATATCTATCC-TTTTATAAAA--GTCCATAC--TTTTCACTGTGGAAAACAT
1 TTATATTGT-AAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACAT
* *
1718013 TAATTTAAGGTTAT-TTTTGACTGAGTTTTAATATATTAA-TTAGTAATTATA-GCGTCTAATGA
65 TAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGA
*
1718075 TTTA-TTTTTACGTTAC-G-ATATATTATTATTAAATTAAAAACAAAAAACATATATATTAC--A
130 TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
* *
1718135 TTTATTATTATCTTTGATTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAA
195 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAA
* *
1718200 AACAATCAAATAATTTTTTGTGCAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
260 AACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
* * * * *
1718265 ACACTATTAAAAAAAACTGAAGCATAAATTACATAACTTTAAAAAAGTATCAATCCTTTTTATAA
325 ACACTATT-AAAAAAATTGAAACATAAATTACATAACTTAAAAAAAATATCGATCCTTTTTATAA
*
1718330 AAAGTATGGACATTTTCAATATAATAGGTAAAAA-AT-ATGATAATAGGTAGCGC-T-TATAATG
389 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG-TAATAGGTAGCGCTTATATAATG
1718391 TAATAGGTAGCGTTTATATAA--TAATAGGTAGTG-
453 TAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* *
1718424 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTTCATAC-TTTTTCACTGTGGAAAATATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* ***
1718488 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATATGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
1718553 TTA-TTTTTACGTTACGG--TATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
1718615 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAAAATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
1718680 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
* *
1718745 CACTATT-AAAAAATTGAAAACATAAATTACATAACTT-TAAAAAGTATCGATCC-TTTTATAAA
326 CACTATTAAAAAAATTG-AAACATAAATTACATAACTTAAAAAAAATATCGATCCTTTTTATAAA
* * * * * *
1718807 AAGGATCGATACTTTATAATATATTAAGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
390 AAGTATGGACACTTT-CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
* * *
1718872 AATAGGTAGCGCTTATATAATGTAATATGTAGCGC
454 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* * *
1718907 TTATATTGTAAAGTATCTATCCTTTTTATAGAAGTGTTCATACTTATTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * * **
1718972 AATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
* *
1719037 TTATTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
1719102 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
*
1719167 ACAATCAAATAATTTTTT-TGTACAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGA
261 ACAATCAAATAATTTTTTGTGT--AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGA
* * * *
1719231 AACATTATT-AAAAATTTGAAACATAAATTACATAACTTTAAAAAAATATCGATTCTTTTTATAA
324 AACACTATTAAAAAAATTGAAACATAAATTACATAACTTAAAAAAAATATCGATCCTTTTTAT-A
*
1719295 AAAAGTAAGGACACTTTCAA
388 AAAAGTATGGACACTTTCAA
1719315 CATATTATAA
Statistics
Matches: 4503, Mismatches: 153, Indels: 160
0.94 0.03 0.03
Matches are distributed among these distances:
470 12 0.00
471 28 0.01
472 48 0.01
473 53 0.01
474 104 0.02
475 264 0.06
476 534 0.12
477 293 0.07
478 156 0.03
479 502 0.11
480 82 0.02
481 16 0.00
482 403 0.09
483 107 0.02
484 262 0.06
485 64 0.01
486 351 0.08
487 634 0.14
488 306 0.07
489 242 0.05
490 42 0.01
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (488 bp):
TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
CACTATTAAAAAAATTGAAACATAAATTACATAACTTAAAAAAAATATCGATCCTTTTTATAAAA
AGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAA
TAGGTAGCGTTTATATAATGTAATAGGTAGTGC
Found at i:1715042 original size:15 final size:16
Alignment explanation
Indices: 1715012--1715045 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1715002 GATGTAATAG
1715012 GTAGCGCTTATATAAT
1 GTAGCGCTTATATAAT
*
1715028 GTAGCG-TTTTATAAT
1 GTAGCGCTTATATAAT
1715043 GTA
1 GTA
1715046 ATAGGTAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (16 bp):
GTAGCGCTTATATAAT
Found at i:1715500 original size:23 final size:23
Alignment explanation
Indices: 1715474--1715533 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
1715464 AATAGTAAAA
*
1715474 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
1715497 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
1715520 ATATAATGTAATAG
1 ATATAATGTAATAG
1715534 AGTGCTTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1715981 original size:23 final size:23
Alignment explanation
Indices: 1715950--1716020 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
1715940 ATAGGTAAAA
*
1715950 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
1715973 ATATAATGTAATAGGTAGCG-TT
1 ATATAATGTAATAGGTAGCGCTT
*
1715995 -TATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1716017 ATAT
1 ATAT
1716021 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.41
22 4 0.09
23 22 0.50
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1716000 original size:21 final size:21
Alignment explanation
Indices: 1715955--1716025 Score: 97
Period size: 21 Copynumber: 3.3 Consensus size: 21
1715945 TAAAAATATG
1715955 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCG-TT-TATA
1715978 ATGTAATAGGTAGCGTTTATA
1 ATGTAATAGGTAGCGTTTATA
* *
1715999 ATGTAATAGGTAGTGCTTATA
1 ATGTAATAGGTAGCGTTTATA
*
1716020 TTGTAA
1 ATGTAA
1716026 AGTATCTATC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
21 28 0.62
22 2 0.04
23 15 0.33
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.38
Consensus pattern (21 bp):
ATGTAATAGGTAGCGTTTATA
Found at i:1716497 original size:23 final size:23
Alignment explanation
Indices: 1716437--1716509 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1716427 ATAGGTAAAA
* * *
1716437 ATATGATGTAATAGATAACGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
1716460 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1716483 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1716506 ATAT
1 ATAT
1716510 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1716971 original size:23 final size:22
Alignment explanation
Indices: 1716925--1716991 Score: 89
Period size: 23 Copynumber: 3.0 Consensus size: 22
1716915 GTAAAAATAG
* *
1716925 ATGTAATAGGTAACGCTATATA
1 ATGTAATAGGTAGCGTTATATA
1716947 ATGTAATAGGTAGCGTTTATATA
1 ATGTAATAGGTAGCG-TTATATA
*
1716970 ATGTAATAGGTAGTGCTTATAT
1 ATGTAATAGGTAGCG-TTATAT
1716992 TGTAAAGTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 14 0.35
23 26 0.65
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.37
Consensus pattern (22 bp):
ATGTAATAGGTAGCGTTATATA
Found at i:1717443 original size:23 final size:23
Alignment explanation
Indices: 1717417--1717466 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
1717407 AAATATGATT
1717417 ATAGGTAGCACTTATATAATGTA
1 ATAGGTAGCACTTATATAATGTA
**
1717440 ATAGGTAGCGTTTATATAATGTA
1 ATAGGTAGCACTTATATAATGTA
1717463 ATAG
1 ATAG
1717467 ATAGTGCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (23 bp):
ATAGGTAGCACTTATATAATGTA
Found at i:1717477 original size:23 final size:23
Alignment explanation
Indices: 1717417--1717479 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
1717407 AAATATGATT
* *
1717417 ATAGGTAGCACTTATATAATGTA
1 ATAGATAGCGCTTATATAATGTA
* *
1717440 ATAGGTAGCGTTTATATAATGTA
1 ATAGATAGCGCTTATATAATGTA
*
1717463 ATAGATAGTGCTTATAT
1 ATAGATAGCGCTTATAT
1717480 TGTAAAGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATAGATAGCGCTTATATAATGTA
Done.