Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004693.1 Hibiscus syriacus cultivar Beakdansim tig00010533_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: 2620943
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 10 of 12
Found at i:2013815 original size:32 final size:32
Alignment explanation
Indices: 2013779--2013875 Score: 110
Period size: 32 Copynumber: 3.0 Consensus size: 32
2013769 TTTTTCTTGG
*
2013779 AAAAAACC-TTGAGACAGTTTCTCTTGAAACAC
1 AAAAAACCTTTGA-AAAGTTTCTCTTGAAACAC
*
2013811 AAAAAACCTTTGAAATTGTTTCTCTTGAAA-A-
1 AAAAAACCTTTGAAA-AGTTTCTCTTGAAACAC
*
2013842 AAGGAAACCTTTGAAAATGTTTCTCTTGAAACAC
1 AA-AAAACCTTTGAAAA-GTTTCTCTTGAAACAC
2013876 CAAACCTTCG
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
31 2 0.04
32 35 0.64
33 18 0.33
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (32 bp):
AAAAAACCTTTGAAAAGTTTCTCTTGAAACAC
Found at i:2013832 original size:33 final size:34
Alignment explanation
Indices: 2013795--2013875 Score: 123
Period size: 32 Copynumber: 2.5 Consensus size: 34
2013785 CCTTGAGACA
*
2013795 GTTTCTCTTGAAACACAA-AAAACCTTTGAAATT
1 GTTTCTCTTGAAACACAAGAAAACCTTTGAAAAT
*
2013828 GTTTCTCTTGAAA-A-AAGGAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACAAGAAAACCTTTGAAAAT
2013860 GTTTCTCTTGAAACAC
1 GTTTCTCTTGAAACAC
2013876 CAAACCTTCG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
31 2 0.05
32 27 0.63
33 14 0.33
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (34 bp):
GTTTCTCTTGAAACACAAGAAAACCTTTGAAAAT
Found at i:2015530 original size:2 final size:2
Alignment explanation
Indices: 2015518--2015562 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
2015508 CCCTTATACG
*
2015518 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2015560 TA T
1 TA T
2015563 TCTTTTTGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2015638 original size:16 final size:16
Alignment explanation
Indices: 2015617--2015690 Score: 55
Period size: 16 Copynumber: 4.5 Consensus size: 16
2015607 TTAACAAAGC
2015617 ATATTTATTTATGTAT
1 ATATTTATTTATGTAT
*
2015633 ATATTTTTTTAT-TAT
1 ATATTTATTTATGTAT
* *
2015648 -TATTTTATTTTTGTTTT
1 ATA-TTTATTTATG-TAT
2015665 ATTATTTATATATATGTAT
1 A-TATTTAT-T-TATGTAT
2015684 AT-TTTAT
1 ATATTTAT
2015691 ATTTCTTTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
14 2 0.04
15 10 0.22
16 11 0.24
17 7 0.16
18 6 0.13
19 6 0.13
20 3 0.07
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (16 bp):
ATATTTATTTATGTAT
Found at i:2015656 original size:19 final size:19
Alignment explanation
Indices: 2015634--2015671 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
2015624 TTTATGTATA
2015634 TATTTTT-TTATTATTATTT
1 TATTTTTGTT-TTATTATTT
2015653 TATTTTTGTTTTATTATTT
1 TATTTTTGTTTTATTATTT
2015672 ATATATATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (19 bp):
TATTTTTGTTTTATTATTT
Found at i:2015865 original size:7 final size:7
Alignment explanation
Indices: 2015855--2015887 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
2015845 TTTCATTTTG
2015855 TTTTATC
1 TTTTATC
2015862 TTTTAT-
1 TTTTATC
2015868 TTTTATC
1 TTTTATC
2015875 TTTTATC
1 TTTTATC
2015882 TTTTAT
1 TTTTAT
2015888 TATTTTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTATC
Found at i:2015873 original size:13 final size:14
Alignment explanation
Indices: 2015855--2015887 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
2015845 TTTCATTTTG
2015855 TTTTATCTTTTAT-
1 TTTTATCTTTTATC
2015868 TTTTATCTTTTATC
1 TTTTATCTTTTATC
2015882 TTTTAT
1 TTTTAT
2015888 TATTTTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTATCTTTTATC
Found at i:2015968 original size:23 final size:23
Alignment explanation
Indices: 2015925--2015966 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2015915 TTATAAGCAT
2015925 TTTATTTGCTCCTTTTATTTTAC
1 TTTATTTGCTCCTTTTATTTTAC
*
2015948 TTTATTTTCT-C-TTTATTTT
1 TTTATTTGCTCCTTTTATTTT
2015967 TTTCCTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 1 0.06
23 9 0.50
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTATTTGCTCCTTTTATTTTAC
Found at i:2021640 original size:31 final size:31
Alignment explanation
Indices: 2021544--2021641 Score: 103
Period size: 31 Copynumber: 3.2 Consensus size: 31
2021534 TAAAACTTAC
* *
2021544 AAAATAATTATTAAA-TTTATCTAA-TAGTT-
1 AAAATGATTATTAAATTTTATCAAATTA-TTA
* * *
2021573 AAAATGGTTATTATATTTTATCAAATTGTTA
1 AAAATGATTATTAAATTTTATCAAATTATTA
* *
2021604 TAAATGATCATTAAATTTTATCAAATTATTA
1 AAAATGATTATTAAATTTTATCAAATTATTA
2021635 AAAATGA
1 AAAATGA
2021642 AAATTGAATA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
29 12 0.22
30 10 0.18
31 33 0.60
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (31 bp):
AAAATGATTATTAAATTTTATCAAATTATTA
Found at i:2028203 original size:13 final size:14
Alignment explanation
Indices: 2028180--2028235 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 14
2028170 ATTATTTATT
2028180 TAATAATAATAATA
1 TAATAATAATAATA
2028194 TAAT-ATAATAATA
1 TAATAATAATAATA
* * *
2028207 TATTAA-AACAAAA
1 TAATAATAATAATA
*
2028220 TATTAATAATAA-A
1 TAATAATAATAATA
2028233 TAA
1 TAA
2028236 AACAAATGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
13 26 0.74
14 9 0.26
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:2028222 original size:23 final size:23
Alignment explanation
Indices: 2028195--2028241 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
2028185 ATAATAATAT
*
2028195 AATA-TAATAATATATTAAAACAA
1 AATATTAATAATA-AATAAAACAA
2028218 AATATTAATAATAAATAAAACAA
1 AATATTAATAATAAATAAAACAA
2028241 A
1 A
2028242 TGAAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (23 bp):
AATATTAATAATAAATAAAACAA
Found at i:2028677 original size:113 final size:113
Alignment explanation
Indices: 2028479--2029208 Score: 1087
Period size: 113 Copynumber: 6.5 Consensus size: 113
2028469 ATTGCGCAAG
*
2028479 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCT-CTCTGGAAAAGTTGATCCATCAAG
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTGGAAATGTTGATCCATCAAG
* * *
2028543 TGATGAATTCGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTA
65 TGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
* * * * *
2028592 TTCTTCCTTCTTCAGATGAGTTCTTCTCCTT-TGGGATTCTACCTGGTAATGATGATCCATCGAA
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT-GAACTCTACCTGGAAATGTTGATCCATC-AA
*
2028656 -TGATGAATTCAAACAAAAAGTTGAACAAGTTATTCTCATTATGAACTTC
64 GTGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
* *
2028705 TTCTTCATTCTTCAGACGAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATCAAGT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATCAAGT
* * * * *
2028770 GATGAATTTAAACAAAAGGTTAAACAAGTTCTTCTTATTATGAAGTTC
66 GATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
* * *
2028818 CTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCT-TCTGGAAATGCTGATCCATCGAA-
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATC-AAG
*
2028881 TGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
65 TGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
*
2028930 TTCTTCCTTCTTCAGATGAGTTCTTATCATTATGAACTCTACCTGGAAATGTTGATCCATCAAGT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATCAAGT
* ** * *
2028995 GATGGATTTGAACAAAAGGTTAAACAAGTTCTTCTCATTATGAACTT-
66 GATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
*
2029042 TCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAATGCTGATCCATCGAA
1 T-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATC-AA
*
2029107 -TGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
64 GTGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
*
2029156 CTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAATGTT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAATGTT
2029209 TTAAGAAAAG
Statistics
Matches: 552, Mismatches: 54, Indels: 22
0.88 0.09 0.04
Matches are distributed among these distances:
112 105 0.19
113 441 0.80
114 6 0.01
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (113 bp):
TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATCAAGT
GATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
Found at i:2028910 original size:338 final size:339
Alignment explanation
Indices: 2028480--2029206 Score: 1124
Period size: 338 Copynumber: 2.1 Consensus size: 339
2028470 TTGCGCAAGT
* * *
2028480 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAGTTGATCCATCAAGTG
1 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTATCTGGAAATGCTGATCCATCAAGTG
*
2028545 ATGAATTCGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATG
66 ATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATG
* * * * *
2028610 AGTTCTTCTCCTT-TGGGATTCTACCTGGTAATGATGATCCATCGAA-TGATGAATTCAAACAAA
131 AGTTCTTATCATTAT-GAACTCTACCTGGAAATGATGATCCATC-AAGTGATGAATTCAAACAAA
*
2028673 AAGTTGAACAAGTTATTCTCATTATGAAC-TTCTTCTTCATTCTTCAGACGAGTTCTTCTCATTA
194 AAGTTAAACAAGTTATTCTCATTATGAACTTTC-TCTTCATTCTTCAGACGAGTTCTTCTCATTA
* * *
2028737 TGAACTCTACCTGGAAATGTTGATCCATC-AAGTGATGAATTTAAACAAAAGGTTAAACAAGTTC
258 TGAACTCTACCTGGAAATGCTGATCCATCGAA-TGATGAATTCAAACAAAAAGTTAAACAAGTTC
* *
2028801 TTCTTATTATGAAGTTCC
322 TTCTCATTATGAACTTCC
2028819 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCT-TCTGGAAATGCTGATCCATCGAA-T
1 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTATCTGGAAATGCTGATCCATC-AAGT
*
2028882 GATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
65 GATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGAT
* * **
2028947 GAGTTCTTATCATTATGAACTCTACCTGGAAATGTTGATCCATCAAGTGATGGATTTGAACAAAA
130 GAGTTCTTATCATTATGAACTCTACCTGGAAATGATGATCCATCAAGTGATGAATTCAAACAAAA
* * * *
2029012 GGTTAAACAAGTTCTTCTCATTATGAACTTTCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
195 AGTTAAACAAGTTATTCTCATTATGAACTTTCTCTTCATTCTTCAGACGAGTTCTTCTCATTATG
* *
2029077 AACTCTACCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTC
260 AACTCTACCTGGAAATGCTGATCCATCGAATGATGAATTCAAACAAAAAGTTAAACAAGTTCTTC
2029142 TCATTATGAACTTCC
325 TCATTATGAACTTCC
*
2029157 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAATG
1 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTATCTGGAAATG
2029207 TTTTAAGAAA
Statistics
Matches: 356, Mismatches: 26, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
337 2 0.01
338 298 0.84
339 56 0.16
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (339 bp):
TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTATCTGGAAATGCTGATCCATCAAGTG
ATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATG
AGTTCTTATCATTATGAACTCTACCTGGAAATGATGATCCATCAAGTGATGAATTCAAACAAAAA
GTTAAACAAGTTATTCTCATTATGAACTTTCTCTTCATTCTTCAGACGAGTTCTTCTCATTATGA
ACTCTACCTGGAAATGCTGATCCATCGAATGATGAATTCAAACAAAAAGTTAAACAAGTTCTTCT
CATTATGAACTTCC
Found at i:2029358 original size:76 final size:75
Alignment explanation
Indices: 2029232--2029481 Score: 403
Period size: 76 Copynumber: 3.3 Consensus size: 75
2029222 AAAAACATTC
* * *
2029232 TGCACTGTAGGGCTTACA-ACTGACTCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTT
1 TGCACTGTAGGACTTACAGA-TGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTT
*
2029296 TTCGACACATCA
65 TTGGA-ACATCA
* *
2029308 TGCACTGTAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTT
1 TGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTT
2029373 TGGAACCATCA
66 TGGAA-CATCA
2029384 TGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTT
1 TGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTT
2029449 TGGAAACATCA
66 TGG-AACATCA
2029460 TGCACTGTAGGACTTACAGATG
1 TGCACTGTAGGACTTACAGATG
2029482 TGGGAAATAG
Statistics
Matches: 163, Mismatches: 8, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
75 1 0.01
76 159 0.98
77 3 0.02
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (75 bp):
TGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTT
TGGAACATCA
Found at i:2030450 original size:22 final size:22
Alignment explanation
Indices: 2030427--2030501 Score: 123
Period size: 22 Copynumber: 3.4 Consensus size: 22
2030417 TAAAGCTTTT
*
2030427 ATCTTTGAAAAGAGAATCTATT
1 ATCTTTGAAAAGAGAATCTATC
*
2030449 ATCTTTAAAAAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
*
2030471 ATCTTTGGAAAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
2030493 ATCTTTGAA
1 ATCTTTGAA
2030502 GAGTGTAGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (22 bp):
ATCTTTGAAAAGAGAATCTATC
Found at i:2032871 original size:31 final size:31
Alignment explanation
Indices: 2032836--2032898 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
2032826 AGAGATGTGG
* *
2032836 TCTGAATTCATTAATTGCAGAGTTGACAGAT
1 TCTGAATTCATCAAGTGCAGAGTTGACAGAT
*
2032867 TCTGAATTCATCAAGTGCAGAGTTGCCAGAT
1 TCTGAATTCATCAAGTGCAGAGTTGACAGAT
2032898 T
1 T
2032899 TTATATGTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (31 bp):
TCTGAATTCATCAAGTGCAGAGTTGACAGAT
Found at i:2033279 original size:114 final size:114
Alignment explanation
Indices: 2033079--2033295 Score: 371
Period size: 114 Copynumber: 1.9 Consensus size: 114
2033069 CATGCAGTTC
* * * *
2033079 ATCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGAACA
1 ATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGACAACTCAAAGAACA
*
2033144 CTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAATTT
66 CTTCCAGAAGATACTATTGGGTCTCCTTATTTCTACTATGAGCAAATTT
* *
2033193 ATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGACAACTCAAAGAACA
1 ATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGACAACTCAAAGAACA
2033258 CTTCCAGAAGATACTATTGGGTCTCCTTATTTCTACTA
66 CTTCCAGAAGATACTATTGGGTCTCCTTATTTCTACTA
2033296 CGAGAACGTG
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 96 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (114 bp):
ATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGACAACTCAAAGAACA
CTTCCAGAAGATACTATTGGGTCTCCTTATTTCTACTATGAGCAAATTT
Found at i:2035600 original size:11 final size:10
Alignment explanation
Indices: 2035583--2035653 Score: 63
Period size: 11 Copynumber: 6.6 Consensus size: 10
2035573 TCAATTTTCC
2035583 TTCTTTTTTT
1 TTCTTTTTTT
*
2035593 TCCTTTTTGTT
1 TTCTTTTT-TT
*
2035604 TT-TTTATTT
1 TTCTTTTTTT
2035613 TTCTTTTATTT
1 TTCTTTT-TTT
2035624 TTCTTCTTTTT
1 TTCTT-TTTTT
2035635 TTCTTCTTCTTCT
1 TTCTT-TT-TT-T
2035648 TTCTTT
1 TTCTTT
2035654 GCTGGATGAG
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
9 4 0.08
10 14 0.27
11 22 0.43
12 5 0.10
13 6 0.12
ACGTcount: A:0.03, C:0.15, G:0.01, T:0.80
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:2035625 original size:20 final size:22
Alignment explanation
Indices: 2035589--2035639 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 22
2035579 TTCCTTCTTT
2035589 TTTTTCCTTTTTGTTTT-TT-TA
1 TTTTT-CTTTTTGTTTTCTTCTA
*
2035610 TTTTTCTTTTAT-TTTTCTTCTT
1 TTTTTCTTTT-TGTTTTCTTCTA
2035632 TTTTTCTT
1 TTTTTCTT
2035640 CTTCTTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 9 0.35
21 8 0.31
22 9 0.35
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.82
Consensus pattern (22 bp):
TTTTTCTTTTTGTTTTCTTCTA
Found at i:2035630 original size:14 final size:14
Alignment explanation
Indices: 2035577--2035645 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 14
2035567 CTTGATTCAA
*
2035577 TTTTCCTTCTT-TT
1 TTTTTCTTCTTCTT
* * *
2035590 TTTTCCTTTTTGTT
1 TTTTTCTTCTTCTT
* *
2035604 TTTTTATTTTTCTT
1 TTTTTCTTCTTCTT
2035618 TTATTT-TTCTTCTT
1 TT-TTTCTTCTTCTT
2035632 TTTTTCTTCTTCTT
1 TTTTTCTTCTTCTT
2035646 CTTTCTTTGC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
13 13 0.27
14 32 0.67
15 3 0.06
ACGTcount: A:0.03, C:0.16, G:0.01, T:0.80
Consensus pattern (14 bp):
TTTTTCTTCTTCTT
Found at i:2035952 original size:2 final size:2
Alignment explanation
Indices: 2035945--2035985 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2035935 ACAACAAATG
2035945 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2035986 AAGGATAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2037755 original size:7 final size:7
Alignment explanation
Indices: 2037721--2037762 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
2037711 ATAAAAGTAT
2037721 AAATGCA
1 AAATGCA
* *
2037728 CAATGAA
1 AAATGCA
2037735 AAATGCA
1 AAATGCA
2037742 AAGATGCA
1 AA-ATGCA
2037750 AAATGC-
1 AAATGCA
2037756 AAATGCA
1 AAATGCA
2037763 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:2040167 original size:20 final size:18
Alignment explanation
Indices: 2040134--2040170 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2040124 AAATAAACAA
2040134 ATATTATTTATTATATAT
1 ATATTATTTATTATATAT
2040152 ATATATATTTATT-TATAT
1 ATAT-TATTTATTATATAT
2040170 A
1 A
2040171 AATAATGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATTATTTATTATATAT
Found at i:2041425 original size:3 final size:3
Alignment explanation
Indices: 2041419--2041471 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
2041409 ATTATTTATT
* * *
2041419 TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA TAT TAA -AA CAA -AT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2041463 TAA TAA TAA
1 TAA TAA TAA
2041472 ATCAAACAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 7 0.17
3 35 0.83
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2041441 original size:19 final size:19
Alignment explanation
Indices: 2041419--2041472 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
2041409 ATTATTTATT
* *
2041419 TAATAATAATAATATAATA
1 TAATAATAATAATAAAACA
*
2041438 TAATAATAATATTAAAACA
1 TAATAATAATAATAAAACA
2041457 -AATTAATAATAATAAA
1 TAA-TAATAATAATAAA
2041473 TCAAACAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 2 0.07
19 28 0.93
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATAATAATAATAAAACA
Found at i:2041444 original size:22 final size:21
Alignment explanation
Indices: 2041397--2041471 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 21
2041387 ATTGGGCCTG
* * *
2041397 TAATAATAATAAATTATTTATT
1 TAATAATAATAAATAATATA-A
2041419 TAATAATAATAATATAATATAA
1 TAATAATAATAA-ATAATATAA
* *
2041441 TAATAATATTAAA-ACAAATTAA
1 TAATAATAATAAATA-ATA-TAA
2041463 TAATAATAA
1 TAATAATAA
2041472 ATCAAACAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.02
21 3 0.07
22 34 0.77
23 6 0.14
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (21 bp):
TAATAATAATAAATAATATAA
Found at i:2042063 original size:3 final size:3
Alignment explanation
Indices: 2042049--2042140 Score: 163
Period size: 3 Copynumber: 31.7 Consensus size: 3
2042039 TGTCGAGGAG
2042049 GAA G-A GAA -AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
2042095 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -AA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
2042141 GAGTTAATGG
Statistics
Matches: 86, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
2 6 0.07
3 80 0.93
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:2049153 original size:21 final size:21
Alignment explanation
Indices: 2049129--2049176 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2049119 TGACTGTGGC
* *
2049129 GGAGGACTAGCAGCTTG-GGGT
1 GGAGGACTAGAAG-GTGAGGGT
2049150 GGAGGACTAGAAGGTGAGGGT
1 GGAGGACTAGAAGGTGAGGGT
2049171 GGAGGA
1 GGAGGA
2049177 GACAAAGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.25, C:0.08, G:0.52, T:0.15
Consensus pattern (21 bp):
GGAGGACTAGAAGGTGAGGGT
Found at i:2050526 original size:20 final size:19
Alignment explanation
Indices: 2050501--2050556 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
2050491 AAATTTCAGT
* *
2050501 CTGGTTTCGAAACCCCTTGC
1 CTGGTTTCAAAACCCC-TGA
2050521 CTGGTTTCAAAACACCCTGA
1 CTGGTTTCAAAAC-CCCTGA
* *
2050541 CTAGTTTCTAAACCCC
1 CTGGTTTCAAAACCCC
2050557 ATGTTCCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 3 0.10
20 25 0.81
21 3 0.10
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (19 bp):
CTGGTTTCAAAACCCCTGA
Found at i:2054297 original size:21 final size:21
Alignment explanation
Indices: 2054272--2054311 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2054262 GAAAATAAAT
2054272 AAAATAGAAAAT-GTAAAATTG
1 AAAATA-AAAATGGTAAAATTG
*
2054293 AAAATAAATATGGTAAAAT
1 AAAATAAAAATGGTAAAAT
2054312 GCAGCCTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (21 bp):
AAAATAAAAATGGTAAAATTG
Found at i:2058597 original size:43 final size:44
Alignment explanation
Indices: 2058512--2058603 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 44
2058502 GAGTGTTTTA
* *
2058512 ATTGGGGTGAAATTGGTTTCAAAATTAAAAATAAGGTAAATATG
1 ATTGGGGTAAAATTGGTTTCAAAATTAAAAATAAGATAAATATG
*
2058556 ATTGGGGTAAAATAT-GTTT-AAAATTTAAAATAGAGAT-AATATG
1 ATTGGGGTAAAAT-TGGTTTCAAAATTAAAAATA-AGATAAATATG
2058599 -TTGGG
1 ATTGGG
2058604 ATAGGAGTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
42 5 0.12
43 18 0.42
44 19 0.44
45 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.23, T:0.34
Consensus pattern (44 bp):
ATTGGGGTAAAATTGGTTTCAAAATTAAAAATAAGATAAATATG
Found at i:2061984 original size:21 final size:21
Alignment explanation
Indices: 2061959--2062000 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2061949 GTGAAAATAA
2061959 TGAAAATAGAAAAT-GTAAAAT
1 TGAAAATA-AAAATGGTAAAAT
*
2061980 TGAAAATAAATATGGTAAAAT
1 TGAAAATAAAAATGGTAAAAT
2062001 ACAGCCTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (21 bp):
TGAAAATAAAAATGGTAAAAT
Found at i:2065460 original size:3 final size:3
Alignment explanation
Indices: 2065454--2065500 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
2065444 CGAGGAGGAG
*
2065454 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA TAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
2065501 GAGTTAATGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:2069016 original size:21 final size:21
Alignment explanation
Indices: 2068992--2069039 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2068982 TGACTGTGGC
* *
2068992 GGAGGACTAGCAGCTTG-GGGT
1 GGAGGACTAGAAG-GTGAGGGT
2069013 GGAGGACTAGAAGGTGAGGGT
1 GGAGGACTAGAAGGTGAGGGT
2069034 GGAGGA
1 GGAGGA
2069040 GAAAAAGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.25, C:0.08, G:0.52, T:0.15
Consensus pattern (21 bp):
GGAGGACTAGAAGGTGAGGGT
Found at i:2071635 original size:3 final size:3
Alignment explanation
Indices: 2071621--2071735 Score: 186
Period size: 3 Copynumber: 39.7 Consensus size: 3
2071611 TGTCGAGGAG
2071621 GAA G-A GAA -AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
2071667 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-A GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
2071714 GAA GAA GAA -AGA GAA -AA GAA GA
1 GAA GAA GAA GA-A GAA GAA GAA GA
2071736 GAGTTAATGG
Statistics
Matches: 106, Mismatches: 0, Indels: 12
0.90 0.00 0.10
Matches are distributed among these distances:
2 9 0.08
3 96 0.91
4 1 0.01
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:2075250 original size:21 final size:21
Alignment explanation
Indices: 2075226--2075273 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2075216 TGACTGTGGC
* *
2075226 GGAGGACTAGCAGCTTG-GGGT
1 GGAGGACTAGAAG-GTGAGGGT
2075247 GGAGGACTAGAAGGTGAGGGT
1 GGAGGACTAGAAGGTGAGGGT
2075268 GGAGGA
1 GGAGGA
2075274 GACAAAGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.25, C:0.08, G:0.52, T:0.15
Consensus pattern (21 bp):
GGAGGACTAGAAGGTGAGGGT
Found at i:2080241 original size:20 final size:19
Alignment explanation
Indices: 2080207--2080256 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
2080197 AAATGATTTT
* *
2080207 ATTTTG-AAAATAAAATTA
1 ATTTTGAAAAACAAAATGA
2080225 GATTTTGAAAAACAAAATGA
1 -ATTTTGAAAAACAAAATGA
2080245 AGTTTTGAAAAA
1 A-TTTTGAAAAA
2080257 TGATTTTGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.32
Consensus pattern (19 bp):
ATTTTGAAAAACAAAATGA
Found at i:2081807 original size:20 final size:19
Alignment explanation
Indices: 2081782--2081837 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
2081772 AAATTTCAGT
* *
2081782 CTGGTTTCGAAACCCCTTGC
1 CTGGTTTCAAAACCCC-TGA
2081802 CTGGTTTCAAAACACCCTGA
1 CTGGTTTCAAAAC-CCCTGA
* *
2081822 CTAGTTTCTAAACCCC
1 CTGGTTTCAAAACCCC
2081838 ATGTTCCAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 3 0.10
20 25 0.81
21 3 0.10
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (19 bp):
CTGGTTTCAAAACCCCTGA
Found at i:2085170 original size:30 final size:30
Alignment explanation
Indices: 2085134--2085199 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
2085124 AAAAAAAGAT
*
2085134 TAAATAAGAA-AAAATAATTTAAAG-TGAAAA
1 TAAATAA-AATAAAA-AATGTAAAGTTGAAAA
*
2085164 TAAATAAAATAGAAAATGTAAAGTTGAAAA
1 TAAATAAAATAAAAAATGTAAAGTTGAAAA
2085194 TAAATA
1 TAAATA
2085200 TGGTAAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 10 0.31
30 22 0.69
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.24
Consensus pattern (30 bp):
TAAATAAAATAAAAAATGTAAAGTTGAAAA
Found at i:2089481 original size:43 final size:44
Alignment explanation
Indices: 2089396--2089487 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 44
2089386 GAGTGTTTTA
* *
2089396 ATTGGGGTGAAATTGGTTTCAAAATTAAAAATAAGGTAAATATG
1 ATTGGGGTAAAATTGGTTTCAAAATTAAAAATAAGATAAATATG
*
2089440 ATTGGGGTAAAATAT-GTTT-AAAATTTAAAATAGAGAT-AATATG
1 ATTGGGGTAAAAT-TGGTTTCAAAATTAAAAATA-AGATAAATATG
2089483 -TTGGG
1 ATTGGG
2089488 ATAGGAGTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
42 5 0.12
43 18 0.42
44 19 0.44
45 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.23, T:0.34
Consensus pattern (44 bp):
ATTGGGGTAAAATTGGTTTCAAAATTAAAAATAAGATAAATATG
Found at i:2092866 original size:21 final size:21
Alignment explanation
Indices: 2092841--2092882 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2092831 GTGAAAATAA
2092841 TGAAAATAGAAAAT-GTAAAAT
1 TGAAAATA-AAAATGGTAAAAT
*
2092862 TGAAAATAAATATGGTAAAAT
1 TGAAAATAAAAATGGTAAAAT
2092883 ACAGCCTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (21 bp):
TGAAAATAAAAATGGTAAAAT
Found at i:2093660 original size:14 final size:14
Alignment explanation
Indices: 2093641--2093667 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2093631 TCCAAATGTT
2093641 TTTAAAATTTAAAC
1 TTTAAAATTTAAAC
2093655 TTTAAAATTTAAA
1 TTTAAAATTTAAA
2093668 AATAAATCTC
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:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTAAAATTTAAAC
Found at i:2096034 original size:21 final size:21
Alignment explanation
Indices: 2096010--2096057 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
2096000 TGACTGTGGC
* *
2096010 GGAGGACTAGCAGCTGGGGGT
1 GGAGGACTAGAAGCTGAGGGT
*
2096031 GGAGGACTAGAAGGTGAGGGT
1 GGAGGACTAGAAGCTGAGGGT
2096052 GGAGGA
1 GGAGGA
2096058 GACAAAGACG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.54, T:0.12
Consensus pattern (21 bp):
GGAGGACTAGAAGCTGAGGGT
Found at i:2098235 original size:424 final size:422
Alignment explanation
Indices: 2097443--2098292 Score: 1488
Period size: 424 Copynumber: 2.0 Consensus size: 422
2097433 TTAATTGATT
*
2097443 TTTGTTTTAATTTATCTTTTTTTATGGTTGGATTTGACATCGTCATGCTTGATCAAGATGATGTT
1 TTTGTTTTAATTTATCTTTTTTTATGGTTGGATTTGACATCGTCATGATTGATCAAGATGATGTT
2097508 TATTTGTTGCCATGATGATCTTTCTTGTTTTGGACCATCGAATTGGATTTGGATACGCTATTTGC
66 TATTTGTTGCCATGATGATCTTTCTTGTTTTGGACCATCGAATTGGATTTGGATACGCTATTTGC
* *
2097573 ATTCGTGGACGGTTTTTTATGTCACTCAACTTTGATTTGTGGATTGTCAATGGTCTTTTAGTAAT
131 ATTCGTGGACGGTTTTTTATGTCACTCAACTTTGATTTATGGATTGTCAATGATCTTTTAGTAAT
2097638 TTGATTCATTTTGTGGTTCATTTATCGATGCAATTAAATATGTTCCTATCTATCTTTTGTTCGAA
196 TTGATTCATTTTGTGGTTC---TATCGATGCAATTAAATATGTTCCTATCTATCTTTTGTTCGAA
*
2097703 TTTTTTAGTTAGATTTTTAATCTTTTCCTTCTATGATCTTGTGTGATCTTAATGACTAATTTTTA
258 TTTTTTAGTTAGATTTTTAATCTTTTCCTTCTATGATATTGTGTGATCTTAATGACTAATTTTTA
*
2097768 TATTAATGGTGATAAGAAAATATCTTAATTGCGTGTTTAGTTTACGTTTATGATTGTAAACTTTC
323 TATTAATGGTGATAAGAAAATATCTTAATTGCGTGTTTAGTTTACGTTTATGATTGTAAACATTC
*
2097833 TTTATAATTCTGAATATTTCTTCTTTTTTTAATAAAAC
388 TTTATAATTATGAATA--T-TTCTTTTTTTAATAAAAC
2097871 TTTGTTTTAATTTATC-TTTTTTATGGTTGGATTTGACATCGTCATGATTGATCAAGATGATGTT
1 TTTGTTTTAATTTATCTTTTTTTATGGTTGGATTTGACATCGTCATGATTGATCAAGATGATGTT
* * * *
2097935 TATTTGTTGTCATGCTGATCTTTCTTGTTTTTGACCATTGAATTGGATTTGGATACGCTATTTGC
66 TATTTGTTGCCATGATGATCTTTCTTGTTTTGGACCATCGAATTGGATTTGGATACGCTATTTGC
* *
2098000 ATTCGTGGACGGTTTTTTCATGTCACTCGACTTTGATTTATGGATTGTCAGTGATCTTTTAGTAA
131 ATTCGTGGACGGTTTTTT-ATGTCACTCAACTTTGATTTATGGATTGTCAATGATCTTTTAGTAA
*
2098065 TTTGATTCATTTTGTGGTTC-ATCGATGCAATTAAATATGTTCTTATCTATCTTTTGTTCGAATT
195 TTTGATTCATTTTGTGGTTCTATCGATGCAATTAAATATGTTCCTATCTATCTTTTGTTCGAATT
*
2098129 TTTTAGTTAGATTTTTAATCTTTTCCTTCTGTGATATTGTGTGATCTTAATGACTAATTTTTATA
260 TTTTAGTTAGATTTTTAATCTTTTCCTTCTATGATATTGTGTGATCTTAATGACTAATTTTTATA
*
2098194 TTAATGGTGATAAGAAAATATCTTAATTGTGTGTTTAGTTTACGTTTATGATTGTAAACATTCTT
325 TTAATGGTGATAAGAAAATATCTTAATTGCGTGTTTAGTTTACGTTTATGATTGTAAACATTCTT
2098259 TATAATTATGAATATTTCTTTTTTTAATAAAAC
390 TATAATTATGAATATTTCTTTTTTTAATAAAAC
2098292 T
1 T
2098293 AGGAGTTATA
Statistics
Matches: 406, Mismatches: 15, Indels: 9
0.94 0.03 0.02
Matches are distributed among these distances:
421 19 0.05
422 1 0.00
424 182 0.45
427 126 0.31
428 78 0.19
ACGTcount: A:0.23, C:0.11, G:0.16, T:0.50
Consensus pattern (422 bp):
TTTGTTTTAATTTATCTTTTTTTATGGTTGGATTTGACATCGTCATGATTGATCAAGATGATGTT
TATTTGTTGCCATGATGATCTTTCTTGTTTTGGACCATCGAATTGGATTTGGATACGCTATTTGC
ATTCGTGGACGGTTTTTTATGTCACTCAACTTTGATTTATGGATTGTCAATGATCTTTTAGTAAT
TTGATTCATTTTGTGGTTCTATCGATGCAATTAAATATGTTCCTATCTATCTTTTGTTCGAATTT
TTTAGTTAGATTTTTAATCTTTTCCTTCTATGATATTGTGTGATCTTAATGACTAATTTTTATAT
TAATGGTGATAAGAAAATATCTTAATTGCGTGTTTAGTTTACGTTTATGATTGTAAACATTCTTT
ATAATTATGAATATTTCTTTTTTTAATAAAAC
Found at i:2098516 original size:32 final size:32
Alignment explanation
Indices: 2098445--2098538 Score: 109
Period size: 32 Copynumber: 3.0 Consensus size: 32
2098435 CTTTCAGAAC
* * * *
2098445 TTACAAAATAATTATTA-AATTTATCTAATAG
1 TTACAAAATGATTATTATATTTTATCAAATTG
* *
2098476 TTACAAAATGGTTATTATATTTTATCGAATTG
1 TTACAAAATGATTATTATATTTTATCAAATTG
* *
2098508 TTATAAAATGATCATTATATTTTATCAAATT
1 TTACAAAATGATTATTATATTTTATCAAATT
2098539 ATTAAAATTG
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 15 0.28
32 38 0.72
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.46
Consensus pattern (32 bp):
TTACAAAATGATTATTATATTTTATCAAATTG
Found at i:2098892 original size:23 final size:23
Alignment explanation
Indices: 2098848--2098893 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2098838 TATCTAAATT
*
2098848 TTTATAAATTCAATCATTAATAA
1 TTTATAAATTCAATCATAAATAA
* *
2098871 TTTATAAATTCACTCGTAAATAA
1 TTTATAAATTCAATCATAAATAA
2098894 AATTTTACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (23 bp):
TTTATAAATTCAATCATAAATAA
Found at i:2103174 original size:21 final size:21
Alignment explanation
Indices: 2103150--2103196 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
2103140 GACCGTGGCA
*
2103150 GAGGACTAGCAGCTG-GTGGTG
1 GAGGACTAGAAGCTGAG-GGTG
*
2103171 GAGGACTAGAAGGTGAGGGTG
1 GAGGACTAGAAGCTGAGGGTG
2103192 GAGGA
1 GAGGA
2103197 GACAAAGACG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.26, C:0.09, G:0.51, T:0.15
Consensus pattern (21 bp):
GAGGACTAGAAGCTGAGGGTG
Found at i:2109685 original size:16 final size:16
Alignment explanation
Indices: 2109659--2109692 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
2109649 AAAACCATTT
2109659 TTTTATTAAAAAATTAA
1 TTTTATTAAAAAA-TAA
2109676 TTTT-TTAAAAAATAA
1 TTTTATTAAAAAATAA
2109691 TT
1 TT
2109693 AAGATTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 8 0.47
17 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTTATTAAAAAATAA
Found at i:2110218 original size:16 final size:15
Alignment explanation
Indices: 2110184--2110226 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
2110174 TATGGTAATT
2110184 AAATAAATAAAAATA
1 AAATAAATAAAAATA
**
2110199 AAATAAATAAATTCTA
1 AAATAAATAAA-AATA
2110215 AAATAAATAAAA
1 AAATAAATAAAA
2110227 CACAATGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAAATAAAAATA
Found at i:2112115 original size:19 final size:20
Alignment explanation
Indices: 2112071--2112115 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
2112061 ATTTGTTTTT
*
2112071 AATAAATTTTTATCTATGAA
1 AATAAATTTTTATCTATCAA
* *
2112091 ATTAAATTTTTAT-TTTCAA
1 AATAAATTTTTATCTATCAA
2112110 AATAAA
1 AATAAA
2112116 ATATTAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (20 bp):
AATAAATTTTTATCTATCAA
Found at i:2114386 original size:6 final size:6
Alignment explanation
Indices: 2114375--2114415 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
2114365 AAATACATAC
2114375 ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA ATCAA
1 ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA ATCAA
2114416 TCAAACTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
ATCAAA
Found at i:2114498 original size:19 final size:19
Alignment explanation
Indices: 2114459--2114508 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
2114449 TTCTTCTTCT
2114459 TTTTTC-ATTTTTCCCTAC
1 TTTTTCGATTTTTCCCTAC
*
2114477 TTTTTCGATTTTT-CTTAC
1 TTTTTCGATTTTTCCCTAC
*
2114495 CTTTTCTGATTTTT
1 TTTTTC-GATTTTT
2114509 TCATTTGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.10, C:0.20, G:0.04, T:0.66
Consensus pattern (19 bp):
TTTTTCGATTTTTCCCTAC
Found at i:2114777 original size:39 final size:40
Alignment explanation
Indices: 2114702--2114787 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
2114692 TGTTCGTTTA
****
2114702 TTTA-TTAAATGAACGAACATGAACAAGATTTTTCGTTCG
1 TTTATTTAAATGAACGAACATGAACAAGAGGGCTCGTTCG
2114741 TTTATTTAAATGAACGAACATGAACAA-AGGGCTCGTTCG
1 TTTATTTAAATGAACGAACATGAACAAGAGGGCTCGTTCG
*
2114780 TTCATTTA
1 TTTATTTA
2114788 CGTTCGTGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
39 19 0.46
40 22 0.54
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (40 bp):
TTTATTTAAATGAACGAACATGAACAAGAGGGCTCGTTCG
Found at i:2114843 original size:24 final size:26
Alignment explanation
Indices: 2114798--2114849 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 26
2114788 CGTTCGTGAA
*
2114798 CGTTCGATTATATGTTCGTTTATGTT
1 CGTTCGATTATATGTTCATTTATGTT
2114824 CGTTC-ATT-TATGTTCATTTATGTT
1 CGTTCGATTATATGTTCATTTATGTT
2114848 CG
1 CG
2114850 AACAGAGGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 17 0.68
25 3 0.12
26 5 0.20
ACGTcount: A:0.15, C:0.13, G:0.17, T:0.54
Consensus pattern (26 bp):
CGTTCGATTATATGTTCATTTATGTT
Found at i:2115126 original size:23 final size:23
Alignment explanation
Indices: 2115100--2115165 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 23
2115090 TTTTTTTTGT
2115100 GTTTG-TGTTGTTCGTTTATGTTC
1 GTTTGTTG-TGTTCGTTTATGTTC
* *
2115123 GTTTATTGTGTTTGTTTATGTTC
1 GTTTGTTGTGTTCGTTTATGTTC
*
2115146 GTTCGTTCGTGTTCGTTTAT
1 GTTTGTT-GTGTTCGTTTAT
2115166 TATTTAAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 23 0.64
24 13 0.36
ACGTcount: A:0.06, C:0.09, G:0.24, T:0.61
Consensus pattern (23 bp):
GTTTGTTGTGTTCGTTTATGTTC
Found at i:2119111 original size:21 final size:21
Alignment explanation
Indices: 2119085--2119131 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
2119075 CGTCTTTATC
*
2119085 TCCTCCACCCTCACCTGCTAA
1 TCCTCCACCCCCACCTGCTAA
**
2119106 TCCTCCACCCCCAGTTGCTAA
1 TCCTCCACCCCCACCTGCTAA
2119127 TCCTC
1 TCCTC
2119132 TGCCACAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.51, G:0.06, T:0.26
Consensus pattern (21 bp):
TCCTCCACCCCCACCTGCTAA
Found at i:2122964 original size:21 final size:21
Alignment explanation
Indices: 2122935--2122982 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2122925 TGACTATGGC
* * *
2122935 GGAGAACTAGCAGCTGGGGGT
1 GGAGGACTAGAAGCTGAGGGT
*
2122956 GGAGGACTAGAAGGTGAGGGT
1 GGAGGACTAGAAGCTGAGGGT
2122977 GGAGGA
1 GGAGGA
2122983 GACAAAGACG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.08, G:0.52, T:0.12
Consensus pattern (21 bp):
GGAGGACTAGAAGCTGAGGGT
Found at i:2140307 original size:22 final size:21
Alignment explanation
Indices: 2140282--2140329 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
2140272 GACTGTGGCA
* *
2140282 GAGGACTAGCAGCTGGGGGGTG
1 GAGGACTAGAAGCT-GAGGGTG
*
2140304 GAGGACTAGAAGGTGAGGGTG
1 GAGGACTAGAAGCTGAGGGTG
2140325 GAGGA
1 GAGGA
2140330 GACAAAGACG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.25, C:0.08, G:0.54, T:0.12
Consensus pattern (21 bp):
GAGGACTAGAAGCTGAGGGTG
Found at i:2150115 original size:20 final size:20
Alignment explanation
Indices: 2150087--2150124 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2150077 CTATTATTAG
2150087 TTGCATGACAACTAATAATT
1 TTGCATGACAACTAATAATT
*
2150107 TTGCTTGACAACTAATAA
1 TTGCATGACAACTAATAA
2150125 ACATGAGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (20 bp):
TTGCATGACAACTAATAATT
Found at i:2151973 original size:20 final size:20
Alignment explanation
Indices: 2151946--2151985 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
2151936 AAAAAATGTC
*
2151946 TAAAAATTTAGTATATTTTCT
1 TAAAATTTTAGTAT-TTTTCT
2151967 TAAAATTTTAGTATTTTTC
1 TAAAATTTTAGTATTTTTC
2151986 ATTTTCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (20 bp):
TAAAATTTTAGTATTTTTCT
Found at i:2154475 original size:22 final size:20
Alignment explanation
Indices: 2154448--2154487 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2154438 CAAGCATATT
2154448 TATTATGTATATATATTTTTAA
1 TATTAT-TATAT-TATTTTTAA
*
2154470 TATTATTTTATTATTTTT
1 TATTATTATATTATTTTT
2154488 GTTTTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 4 0.24
22 6 0.35
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TATTATTATATTATTTTTAA
Found at i:2154768 original size:19 final size:16
Alignment explanation
Indices: 2154739--2154781 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 16
2154729 CATTTTATTG
2154739 TTCCTTTTATTTTACTTTT
1 TTCC-TTTA-TTTA-TTTT
2154758 TTCTCTTTATTTATTTT
1 TTC-CTTTATTTATTTT
2154775 TTCCTTT
1 TTCCTTT
2154782 TGCATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 7 0.30
18 4 0.17
19 7 0.30
20 1 0.04
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCCTTTATTTATTTT
Found at i:2160065 original size:35 final size:35
Alignment explanation
Indices: 2160026--2160171 Score: 156
Period size: 35 Copynumber: 4.2 Consensus size: 35
2160016 GTTTATCTCA
2160026 AAACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTT
1 AAACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTT
* * * *
2160061 AAACAA-ATTT-TCTGTCTTGAGACATTTTTTCTT
1 AAACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTT
* *
2160094 -AA-AAGTTTTTTTGTCTCCCTTGAGACATTTTCTCTT
1 AAACAAG---TTTTGTCTCTCTTGAGACAGTTTCTCTT
* *
2160130 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
1 AAACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTT
2160165 GAAACAA
1 -AAACAA
2160172 AATCTTGAAT
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
31 2 0.02
32 2 0.02
33 20 0.22
34 3 0.03
35 34 0.37
36 26 0.29
37 2 0.02
38 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (35 bp):
AAACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTT
Found at i:2160200 original size:63 final size:63
Alignment explanation
Indices: 2160122--2160355 Score: 217
Period size: 63 Copynumber: 3.6 Consensus size: 63
2160112 CTTGAGACAT
* *
2160122 TTTCTCTTAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC-TTGAATATG
1 TTTC-CTTAAACAAATTTCGTCTCTCTCGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATG
* ** * *
2160185 TATTCCTTAAACAAATTTCATCTCTCTCGAGACAGTTTCTTTTGGAACTAAATTTGTCTTTTTGA
1 T-TTCCTTAAACAAATTTCGTCTCTCTCGAGACAGTTTCCCTTGAAAC-AAA---ATC--TTTGA
*
2160250 GACA-G
59 -ATATG
* *
2160255 TTTCTCTTGAAACAAATTT-GTCTCACTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAACTAT
1 TTTC-CTT-AAACAAATTTCGTCTCTCTCGAGACAGTTTCCCTTGAAACAAAATCTTTGAA-TAT
2160319 -
63 G
* *
2160319 TTTCCTTTAAC-AATTTCGTCTCTCTCGAGACAATTTC
1 TTTCCTTAAACAAATTTCGTCTCTCTCGAGACAGTTTC
2160356 TTTTAAAACT
Statistics
Matches: 137, Mismatches: 20, Indels: 29
0.74 0.11 0.16
Matches are distributed among these distances:
61 5 0.04
62 20 0.15
63 42 0.31
64 16 0.12
66 2 0.01
67 2 0.01
69 6 0.04
70 32 0.23
71 12 0.09
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (63 bp):
TTTCCTTAAACAAATTTCGTCTCTCTCGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATG
Found at i:2160253 original size:35 final size:35
Alignment explanation
Indices: 2160193--2160469 Score: 148
Period size: 35 Copynumber: 8.1 Consensus size: 35
2160183 TGTATTCCTT
* * * *
2160193 AAACAAATTTCATCTCTCTCGAGACAGTTTCTTTTG
1 AAACAAATTT-GTCTCACTTGAGACAGTTTCTCTTG
* **
2160229 GAACTAAATTTGTCT-TTTTGAGACAGTTTCTCTTG
1 AAAC-AAATTTGTCTCACTTGAGACAGTTTCTCTTG
*
2160264 AAACAAATTTGTCTCACTTGAGACAGTTTCCCTTG
1 AAACAAATTTGTCTCACTTGAGACAGTTTCTCTTG
* *
2160299 AAACAAA---ATCT---TTGA-ACTATTTTC-CTT-
1 AAACAAATTTGTCTCACTTGAGAC-AGTTTCTCTTG
* * * * * *
2160326 TAAC-AATTTCGTCTCTCTCGAGACAATTTCTTTTA
1 AAACAAATTT-GTCTCACTTGAGACAGTTTCTCTTG
** * *
2160361 AAACTGAGTTTTGTCTCTCTTGAGACATTTTCTCTTG
1 AAAC--AAATTTGTCTCACTTGAGACAGTTTCTCTTG
* * * *
2160398 AAACAAATTTTGTCTCTCTTGAAACAATTTCCCTT-
1 AAACAAA-TTTGTCTCACTTGAGACAGTTTCTCTTG
* * *
2160433 AAA-AAGTTTTGTCTCTCTTGAGACAGTTCCTCTTG
1 AAACAA-ATTTGTCTCACTTGAGACAGTTTCTCTTG
2160468 AA
1 AA
2160470 GCACCAATCT
Statistics
Matches: 189, Mismatches: 33, Indels: 39
0.72 0.13 0.15
Matches are distributed among these distances:
26 2 0.01
27 3 0.02
28 5 0.03
29 9 0.05
30 3 0.02
32 3 0.02
33 8 0.04
34 39 0.21
35 53 0.28
36 30 0.16
37 31 0.16
38 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (35 bp):
AAACAAATTTGTCTCACTTGAGACAGTTTCTCTTG
Found at i:2160284 original size:133 final size:135
Alignment explanation
Indices: 2160103--2160432 Score: 474
Period size: 133 Copynumber: 2.5 Consensus size: 135
2160093 TAAAAGTTTT
*
2160103 TTTGTCTCCCTTGAGACATTTTCTCTT-AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGA
1 TTTGTCTCTCTTGAGACATTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGA
* **
2160167 AACAAAATC-TTGAA-TATGTATTCCTTAAACAAATTTCATCTCTCTCGAGACAGTTTCTTTTGG
66 AACAAAATCTTTGAACTAT-T-TTCCTTAAAC-AATTTCATCTCTCTCGAGACAATTTCTTTTAA
2160230 AACT-AAA
128 AACTGAAA
* * *
2160237 TTTGTCT-TTTTGAGACAGTTTCTCTTGAAACAAA-TTTGTCTCACTTGAGACAGTTTCCCTTGA
1 TTTGTCTCTCTTGAGACATTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGA
* *
2160300 AACAAAATCTTTGAACTATTTTCCTTTAACAATTTCGTCTCTCTCGAGACAATTTCTTTTAAAAC
66 AACAAAATCTTTGAACTATTTTCCTTAAACAATTTCATCTCTCTCGAGACAATTTCTTTTAAAAC
**
2160365 TGAGT
131 TGAAA
* *
2160370 TTTGTCTCTCTTGAGACATTTTCTCTTGAAACAAATTTTGTCTCTCTTGAAACAATTTCCCTT
1 TTTGTCTCTCTTGAGACATTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
2160433 AAAAAGTTTT
Statistics
Matches: 174, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
132 32 0.18
133 70 0.40
134 45 0.26
135 27 0.16
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.42
Consensus pattern (135 bp):
TTTGTCTCTCTTGAGACATTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGA
AACAAAATCTTTGAACTATTTTCCTTAAACAATTTCATCTCTCTCGAGACAATTTCTTTTAAAAC
TGAAA
Found at i:2160377 original size:37 final size:35
Alignment explanation
Indices: 2160327--2160466 Score: 147
Period size: 36 Copynumber: 3.9 Consensus size: 35
2160317 ATTTTCCTTT
* * * *
2160327 AACAATTTCGTCTCTCTCGAGACAATTTCTTTTAA
1 AACAGTTTTGTCTCTCTTGAGACAATTTCTCTTAA
* *
2160362 AACTGAGTTTTGTCTCTCTTGAGACATTTTCTCTTGA
1 AAC--AGTTTTGTCTCTCTTGAGACAATTTCTCTTAA
* * *
2160399 AACAAATTTTGTCTCTCTTGAAACAATTTCCCTTAA
1 AAC-AGTTTTGTCTCTCTTGAGACAATTTCTCTTAA
* *
2160435 AA-AGTTTTGTCTCTCTTGAGACAGTTCCTCTT
1 AACAGTTTTGTCTCTCTTGAGACAATTTCTCTT
2160467 GAAGCACCAA
Statistics
Matches: 86, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
34 25 0.29
35 3 0.03
36 29 0.34
37 29 0.34
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.42
Consensus pattern (35 bp):
AACAGTTTTGTCTCTCTTGAGACAATTTCTCTTAA
Found at i:2160416 original size:36 final size:36
Alignment explanation
Indices: 2160330--2160469 Score: 149
Period size: 37 Copynumber: 3.9 Consensus size: 36
2160320 TTCCTTTAAC
* * * * *
2160330 AATTTCGTCTCTCTCGAGACAATTTCTTTTAAAACTG
1 AATTTTGTCTCTCTTGAGACAATTTCTCTTGAAAC-A
* *
2160367 AGTTTTGTCTCTCTTGAGACATTTTCTCTTGAAACA
1 AATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACA
* *
2160403 AATTTTGTCTCTCTTGAAACAATTTCCCTT-AAA-A
1 AATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACA
* * *
2160437 AGTTTTGTCTCTCTTGAGACAGTTCCTCTTGAA
1 AATTTTGTCTCTCTTGAGACAATTTCTCTTGAA
2160470 GCACCAATCT
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
34 26 0.30
35 5 0.06
36 26 0.30
37 29 0.34
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (36 bp):
AATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACA
Found at i:2162600 original size:16 final size:16
Alignment explanation
Indices: 2162565--2162617 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
2162555 GTTCCTTTTA
*
2162565 TTTACTTTATTTT-CTC
1 TTTA-TTTATTTTCCTT
2162581 TTTATTTATTTTCCTT
1 TTTATTTATTTTCCTT
*
2162597 TTTATATTCATTTTCATT
1 TTTAT-TT-ATTTTCCTT
2162615 TTT
1 TTT
2162618 TTTTTCTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 8 0.25
16 11 0.34
17 2 0.06
18 11 0.34
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTATTTATTTTCCTT
Found at i:2162604 original size:14 final size:15
Alignment explanation
Indices: 2162565--2162597 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
2162555 GTTCCTTTTA
2162565 TTTACTTTATTTTCTC
1 TTTA-TTTATTTTCTC
2162581 TTTATTTATTTTC-C
1 TTTATTTATTTTCTC
2162595 TTT
1 TTT
2162598 TTATATTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 9 0.53
16 4 0.24
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTATTTATTTTCTC
Found at i:2162609 original size:18 final size:18
Alignment explanation
Indices: 2162583--2162617 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2162573 ATTTTCTCTT
* *
2162583 TATTTATTTTCCTTTTTA
1 TATTCATTTTCATTTTTA
2162601 TATTCATTTTCATTTTT
1 TATTCATTTTCATTTTT
2162618 TTTTTCTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTCATTTTCATTTTTA
Found at i:2162674 original size:33 final size:33
Alignment explanation
Indices: 2162603--2162674 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 33
2162593 CCTTTTTATA
*
2162603 TTCATTTTCATTTTTTTTTTCTTTACCTTATTTG
1 TTCATTTTCATTTTTTTTTTCTTTA-CTAATTTG
*
2162637 TTCATTTTCGTTTTTTTTTTCTCTT-CTAATATT-
1 TTCATTTTCATTTTTTTTTTCT-TTACTAAT-TTG
2162670 TTCAT
1 TTCAT
2162675 CCTTTAAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
33 9 0.26
34 23 0.68
35 2 0.06
ACGTcount: A:0.12, C:0.15, G:0.03, T:0.69
Consensus pattern (33 bp):
TTCATTTTCATTTTTTTTTTCTTTACTAATTTG
Found at i:2165218 original size:21 final size:21
Alignment explanation
Indices: 2165194--2165234 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2165184 ACTGTGGGAG
* *
2165194 GACTAGCAGCTGGGGGTGGAA
1 GACTAGAAGCTGAGGGTGGAA
*
2165215 GACTAGAAGGTGAGGGTGGA
1 GACTAGAAGCTGAGGGTGGA
2165235 GGAGACAAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.10, G:0.49, T:0.15
Consensus pattern (21 bp):
GACTAGAAGCTGAGGGTGGAA
Found at i:2166037 original size:15 final size:15
Alignment explanation
Indices: 2166017--2166045 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2166007 GGAACTTACA
2166017 GTCTTTAATTCATCG
1 GTCTTTAATTCATCG
2166032 GTCTTTAATTCATC
1 GTCTTTAATTCATC
2166046 CTTCTTATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (15 bp):
GTCTTTAATTCATCG
Found at i:2166051 original size:15 final size:15
Alignment explanation
Indices: 2166017--2166051 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2166007 GGAACTTACA
*
2166017 GTCTTTAATTCATCG
1 GTCTTTAATTCATCC
2166032 GTCTTTAATTCATCC
1 GTCTTTAATTCATCC
*
2166047 TTCTT
1 GTCTT
2166052 ATGGTTAGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.17, C:0.23, G:0.09, T:0.51
Consensus pattern (15 bp):
GTCTTTAATTCATCC
Found at i:2178242 original size:21 final size:24
Alignment explanation
Indices: 2178199--2178247 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 24
2178189 AGAAAATGTC
2178199 TTTTAATATATATTAAATAAATTT
1 TTTTAATATATATTAAATAAATTT
*
2178223 TTTTAATAT-T-TTAAA-GAATTT
1 TTTTAATATATATTAAATAAATTT
2178244 TTTT
1 TTTT
2178248 GGATTGAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 5 0.21
23 1 0.04
24 9 0.38
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTTAATATATATTAAATAAATTT
Found at i:2179664 original size:20 final size:20
Alignment explanation
Indices: 2179639--2179678 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2179629 GTCGAGGAGG
2179639 AAGAGAAA-AGAAGAAGAAGA
1 AAGAGAAAGAGAA-AAGAAGA
2179659 AAGAGAAAGAGAAAAGAAGA
1 AAGAGAAAGAGAAAAGAAGA
2179679 GAGTTAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (20 bp):
AAGAGAAAGAGAAAAGAAGA
Found at i:2182971 original size:18 final size:18
Alignment explanation
Indices: 2182948--2182984 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
2182938 ACAGAGAAAT
*
2182948 CCCTGTCCGTGAATAGGC
1 CCCTGTCCATGAATAGGC
2182966 CCCTGTCCATGAATAGGC
1 CCCTGTCCATGAATAGGC
2182984 C
1 C
2182985 TCTTTCTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.35, G:0.24, T:0.22
Consensus pattern (18 bp):
CCCTGTCCATGAATAGGC
Found at i:2183378 original size:20 final size:21
Alignment explanation
Indices: 2183353--2183392 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2183343 AAAAATGTTG
*
2183353 AAGAGA-TGGTTTTCTTGGCA
1 AAGAGAGTGGTTTGCTTGGCA
*
2183373 AAGAGAGTTGTTTGCTTGGC
1 AAGAGAGTGGTTTGCTTGGC
2183393 TGAAGTCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.23, C:0.10, G:0.33, T:0.35
Consensus pattern (21 bp):
AAGAGAGTGGTTTGCTTGGCA
Found at i:2183532 original size:35 final size:36
Alignment explanation
Indices: 2183486--2183555 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
2183476 AGTCAAACTA
*
2183486 AATGGAAACTTC-AAGTCTTTCATTCATCGGTCTTG
1 AATGGAAACTTCAAAGTATTTCATTCATCGGTCTTG
*
2183521 AATGGATACTTCAAAGTATTTCATTCATCGGTCTT
1 AATGGAAACTTCAAAGTATTTCATTCATCGGTCTT
2183556 CCCTGCTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.39
Consensus pattern (36 bp):
AATGGAAACTTCAAAGTATTTCATTCATCGGTCTTG
Found at i:2189914 original size:36 final size:36
Alignment explanation
Indices: 2189865--2190088 Score: 337
Period size: 36 Copynumber: 6.3 Consensus size: 36
2189855 AAAAATGAAC
* *
2189865 ACTTGAATCGGAAGTACCGATGCTTCTTTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCG
* *
2189901 ATTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCG
*
2189937 ACTTGAATCGGAAGTGCCGATGTTTCCTTCCGTTC-
1 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCG
*
2189972 ACTTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCG
* *
2190008 ATTTGAATCGGAAGTTCCGATGCTTCCTTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCG
*
2190044 ACTTGAATCGGAAGTGCTGATGC-TCAC-TCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTC-CTTCCGTTCG
2190079 ACTTGAATCG
1 ACTTGAATCG
2190089 ATGCAAACTT
Statistics
Matches: 171, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
35 53 0.31
36 118 0.69
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (36 bp):
ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCG
Found at i:2190004 original size:71 final size:70
Alignment explanation
Indices: 2189865--2190088 Score: 326
Period size: 71 Copynumber: 3.1 Consensus size: 70
2189855 AAAAATGAAC
* *
2189865 ACTTGAATCGGAAGTACCGATGCTTCTTTCCGTTCGATTTGAATCGGAAGTGCCGATGCTTCCCT
1 ACTTGAATCGGAAGTACCGATGCTTCCTTCCGTTCGACTTGAATCGGAAGTG-CGATGCTT-CCT
2189930 CCGTTCG
64 CCGTTCG
* *
2189937 ACTTGAATCGGAAGTGCCGATGTTTCCTTCCGTTC-ACTTGAATCGGAAGTGTCGATGCTTCCTT
1 ACTTGAATCGGAAGTACCGATGCTTCCTTCCGTTCGACTTGAATCGGAAGTG-CGATGCTTCC-T
2190001 CCGTTCG
64 CCGTTCG
* *
2190008 ATTTGAATCGGAAGTTCCGATGCTTCCTTCCGTTCGACTTGAATCGGAAGTGCTGATGC-TCACT
1 ACTTGAATCGGAAGTACCGATGCTTCCTTCCGTTCGACTTGAATCGGAAGTGC-GATGCTTC-CT
2190072 CCGTTCG
64 CCGTTCG
2190079 ACTTGAATCG
1 ACTTGAATCG
2190089 ATGCAAACTT
Statistics
Matches: 139, Mismatches: 9, Indels: 9
0.89 0.06 0.06
Matches are distributed among these distances:
70 2 0.01
71 83 0.60
72 54 0.39
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (70 bp):
ACTTGAATCGGAAGTACCGATGCTTCCTTCCGTTCGACTTGAATCGGAAGTGCGATGCTTCCTCC
GTTCG
Found at i:2190050 original size:107 final size:106
Alignment explanation
Indices: 2189864--2190088 Score: 353
Period size: 107 Copynumber: 2.1 Consensus size: 106
2189854 AAAAAATGAA
*
2189864 CACTTGAATCGGAAGTACCGATGCTTCTTTCCGTTCGATTTGAATCGGAAGTGCCGATGCTTCCC
1 CACTTGAATCGGAAGTACCGATGCTTCCTTCCGTTCGATTTGAATCGGAAGTGCCGATGCTTCCC
*
2189929 TCCGTTCGACTTGAATCGGAAGTGCCGATGTTTC-CTTCCGTT
66 TCCGTTCGACTTGAATCGGAAGTGCCGATG-CTCAC-TCCGTT
** * *
2189971 CACTTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCGATTTGAATCGGAAGTTCCGATGCTTCCT
1 CACTTGAATCGGAAGTACCGATGCTTCCTTCCGTTCGATTTGAATCGGAAGTGCCGATGCTTCCC
*
2190036 TCCGTTCGACTTGAATCGGAAGTGCTGATGCTCACTCCGTT
66 TCCGTTCGACTTGAATCGGAAGTGCCGATGCTCACTCCGTT
2190077 CGACTTGAATCG
1 C-ACTTGAATCG
2190089 ATGCAAACTT
Statistics
Matches: 109, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
106 9 0.08
107 100 0.92
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.32
Consensus pattern (106 bp):
CACTTGAATCGGAAGTACCGATGCTTCCTTCCGTTCGATTTGAATCGGAAGTGCCGATGCTTCCC
TCCGTTCGACTTGAATCGGAAGTGCCGATGCTCACTCCGTT
Found at i:2198341 original size:30 final size:27
Alignment explanation
Indices: 2198280--2198352 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
2198270 GTTATTTCTT
2198280 TTGTTGTTTGTATTAGCAGGAGTTAAA
1 TTGTTGTTTGTATTAGCAGGAGTTAAA
2198307 TTGTTGTTTGTATTAGCAGGAGTTAAA
1 TTGTTGTTTGTATTAGCAGGAGTTAAA
*
2198334 TTGTTGTTTATA-TAGCAGG
1 TTGTTGTTTGTATTAGCAGG
2198353 TTTCTGCTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
26 7 0.16
27 38 0.84
ACGTcount: A:0.25, C:0.04, G:0.26, T:0.45
Consensus pattern (27 bp):
TTGTTGTTTGTATTAGCAGGAGTTAAA
Found at i:2205577 original size:21 final size:21
Alignment explanation
Indices: 2205539--2205578 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2205529 CCCCCTTTGA
**
2205539 AGGGGAACCGATTGCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
2205560 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
2205579 TGGGGTTCTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.38, G:0.28, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:2207857 original size:24 final size:24
Alignment explanation
Indices: 2207824--2207878 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
2207814 GGGAGAAGTG
* *
2207824 TTAAATGTTTTCGTGTTAAACATT
1 TTAAAAGTTTTAGTGTTAAACATT
**
2207848 TTAAAAGTTTTAGTGTTAAATGTT
1 TTAAAAGTTTTAGTGTTAAACATT
2207872 TTAAAAG
1 TTAAAAG
2207879 GGGAGAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
TTAAAAGTTTTAGTGTTAAACATT
Found at i:2214367 original size:3 final size:3
Alignment explanation
Indices: 2214348--2214401 Score: 87
Period size: 3 Copynumber: 19.0 Consensus size: 3
2214338 AGCCGTCGAG
2214348 GAA GAA G-A GAA -AA -AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
2214393 GAA GAA GAA
1 GAA GAA GAA
2214402 AGAGAAAATA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 6 0.12
3 43 0.88
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:2217316 original size:13 final size:13
Alignment explanation
Indices: 2217298--2217325 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2217288 ATTCGATAAA
2217298 AATAATTTTATTT
1 AATAATTTTATTT
2217311 AATAATTTTATTT
1 AATAATTTTATTT
2217324 AA
1 AA
2217326 AAGGATGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
AATAATTTTATTT
Found at i:2220349 original size:2 final size:2
Alignment explanation
Indices: 2220342--2220387 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
2220332 GTATTATGTC
* *
2220342 AT AT AT AT GT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2220384 AT AT
1 AT AT
2220388 TAAAATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2221581 original size:22 final size:22
Alignment explanation
Indices: 2221544--2221602 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
2221534 TTTTTTATGT
*
2221544 TTGGATCGA-CGAGTCGATGAG
1 TTGGATCAACCGAGTCGATGAG
2221565 TTGGATCAACCGAGTCGATGAG
1 TTGGATCAACCGAGTCGATGAG
*
2221587 TTGGGTCAACCGAGTC
1 TTGGATCAACCGAGTC
2221603 TGATATTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 8 0.23
22 27 0.77
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.24
Consensus pattern (22 bp):
TTGGATCAACCGAGTCGATGAG
Found at i:2232257 original size:22 final size:22
Alignment explanation
Indices: 2232218--2232260 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2232208 GTTGCGTAAA
**
2232218 GCCGCAACACGCTATAAATTAC
1 GCCGCAACAAACTATAAATTAC
*
2232240 GCCGCAACAAACTTTAAATTA
1 GCCGCAACAAACTATAAATTA
2232261 TGTAAAATAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.28, G:0.12, T:0.21
Consensus pattern (22 bp):
GCCGCAACAAACTATAAATTAC
Found at i:2232429 original size:22 final size:22
Alignment explanation
Indices: 2232396--2232437 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
2232386 ATTAACGTTA
2232396 TTTTATAAATTT-AAATTGAAT
1 TTTTATAAATTTAAAATTGAAT
*
2232417 TTTTATCATATTTAAAATTGA
1 TTTTAT-AAATTTAAAATTGA
2232438 CGTGATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 5 0.28
23 7 0.39
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.52
Consensus pattern (22 bp):
TTTTATAAATTTAAAATTGAAT
Found at i:2233020 original size:19 final size:20
Alignment explanation
Indices: 2232976--2233020 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
2232966 ATTTGTTTTT
*
2232976 AATAAATTTTTATATATGAA
1 AATAAATTTTTATATATCAA
* *
2232996 ATTAAATTTTTAT-TTTCAA
1 AATAAATTTTTATATATCAA
2233015 AATAAA
1 AATAAA
2233021 ATATTAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
AATAAATTTTTATATATCAA
Found at i:2246632 original size:20 final size:20
Alignment explanation
Indices: 2246609--2246646 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2246599 ACAGTTTCCA
2246609 AATTCGCAACGCGAATTTGG
1 AATTCGCAACGCGAATTTGG
2246629 AATTCGCAACGCGAATTT
1 AATTCGCAACGCGAATTT
2246647 CCCAAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (20 bp):
AATTCGCAACGCGAATTTGG
Found at i:2246886 original size:22 final size:22
Alignment explanation
Indices: 2246850--2246926 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
2246840 CTACATCGGT
* *
2246850 AATT-GAGTTACGAAATTGGCG
1 AATTCGAGTTGCGAAATTGACG
*
2246871 AATTCGAGTTGTGAAATTGACG
1 AATTCGAGTTGCGAAATTGACG
2246893 AATTCGAGTTGCGAAATTGACG
1 AATTCGAGTTGCGAAATTGACG
*
2246915 TATTCGAGTTGC
1 AATTCGAGTTGC
2246927 AGATATTTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 4 0.08
22 46 0.92
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (22 bp):
AATTCGAGTTGCGAAATTGACG
Found at i:2258441 original size:97 final size:99
Alignment explanation
Indices: 2258033--2258873 Score: 999
Period size: 98 Copynumber: 8.6 Consensus size: 99
2258023 ATATCGTACC
* * * * *
2258033 ACTCAAGACAATACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAACAAATTTCCC
1 ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGT---CAACAAA-----C
*
2258098 AATTTCA-GAGCCAATTTCAACTTCACAGCGAAGGATATTGG
58 AATTTCAGGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
2258139 ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTC-G
1 ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCAG
2258203 GAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 GAGCCAATTTCAACTTCACAACGAAGGATATTGG
* ***
2258237 ACTCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCAATTGACTGTCAACAAACAATTTC-G
1 ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCAG
* *
2258301 GAGCCAATCTCAACTTCACAGCGAAGGATATTGG
66 GAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * **
2258335 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCAG
1 ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCAG
* *
2258399 G-GCCAGTTTCAACTTCACAGCGAAGGATATTGG
66 GAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
2258432 ACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAGTTT-TG
1 ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCAG
* *
2258496 GAGTCAATCTCAACTT--C-AC--A-GATATTGG
66 GAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * ** * **
2258524 ACTCGAGACAACACAAGTTCAACTTCACAAAGAAGGGACGGCTGGTTGTCAAC-AACAATTTCAG
1 ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCAG
*
2258588 G-GCCAATTTCAACTTCACAACGAAGTATATTGG
66 GAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
2258621 ACCCAAGACAGCACAAGCTCAACTTCACAGCGAATGGGCGGCTGACTGTCAACAAACAGTTT-TG
1 ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCAG
*
2258685 GAGCCAATCTCAACTT--C-AC--A-GATATTGG
66 GAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * **
2258713 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCAG
1 ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCAG
2258777 G-GCCAATTTCAACTTCACAACGAAGGATATTGG
66 GAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
2258810 ACCCAAGACAGCACAAGCTCAACTTCATAGCGAAGGGGCGGCTGACTGTCAACAAAACAATTTC
1 ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAAC-AAACAATTTC
2258874 CCAGTTCCAG
Statistics
Matches: 628, Mismatches: 85, Indels: 51
0.82 0.11 0.07
Matches are distributed among these distances:
91 39 0.06
92 108 0.17
93 4 0.01
94 4 0.01
95 3 0.00
96 4 0.01
97 191 0.30
98 216 0.34
99 9 0.01
103 7 0.01
106 43 0.07
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (99 bp):
ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCAG
GAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:2258620 original size:189 final size:189
Alignment explanation
Indices: 2258131--2258865 Score: 1202
Period size: 189 Copynumber: 3.9 Consensus size: 189
2258121 CACAGCGAAG
* * * * **
2258131 GATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAAC
1 GATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AAC
*
2258196 AATTTC-GGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTCAAC
65 AATTTCAGG-GCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGACAGCACAAGCTCAAC
*** * *
2258260 TTCACAGCGAAGGGGCAATTGACTGTCAACAAACAATTTCGGAGCCAATCTCAACTTCACAGCGA
129 TTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAGTTTTGGAGCCAATCTCAACTT--CA-C--
2258325 A
189 A
*
2258326 GGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAC
1 -GATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAC
* *
2258391 AATTTCAGGGCCAGTTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACT
65 AATTTCAGGGCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGACAGCACAAGCTCAACT
*
2258456 TCACAGCGAAGGGGCGGCTGACTGTCAACAAACAGTTTTGGAGTCAATCTCAACTTCACA
130 TCACAGCGAAGGGGCGGCTGACTGTCAACAAACAGTTTTGGAGCCAATCTCAACTTCACA
* *
2258516 GATATTGGACTCGAGACAACACAAGTTCAACTTCACAAAGAAGGGACGGCTGGTTGTCAACAACA
1 GATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACA
*
2258581 ATTTCAGGGCCAATTTCAACTTCACAACGAAGTATATTGGACCCAAGACAGCACAAGCTCAACTT
66 ATTTCAGGGCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTT
*
2258646 CACAGCGAATGGGCGGCTGACTGTCAACAAACAGTTTTGGAGCCAATCTCAACTTCACA
131 CACAGCGAAGGGGCGGCTGACTGTCAACAAACAGTTTTGGAGCCAATCTCAACTTCACA
2258705 GATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACA
1 GATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACA
2258770 ATTTCAGGGCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTT
66 ATTTCAGGGCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTT
*
2258835 CATAGCGAAGGGGCGGCTGACTGTCAACAAA
131 CACAGCGAAGGGGCGGCTGACTGTCAACAAA
2258866 ACAATTTCCC
Statistics
Matches: 511, Mismatches: 27, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
189 339 0.66
190 1 0.00
192 1 0.00
193 2 0.00
195 112 0.22
196 56 0.11
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (189 bp):
GATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACA
ATTTCAGGGCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTT
CACAGCGAAGGGGCGGCTGACTGTCAACAAACAGTTTTGGAGCCAATCTCAACTTCACA
Found at i:2260078 original size:14 final size:14
Alignment explanation
Indices: 2260055--2260092 Score: 53
Period size: 12 Copynumber: 2.8 Consensus size: 14
2260045 TTTCCCTCAT
2260055 TTTATTTATTGTATA
1 TTTATTTATT-TATA
2260070 TTT-TTTA-TTATA
1 TTTATTTATTTATA
2260082 TTTATTTATTT
1 TTTATTTATTT
2260093 TCACGTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 7 0.33
13 5 0.24
14 6 0.29
15 3 0.14
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTATTTATTTATA
Found at i:2264031 original size:54 final size:59
Alignment explanation
Indices: 2263918--2264032 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 59
2263908 GAGAGATCTT
* * *
2263918 ACTTTAAGTGATCAAACTGACTAATTACTTTTACTTTATTAGCTAGTATCGAGAGAATTA
1 ACTTTAAATGATCAAACTGACTAAATACTTTTACTTAATTAGCTAGTA-CGAGAGAATTA
*
2263978 ACTTTAAATGATCAAACTGATTAAATAC-TTT-CTTAATTAG-TA-TA-GAGAGAATTA
1 ACTTTAAATGATCAAACTGACTAAATACTTTTACTTAATTAGCTAGTACGAGAGAATTA
2264032 A
1 A
2264033 TTAAGGGTGT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
54 11 0.22
56 2 0.04
57 2 0.04
58 8 0.16
59 3 0.06
60 25 0.49
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.37
Consensus pattern (59 bp):
ACTTTAAATGATCAAACTGACTAAATACTTTTACTTAATTAGCTAGTACGAGAGAATTA
Found at i:2264090 original size:25 final size:26
Alignment explanation
Indices: 2264056--2264105 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
2264046 GATCCAATCC
2264056 GATCCAAAAAA-AATAACCGAAAACT
1 GATCCAAAAAACAATAACCGAAAACT
*
2264081 GATCCAAAAAACCGATAACCGAAAA
1 GATCCAAAAAA-CAATAACCGAAAA
2264106 AATCGAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.50
27 11 0.50
ACGTcount: A:0.58, C:0.22, G:0.10, T:0.10
Consensus pattern (26 bp):
GATCCAAAAAACAATAACCGAAAACT
Found at i:2266876 original size:17 final size:17
Alignment explanation
Indices: 2266856--2266889 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2266846 TTCGATCAAG
2266856 TCATATTAACATTTAAT
1 TCATATTAACATTTAAT
* *
2266873 TCATGTTAATATTTAAT
1 TCATATTAACATTTAAT
2266890 AGACTATATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (17 bp):
TCATATTAACATTTAAT
Found at i:2269275 original size:20 final size:20
Alignment explanation
Indices: 2269237--2269276 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2269227 TTTCTGTTAC
*
2269237 AAGCAGTTATGCTTGTGTTT
1 AAGCAGTTATGCTTCTGTTT
*
2269257 AAGCAGTTATGGTTCTGTTT
1 AAGCAGTTATGCTTCTGTTT
2269277 CAGTTCAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.10, G:0.25, T:0.45
Consensus pattern (20 bp):
AAGCAGTTATGCTTCTGTTT
Found at i:2277145 original size:18 final size:18
Alignment explanation
Indices: 2277122--2277164 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
2277112 ATTTTTTAAA
*
2277122 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
2277140 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
2277158 AAATAAA
1 AAATAAA
2277165 TAAATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:2277953 original size:20 final size:22
Alignment explanation
Indices: 2277906--2277954 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
2277896 GCCTTCAAAA
*
2277906 TCCTAAAAATAAGGAAATATATT
1 TCCT-AAAATAAAGAAATATATT
2277929 TCCTAAAATAAAGAAATA-A-T
1 TCCTAAAATAAAGAAATATATT
2277949 TCCTAA
1 TCCTAA
2277955 TGAAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 7 0.28
21 1 0.04
22 13 0.52
23 4 0.16
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (22 bp):
TCCTAAAATAAAGAAATATATT
Found at i:2278117 original size:22 final size:23
Alignment explanation
Indices: 2278089--2278131 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
2278079 GATCCATTTG
2278089 TCCTTCTAGAAG-CATTGACTGA
1 TCCTTCTAGAAGACATTGACTGA
*
2278111 TCCTTCTAGAAGACGTTGACT
1 TCCTTCTAGAAGACATTGACT
2278132 CATCGCCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (23 bp):
TCCTTCTAGAAGACATTGACTGA
Found at i:2285222 original size:23 final size:23
Alignment explanation
Indices: 2285194--2285266 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
2285184 ATACTTTACA
*
2285194 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
2285217 TTATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
2285240 ATATAAGTGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
2285263 ATAT
1 ATAT
2285267 TTTTACCTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:2285658 original size:23 final size:23
Alignment explanation
Indices: 2285628--2285677 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
2285618 ATACTTTACA
*
2285628 ATATAAGCACTACCTATTACATT
1 ATATAAGCACTACCTATTACATC
*
2285651 ATATAAGCGCTACCTATTACATC
1 ATATAAGCACTACCTATTACATC
2285674 ATAT
1 ATAT
2285678 TTTTACCTAT
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:0.22, G:0.06, T:0.34
Consensus pattern (23 bp):
ATATAAGCACTACCTATTACATC
Found at i:2286072 original size:23 final size:23
Alignment explanation
Indices: 2286042--2286091 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
2286032 ATACTTTACA
*
2286042 ATATAAGCACTACCTATTACATT
1 ATATAAGCACTACCTATTACATC
*
2286065 ATATAAGCGCTACCTATTACATC
1 ATATAAGCACTACCTATTACATC
2286088 ATAT
1 ATAT
2286092 TTTTACCTAT
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:0.22, G:0.06, T:0.34
Consensus pattern (23 bp):
ATATAAGCACTACCTATTACATC
Found at i:2286116 original size:414 final size:414
Alignment explanation
Indices: 2285226--2286352 Score: 2077
Period size: 414 Copynumber: 2.7 Consensus size: 414
2285216 TTTATAAACG
*
2285226 CTACCTATTACATTATATAAGTGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGT
1 CTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGT
*
2285291 TCATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTT
66 CCATACTTTTTATAAAAAGGATCGATAC-TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTT
*
2285356 TTAATAGTGTTTCATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTGCACAAAAAATTA
130 TTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTA
2285421 TTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACC-AAGA
195 TTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGA
2285485 TAATAAT-AATATGT-A-ATATATGTTTATTGTTTTTAATTTACTAAATTAATATCTTAAAATCA
260 TAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTACTAAATTAATATCTTAAAATCA
* * *
2285547 CTCAAAAAATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAAATATGGACACTTTTATAAAAA
325 CTCAAAAAATAACCTTAAATTAATATTTTCCACAGTGAAAAAAAATATGGACACTTTAATAAAAA
2285612 GGATAGATACTTTACAATATAAGCA
390 GGATAGATACTTTACAATATAAGCA
2285637 CTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGT
1 CTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGT
2285702 CCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTT
66 CCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTT
*
2285767 TAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTAT
131 TAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTAT
*
2285832 TTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAAGTTAACAATATTAACCAAAGAT
196 TTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGAT
*
2285897 AATAATAAATATGTAATATATATTTTTATTGTTTTTAATTTACTAAATTAATATCTTAAAACTCA
261 AATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTACTAAATTAATATCTTAAAA-TCA
* *
2285962 CTCAAAAGATAACCTTAAATTAATATTTTCCACAGTG-AAAAAAGTATGGACACTTTAATAAAAA
325 CTCAAAAAATAACCTTAAATTAATATTTTCCACAGTGAAAAAAAATATGGACACTTTAATAAAAA
2286026 GGATAGATACTTTACAATATAAGCA
390 GGATAGATACTTTACAATATAAGCA
2286051 CTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGT
1 CTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGT
2286116 CCATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTT
66 CCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTT
2286180 TTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTA
130 TTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTA
*
2286245 TTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTGACCAAAGA
195 TTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGA
2286310 TAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTA
260 TAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTA
2286353 ATGATAATAT
Statistics
Matches: 695, Mismatches: 15, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
410 158 0.23
411 102 0.15
412 7 0.01
413 31 0.04
414 360 0.52
415 37 0.05
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.43
Consensus pattern (414 bp):
CTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGT
CCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTT
TAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTAT
TTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGAT
AATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTACTAAATTAATATCTTAAAATCAC
TCAAAAAATAACCTTAAATTAATATTTTCCACAGTGAAAAAAAATATGGACACTTTAATAAAAAG
GATAGATACTTTACAATATAAGCA
Found at i:2289191 original size:183 final size:183
Alignment explanation
Indices: 2288883--2289825 Score: 1762
Period size: 183 Copynumber: 5.2 Consensus size: 183
2288873 ACTCCTATTG
2288883 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
*
2288948 GTATATTTATACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
2289013 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGAAA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
2289066 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
*
2289131 ATATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
2289196 AATGTCGACAC-TTTTGACAAGGTATCGACACATTTTTCTTCCAATCTAGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
2289248 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
*
2289313 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTTTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
* *
2289378 AATGTCGACACTTTTTGACAAGGTATCGACATATTTTTCTTCCAATTTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
2289431 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
2289496 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
2289561 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
2289614 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
*
2289679 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
* *
2289744 AATGTCGACACTTTTTGACAAGATATCGACACATTTTTCTTCCATTCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
**
2289797 TAAAGTAAAGACACAATATTAAAAAGTGT
1 TAAAGTACCGACACAATATTAAAAAGTGT
2289826 GAAAACTTTG
Statistics
Matches: 742, Mismatches: 17, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
182 178 0.24
183 564 0.76
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
Found at i:2289553 original size:365 final size:366
Alignment explanation
Indices: 2288883--2289825 Score: 1755
Period size: 365 Copynumber: 2.6 Consensus size: 366
2288873 ACTCCTATTG
2288883 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
* *
2288948 GTATATTTATACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTA
* *
2289013 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGAAATAAAGTACCGAC
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATTTGGACATAAAGTACCGAC
2289078 ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGATATATTTATAC
196 ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGATATATTTATAC
2289143 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACAC-
261 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
2289207 TTTTGACAAGGTATCGACACATTTTTCTTCCAATCTAGACA
326 TTTTGACAAGGTATCGACACATTTTTCTTCCAATCTAGACA
2289248 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
*
2289313 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTTTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTA
*
2289378 AATGTCGACACTTTTTGACAAGGTATCGACATATTTTTCTTCCAATTTGGACATAAAGTACCGAC
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATTTGGACATAAAGTACCGAC
*
2289443 ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATAC
196 ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGATATATTTATAC
2289508 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
261 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
* *
2289573 TTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACA
326 TTTTGACAAGGTATCGACACATTTTTCTTCCAATCTAGACA
2289614 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
2289679 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTA
* **
2289744 AATGTCGACACTTTTTGACAAGATATCGACACATTTTTCTTCC-ATTCTGGACATAAAGTAAAGA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATT-TGGACATAAAGTACCGA
2289808 CACAATATTAAAAAGTGT
195 CACAATATTAAAAAGTGT
2289826 GAAAACTTTG
Statistics
Matches: 563, Mismatches: 13, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
365 321 0.57
366 242 0.43
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (366 bp):
TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTA
AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATTTGGACATAAAGTACCGAC
ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGATATATTTATAC
CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
TTTTGACAAGGTATCGACACATTTTTCTTCCAATCTAGACA
Found at i:2291032 original size:6 final size:6
Alignment explanation
Indices: 2291021--2291119 Score: 99
Period size: 6 Copynumber: 16.5 Consensus size: 6
2291011 ACTTGTTTGG
* * * *
2291021 ATCATC ATCATC ATCATC ATCATC GTCATC ATCTTC ATCGTC ATCTTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * * * * * *
2291069 ATCATC AGCTTC ATCGTC ATCATC ATCGTC ATCTTC ATCGTC ATCTTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
2291117 ATC
1 ATC
2291120 GTCAGCTTCA
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 78 1.00
ACGTcount: A:0.23, C:0.33, G:0.06, T:0.37
Consensus pattern (6 bp):
ATCATC
Found at i:2291038 original size:12 final size:12
Alignment explanation
Indices: 2291021--2291136 Score: 124
Period size: 12 Copynumber: 9.7 Consensus size: 12
2291011 ACTTGTTTGG
*
2291021 ATCATCATCATC
1 ATCATCATCTTC
*
2291033 ATCATCATCATC
1 ATCATCATCTTC
*
2291045 GTCATCATCTTC
1 ATCATCATCTTC
*
2291057 ATCGTCATCTTC
1 ATCATCATCTTC
*
2291069 ATCATCAGCTTC
1 ATCATCATCTTC
* *
2291081 ATCGTCATCATC
1 ATCATCATCTTC
*
2291093 ATCGTCATCTTC
1 ATCATCATCTTC
*
2291105 ATCGTCATCTTC
1 ATCATCATCTTC
* *
2291117 ATCGTCAGCTTC
1 ATCATCATCTTC
*
2291129 ATCTTCAT
1 ATCATCAT
2291137 TGACCGCTTG
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 91 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.38
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:2291058 original size:24 final size:24
Alignment explanation
Indices: 2291021--2291136 Score: 142
Period size: 24 Copynumber: 4.8 Consensus size: 24
2291011 ACTTGTTTGG
* *
2291021 ATCATCATCATCATCATCATCATC
1 ATCATCATCTTCATCGTCATCATC
* *
2291045 GTCATCATCTTCATCGTCATCTTC
1 ATCATCATCTTCATCGTCATCATC
*
2291069 ATCATCAGCTTCATCGTCATCATC
1 ATCATCATCTTCATCGTCATCATC
* *
2291093 ATCGTCATCTTCATCGTCATCTTC
1 ATCATCATCTTCATCGTCATCATC
* * *
2291117 ATCGTCAGCTTCATCTTCAT
1 ATCATCATCTTCATCGTCAT
2291137 TGACCGCTTG
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 80 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.38
Consensus pattern (24 bp):
ATCATCATCTTCATCGTCATCATC
Found at i:2291134 original size:6 final size:6
Alignment explanation
Indices: 2291025--2291136 Score: 98
Period size: 6 Copynumber: 18.7 Consensus size: 6
2291015 GTTTGGATCA
* * * * * * *
2291025 TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG TCATCT TCATCA
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * * *
2291073 TCAGCT TCATCG TCATCA TCATCG TCATCT TCATCG TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
2291121 TCAGCT TCATCT TCAT
1 TCATCT TCATCT TCAT
2291137 TGACCGCTTG
Statistics
Matches: 87, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 87 1.00
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:2293254 original size:201 final size:200
Alignment explanation
Indices: 2292613--2293396 Score: 1415
Period size: 200 Copynumber: 3.9 Consensus size: 200
2292603 TTTAAATTAG
*
2292613 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
2292678 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTAGACTTTTGGGTTTCGATGTTTATGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
2292743 TCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCCTGTTTGCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
2292808 AAAAA
196 AAAAA
* *
2292813 TATCGACACAAACTAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
2292878 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTATCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
2292943 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
2293008 AAAAA
196 AAAAA
2293013 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
2293078 CTTGTACTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATATTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
2293143 TCGGCACTTTTTTATATATGGATCGATACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGAC
131 TCGACAC-TTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGAC
2293208 CAAAAA
195 CAAAAA
*
2293214 TATCGACACAATCTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
2293279 CTTGTACCAGTTAGATTGAAAAATTACATATTACATTATATTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
2293344 TCGACACTTTTTATATATGGATCGACACGTTATGGTTGCACCCTGTTTGCCAT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
2293397 ATTGTAAATT
Statistics
Matches: 560, Mismatches: 23, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
200 367 0.66
201 193 0.34
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (200 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
AAAAA
Found at i:2293355 original size:401 final size:400
Alignment explanation
Indices: 2292613--2293396 Score: 1415
Period size: 401 Copynumber: 2.0 Consensus size: 400
2292603 TTTAAATTAG
*
2292613 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
2292678 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTAGACTTTTGGGTTTCGATGTTTATGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTAGACTTTTGGGTTTCGATATTTATGGGA
2292743 TCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCCTGTTTGCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCCTGTTTGCCATTCATTCTGGACC
* *
2292808 AAAAATATCGACACAAACTAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACTG
196 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
*
2292873 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTATCGATGTTTT
261 GTATACTTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTATCGATGTTTT
*
2292938 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
326 TGGGATCGACACTTTTTATATATGGATCGACACGTTATGGTTGCACCCTGTTTGCCATTCATTCT
2293003 GGACCAAAAA
391 GGACCAAAAA
2293013 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * * *
2293078 CTTGTACTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATATTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTAGACTTTTGGGTTTCGATATTTATGGGA
* * *
2293143 TCGGCACTTTTTTATATATGGATCGATACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGAC
131 TCGACAC-TTTTTATATATGGATCGACACTTTACGGTTGCACCCTGTTTGCCATTCATTCTGGAC
*
2293208 CAAAAATATCGACACAATCTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
195 CAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
* *
2293273 GGTATACTTGTACCAGTTAGATTGAAAAATTACATATTACATTATATTTTTGGTTTTCGATGTTT
260 GGTATACTTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTATCGATGTTT
2293338 TTGGGATCGACACTTTTTATATATGGATCGACACGTTATGGTTGCACCCTGTTTGCCAT
325 TTGGGATCGACACTTTTTATATATGGATCGACACGTTATGGTTGCACCCTGTTTGCCAT
2293397 ATTGTAAATT
Statistics
Matches: 367, Mismatches: 16, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
400 130 0.35
401 237 0.65
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (400 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTAGACTTTTGGGTTTCGATATTTATGGGA
TCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCCTGTTTGCCATTCATTCTGGACC
AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
GTATACTTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTATCGATGTTTT
TGGGATCGACACTTTTTATATATGGATCGACACGTTATGGTTGCACCCTGTTTGCCATTCATTCT
GGACCAAAAA
Found at i:2295361 original size:33 final size:33
Alignment explanation
Indices: 2295324--2295389 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2295314 CATCTTAATA
* *
2295324 TCACCTCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTAAACACCCCAACTTCTTTCACCACT
* *
2295357 TCACCCCTAAACACCTCTACTTCTTTCACCACT
1 TCACCCCTAAACACCCCAACTTCTTTCACCACT
2295390 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTAAACACCCCAACTTCTTTCACCACT
Found at i:2295447 original size:21 final size:21
Alignment explanation
Indices: 2295423--2295463 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2295413 CTTATGCCTC
2295423 TCAAGTGTATCTTCGACTCTA
1 TCAAGTGTATCTTCGACTCTA
* *
2295444 TCAAGTTTCTCTTCGACTCT
1 TCAAGTGTATCTTCGACTCT
2295464 TGATTGTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (21 bp):
TCAAGTGTATCTTCGACTCTA
Found at i:2295572 original size:15 final size:15
Alignment explanation
Indices: 2295552--2295591 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
2295542 TTTTCCCTCC
2295552 CCGTCGTCCCACTCA
1 CCGTCGTCCCACTCA
2295567 CCGTCGTCCCACTCA
1 CCGTCGTCCCACTCA
*
2295582 CCGTCATCCC
1 CCGTCGTCCC
2295592 CCAATACAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.12, C:0.55, G:0.12, T:0.20
Consensus pattern (15 bp):
CCGTCGTCCCACTCA
Done.