Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 330 of 332
Found at i:108278694 original size:29 final size:29
Alignment explanation
Indices: 108278652--108278718 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
108278642 ACTTATAACA
*
108278652 AGTAGAGTGATGGAGGTAGTGGAT-GGTTT
1 AGTAGGGTGATGGAGGTAGTGG-TCGGTTT
*
108278681 AGTAGGGTGATGGAGTTAGTGGTCGGTTT
1 AGTAGGGTGATGGAGGTAGTGGTCGGTTT
*
108278710 AGTGGGGTG
1 AGTAGGGTG
108278719 TTTAATTTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 1 0.03
29 33 0.97
ACGTcount: A:0.19, C:0.01, G:0.48, T:0.31
Consensus pattern (29 bp):
AGTAGGGTGATGGAGGTAGTGGTCGGTTT
Found at i:108281029 original size:32 final size:33
Alignment explanation
Indices: 108280957--108281033 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 33
108280947 TTATTTTTCT
* *
108280957 CTTGAAATTTTTAGAAAATGTTGATTAAGCTCC
1 CTTGAAATTTTTAGAAAATGTTAATTAAACTCC
* * *
108280990 CTT-AAATTTTT-GAAACTTTTAATTAAACTCT
1 CTTGAAATTTTTAGAAAATGTTAATTAAACTCC
*
108281021 TTTGAAATTTTTA
1 CTTGAAATTTTTA
108281034 AATAATCCTC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
31 17 0.47
32 16 0.44
33 3 0.08
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (33 bp):
CTTGAAATTTTTAGAAAATGTTAATTAAACTCC
Found at i:108283009 original size:15 final size:15
Alignment explanation
Indices: 108282989--108283019 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
108282979 AGGTTGCTCC
108282989 TTTCTTGTCTCCCTT
1 TTTCTTGTCTCCCTT
108283004 TTTCTTGTCTCCCTT
1 TTTCTTGTCTCCCTT
108283019 T
1 T
108283020 GGACTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.32, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTCTTGTCTCCCTT
Found at i:108284115 original size:31 final size:31
Alignment explanation
Indices: 108284053--108284115 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
108284043 TTAATCCTTG
* * **
108284053 TTTTTTATTTTTAGGAATTTAGTCTCTTTAT
1 TTTTTTAATTTTAGAAATTTAGTCTAATTAT
108284084 TTTTTTAATTTTA-AAATTTAGATCTAATTAT
1 TTTTTTAATTTTAGAAATTTAG-TCTAATTAT
108284115 T
1 T
108284116 ATCATTGTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.62
Consensus pattern (31 bp):
TTTTTTAATTTTAGAAATTTAGTCTAATTAT
Found at i:108284298 original size:23 final size:23
Alignment explanation
Indices: 108284272--108284337 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 23
108284262 TTTTGAAATC
108284272 TAAAAATTAAAGGGACTAAATAT
1 TAAAAATTAAAGGGACTAAATAT
* * *
108284295 T--AAATT--TGTGA--AAAT-C
1 TAAAAATTAAAGGGACTAAATAT
108284311 TAAAAATTAAAGGGACTAAATAT
1 TAAAAATTAAAGGGACTAAATAT
108284334 TAAA
1 TAAA
108284338 TTTGTGAAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 14
0.60 0.12 0.28
Matches are distributed among these distances:
16 1 0.03
17 4 0.13
18 5 0.17
19 3 0.10
20 3 0.10
21 5 0.17
22 4 0.13
23 5 0.17
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.29
Consensus pattern (23 bp):
TAAAAATTAAAGGGACTAAATAT
Found at i:108284312 original size:39 final size:39
Alignment explanation
Indices: 108284258--108284345 Score: 162
Period size: 39 Copynumber: 2.3 Consensus size: 39
108284248 ATGTTCGACC
108284258 TAAATTT-TG-AAATCTAAAAATTAAAGGGACTAAATAT
1 TAAATTTGTGAAAATCTAAAAATTAAAGGGACTAAATAT
108284295 TAAATTTGTGAAAATCTAAAAATTAAAGGGACTAAATAT
1 TAAATTTGTGAAAATCTAAAAATTAAAGGGACTAAATAT
108284334 TAAATTTGTGAA
1 TAAATTTGTGAA
108284346 GAGTACAAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
37 7 0.14
38 2 0.04
39 40 0.82
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.33
Consensus pattern (39 bp):
TAAATTTGTGAAAATCTAAAAATTAAAGGGACTAAATAT
Found at i:108290152 original size:20 final size:20
Alignment explanation
Indices: 108290127--108290176 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
108290117 TGGCTTAAAA
108290127 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
108290147 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
108290164 GTGGTAGTGGATT
1 TTGGTAGTGGATT
108290177 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:108290864 original size:21 final size:21
Alignment explanation
Indices: 108290840--108290895 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
108290830 CATTGTTTCT
*
108290840 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
** *
108290861 AATCTCACCATTACAGTAACT
1 AATCTCACCGCTACAGTAACC
108290882 AATCTCACCGCTAC
1 AATCTCACCGCTAC
108290896 CGCTATTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.36, G:0.07, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:108298744 original size:200 final size:194
Alignment explanation
Indices: 108298503--108298879 Score: 501
Period size: 200 Copynumber: 1.9 Consensus size: 194
108298493 TTTTTGTAAT
* *
108298503 TTAAATTTTAATATAAGAAGAAGAAGAAGATAGTTGCATGCAATTATGTATTGTAAGATAAGTAG
1 TTAAATTTTAATATAAGAAGAAGAAGAAGACAGTTGCATGCAATTAGGTATTGTAAGATAAGTAG
* *
108298568 AATTTTACGTTTTCTCATTAATTTTTTTC-TCTCTTGCTCTTGCT-T-TTGCTTGGAATTCTTGA
66 AATTTTAC---TTCT--TT--TTTTTTTCAT-TATTG-TCTTGCTCTCTTGCTTGGAATTCGTGA
* *
108298630 TCCTGTTT-TGAGGTTTCCATTTCTTATTTTCCTTTATCATTGTAAGATAAGTAGAGTGTTTCTT
122 GCCTGTTTATGAGGTTTCCATTTCTTATTTTCCTTTATCACTGTAAGATAAGTAGAGTGTTTCTT
108298694 TTTTAAAA
187 TTTTAAAA
* * *
108298702 TTAATTTTTAATCTAAGCAGTAAGAAGAAGACAGTTGCATGCAATTAGGTATTGTAAGATAAGTA
1 TTAAATTTTAATATAAGAAG-AAGAAGAAGACAGTTGCATGCAATTAGGTATTGTAAGATAAGTA
* * * *
108298767 GAATTTTACTTCTTTTTTTTTTCATTATTGTTTTTCTCTCTTTCTTGTAATTCGTGAGCCTGTTT
65 GAATTTTACTTCTTTTTTTTTTCATTATTGTCTTGCTCTCTTGCTTGGAATTCGTGAGCCTGTTT
* *
108298832 ATGAGGTTTCTATTTCTTATTTTCCTTTATTACTGTAAGATAAGTAGA
130 ATGAGGTTTCCATTTCTTATTTTCCTTTATCACTGTAAGATAAGTAGA
108298880 ATTTTACCTT
Statistics
Matches: 158, Mismatches: 15, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
192 5 0.03
193 13 0.08
194 22 0.14
195 46 0.29
197 4 0.03
199 17 0.11
200 51 0.32
ACGTcount: A:0.27, C:0.11, G:0.15, T:0.47
Consensus pattern (194 bp):
TTAAATTTTAATATAAGAAGAAGAAGAAGACAGTTGCATGCAATTAGGTATTGTAAGATAAGTAG
AATTTTACTTCTTTTTTTTTTCATTATTGTCTTGCTCTCTTGCTTGGAATTCGTGAGCCTGTTTA
TGAGGTTTCCATTTCTTATTTTCCTTTATCACTGTAAGATAAGTAGAGTGTTTCTTTTTTAAAA
Found at i:108303946 original size:12 final size:12
Alignment explanation
Indices: 108303929--108303953 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
108303919 CAACTAAATG
108303929 TTAGTTTATTTT
1 TTAGTTTATTTT
108303941 TTAGTTTATTTT
1 TTAGTTTATTTT
108303953 T
1 T
108303954 CTGATAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTAGTTTATTTT
Found at i:108307520 original size:94 final size:95
Alignment explanation
Indices: 108307355--108307530 Score: 293
Period size: 94 Copynumber: 1.9 Consensus size: 95
108307345 GCAAATACAC
*
108307355 ATATAAGGAAAACATGGTAGCTCAAGTCCCTTCGTTTAAGTCAAAATTATGAATGTGAAAAAGCC
1 ATATAAGGAAAACATGGTAGCTCAAGTCCCTTCGTTTAAGTC-AAATTATGAATGCGAAAAAGCC
108307420 AATTCAAGACCATACATACATACATACATAT
65 AATTCAAGACCATACATACATACATACATAT
* *
108307451 ATATAAAGG-AAACATGGTAGCTCAAGTCCCTTTGTTTAAGTC-AATTATGAATGCGAAAAGGCC
1 ATAT-AAGGAAAACATGGTAGCTCAAGTCCCTTCGTTTAAGTCAAATTATGAATGCGAAAAAGCC
108307514 AATTCAAGACCATACAT
65 AATTCAAGACCATACAT
108307531 GCATGCACAC
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
94 36 0.47
96 36 0.47
97 4 0.05
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (95 bp):
ATATAAGGAAAACATGGTAGCTCAAGTCCCTTCGTTTAAGTCAAATTATGAATGCGAAAAAGCCA
ATTCAAGACCATACATACATACATACATAT
Found at i:108307807 original size:107 final size:110
Alignment explanation
Indices: 108307551--108307825 Score: 394
Period size: 107 Copynumber: 2.5 Consensus size: 110
108307541 ACACGCAGAC
* *
108307551 CCCTTTGTTTCAGTCAATTATGAATGTGAAAAGGCCACTTCAAGACCATATATACATGCATGCAT
1 CCCTTTGTTTCAGTCAATTATGAATGTGAAAAGGCCAATTCAAGACCATAAATACATGCATGCAT
*
108307616 CCATAAACACACACATATATATACAAGGAAAACATGGTAGCTCAAGT
66 -CATAAACACACACACATATATA-AAGGAAAACATGGTAGCTCAAGT
* *
108307663 CCCTTTGTTTCAGTCAATTATGAATGTGGAAATGCCAATTCAAGACCATAAATACATGCATGCAT
1 CCCTTTGTTTCAGTCAATTATGAATGTGAAAAGGCCAATTCAAGACCATAAATACATGCATGCAT
** **
108307728 -A-ACGCATTCACACATATAT-AAGGAAAACATGGTAGCTCAAGT
66 CATAAACACACACACATATATAAAGGAAAACATGGTAGCTCAAGT
* * * *
108307770 CCCTTTGTTTCAATCACTTATGAACGTGAAAAGGCCAATTCAAGACCATACATACA
1 CCCTTTGTTTCAGTCAATTATGAATGTGAAAAGGCCAATTCAAGACCATAAATACA
108307826 CACATACATA
Statistics
Matches: 148, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
107 73 0.49
109 13 0.09
110 1 0.01
112 61 0.41
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (110 bp):
CCCTTTGTTTCAGTCAATTATGAATGTGAAAAGGCCAATTCAAGACCATAAATACATGCATGCAT
CATAAACACACACACATATATAAAGGAAAACATGGTAGCTCAAGT
Found at i:108309447 original size:26 final size:26
Alignment explanation
Indices: 108309418--108309471 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
108309408 CCGTTAGCCT
*
108309418 AAACATCAATTTAGTTAATAAAAGTA
1 AAACATCAATTAAGTTAATAAAAGTA
108309444 AAACATCAATTAAGTTAATAAAAGTA
1 AAACATCAATTAAGTTAATAAAAGTA
108309470 AA
1 AA
108309472 TTCGAATATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.28
Consensus pattern (26 bp):
AAACATCAATTAAGTTAATAAAAGTA
Found at i:108309910 original size:3 final size:3
Alignment explanation
Indices: 108309902--108309926 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
108309892 TTCCCTACGC
108309902 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
108309927 AATTAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:108311738 original size:9 final size:9
Alignment explanation
Indices: 108311722--108311782 Score: 104
Period size: 9 Copynumber: 6.8 Consensus size: 9
108311712 GGTATTTTTC
108311722 GGTAATTCG
1 GGTAATTCG
*
108311731 GTTAATTCG
1 GGTAATTCG
*
108311740 GTTAATTCG
1 GGTAATTCG
108311749 GGTAATTCG
1 GGTAATTCG
108311758 GGTAATTCG
1 GGTAATTCG
108311767 GGTAATTCG
1 GGTAATTCG
108311776 GGTAATT
1 GGTAATT
108311783 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.23, C:0.10, G:0.30, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:108312058 original size:15 final size:14
Alignment explanation
Indices: 108312038--108312077 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
108312028 ATTTTATTTA
108312038 TTTATTATTATTAGT
1 TTTATTA-TATTAGT
108312053 TTTATTATATT-GT
1 TTTATTATATTAGT
*
108312066 TATATTATATTA
1 TTTATTATATTA
108312078 TATTATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 12 0.52
14 4 0.17
15 7 0.30
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (14 bp):
TTTATTATATTAGT
Found at i:108312068 original size:23 final size:21
Alignment explanation
Indices: 108312027--108312093 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 21
108312017 AATTTCAAGA
108312027 TATTTTATT-TATTTATTATTAT
1 TATTTTATTATA-TTATTA-TAT
*
108312049 TAGTTTTATTATATTGTTATAT
1 TA-TTTTATTATATTATTATAT
108312071 TATATTATATTATATTATT-TAT
1 TAT-TT-TATTATATTATTATAT
108312093 T
1 T
108312094 CACGTAAATC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
21 1 0.03
22 13 0.33
23 23 0.59
24 2 0.05
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (21 bp):
TATTTTATTATATTATTATAT
Found at i:108312073 original size:13 final size:14
Alignment explanation
Indices: 108312040--108312088 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
108312030 TTTATTTATT
*
108312040 TATTATTATTAGTTT
1 TATTA-TATTAGTTA
108312055 TATTATATT-GTTA
1 TATTATATTAGTTA
*
108312068 TATTATATTATATTA
1 TATTATATTA-GTTA
108312083 TATTAT
1 TATTAT
108312089 TTATTCACGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 12 0.40
14 4 0.13
15 14 0.47
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (14 bp):
TATTATATTAGTTA
Found at i:108312929 original size:22 final size:22
Alignment explanation
Indices: 108312890--108312937 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
108312880 TTTTTATATA
108312890 TTTA-ATTATTTCTCATATATTT
1 TTTAGATTATTTCTCATAT-TTT
108312912 TTTAGATTATTTCT-ATATTTT
1 TTTAGATTATTTCTCATATTTT
*
108312933 ATTAG
1 TTTAG
108312938 TTCTTTCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 8 0.33
23 9 0.38
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.62
Consensus pattern (22 bp):
TTTAGATTATTTCTCATATTTT
Found at i:108312944 original size:20 final size:21
Alignment explanation
Indices: 108312894--108312953 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 21
108312884 TATATATTTA
*
108312894 ATTATTTCTCATATATTTTTTAG
1 ATTATTTCT-ATAT-TTTATTAG
108312917 ATTATTTCTATATTTTATTAG
1 ATTATTTCTATATTTTATTAG
* *
108312938 -TTCTTTCCAT-TTTTAT
1 ATTATTTCTATATTTTAT
108312954 AATTAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.18
20 8 0.24
21 7 0.21
22 4 0.12
23 9 0.26
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.63
Consensus pattern (21 bp):
ATTATTTCTATATTTTATTAG
Found at i:108330230 original size:17 final size:17
Alignment explanation
Indices: 108330202--108330234 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
108330192 TTCATTATAG
108330202 TTTTTAATTATATATGTT
1 TTTTTAATTATA-ATGTT
108330220 TTTTTAA-TATAATGT
1 TTTTTAATTATAATGT
108330235 ATAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 4 0.27
18 7 0.47
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TTTTTAATTATAATGTT
Found at i:108333646 original size:9 final size:9
Alignment explanation
Indices: 108333634--108333677 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 9
108333624 AATAAATTAT
108333634 TTAAAAATA
1 TTAAAAATA
108333643 TTAAAAATA
1 TTAAAAATA
*
108333652 TTTAAAAATT
1 -TTAAAAATA
108333662 TATAAAAAT-
1 T-TAAAAATA
108333671 TTAAAAA
1 TTAAAAA
108333678 GTCAAGAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
8 6 0.19
9 11 0.34
10 15 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
TTAAAAATA
Found at i:108333655 original size:19 final size:19
Alignment explanation
Indices: 108333625--108333677 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
108333615 TGTCACGGCA
*
108333625 ATAAATTATTTAAAAATATT
1 ATAAAATATTTAAAAAT-TT
108333645 A-AAAATATTTAAAAATTT
1 ATAAAATATTTAAAAATTT
108333663 ATAAAA-ATTTAAAAA
1 ATAAAATATTTAAAAA
108333678 GTCAAGAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 12 0.39
19 18 0.58
20 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAAATATTTAAAAATTT
Found at i:108335846 original size:4 final size:4
Alignment explanation
Indices: 108335837--108335864 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
108335827 TCTAATATTT
108335837 CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA
108335865 TTATATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:108337358 original size:31 final size:31
Alignment explanation
Indices: 108337296--108337361 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 31
108337286 CTCATATATC
*
108337296 AAATTAAATATTAAAACTAAATTTATGTACT
1 AAATTAAATATTAAAACTAAACTTATGTACT
108337327 AAATTAAATATTAAAA-TCAAACTTA-GATACT
1 AAATTAAATATTAAAACT-AAACTTATG-TACT
108337358 AAAT
1 AAAT
108337362 AATACATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 2 0.06
31 30 0.94
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.35
Consensus pattern (31 bp):
AAATTAAATATTAAAACTAAACTTATGTACT
Found at i:108345151 original size:4 final size:4
Alignment explanation
Indices: 108345144--108345247 Score: 61
Period size: 4 Copynumber: 25.2 Consensus size: 4
108345134 TTATGCATGC
* * *
108345144 ATGT ATGT ATG- A-GT ATGT AATGT ATGGC ATGGT ATGC A-GT TTTGT
1 ATGT ATGT ATGT ATGT ATGT -ATGT AT-GT AT-GT ATGT ATGT AT-GT
* * * *
108345189 ATGT ATGT ATGT ATGC ATGC ATGT ATGT GTGT ATGT AGGGT ATGTT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-TGT ATG-T ATGT
*
108345239 ACGT ATGT A
1 ATGT ATGT A
108345248 AATAAGGTAA
Statistics
Matches: 78, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
2 1 0.01
3 3 0.04
4 53 0.68
5 21 0.27
ACGTcount: A:0.24, C:0.05, G:0.29, T:0.42
Consensus pattern (4 bp):
ATGT
Found at i:108346939 original size:75 final size:75
Alignment explanation
Indices: 108346816--108346965 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
108346806 TACTTCGATT
108346816 TATTCGATTATGCACAGTAAAATATTCTACTTTTCCCTAACTTTAGCAATTTGATTTTTGGTAAA
1 TATTCGATTATGCACAGTAAAATATTCTACTTTTCCCTAACTTTAGCAATTTGATTTTTGGTAAA
108346881 TAAAAGAAAA
66 TAAAAGAAAA
108346891 TATTCGATTATGCACAGTAAAATATTCTACTTTTCCCTAACTTTAGCAATTTGATTTTTGGTAAA
1 TATTCGATTATGCACAGTAAAATATTCTACTTTTCCCTAACTTTAGCAATTTGATTTTTGGTAAA
108346956 TAAAAGAAAA
66 TAAAAGAAAA
108346966 ACTCGAAAAC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (75 bp):
TATTCGATTATGCACAGTAAAATATTCTACTTTTCCCTAACTTTAGCAATTTGATTTTTGGTAAA
TAAAAGAAAA
Found at i:108347495 original size:4 final size:4
Alignment explanation
Indices: 108347488--108347615 Score: 73
Period size: 4 Copynumber: 31.2 Consensus size: 4
108347478 TTATGCATGC
* *
108347488 ATGT ATGT ATGT ATGT ATG- -TGT ATGT AGGGC ATGT A-GTT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-TGT ATGT ATG-T ATGT ATGT
* * * * * * * * *
108347535 ATGT ATGC ATGC ATGC ATGC ATGT ATGT GTGT CTGT GTGC ATGT AGGGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-TGT
*
108347584 ATGGT ATGGT ATGGT ATGT ACGT ATGT ATGT A
1 AT-GT AT-GT AT-GT ATGT ATGT ATGT ATGT A
108347616 AGGTAATTTT
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
2 2 0.02
3 1 0.01
4 78 0.77
5 20 0.20
ACGTcount: A:0.22, C:0.06, G:0.31, T:0.41
Consensus pattern (4 bp):
ATGT
Found at i:108351671 original size:25 final size:25
Alignment explanation
Indices: 108351623--108351671 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
108351613 TGAAAAAGTA
*
108351623 ATTTGTAATGACCAAACTTGAAAAT
1 ATTTGTAATGACCAAACTTAAAAAT
*
108351648 ATTTG-AATGACCCAAATTTAAAAA
1 ATTTGTAATGA-CCAAACTTAAAAA
108351672 GACCCAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (25 bp):
ATTTGTAATGACCAAACTTAAAAAT
Found at i:108351683 original size:15 final size:16
Alignment explanation
Indices: 108351656--108351685 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
108351646 ATATTTGAAT
108351656 GACCCAAATTTAAAAA
1 GACCCAAATTTAAAAA
108351672 GACCCAAA-TTAAAA
1 GACCCAAATTTAAAA
108351686 GTGATCCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.57, C:0.20, G:0.07, T:0.17
Consensus pattern (16 bp):
GACCCAAATTTAAAAA
Found at i:108352107 original size:26 final size:25
Alignment explanation
Indices: 108352078--108352127 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
108352068 GTTCTTATAA
*
108352078 TTTAATTAATTAATTTTAGTCTTTTT
1 TTTAATTAATTAAATTTAGT-TTTTT
* *
108352104 TTTACTTGATTAAATTTAGTTTTT
1 TTTAATTAATTAAATTTAGTTTTT
108352128 ATACTTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (25 bp):
TTTAATTAATTAAATTTAGTTTTTT
Found at i:108352132 original size:23 final size:22
Alignment explanation
Indices: 108352100--108352142 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
108352090 ATTTTAGTCT
*
108352100 TTTTTTTACTTGATTAAATTTAG
1 TTTTTATACTT-ATTAAATTTAG
*
108352123 TTTTTATACTTTTTAAATTT
1 TTTTTATACTTATTAAATTT
108352143 TTAAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (22 bp):
TTTTTATACTTATTAAATTTAG
Found at i:108363688 original size:242 final size:238
Alignment explanation
Indices: 108363255--108363868 Score: 798
Period size: 237 Copynumber: 2.6 Consensus size: 238
108363245 GTATAAGGGC
* * *
108363255 ATAGGAACATGATCTTTCAAAGACCACCAAATACATGAATTTTTTTAAAGAAAAATGGAACATAC
1 ATAGGAACATGATCTTTCAAAGACCTCCAAATACAT-ATTTTTTTTAAAGAAAAATGGAACAAAC
* * * * *
108363320 CCGTGTCCTAAATAGACTTACATCTGCCACTT-ATG-CTCGGGTCCGATTAACAAAAAAGTACTA
65 CCGTGTTCTAAATAGGCTTATATCTGACA-TTCA-GACTCGAGTCCGATTAACAAAAAAGTACTA
* * * * *
108363383 ACATG---C-AACTATATGAAAGAATGGTTGCAATTAGAAGCTCCGACTCATCATTTCAATTGAA
128 GCATGTAACTAACTATATGAAAGAACGGTTGCAATTACAAGCTCCGACTCATCATTCCAAGTGAA
108363444 GTACTCATGTCAGATACAACACATATTCATGCAAAGGAACAAGAGT
193 GTACTCATGTCAGATACAACACATATTCATGCAAAGGAACAAGAGT
*
108363490 ATAGGAATATGATCTTTCAAAGACCTCCAAATACATTATTTTTTTTTAAAGGAAAAATGGAACAA
1 ATAGGAACATGATCTTTCAAAGACCTCCAAATACA-TA-TTTTTTTTAAA-GAAAAATGGAACAA
* *
108363555 ACCCGTGTTCTAAATAGGCTTATATTTGGCATTCAGACTCGAGTCCGATTAACAGAAAAAGTACT
63 ACCCGTGTTCTAAATAGGCTTATATCTGACATTCAGACTCGAGTCCGATTAACA-AAAAAGTACT
* * *
108363620 AGCATGTAACTAACTATATGAAAGAACGGTTGCAATTACTAGCTCCGACTCGTCGTTCCAAGTGA
127 AGCATGTAACTAACTATATGAAAGAACGGTTGCAATTACAAGCTCCGACTCATCATTCCAAGTGA
* * * * * * * *
108363685 AGTATTCGTGTCTGATACGACACATATTCATGCAAGGGTATAAGGGT
192 AGTACTCATGTCAGATACAACACATATTCATGCAAAGGAACAAGAGT
*
108363732 ATAGG-ACATGATCTTTCAAAGACCTCCAAATAC--ATTTTTTTTAATAGTAAAATGGAACAAAA
1 ATAGGAACATGATCTTTCAAAGACCTCCAAATACATATTTTTTTTAA-AGAAAAATGGAAC-AAA
* *
108363794 CCCGTGTTCTAAATAGGCTTATATCTAACATTCACACTCGAG-CCTGATTAACAAAAAAGTACTA
64 CCCGTGTTCTAAATAGGCTTATATCTGACATTCAGACTCGAGTCC-GATTAACAAAAAAGTACTA
108363858 GCATGTAACTA
128 GCATGTAACTA
108363869 TATGAAAGAA
Statistics
Matches: 334, Mismatches: 32, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
235 34 0.10
236 14 0.04
237 101 0.30
238 66 0.20
241 28 0.08
242 91 0.27
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (238 bp):
ATAGGAACATGATCTTTCAAAGACCTCCAAATACATATTTTTTTTAAAGAAAAATGGAACAAACC
CGTGTTCTAAATAGGCTTATATCTGACATTCAGACTCGAGTCCGATTAACAAAAAAGTACTAGCA
TGTAACTAACTATATGAAAGAACGGTTGCAATTACAAGCTCCGACTCATCATTCCAAGTGAAGTA
CTCATGTCAGATACAACACATATTCATGCAAAGGAACAAGAGT
Found at i:108372163 original size:12 final size:12
Alignment explanation
Indices: 108372146--108372175 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
108372136 CGTTGAATTT
108372146 ATCATCATCGGA
1 ATCATCATCGGA
*
108372158 ATCATCATCGTA
1 ATCATCATCGGA
108372170 ATCATC
1 ATCATC
108372176 TTTTGACCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (12 bp):
ATCATCATCGGA
Found at i:108384000 original size:20 final size:20
Alignment explanation
Indices: 108383971--108384008 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
108383961 CCCACGTTTC
108383971 TTTTTTTAAAA-ATTCTATT
1 TTTTTTTAAAATATTCTATT
108383990 TTTTCTTTAAAATATTCTA
1 TTTT-TTTAAAATATTCTA
108384009 CATTGAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTTAAAATATTCTATT
Found at i:108388233 original size:20 final size:20
Alignment explanation
Indices: 108388208--108388257 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
108388198 TGGCTTAAAA
108388208 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
108388228 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
108388245 GTGGTAGTGGATT
1 TTGGTAGTGGATT
108388258 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:108392861 original size:20 final size:20
Alignment explanation
Indices: 108392836--108392885 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
108392826 TGGCTTAAAA
108392836 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
108392856 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
108392873 GTGGTAGTGGATT
1 TTGGTAGTGGATT
108392886 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:108395052 original size:22 final size:22
Alignment explanation
Indices: 108395016--108395057 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
108395006 CGTGTAAATC
*
108395016 ATATCCAAATTTATTATGATCT
1 ATATCCAAATATATTATGATCT
* *
108395038 ATATCCAGATATATTTTGAT
1 ATATCCAAATATATTATGAT
108395058 TTTGATTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (22 bp):
ATATCCAAATATATTATGATCT
Found at i:108396350 original size:24 final size:26
Alignment explanation
Indices: 108396314--108396366 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
108396304 TACAGCACAT
*
108396314 ATTAAAAAAAAAAAA-AGA-CGAAAA
1 ATTAAAAAAAAAAAAGAGAGCAAAAA
**
108396338 ATTAAAATTAAAAAAGAGAGCAAAAA
1 ATTAAAAAAAAAAAAGAGAGCAAAAA
108396364 ATT
1 ATT
108396367 CAGAAAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 13 0.54
25 3 0.12
26 8 0.33
ACGTcount: A:0.72, C:0.04, G:0.09, T:0.15
Consensus pattern (26 bp):
ATTAAAAAAAAAAAAGAGAGCAAAAA
Found at i:108398549 original size:20 final size:21
Alignment explanation
Indices: 108398524--108398568 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
108398514 TATCGTATGA
*
108398524 AATTTTTTAAGAT-TTTAAAT
1 AATTTTTTAAAATATTTAAAT
108398544 AATTTTTTAAAATATTTAAAT
1 AATTTTTTAAAATATTTAAAT
108398565 AATT
1 AATT
108398569 ATATATTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
AATTTTTTAAAATATTTAAAT
Found at i:108404564 original size:44 final size:44
Alignment explanation
Indices: 108404502--108404599 Score: 171
Period size: 44 Copynumber: 2.2 Consensus size: 44
108404492 CTGACCAAAT
* *
108404502 TTAAA-AAAAAAAAGAAAAGAAAAGGAAACGTAACAACAGTGAC
1 TTAAATAAAGAAAAGAAAAGAAAAAGAAACGTAACAACAGTGAC
108404545 TTAAATAAAGAAAAGAAAAGAAAAAGAAACGTAACAACAGTGAC
1 TTAAATAAAGAAAAGAAAAGAAAAAGAAACGTAACAACAGTGAC
108404589 TTAAATAAAGA
1 TTAAATAAAGA
108404600 CTTCTGAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
43 5 0.10
44 47 0.90
ACGTcount: A:0.64, C:0.08, G:0.15, T:0.12
Consensus pattern (44 bp):
TTAAATAAAGAAAAGAAAAGAAAAAGAAACGTAACAACAGTGAC
Found at i:108404857 original size:8 final size:9
Alignment explanation
Indices: 108404819--108404860 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
108404809 TACAAATTTT
108404819 TTTAAATAA
1 TTTAAATAA
108404828 TTT-AATAA
1 TTTAAATAA
108404836 TTTAAATAAAA
1 TTTAAAT--AA
*
108404847 TTTAAATAT
1 TTTAAATAA
108404856 TTTAA
1 TTTAA
108404861 TTATCATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
8 8 0.28
9 12 0.41
11 9 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTTAAATAA
Found at i:108412820 original size:42 final size:42
Alignment explanation
Indices: 108412763--108413044 Score: 225
Period size: 42 Copynumber: 6.8 Consensus size: 42
108412753 TCACGTGAAA
* * *
108412763 TTCTATAGTACCGATCATCAGGTGAGTAAGAACGTTCCCGCC
1 TTCTATAGTATCGATCATCAGGAGAGTAAGAACGATCCCGCC
* * *
108412805 TTCTATAGTGTCGATCCTCAGGAGAGT---AACGGTCCCGCC
1 TTCTATAGTATCGATCATCAGGAGAGTAAGAACGATCCCGCC
* * *
108412844 TTCTATAGTATCGGTCCTCAGGAGAGTAAGAACGATCCCGTC
1 TTCTATAGTATCGATCATCAGGAGAGTAAGAACGATCCCGCC
* * * * *
108412886 TGC-AGTGGTAACGATCATCAGGAGAGTAA-AACCTATCACGCC
1 TTCTA-TAGTATCGATCATCAGGAGAGTAAGAA-CGATCCCGCC
* * *
108412928 TTCTATAGTATCTATCATCGGGAGAGTAAGAAC-AGTCCCGTC
1 TTCTATAGTATCGATCATCAGGAGAGTAAGAACGA-TCCCGCC
* * * * * * * * *
108412970 TACGATAATAACGATCATAAGGTGAGTAGGACCGATCACGCC
1 TTCTATAGTATCGATCATCAGGAGAGTAAGAACGATCCCGCC
* * * *
108413012 TTCGATAGTATCGATCTTCAGGTGAGTAGGAAC
1 TTCTATAGTATCGATCATCAGGAGAGTAAGAAC
108413045 AGTAACGATA
Statistics
Matches: 189, Mismatches: 42, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
39 36 0.19
41 4 0.02
42 145 0.77
43 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (42 bp):
TTCTATAGTATCGATCATCAGGAGAGTAAGAACGATCCCGCC
Found at i:108412852 original size:39 final size:39
Alignment explanation
Indices: 108412763--108412872 Score: 139
Period size: 39 Copynumber: 2.7 Consensus size: 39
108412753 TCACGTGAAA
* * * *
108412763 TTCTATAGTACCGATCATCAGGTGAGTAAGAACGTTCCCGCC
1 TTCTATAGTATCGATCCTCAGGAGAGT---AACGGTCCCGCC
*
108412805 TTCTATAGTGTCGATCCTCAGGAGAGTAACGGTCCCGCC
1 TTCTATAGTATCGATCCTCAGGAGAGTAACGGTCCCGCC
*
108412844 TTCTATAGTATCGGTCCTCAGGAGAGTAA
1 TTCTATAGTATCGATCCTCAGGAGAGTAA
108412873 GAACGATCCC
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
39 38 0.62
42 23 0.38
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (39 bp):
TTCTATAGTATCGATCCTCAGGAGAGTAACGGTCCCGCC
Found at i:108412901 original size:81 final size:83
Alignment explanation
Indices: 108412763--108413044 Score: 266
Period size: 84 Copynumber: 3.4 Consensus size: 83
108412753 TCACGTGAAA
* * * * * ** *
108412763 TTCTATAGTACCGATCATCAGGTGAGTAAGAACGTTCCCGCCTTCTATAGTGTCGATCCTCAGGA
1 TTCTATAGTATCGATCATCAGGAGAGTAAGAACGATCCCGTCTGCTATAGTAACGATCATCAGGA
* *
108412828 GAGT-AA-CGGTCCCGCC
66 GAGTAAACCGATCACGCC
* * *
108412844 TTCTATAGTATCGGTCCTCAGGAGAGTAAGAACGATCCCGTCTGC-AGTGGTAACGATCATCAGG
1 TTCTATAGTATCGATCATCAGGAGAGTAAGAACGATCCCGTCTGCTA-TAGTAACGATCATCAGG
*
108412908 AGAGTAAAACCTATCACGCC
65 AGAGT-AAACCGATCACGCC
* * * * * *
108412928 TTCTATAGTATCTATCATCGGGAGAGTAAGAAC-AGTCCCGTCTACGATAATAACGATCATAAGG
1 TTCTATAGTATCGATCATCAGGAGAGTAAGAACGA-TCCCGTCTGCTATAGTAACGATCATCAGG
* *
108412992 TGAGTAGGACCGATCACGCC
65 AGAGTA-AACCGATCACGCC
* * * *
108413012 TTCGATAGTATCGATCTTCAGGTGAGTAGGAAC
1 TTCTATAGTATCGATCATCAGGAGAGTAAGAAC
108413045 AGTAACGATA
Statistics
Matches: 163, Mismatches: 31, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
80 1 0.01
81 56 0.34
83 4 0.02
84 101 0.62
85 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (83 bp):
TTCTATAGTATCGATCATCAGGAGAGTAAGAACGATCCCGTCTGCTATAGTAACGATCATCAGGA
GAGTAAACCGATCACGCC
Found at i:108428470 original size:59 final size:58
Alignment explanation
Indices: 108428363--108428473 Score: 136
Period size: 59 Copynumber: 1.9 Consensus size: 58
108428353 ACCTAACTTC
* ** *
108428363 TTTTTTTTTTGTCACTCAACTATAAAAAGTTATAAAATGGTCAGCCAACTATTAGTAA
1 TTTTTTTTTTGTCACTCAACTATAAAAAGTTACAAAATGACCACCCAACTATTAGTAA
*
108428421 TTTTCTTTTTTGGTCAC-CAGCTA-AGAAAAGTTACAAAATGACCACCCAACTAT
1 TTTT-TTTTTT-GTCACTCAACTATA-AAAAGTTACAAAATGACCACCCAACTAT
108428474 CCAATTCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
58 5 0.11
59 35 0.78
60 5 0.11
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (58 bp):
TTTTTTTTTTGTCACTCAACTATAAAAAGTTACAAAATGACCACCCAACTATTAGTAA
Found at i:108432265 original size:10 final size:9
Alignment explanation
Indices: 108432241--108432267 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
108432231 TATTAAAAAA
108432241 TTAAAAATT
1 TTAAAAATT
108432250 TTAAAAATT
1 TTAAAAATT
108432259 TTAAAAATT
1 TTAAAAATT
108432268 GCTTAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTAAAAATT
Found at i:108440530 original size:21 final size:20
Alignment explanation
Indices: 108440504--108440546 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
108440494 CATGTGGCAA
108440504 GTTAACTTGCCACATCAGCTG
1 GTTAACTTGCCACATCAG-TG
108440525 GTTAACTTGCCACATCAGTG
1 GTTAACTTGCCACATCAGTG
108440545 GT
1 GT
108440547 CCCGTTAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (20 bp):
GTTAACTTGCCACATCAGTG
Found at i:108442412 original size:15 final size:16
Alignment explanation
Indices: 108442387--108442416 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
108442377 CAATATTCAA
108442387 TTTTGTACCTAATTTT
1 TTTTGTACCTAATTTT
108442403 TTTTGT-CCTAATTT
1 TTTTGTACCTAATTT
108442417 GTACTTAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.17, C:0.13, G:0.07, T:0.63
Consensus pattern (16 bp):
TTTTGTACCTAATTTT
Found at i:108442735 original size:24 final size:25
Alignment explanation
Indices: 108442703--108442753 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
108442693 GGATTCAATG
* *
108442703 TTCACTTTGGTACCTAAGTTT-TTT
1 TTCAATTTGATACCTAAGTTTCTTT
* *
108442727 TTCAATTTGATACTTCAGTTTCTTT
1 TTCAATTTGATACCTAAGTTTCTTT
108442752 TT
1 TT
108442754 TTCCCAATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.18, C:0.16, G:0.10, T:0.57
Consensus pattern (25 bp):
TTCAATTTGATACCTAAGTTTCTTT
Found at i:108444508 original size:43 final size:43
Alignment explanation
Indices: 108444461--108444558 Score: 178
Period size: 43 Copynumber: 2.3 Consensus size: 43
108444451 CTCAAATCGA
108444461 ATTAGGATTTTTTTTTTAAAATTTCCTAATGACTCCAAATTGG
1 ATTAGGATTTTTTTTTTAAAATTTCCTAATGACTCCAAATTGG
**
108444504 ATTAGGATTTTTTTTTTTTAATTTCCTAATGACTCCAAATTGG
1 ATTAGGATTTTTTTTTTAAAATTTCCTAATGACTCCAAATTGG
108444547 ATTAGGATTTTT
1 ATTAGGATTTTT
108444559 ACAGCATTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (43 bp):
ATTAGGATTTTTTTTTTAAAATTTCCTAATGACTCCAAATTGG
Found at i:108447006 original size:31 final size:31
Alignment explanation
Indices: 108446940--108447007 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
108446930 CTTAACAACA
*
108446940 AATGACTTAAATAAAAACTTCGGGATAGCTC
1 AATGACTTAAATAAAAACTTCGGAATAGCTC
* * *
108446971 AATGATTTAAATAAAAACTTTC-GAATAGTTT
1 AATGACTTAAATAAAAAC-TTCGGAATAGCTC
108447002 AATGAC
1 AATGAC
108447008 CATTTTGTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 28 0.90
32 3 0.10
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (31 bp):
AATGACTTAAATAAAAACTTCGGAATAGCTC
Found at i:108447638 original size:6 final size:6
Alignment explanation
Indices: 108447627--108447651 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
108447617 TTTCATGTCT
108447627 CTCTCA CTCTCA CTCTCA CTCTCA C
1 CTCTCA CTCTCA CTCTCA CTCTCA C
108447652 AAGGATTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (6 bp):
CTCTCA
Found at i:108451322 original size:26 final size:26
Alignment explanation
Indices: 108451293--108451343 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
108451283 ACATACATAA
*
108451293 TTTGAATAATATACTGTTATGGTTTG
1 TTTGAATAATACACTGTTATGGTTTG
*
108451319 TTTGAATAATACACTGTTGTGGTTT
1 TTTGAATAATACACTGTTATGGTTT
108451344 ACATAATTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.06, G:0.20, T:0.49
Consensus pattern (26 bp):
TTTGAATAATACACTGTTATGGTTTG
Found at i:108451634 original size:128 final size:130
Alignment explanation
Indices: 108451318--108451708 Score: 448
Period size: 141 Copynumber: 2.9 Consensus size: 130
108451308 GTTATGGTTT
* * *
108451318 GTTTGAATAATACACTGTTGTGGTTTACATAATTGGGATGATGGTAGCTGCAGAATGGATAATAA
1 GTTTGAATAATATACTGTTGTGGTTTACATAATTGGGATGATGGTAGCTGCAGAATGGATATTGA
* * *
108451383 TTTGGGTTTTGATTCCAAGTCACTGATTTACCATATATTTTTATTATATACACATACATGCATGC
66 TTTGGGTTTTGATTCCAAGTCACTGATTCACCAT-T-TTTTTATTGT-T--ATATAC--G--T--
108451448 ATACATACATA
120 ATACATACATA
* *
108451459 GTTTGAATAATATACCGTTGTGGTTTACGTAATTGGGATGATGGTAGCTGCAGAATGGATATTGA
1 GTTTGAATAATATACTGTTGTGGTTTACATAATTGGGATGATGGTAGCTGCAGAATGGATATTGA
*
108451524 TTTGGGTTTTGATTCCAAGTCACTGATTCACC-TTTTTTT-TTGTTATATACGTATACATA-TTC
66 TTTGGGTTTTGATTCCAAGTCACTGATTCACCATTTTTTTATTGTTATATACGTATACATACAT-
108451586 A
130 A
* * * * **
108451587 GTTTGAATCATATACTTTTGTGGGTTAACATAACTGGGATGAT-GTAGCTGCAGAATGGACCTTG
1 GTTTGAATAATATACTGTTGT-GGTTTACATAATTGGGATGATGGTAGCTGCAGAATGGATATTG
* * * * * *
108451651 GTTTGGGGTTTGAGTCCAAGTCACTGATTCGCCATTTTTTTCTTGTTATATACATATA
65 ATTTGGGTTTTGATTCCAAGTCACTGATTCACCATTTTTTTATTGTTATATACGTATA
108451709 TGTGTATGAT
Statistics
Matches: 224, Mismatches: 22, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
127 1 0.00
128 74 0.33
129 25 0.11
130 16 0.07
132 1 0.00
134 5 0.02
136 1 0.00
137 3 0.01
138 5 0.02
139 1 0.00
140 1 0.00
141 91 0.41
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (130 bp):
GTTTGAATAATATACTGTTGTGGTTTACATAATTGGGATGATGGTAGCTGCAGAATGGATATTGA
TTTGGGTTTTGATTCCAAGTCACTGATTCACCATTTTTTTATTGTTATATACGTATACATACATA
Found at i:108462153 original size:15 final size:17
Alignment explanation
Indices: 108462127--108462158 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
108462117 TTTTATAACT
108462127 TTTTATATAA-TTAATA
1 TTTTATATAATTTAATA
108462143 TTTTA-ATAATTTAATA
1 TTTTATATAATTTAATA
108462159 GTTGAATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTATATAATTTAATA
Found at i:108468911 original size:18 final size:18
Alignment explanation
Indices: 108468879--108468930 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
108468869 CTGAGATGAG
108468879 AATAAATTT--TTAATTA
1 AATAAATTTAATTAATTA
*
108468895 AATAAATTTAATTAATTG
1 AATAAATTTAATTAATTA
*
108468913 AA-AAGTTTAAATTAATTA
1 AATAAATTT-AATTAATTA
108468931 CAACTGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 9 0.30
17 5 0.17
18 16 0.53
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (18 bp):
AATAAATTTAATTAATTA
Found at i:108469192 original size:16 final size:17
Alignment explanation
Indices: 108469167--108469206 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
108469157 GCCCAAATGC
108469167 CAAA-CCCAAAT-AAAA
1 CAAAGCCCAAATCAAAA
*
108469182 CAAAGCCCAAATCCAAA
1 CAAAGCCCAAATCAAAA
108469199 C-AAGCCCA
1 CAAAGCCCA
108469207 TTACAGCAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 14 0.64
17 4 0.18
ACGTcount: A:0.55, C:0.35, G:0.05, T:0.05
Consensus pattern (17 bp):
CAAAGCCCAAATCAAAA
Found at i:108470343 original size:15 final size:15
Alignment explanation
Indices: 108470323--108470357 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
108470313 TATTTTAATA
108470323 TATTATCATCATTAT
1 TATTATCATCATTAT
*
108470338 TATTATCATTATTAT
1 TATTATCATCATTAT
108470353 TATTA
1 TATTA
108470358 ACCTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTATCATCATTAT
Found at i:108470353 original size:12 final size:12
Alignment explanation
Indices: 108470323--108470355 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
108470313 TATTTTAATA
*
108470323 TATTATCATCAT
1 TATTATTATCAT
108470335 TATTATTATCAT
1 TATTATTATCAT
108470347 TATTATTAT
1 TATTATTAT
108470356 TAACCTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTATTATCAT
Found at i:108470364 original size:15 final size:15
Alignment explanation
Indices: 108470323--108470369 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
108470313 TATTTTAATA
* *
108470323 TATTATCATCATTAT
1 TATTAACATTATTAT
*
108470338 TATTATCATTATTAT
1 TATTAACATTATTAT
*
108470353 TATTAACCTTATTAT
1 TATTAACATTATTAT
108470368 TA
1 TA
108470370 CTAGTAACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTAACATTATTAT
Found at i:108476558 original size:83 final size:84
Alignment explanation
Indices: 108476419--108476581 Score: 292
Period size: 83 Copynumber: 2.0 Consensus size: 84
108476409 GATCATCGTC
108476419 GCATCAACAACAATACTTGGGTTTCACATTGACATTAAATCAAACACATAGAATGCATAAAAA-A
1 GCATCAACAACAATACTTGGGTTTCACATTGACATTAAATCAAACACATAGAATGCATAAAAACA
*
108476483 CCAACACTCTTTTCATGTA
66 ACAACACTCTTTTCATGTA
* *
108476502 GCATCAATAACAATACTTGGTTTTCACATTGACATTAAATCAAACACATAGAATGCATAAAAACA
1 GCATCAACAACAATACTTGGGTTTCACATTGACATTAAATCAAACACATAGAATGCATAAAAACA
108476567 ACAACACTCTTTTCA
66 ACAACACTCTTTTCA
108476582 CGTATATTTC
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
83 61 0.80
84 15 0.20
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.27
Consensus pattern (84 bp):
GCATCAACAACAATACTTGGGTTTCACATTGACATTAAATCAAACACATAGAATGCATAAAAACA
ACAACACTCTTTTCATGTA
Found at i:108477920 original size:56 final size:56
Alignment explanation
Indices: 108477851--108477957 Score: 214
Period size: 56 Copynumber: 1.9 Consensus size: 56
108477841 TACAACCATC
108477851 CACATAGTGTATGTGTTTTACTATATATGTGTGGATGATATGCTGAAAATGGCAAT
1 CACATAGTGTATGTGTTTTACTATATATGTGTGGATGATATGCTGAAAATGGCAAT
108477907 CACATAGTGTATGTGTTTTACTATATATGTGTGGATGATATGCTGAAAATG
1 CACATAGTGTATGTGTTTTACTATATATGTGTGGATGATATGCTGAAAATG
108477958 ATTGCCATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.38
Consensus pattern (56 bp):
CACATAGTGTATGTGTTTTACTATATATGTGTGGATGATATGCTGAAAATGGCAAT
Found at i:108486020 original size:30 final size:29
Alignment explanation
Indices: 108485961--108486020 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
108485951 CATGATTAAA
* *
108485961 TTAGTCCCTCTACTATTAAATATATCAAT
1 TTAGTCCCTCTACTATTAAAAAAATCAAT
108485990 TTAGTCCC-CATACTATTAAAAAGAATCAAT
1 TTAGTCCCTC-TACTATTAAAAA-AATCAAT
108486020 T
1 T
108486021 AAAGCCTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 1 0.04
29 19 0.70
30 7 0.26
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.37
Consensus pattern (29 bp):
TTAGTCCCTCTACTATTAAAAAAATCAAT
Found at i:108486557 original size:6 final size:6
Alignment explanation
Indices: 108486546--108486577 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
108486536 TTTTTACATA
108486546 TTGGAT TTGGAT TTGGAT TTGGAT TTGGAT TT
1 TTGGAT TTGGAT TTGGAT TTGGAT TTGGAT TT
108486578 AAATTCAGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (6 bp):
TTGGAT
Found at i:108488043 original size:10 final size:10
Alignment explanation
Indices: 108488025--108488103 Score: 60
Period size: 10 Copynumber: 8.1 Consensus size: 10
108488015 ATTTATATTT
108488025 TAAAAAATTA
1 TAAAAAATTA
*
108488035 TACAAAATT-
1 TAAAAAATTA
*
108488044 TAAAAAATTC
1 TAAAAAATTA
108488054 TAAAAAATATA
1 TAAAAAAT-TA
*
108488065 TAAAAAGTT-
1 TAAAAAATTA
108488074 T--AAAA-TA
1 TAAAAAATTA
*
108488081 TAAAAAATTTC
1 TAAAAAA-TTA
108488092 TAAAATAATTA
1 TAAAA-AATTA
108488103 T
1 T
108488104 TATGGGACCT
Statistics
Matches: 54, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
6 1 0.02
7 4 0.07
9 13 0.24
10 17 0.31
11 17 0.31
12 2 0.04
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:108488052 original size:9 final size:9
Alignment explanation
Indices: 108488023--108488090 Score: 59
Period size: 9 Copynumber: 7.3 Consensus size: 9
108488013 AAATTTATAT
108488023 TTTAAAAAA
1 TTTAAAAAA
*
108488032 TTATACAAAA
1 TT-TAAAAAA
108488042 TTTAAAAAA
1 TTTAAAAAA
108488051 TTCTAAAAAA
1 TT-TAAAAAA
*
108488061 TATATAAAAAG
1 T-T-TAAAAAA
108488072 TTT--AAAA
1 TTTAAAAAA
*
108488079 TATAAAAAA
1 TTTAAAAAA
108488088 TTT
1 TTT
108488091 CTAAAATAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
7 5 0.11
9 17 0.36
10 17 0.36
11 8 0.17
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:108488060 original size:19 final size:19
Alignment explanation
Indices: 108488023--108488101 Score: 65
Period size: 19 Copynumber: 4.1 Consensus size: 19
108488013 AAATTTATAT
* *
108488023 TTTAAAAAATTATACAAAA
1 TTTAAAAAATTCTAAAAAA
108488042 TTTAAAAAATTCTAAAAAA
1 TTTAAAAAATTCTAAAAAA
*
108488061 TATATAAAAAGTT-T--AAAA
1 T-T-TAAAAAATTCTAAAAAA
*
108488079 TATAAAAAATTTCTAAAATAA
1 TTTAAAAAA-TTCTAAAA-AA
108488100 TT
1 TT
108488102 ATTATGGGAC
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
16 6 0.13
17 2 0.04
18 6 0.13
19 18 0.38
20 4 0.09
21 11 0.23
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (19 bp):
TTTAAAAAATTCTAAAAAA
Found at i:108488097 original size:18 final size:18
Alignment explanation
Indices: 108488025--108488098 Score: 64
Period size: 18 Copynumber: 4.0 Consensus size: 18
108488015 ATTTATATTT
*
108488025 TAAAAAATTATAC-AAAATT
1 TAAAAAATT-T-CTAAAATA
108488044 TAAAAAA-TTCTAAAAAATA
1 TAAAAAATTTCT--AAAATA
*
108488063 TATAAAAAGTT-TAAAATA
1 TA-AAAAATTTCTAAAATA
108488081 TAAAAAATTTCTAAAATA
1 TAAAAAATTTCTAAAATA
108488099 ATTATTATGG
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
16 1 0.02
17 8 0.17
18 16 0.34
19 14 0.30
20 6 0.13
21 2 0.04
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (18 bp):
TAAAAAATTTCTAAAATA
Found at i:108504555 original size:35 final size:35
Alignment explanation
Indices: 108504514--108504616 Score: 116
Period size: 35 Copynumber: 2.9 Consensus size: 35
108504504 TAAGTATGTA
* *
108504514 CATGTGAGGTCATATTGAGTTTGTATATTCGGCTG
1 CATGTGAGGTTATATTGAATTTGTATATTCGGCTG
* * * *** *
108504549 CTTGTGAAGTTATATTGAACTTGTATATTCAATTT
1 CATGTGAGGTTATATTGAATTTGTATATTCGGCTG
*
108504584 CATATGAGGTTATATTGAATTTGTATATTCGGC
1 CATGTGAGGTTATATTGAATTTGTATATTCGGC
108504617 CATATGAGAT
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.25, C:0.10, G:0.21, T:0.44
Consensus pattern (35 bp):
CATGTGAGGTTATATTGAATTTGTATATTCGGCTG
Found at i:108510360 original size:20 final size:22
Alignment explanation
Indices: 108510335--108510376 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
108510325 AATGCAAAAA
*
108510335 AAATAAAACT-AT-TAAATATT
1 AAATAAAAATAATATAAATATT
108510355 AAATAAAAATAATATAAATATT
1 AAATAAAAATAATATAAATATT
108510377 TTTCAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATAAAAATAATATAAATATT
Found at i:108514550 original size:15 final size:15
Alignment explanation
Indices: 108514519--108514547 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
108514509 ATATATATTA
108514519 AAAGCTACTATTTTT
1 AAAGCTACTATTTTT
108514534 AAAGCTA-TATTTTT
1 AAAGCTACTATTTTT
108514548 TAACCACTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.48
Consensus pattern (15 bp):
AAAGCTACTATTTTT
Found at i:108522411 original size:7 final size:7
Alignment explanation
Indices: 108522399--108522423 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
108522389 CAAGCTTGAA
108522399 TTGAATT
1 TTGAATT
108522406 TTGAATT
1 TTGAATT
108522413 TTGAATT
1 TTGAATT
108522420 TTGA
1 TTGA
108522424 GTCAAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
TTGAATT
Found at i:108525396 original size:14 final size:14
Alignment explanation
Indices: 108525377--108525404 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
108525367 GCAGTCATGC
108525377 CTTGAAGACTCCAT
1 CTTGAAGACTCCAT
108525391 CTTGAAGACTCCAT
1 CTTGAAGACTCCAT
108525405 TTTGCTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (14 bp):
CTTGAAGACTCCAT
Found at i:108530342 original size:48 final size:48
Alignment explanation
Indices: 108530285--108530388 Score: 190
Period size: 48 Copynumber: 2.2 Consensus size: 48
108530275 TCGGATGGGT
* *
108530285 GAACGAGATCTACGGTGCACAGGTGTAGGTGACCTGCGCCGATAAGGA
1 GAACGAGATCTACGGCGCACAGGTGTAGGTGACCCGCGCCGATAAGGA
108530333 GAACGAGATCTACGGCGCACAGGTGTAGGTGACCCGCGCCGATAAGGA
1 GAACGAGATCTACGGCGCACAGGTGTAGGTGACCCGCGCCGATAAGGA
108530381 GAACGAGA
1 GAACGAGA
108530389 CTGAGATCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.29, C:0.22, G:0.36, T:0.13
Consensus pattern (48 bp):
GAACGAGATCTACGGCGCACAGGTGTAGGTGACCCGCGCCGATAAGGA
Found at i:108534873 original size:29 final size:29
Alignment explanation
Indices: 108534816--108534890 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
108534806 ATACTCTTCA
*
108534816 TAAA-TTTAAAATTTAGTCCCTGTA-TTT
1 TAAATTTTAAAATTTAGTCCCTCTACTTT
* * *
108534843 TTATTTTTAGAAATTTAGTCTCTCTACTTT
1 TAAATTTTA-AAATTTAGTCCCTCTACTTT
108534873 TCAAATTTTAAAATTTAG
1 T-AAATTTTAAAATTTAG
108534891 GTTCAACAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
27 2 0.05
28 4 0.11
29 14 0.37
30 12 0.32
31 6 0.16
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.51
Consensus pattern (29 bp):
TAAATTTTAAAATTTAGTCCCTCTACTTT
Found at i:108539490 original size:24 final size:24
Alignment explanation
Indices: 108539461--108539507 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
108539451 ATTTTGATGC
108539461 TTGACTTTATAGGTTTTGACCTTT
1 TTGACTTTATAGGTTTTGACCTTT
108539485 TTGACTTTATAGGTTTTGACCTT
1 TTGACTTTATAGGTTTTGACCTT
108539508 CAATGCTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.53
Consensus pattern (24 bp):
TTGACTTTATAGGTTTTGACCTTT
Found at i:108539685 original size:232 final size:231
Alignment explanation
Indices: 108539272--108539690 Score: 583
Period size: 232 Copynumber: 1.8 Consensus size: 231
108539262 TACTTCTTGG
* * * **
108539272 CCTTCATTGCTAGTTAGTGGTGTTACCGGGACTTGGGTGTGAGCTTTGGATAGCCTATATCTCTG
1 CCTTCAATGCTAGTTAGTGGTGTTACCGGGACTTGGGTGTGAGCTTTGCATAGCCTACATCTCCA
* * * * *
108539337 ATGTACATTAGATATGGGTGCAGATATGAGTACTTCAAGAAAAATAGGAGTTCAAGCAGTATAGC
66 ATATACATTAGATATGGGTGCAGATAAGAGTACGTAAAGAAAAATAGGAGTTCAAGCAATATAGC
* * * *
108539402 TAGTCAGTGATTTCTAAGCTATGAGAAAGTACTGAAAACCACATTGTGCATTTTGATGCTTGACT
131 TAGTCAGTAATTTCGAAGCTATGAGAAACTAATG-AAACCACATTGTGCATTTTGATGCTTGACT
108539467 TTATAGGTTTTGACCTTTTTGACTTTATAGGTTTTGA
195 TTATAGGTTTTGACCTTTTTGACTTTATAGGTTTTGA
*
108539504 CCTTCAATGCTAGTTAGCT-GTGTTACCGGGACTTGGGTGTGAG-TGTTGCATAGCCTACATGTC
1 CCTTCAATGCTAGTTAG-TGGTGTTACCGGGACTTGGGTGTGAGCT-TTGCATAGCCTACATCTC
* * * **
108539567 CAATATGCATTAGATATGGGTGTTAGATAAGGGTACGTAAAGAAAAATGAGGAGTTTGAGCAATA
64 CAATATACATTAGATATGGGTG-CAGATAAGAGTACGTAAAGAAAAAT-AGGAGTTCAAGCAATA
*
108539632 TAGCTAGTCGGTAATTTCGAAGCTATGAGAAACTAATG-AACCACATTGTGCATTTTGAT
127 TAGCTAGTCAGTAATTTCGAAGCTATGAGAAACTAATGAAACCACATTGTGCATTTTGAT
108539691 ATTTGAATCT
Statistics
Matches: 162, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
231 1 0.01
232 94 0.58
233 21 0.13
234 46 0.28
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (231 bp):
CCTTCAATGCTAGTTAGTGGTGTTACCGGGACTTGGGTGTGAGCTTTGCATAGCCTACATCTCCA
ATATACATTAGATATGGGTGCAGATAAGAGTACGTAAAGAAAAATAGGAGTTCAAGCAATATAGC
TAGTCAGTAATTTCGAAGCTATGAGAAACTAATGAAACCACATTGTGCATTTTGATGCTTGACTT
TATAGGTTTTGACCTTTTTGACTTTATAGGTTTTGA
Found at i:108540091 original size:197 final size:197
Alignment explanation
Indices: 108539591--108540093 Score: 554
Period size: 197 Copynumber: 2.6 Consensus size: 197
108539581 TATGGGTGTT
* * ** * *
108539591 AGATAAGGGTACGTAAAGAAAAATGAGGAGT-TTGAGCAATATAGCTAGTCGGTAATTTCGAAGC
1 AGATATGGGTACTTAAAGAAAAATGAGGAGTGTCCA-AAATATAGCTAGTCGGTAATTTCTAAGC
* *
108539655 TATGAGAAACTAATG--AACCACATTGTGCATTTTGATATTTGAATCTATAGTTTTCAGTCTTTA
65 TATGAGAAACTAATGAAAACCACATTGTGCATTTTGATATTTGAATCTATAGTTTTCAGCCTTCA
* * * *
108539718 GTGCTAGTTAACTGTGTTACCGGGACTTGGGTGTTAGCATTGGATAGCCTATATGTCTAATATGC
130 GTGCTAGTTAACTATGTTACCGGGACTTGGGTGTGAGCATTGGATAGCCCATATGTCAAATATGC
108539783 ATC
195 ATC
* * * *
108539786 AGATATGGGTACTTAAAGAAAAATGAGGAGTTTGCACAATATAGCTAGTCGGTAATCTCTAAGCT
1 AGATATGGGTACTTAAAGAAAAATGAGGAGTGTCCAAAATATAGCTAGTCGGTAATTTCTAAGCT
* * * *
108539851 ATGAAAAACTAATGAAGAACCACATTGTGCATTTTGGTATTTGAATTTATAGTTTT-TGACCTTC
66 ATGAGAAACTAATGAA-AACCACATTGTGCATTTTGATATTTGAATCTATAGTTTTCAG-CCTTC
* * * * *
108539915 ATTGCTA-TTTAGTCATGTTACCGGGACTTGGGTGTGA-CGTTGGATGGCCCATATGTCAAATAT
129 AGTGCTAGTTAACT-ATGTTACCGGGACTTGGGTGTGAGCATTGGATAGCCCATATGTCAAATAT
*
108539978 GCATT
193 GCATC
* ** * * *
108539983 AGATGTTTGTACTTCAAGAAAAATGA-G-GTGTCCAAATATAATAGCAAGTTGGTAATTTCTAAG
1 AGATATGGGTACTTAAAGAAAAATGAGGAGTGTCCAAA-AT-ATAGCTAGTCGGTAATTTCTAAG
* * * * *
108540046 CTATGGGAAATTAATGAATAACCACATTTTGCATTCTGCTATTTGAAT
64 CTATGAGAAACTAATGAA-AACCACATTGTGCATTTTGATATTTGAAT
108540094 GACATTCAAT
Statistics
Matches: 261, Mismatches: 39, Indels: 14
0.83 0.12 0.04
Matches are distributed among these distances:
195 75 0.29
196 5 0.02
197 114 0.44
198 67 0.26
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (197 bp):
AGATATGGGTACTTAAAGAAAAATGAGGAGTGTCCAAAATATAGCTAGTCGGTAATTTCTAAGCT
ATGAGAAACTAATGAAAACCACATTGTGCATTTTGATATTTGAATCTATAGTTTTCAGCCTTCAG
TGCTAGTTAACTATGTTACCGGGACTTGGGTGTGAGCATTGGATAGCCCATATGTCAAATATGCA
TC
Found at i:108541971 original size:12 final size:12
Alignment explanation
Indices: 108541954--108541979 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
108541944 AATGGGCCTT
108541954 AATATATTCAAA
1 AATATATTCAAA
108541966 AATATATTCAAA
1 AATATATTCAAA
108541978 AA
1 AA
108541980 GGGACATGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AATATATTCAAA
Found at i:108551548 original size:30 final size:30
Alignment explanation
Indices: 108551486--108551549 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
108551476 TCTAGATGAA
*
108551486 AAAAGTAAAAAAATTAAATTGATCAATTTT
1 AAAAGTAAAAAAATTAAATTGATCAATATT
** *
108551516 AAAAGTAAAACGATTAAAATTGATTAA-ATT
1 AAAAGTAAAAAAATT-AAATTGATCAATATT
108551546 AAAA
1 AAAA
108551550 ATATAAACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 19 0.66
31 10 0.34
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (30 bp):
AAAAGTAAAAAAATTAAATTGATCAATATT
Found at i:108553522 original size:2 final size:2
Alignment explanation
Indices: 108553515--108553544 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
108553505 AATCAACCAA
108553515 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
108553545 TACATACATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:108555728 original size:16 final size:16
Alignment explanation
Indices: 108555707--108555757 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
108555697 CTTTTTTATT
108555707 TTTATATATTATACAA
1 TTTATATATTATACAA
*
108555723 TTTATAT-TATATAAAAA
1 TTTATATAT-TAT-ACAA
*
108555740 TTAACTATATTATACAA
1 TTTA-TATATTATACAA
108555757 T
1 T
108555758 AATATGAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
15 1 0.04
16 10 0.36
17 10 0.36
18 6 0.21
19 1 0.04
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTATATATTATACAA
Found at i:108558063 original size:15 final size:15
Alignment explanation
Indices: 108558043--108558074 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
108558033 ATCTTGCCAT
*
108558043 ATATATAGACATATA
1 ATATATACACATATA
108558058 ATATATACACATATA
1 ATATATACACATATA
108558073 AT
1 AT
108558075 TGTTTTGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.34
Consensus pattern (15 bp):
ATATATACACATATA
Found at i:108565374 original size:20 final size:22
Alignment explanation
Indices: 108565336--108565375 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
108565326 ACTGACTGTA
*
108565336 TTATATAAATGGATTAAAAACC
1 TTATATAAATGGATGAAAAACC
108565358 TTATATAAA-GGA-GAAAAA
1 TTATATAAATGGATGAAAAA
108565376 TTAACCGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 3 0.18
22 9 0.53
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.28
Consensus pattern (22 bp):
TTATATAAATGGATGAAAAACC
Found at i:108566132 original size:10 final size:9
Alignment explanation
Indices: 108566091--108566151 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
108566081 CTTTAGATAA
108566091 TTTTTAA-T
1 TTTTTAATT
108566099 TTTTTAATT
1 TTTTTAATT
108566108 TTCTTTATATAT
1 TT-TTTA-AT-T
108566120 TTTTTAGATT
1 TTTTTA-ATT
*
108566130 TTTTTAAAT
1 TTTTTAATT
**
108566139 TTTAGAATT
1 TTTTTAATT
108566148 TTTT
1 TTTT
108566152 AAAAAATAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
8 7 0.16
9 14 0.33
10 11 0.26
11 8 0.19
12 3 0.07
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (9 bp):
TTTTTAATT
Found at i:108566143 original size:17 final size:17
Alignment explanation
Indices: 108566121--108566154 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
108566111 TTTATATATT
*
108566121 TTTTAGATTTTTTTAAA
1 TTTTAGAATTTTTTAAA
108566138 TTTTAGAATTTTTTAAA
1 TTTTAGAATTTTTTAAA
108566155 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TTTTAGAATTTTTTAAA
Found at i:108566193 original size:19 final size:19
Alignment explanation
Indices: 108566157--108566212 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
108566147 TTTTTAAAAA
*
108566157 ATAAAAATTTTAGAATTTTT
1 ATAAATATTTT-GAATTTTT
108566177 ATAAATATTTTGAA-TTTT
1 ATAAATATTTTGAATTTTT
*
108566195 AAAAATTATTTTGAATTT
1 ATAAA-TATTTTGAATTT
108566213 ATTTTTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.25
19 12 0.38
20 12 0.38
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
ATAAATATTTTGAATTTTT
Found at i:108569546 original size:25 final size:25
Alignment explanation
Indices: 108569518--108569573 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
108569508 AACCATAGTG
108569518 AAAAGTAAACTAATTCCATTACTAT
1 AAAAGTAAACTAATTCCATTACTAT
108569543 AAAAGTAAACTAATTCCATTACTAT
1 AAAAGTAAACTAATTCCATTACTAT
108569568 AAAAGT
1 AAAAGT
108569574 GATTTTGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.30
Consensus pattern (25 bp):
AAAAGTAAACTAATTCCATTACTAT
Found at i:108574987 original size:60 final size:61
Alignment explanation
Indices: 108574900--108575014 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 61
108574890 ACATTTTCTT
* **
108574900 AATTTAGTACCTAAACTTGACACTTTTTCTTAAGTTGGTACTTAAT-CTTTTTTGGGGTCC
1 AATTTAGTACCTAAACTTGACACTTTTTCCTAAGTTGGTACCAAATCCTTTTTTGGGGTCC
*** *
108574960 AATTTAGTACCTAAACTTGATTTTTTTTCCTAATTTGGTACCAAATCCTTTTTTG
1 AATTTAGTACCTAAACTTGACACTTTTTCCTAAGTTGGTACCAAATCCTTTTTTG
108575015 TTTGATTTGG
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
60 39 0.83
61 8 0.17
ACGTcount: A:0.24, C:0.17, G:0.12, T:0.47
Consensus pattern (61 bp):
AATTTAGTACCTAAACTTGACACTTTTTCCTAAGTTGGTACCAAATCCTTTTTTGGGGTCC
Found at i:108594275 original size:205 final size:205
Alignment explanation
Indices: 108593923--108594723 Score: 895
Period size: 205 Copynumber: 4.0 Consensus size: 205
108593913 TCATAGGTTC
* * **
108593923 CTATAACTCTCTAAAGTAAAATACTGGTCACCGGACAATGAAACATTCTCTCGAGTCAAATCCAA
1 CTATAACTCTCTAAAGCAAAATACTAGTCACCGGACAACAAAACATTCTCTCGAGTCAAATCCAA
* * ** * *
108593988 TCTTATGGACCAACTTGTACTAAGACATTCATTCACCAGACTTTCGCAATACATCTCGTTTCCAC
66 TTTTATGGACCAACTTCTACCGAGACATTCATTCACCAGACTTTCGCAATGCATCTCGTTTCCAT
* * * **
108594053 GACAGAACGAAGATGAAAGCTCATACATGTGTTTATGCAAA-CTGAGTTTTAGCTTCTCAAGGTG
131 GATAGAACAAAGATGAAAGCTCAT-CATGTGTTTATGCAAACCCGAGTTTTAGCTTCTCAATATG
*
108594117 CAGCGATGTTT
195 CAGCAATGTTT
* ** * **
108594128 CTATAACTCTCTAAAGCAAGATACTAGTTGCCGGACTACAAAACATTCTCAAGAGTCAAATCCAA
1 CTATAACTCTCTAAAGCAAAATACTAGTCACCGGACAACAAAACATTCTCTCGAGTCAAATCCAA
** * * *
108594193 TTTTATGGACCAGGTTCAACCGAGACATTCATATC-CCGGACTTTCGCAATGCATCTCGTTTCCG
66 TTTTATGGACCAACTTCTACCGAGACATTCAT-TCACCAGACTTTCGCAATGCATCTCGTTTCCA
* * *
108594257 TGATAGAACAAAGATGAAAGCTCGTACATGTGTTTATG-AAAACCAAGTTTTAGCTTCTCAATAT
130 TGATAGAACAAAGATGAAAGCTCAT-CATGTGTTTATGCAAACCCGAGTTTTAGCTTCTCAATAT
108594321 GCAGCAATGTTT
194 GCAGCAATGTTT
* *
108594333 CTATAACTCTCTAAAGGAAAATACTAGTCGCCGGACAACAAAACA-T-T-TC--G---------A
1 CTATAACTCTCTAAAGCAAAATACTAGTCACCGGACAACAAAACATTCTCTCGAGTCAAATCCAA
* * * *
108594384 TTTTATGGACCAACTTCGACCGAGACATTCATTCACTATACTTTCGCAATGCATCTTGTTTCCAT
66 TTTTATGGACCAACTTCTACCGAGACATTCATTCACCAGACTTTCGCAATGCATCTCGTTTCCAT
* *
108594449 GATAGAACAGAGATGAAAGCT-AGGTCTTGTGTTTATGCAAACCCGAGTTTTAGCTTCTCAATAT
131 GATAGAACAAAGATGAAAGCTCA--TCATGTGTTTATGCAAACCCGAGTTTTAGCTTCTCAATAT
108594513 GCAGCAATGTTT
194 GCAGCAATGTTT
* * *
108594525 CTACAACTCTCTAAAGCAAAATACTAGTCACCGGACAACAAAACTTTCTCTCGAGTCAAATCCGA
1 CTATAACTCTCTAAAGCAAAATACTAGTCACCGGACAACAAAACATTCTCTCGAGTCAAATCCAA
* * * ** *
108594590 TTTTATGGAGCAACTTGTACCGAGACATTCATTGACTGGACTTTCGCAATGCATCTCGTAT-CA-
66 TTTTATGGACCAACTTCTACCGAGACATTCATTCACCAGACTTTCGCAATGCATCTCGTTTCCAT
*** * * * *
108594653 GAAATAGAATGGAGATGAAAGCTCGGTCGTGTGTCTACGCAAACCCGAGTTTTAGCTTCTCAATA
131 G--ATAGAACAAAGATGAAAGCTC-ATCATGTGTTTATGCAAACCCGAGTTTTAGCTTCTCAATA
*
108594718 TACAGC
193 TGCAGC
108594724 CAGGATTAAA
Statistics
Matches: 505, Mismatches: 67, Indels: 47
0.82 0.11 0.08
Matches are distributed among these distances:
190 2 0.00
191 86 0.17
192 78 0.15
193 1 0.00
194 1 0.00
195 2 0.00
197 1 0.00
200 1 0.00
203 1 0.00
204 5 0.01
205 212 0.42
206 115 0.23
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (205 bp):
CTATAACTCTCTAAAGCAAAATACTAGTCACCGGACAACAAAACATTCTCTCGAGTCAAATCCAA
TTTTATGGACCAACTTCTACCGAGACATTCATTCACCAGACTTTCGCAATGCATCTCGTTTCCAT
GATAGAACAAAGATGAAAGCTCATCATGTGTTTATGCAAACCCGAGTTTTAGCTTCTCAATATGC
AGCAATGTTT
Found at i:108597792 original size:29 final size:29
Alignment explanation
Indices: 108597734--108597790 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
108597724 CGCGAGCCTT
*
108597734 GGGGCAAAAATGTAATATGTAAAAGTTTA
1 GGGGCAAAAATGTAATATGAAAAAGTTTA
* *
108597763 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAA-TATGAAAAAGTT
108597791 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.42, C:0.04, G:0.25, T:0.30
Consensus pattern (29 bp):
GGGGCAAAAATGTAATATGAAAAAGTTTA
Found at i:108598237 original size:50 final size:50
Alignment explanation
Indices: 108598124--108598364 Score: 263
Period size: 50 Copynumber: 4.7 Consensus size: 50
108598114 ATTTGGGTAA
* * *
108598124 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
108598180 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
108598230 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
108598280 AGAGGTCCC-TATAAGACCATGTGCT-GGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGT-CTGGGACATGGCATGGGCACCGA-GACG
* **
108598329 AAAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 -AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
108598365 TTTGGCATGT
Statistics
Matches: 161, Mismatches: 19, Indels: 15
0.83 0.10 0.08
Matches are distributed among these distances:
48 1 0.01
49 30 0.19
50 64 0.40
51 21 0.13
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:108598358 original size:100 final size:103
Alignment explanation
Indices: 108598128--108598372 Score: 313
Period size: 100 Copynumber: 2.4 Consensus size: 103
108598118 GGGTAAAGAG
*
108598128 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCCCTGT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCCCTAT
* * *
108598193 AAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAG
63 AAGACCATGTCTGGGACATGGCATGGGCACCGACACGAAAC
* * * *
108598234 GTCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGT-CCCTATAAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAG
108598295 ACCATGTGCT-GGACATGGCATGGGCACC-ATCACGAAAAC
66 ACCATGT-CTGGGACATGGCATGGGCACCGA-CACG-AAAC
*
108598334 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
108598373 GTTATTATCA
Statistics
Matches: 124, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
98 1 0.01
99 36 0.29
100 48 0.39
101 2 0.02
105 2 0.02
106 35 0.28
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.22
Consensus pattern (103 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAG
ACCATGTCTGGGACATGGCATGGGCACCGACACGAAAC
Found at i:108605346 original size:29 final size:30
Alignment explanation
Indices: 108605287--108605344 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
108605277 TCCGAGCCTT
*
108605287 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
108605317 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
108605345 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:108605574 original size:13 final size:13
Alignment explanation
Indices: 108605556--108605587 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
108605546 TTTCCAGCAA
108605556 TTATGAATTTATT
1 TTATGAATTTATT
108605569 TTATGAATTTATT
1 TTATGAATTTATT
*
108605582 TGATGA
1 TTATGA
108605588 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:108605795 original size:50 final size:50
Alignment explanation
Indices: 108605682--108605923 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
108605672 ATTTGGGTAA
* * *
108605682 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
108605738 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
108605788 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
108605838 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
108605888 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
108605924 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:108605871 original size:100 final size:103
Alignment explanation
Indices: 108605682--108605931 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
108605672 ATTTGGGTAA
108605682 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
108605747 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
108605788 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
108605850 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
108605888 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
108605932 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:108607900 original size:21 final size:21
Alignment explanation
Indices: 108607856--108607900 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
108607846 CTATACCAAC
*
108607856 AAATAATTTAAAAATTATAAA
1 AAATAATTTAAAAATTACAAA
*
108607877 AAATATTTTAAAAA-TACAATA
1 AAATAATTTAAAAATTACAA-A
108607898 AAA
1 AAA
108607901 AAACTACGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATAATTTAAAAATTACAAA
Found at i:108611439 original size:17 final size:17
Alignment explanation
Indices: 108611417--108611451 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
108611407 TTATTATTGA
108611417 CCCATAAAAAATATCAT
1 CCCATAAAAAATATCAT
108611434 CCCATAAAAAATATCAT
1 CCCATAAAAAATATCAT
108611451 C
1 C
108611452 AAGGGACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (17 bp):
CCCATAAAAAATATCAT
Found at i:108611736 original size:19 final size:20
Alignment explanation
Indices: 108611709--108611746 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
108611699 TATTTTCACA
108611709 TTATCTTTTTAAA-ATTGAC
1 TTATCTTTTTAAATATTGAC
*
108611728 TTATTTTTTTAAATATTGA
1 TTATCTTTTTAAATATTGA
108611747 AAAAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (20 bp):
TTATCTTTTTAAATATTGAC
Found at i:108612039 original size:18 final size:18
Alignment explanation
Indices: 108611992--108612042 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
108611982 GGTCCGACAT
* *
108611992 CAGCTCCAACGACGGCCA
1 CAGCTCCATCGGCGGCCA
108612010 CAGCTCCATCGGCGGCCA
1 CAGCTCCATCGGCGGCCA
* *
108612028 CGGCTCCGTCGGCGG
1 CAGCTCCATCGGCGG
108612043 GAAAGGCGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.16, C:0.43, G:0.31, T:0.10
Consensus pattern (18 bp):
CAGCTCCATCGGCGGCCA
Found at i:108615491 original size:14 final size:14
Alignment explanation
Indices: 108615472--108615499 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
108615462 ATCAATTTTG
108615472 ACCCAAAACCCAAT
1 ACCCAAAACCCAAT
108615486 ACCCAAAACCCAAT
1 ACCCAAAACCCAAT
108615500 CCTAATCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.43, G:0.00, T:0.07
Consensus pattern (14 bp):
ACCCAAAACCCAAT
Found at i:108626382 original size:176 final size:175
Alignment explanation
Indices: 108625875--108626443 Score: 648
Period size: 176 Copynumber: 3.2 Consensus size: 175
108625865 ACTGTATTTA
* * * * *
108625875 ATCTATTGTCTTCTTGTTTCATATATATTCTCAGAAACCAAACAGTAGGTAAACGATCAATTAAA
1 ATCTATAGTCTTCTTTTTTC-CATATATTCTCAGGAACCAAACAGTAGATAAACGATCAATTAAA
* *
108625940 CTGAGAGAC-AATACATACAATT-CTAACAAAAGTATCACAATGCTAAGCAAAATCAGATACGAA
65 CTGAGA-ACGGATACATACAATTCCT-ACAAAATTATCACAATGCTAAGCAAAATCAGAT-CGAA
* *** *
108626003 GATCATCGAA-CTATGATGTTATATAATAAAATGTGAATCTGAAATTTCC
127 AATCATC-AATCTATGATGTTATATAATAAAACAAGAATCTGAAATTTTC
* * * * ** *
108626052 ATCTATTGTCCTT-TTTTTTCTATATATTCGCAGGAACCAAA-AGTAGCTAAATTATCAGTTAAA
1 ATCTATAGT-CTTCTTTTTTCCATATATTCTCAGGAACCAAACAGTAGATAAACGATCAATTAAA
* * * * *
108626115 CTGAG--CGGATACATACAAATCCCAACAAAATTATCACAATGCCAAACAAAAGCAGATCGAAAA
65 CTGAGAACGGATACATAC-AATTCCTACAAAATTATCACAATGCTAAGCAAAATCAGATCGAAAA
** *
108626178 GAATCAATGTATGATGTTATATAATAAAACAAGAATCTGAAATTTTC
129 TCATCAATCTATGATGTTATATAATAAAACAAGAATCTGAAATTTTC
* * *
108626225 ATATATAGTCTTCTTTTTCCCAGTATACTCTCAGGAACCAAACAGTAGATAAACGATCAATTAAA
1 ATCTATAGTCTTCTTTTTTCCA-TATATTCTCAGGAACCAAACAGTAGATAAACGATCAATTAAA
* * * * **
108626290 CTGAGAACGGAGACTTACATTTCCTACAAACTTATCGGAATGCTAAGCAAAATCAGATCGAAAAT
65 CTGAGAACGGATACATACAATTCCTACAAAATTATCACAATGCTAAGCAAAATCAGATCGAAAAT
* * * *
108626355 CATCAATTTATGACGTTATAAAATAAAACAAGAATCTGAATTTTTC
130 CATCAATCTATGATGTTATATAATAAAACAAGAATCTGAAATTTTC
108626401 ATCTATAGTCTTCTTTTTTCCAATATATTCTCAGGAACCAAAC
1 ATCTATAGTCTTCTTTTTTCC-ATATATTCTCAGGAACCAAAC
108626444 GATCAGTTAA
Statistics
Matches: 329, Mismatches: 52, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
172 6 0.02
173 64 0.19
174 49 0.15
175 47 0.14
176 135 0.41
177 25 0.08
178 3 0.01
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.30
Consensus pattern (175 bp):
ATCTATAGTCTTCTTTTTTCCATATATTCTCAGGAACCAAACAGTAGATAAACGATCAATTAAAC
TGAGAACGGATACATACAATTCCTACAAAATTATCACAATGCTAAGCAAAATCAGATCGAAAATC
ATCAATCTATGATGTTATATAATAAAACAAGAATCTGAAATTTTC
Found at i:108630033 original size:30 final size:30
Alignment explanation
Indices: 108629999--108630058 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
108629989 ATTAAAAAAA
*
108629999 AAGCATGGATTTGATCCAAAAAAATTGATT
1 AAGCATGGATTTGATCCAAAAAAAATGATT
108630029 AAGCATGGATTTGATCCAAAAAAAATGATT
1 AAGCATGGATTTGATCCAAAAAAAATGATT
108630059 TAACTTTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (30 bp):
AAGCATGGATTTGATCCAAAAAAAATGATT
Found at i:108631897 original size:20 final size:20
Alignment explanation
Indices: 108631850--108631899 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
108631840 GAAATACTTG
* *
108631850 TAAATAAATATTAGTAATTT
1 TAAATAAATATAAGTAATTA
** *
108631870 TATTTAAATATAATTAATTA
1 TAAATAAATATAAGTAATTA
108631890 TAAATAAATA
1 TAAATAAATA
108631900 CTACATGAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TAAATAAATATAAGTAATTA
Found at i:108638815 original size:14 final size:14
Alignment explanation
Indices: 108638796--108638822 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
108638786 ATTCGATTCG
108638796 AATCAAATTAATTA
1 AATCAAATTAATTA
108638810 AATCAAATTAATT
1 AATCAAATTAATT
108638823 TTTTTTTTGA
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:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
AATCAAATTAATTA
Found at i:108640894 original size:11 final size:12
Alignment explanation
Indices: 108640880--108640931 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 12
108640870 AACATAATAT
108640880 ATATT-TAAAAA
1 ATATTATAAAAA
108640891 ATATTATAAAAA
1 ATATTATAAAAA
108640903 ATTATTATAATGATAA
1 A-TATTATAA--A-AA
108640919 GATATTATAAAAA
1 -ATATTATAAAAA
108640932 TATCATTCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
11 5 0.14
12 7 0.20
13 10 0.29
14 1 0.03
15 1 0.03
16 10 0.29
17 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (12 bp):
ATATTATAAAAA
Found at i:108641172 original size:21 final size:21
Alignment explanation
Indices: 108641134--108641174 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
108641124 ATAAATAATG
*
108641134 TTTTATAAATTATTTTATAAC
1 TTTTATAAACTATTTTATAAC
108641155 TTTTAT-AACTATTCTTATAA
1 TTTTATAAACTATT-TTATAA
108641175 ATAATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTATAAACTATTTTATAAC
Found at i:108642964 original size:20 final size:20
Alignment explanation
Indices: 108642941--108642980 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
108642931 TCAACTCAAT
108642941 TCAATTATAATAAATAAAAA
1 TCAATTATAATAAATAAAAA
108642961 TCAATTATAATAAATAAAAA
1 TCAATTATAATAAATAAAAA
108642981 ATAAAACTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
TCAATTATAATAAATAAAAA
Found at i:108652791 original size:17 final size:18
Alignment explanation
Indices: 108652760--108652795 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
108652750 TTAATTTAGT
108652760 TCAAAATTAAGTAATTAA
1 TCAAAATTAAGTAATTAA
*
108652778 TCAAATTTAA-TAATTAA
1 TCAAAATTAAGTAATTAA
108652795 T
1 T
108652796 AATATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.39
Consensus pattern (18 bp):
TCAAAATTAAGTAATTAA
Found at i:108653031 original size:22 final size:22
Alignment explanation
Indices: 108653003--108653046 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
108652993 TCGATTACTA
*
108653003 CTAATTCAATTTGGTTAACCAT
1 CTAATTCAATTTAGTTAACCAT
108653025 CTAATTCAATTTAGTTAACCAT
1 CTAATTCAATTTAGTTAACCAT
108653047 TTGAACACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.41
Consensus pattern (22 bp):
CTAATTCAATTTAGTTAACCAT
Found at i:108660500 original size:8 final size:8
Alignment explanation
Indices: 108660477--108660509 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
108660467 TATAAAAATA
*
108660477 ATTATAAA
1 ATTATAAT
108660485 ATTA-AAT
1 ATTATAAT
108660492 ATTATAAT
1 ATTATAAT
108660500 ATTATAAT
1 ATTATAAT
108660508 AT
1 AT
108660510 AAACACCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
ATTATAAT
Found at i:108663715 original size:34 final size:34
Alignment explanation
Indices: 108663677--108663745 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
108663667 GAAAGAAGAA
* *
108663677 AAGATTGAGGAACAATTGTGCACGAAAGGTTGAG
1 AAGATTGAGGAACAATCGTGCACAAAAGGTTGAG
*
108663711 AAGATTGAGGAACGATCGTGCACAAAAGGTTGAG
1 AAGATTGAGGAACAATCGTGCACAAAAGGTTGAG
108663745 A
1 A
108663746 CTAAGGATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.39, C:0.10, G:0.32, T:0.19
Consensus pattern (34 bp):
AAGATTGAGGAACAATCGTGCACAAAAGGTTGAG
Found at i:108667093 original size:21 final size:21
Alignment explanation
Indices: 108667067--108667107 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
108667057 AGACGAGCAA
* *
108667067 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
108667088 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
108667108 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:108671262 original size:18 final size:21
Alignment explanation
Indices: 108671235--108671277 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
108671225 TTTGTTAAGA
*
108671235 TTTAATAATG-TAA-CACAAT
1 TTTAATAATGCTAATCAAAAT
108671254 TTTAA-AATGCTAATCAAAAT
1 TTTAATAATGCTAATCAAAAT
108671274 TTTA
1 TTTA
108671278 CATTTTTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 4 0.19
19 8 0.38
20 9 0.43
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (21 bp):
TTTAATAATGCTAATCAAAAT
Found at i:108673888 original size:7 final size:7
Alignment explanation
Indices: 108673876--108673917 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
108673866 TAAACTTTTC
108673876 TTTCTCT
1 TTTCTCT
108673883 TTTCTCT
1 TTTCTCT
*
108673890 TTTCCCT
1 TTTCTCT
108673897 TTTCT-T
1 TTTCTCT
108673903 CTTTCTCT
1 -TTTCTCT
108673911 TTT-TCT
1 TTTCTCT
108673917 T
1 T
108673918 ATTTTTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 5 0.16
7 25 0.81
8 1 0.03
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTCTCT
Found at i:108676047 original size:20 final size:20
Alignment explanation
Indices: 108676022--108676061 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
108676012 GTTACGGTGT
*
108676022 CAAACTTATGAAATGATTAA
1 CAAACTTACGAAATGATTAA
108676042 CAAACTTACGAAATGATTAA
1 CAAACTTACGAAATGATTAA
108676062 AGCATTGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
CAAACTTACGAAATGATTAA
Found at i:108676454 original size:14 final size:14
Alignment explanation
Indices: 108676435--108676465 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
108676425 AAATAAGCAA
108676435 ATTAGTCCCAATAC
1 ATTAGTCCCAATAC
*
108676449 ATTAGTCCCAATCC
1 ATTAGTCCCAATAC
108676463 ATT
1 ATT
108676466 TCTACTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.32
Consensus pattern (14 bp):
ATTAGTCCCAATAC
Found at i:108679334 original size:25 final size:25
Alignment explanation
Indices: 108679305--108679365 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
108679295 ATTACTTTCG
*
108679305 AAAAATACA-AGTACCACATTGAAA
1 AAAAAAACATAGTACCACATTGAAA
108679329 AAAAAAACATAGTACCACATTGAAA
1 AAAAAAACATAGTACCACATTGAAA
108679354 AAAAAAACATAG
1 AAAAAAACATAG
108679366 GTTCAATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 8 0.23
25 27 0.77
ACGTcount: A:0.62, C:0.15, G:0.08, T:0.15
Consensus pattern (25 bp):
AAAAAAACATAGTACCACATTGAAA
Done.