Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 4 of 276
Found at i:1071031 original size:79 final size:77
Alignment explanation
Indices: 1070787--1071042 Score: 222
Period size: 79 Copynumber: 3.3 Consensus size: 77
1070777 TTGAATGATG
* * * *
1070787 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
*
1070848 TTTGTACGAGATACTAA
62 TTTGTACGAG-GACTAA
* *
1070865 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTT
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTT
* *
1070929 GTGCGAGTTACTAAA
65 GTACGAG-GACT-AA
*
1070944 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
1071007 TTGAACGAGGAGCTATA
63 TTGTACGAGGA-CTA-A
* *
1071024 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
1071043 TACGTGATTT
Statistics
Matches: 152, Mismatches: 14, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
78 44 0.29
79 72 0.47
80 35 0.23
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (77 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
TACGAGGACTAA
Found at i:1074493 original size:40 final size:40
Alignment explanation
Indices: 1074438--1074576 Score: 233
Period size: 40 Copynumber: 3.5 Consensus size: 40
1074428 TAATTGAGGA
*
1074438 TTATATCCGGGTTAAGTCCCGAAGGCTTTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
1074478 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTC
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
1074518 TTATATCCGAGTTAAGTCCCGAAGGCATTCGTGTTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
1074558 TTATATCCGGGCTAAGTCC
1 TTATATCCGGGTTAAGTCC
1074577 TAAAGACACT
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.18, C:0.21, G:0.27, T:0.34
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:1084996 original size:50 final size:50
Alignment explanation
Indices: 1084932--1085036 Score: 174
Period size: 50 Copynumber: 2.1 Consensus size: 50
1084922 GATTAGTCAG
*
1084932 ATTCAAGTACAAGGTTCTTTCCTCTCTTTCCCTCACATTTAGTTCTCTTC
1 ATTCAAGTACAAGGTTCTTTCCTATCTTTCCCTCACATTTAGTTCTCTTC
* *
1084982 ATTCGAGTACAAGGTTCTTTCCTATTTTTCCCTCACATTTAGTTCTCTTC
1 ATTCAAGTACAAGGTTCTTTCCTATCTTTCCCTCACATTTAGTTCTCTTC
*
1085032 TTTCA
1 ATTCA
1085037 TATTTTGTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.18, C:0.28, G:0.09, T:0.46
Consensus pattern (50 bp):
ATTCAAGTACAAGGTTCTTTCCTATCTTTCCCTCACATTTAGTTCTCTTC
Found at i:1091882 original size:46 final size:44
Alignment explanation
Indices: 1091832--1092004 Score: 154
Period size: 46 Copynumber: 3.8 Consensus size: 44
1091822 GTTGAGCATC
*
1091832 CGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCGAATGCT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATG-GAATGCT
* * * *
1091878 CGAACTCGTTTAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAGGCAT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGGAA-T--GC-T
* * *
1091924 CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGAATGTGAACGC-
1 -CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATG-GAATGCT
*
1091970 CTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAGG
1 C-GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
1092005 GGCGGGTTAC
Statistics
Matches: 102, Mismatches: 15, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 6 0.06
46 55 0.54
47 25 0.25
48 4 0.04
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (44 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGGAATGCT
Found at i:1091986 original size:93 final size:93
Alignment explanation
Indices: 1091827--1091997 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
1091817 GGATGGTTGA
* * *
1091827 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCGAATGCTCGAACTCGTTTAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGAATGCGAACGCTCGAACTCGTTGAGT
1091892 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
1091920 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGAATGTGAACGC-CTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGAATGCGAACGCTC-GAACTCGTTGAG
1091984 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
1091998 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGAATGCGAACGCTCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:1096210 original size:16 final size:16
Alignment explanation
Indices: 1096189--1096220 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1096179 GCACCAGTGT
1096189 TAGTACAGCCCGAATC
1 TAGTACAGCCCGAATC
1096205 TAGTACAGCCCGAATC
1 TAGTACAGCCCGAATC
1096221 AGGTAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (16 bp):
TAGTACAGCCCGAATC
Found at i:1107131 original size:37 final size:37
Alignment explanation
Indices: 1107090--1107164 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
1107080 GATACTATGA
1107090 AAGATAAGTATTTGGATAAGCATGTGCATATGACATG
1 AAGATAAGTATTTGGATAAGCATGTGCATATGACATG
*
1107127 AAGATAAGTATTTGGATAAGCATGTGGATATGACATG
1 AAGATAAGTATTTGGATAAGCATGTGCATATGACATG
1107164 A
1 A
1107165 TGAAAAGTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (37 bp):
AAGATAAGTATTTGGATAAGCATGTGCATATGACATG
Found at i:1108876 original size:35 final size:35
Alignment explanation
Indices: 1108834--1108903 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
1108824 GGGAGAAAGA
1108834 AAGAAAATTTAAGAGAAAAGAGGAGAGAAAGAGGG
1 AAGAAAATTTAAGAGAAAAGAGGAGAGAAAGAGGG
*
1108869 AAGAAAATTTAAGAGAAAAGAGGAGAGGAAGAGGG
1 AAGAAAATTTAAGAGAAAAGAGGAGAGAAAGAGGG
1108904 TGAACGGCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.09
Consensus pattern (35 bp):
AAGAAAATTTAAGAGAAAAGAGGAGAGAAAGAGGG
Found at i:1113329 original size:17 final size:19
Alignment explanation
Indices: 1113309--1113343 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
1113299 AATAATAGAT
1113309 TTATTAAA-CT-AATTAAA
1 TTATTAAATCTAAATTAAA
1113326 TTATTAAATCTAAATTAA
1 TTATTAAATCTAAATTAA
1113344 CCTAATGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (19 bp):
TTATTAAATCTAAATTAAA
Found at i:1126681 original size:30 final size:30
Alignment explanation
Indices: 1126645--1126710 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
1126635 GAGGGAACCA
1126645 TGTGTCACACATGACCTAGACACATGCCCG
1 TGTGTCACACATGACCTAGACACATGCCCG
* *
1126675 TGTGTCACGCATGGCCTAGACACATGCCCG
1 TGTGTCACACATGACCTAGACACATGCCCG
1126705 TGTGTC
1 TGTGTC
1126711 CAACCATGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.21, C:0.32, G:0.24, T:0.23
Consensus pattern (30 bp):
TGTGTCACACATGACCTAGACACATGCCCG
Found at i:1137342 original size:30 final size:30
Alignment explanation
Indices: 1137308--1137368 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
1137298 TCCTTAACTC
1137308 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
1137338 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
1137368 A
1 A
1137369 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:1139000 original size:15 final size:15
Alignment explanation
Indices: 1138981--1139022 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
1138971 ATGACAGAGG
1138981 AATCCAAGATA-AAGA
1 AATCCAAGATACAA-A
* *
1138996 TATCCAAGGTACAAA
1 AATCCAAGATACAAA
1139011 AATCCAAGATAC
1 AATCCAAGATAC
1139023 CATATCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.52, C:0.19, G:0.12, T:0.17
Consensus pattern (15 bp):
AATCCAAGATACAAA
Found at i:1140624 original size:50 final size:51
Alignment explanation
Indices: 1140555--1140807 Score: 312
Period size: 50 Copynumber: 5.0 Consensus size: 51
1140545 CTTATAGCCA
* *
1140555 AAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACATGACCT
1 AAGCCATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCT
* * * * *
1140606 AA-CCATCTGATACACATAGTGGCCTGCACTTAGTACTACACACGTGATCG
1 AAGCCATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCT
** * *
1140656 AAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACATGACCT
1 AAGCCATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCT
* * * * *
1140707 AA-CCATCTGATACACATAGTGGCCTGCACTTAGTACTACACACGTGATCG
1 AAGCCATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCT
** * *
1140757 AAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTAATACACACGTGACCT
1 AAGCCATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCT
1140808 CACAATAGAT
Statistics
Matches: 166, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
50 84 0.51
51 82 0.49
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (51 bp):
AAGCCATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCT
Found at i:1140701 original size:101 final size:101
Alignment explanation
Indices: 1140559--1140807 Score: 471
Period size: 101 Copynumber: 2.5 Consensus size: 101
1140549 TAGCCAAAGC
*
1140559 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACATA
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACATA
1140624 GTGGCCTGCACTTAGTACTACACACGTGATCGAAGT
66 GTGGCCTGCACTTAGTACTACACACGTGATCGAAGT
1140660 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACATA
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACATA
1140725 GTGGCCTGCACTTAGTACTACACACGTGATCGAAGT
66 GTGGCCTGCACTTAGTACTACACACGTGATCGAAGT
* *
1140761 TATCGGGTACGCATAGTAGCCTGCACTTAGTAATACACACGTGACCT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACATGACCT
1140808 CACAATAGAT
Statistics
Matches: 145, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 145 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (101 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACATA
GTGGCCTGCACTTAGTACTACACACGTGATCGAAGT
Found at i:1142279 original size:43 final size:44
Alignment explanation
Indices: 1142217--1142354 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 44
1142207 GTCTCTTATA
*
1142217 CAAGCCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
1 CAAGACATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
* * *
1142261 CAAG-CATCCGAGCTCGTTGAGTGGTCCAAGTTCATGATGGATG
1 CAAGACATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
* *
1142304 CGATTTATGTAACATCTGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATG
1 C-A---A-G--ACATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
1142355 TGTTACATGT
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
43 37 0.47
44 5 0.06
47 1 0.01
48 1 0.01
51 34 0.44
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (44 bp):
CAAGACATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
Found at i:1146952 original size:23 final size:23
Alignment explanation
Indices: 1146926--1146970 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
1146916 ATTATATACC
1146926 AAAATACCTATTTAACATCATAA
1 AAAATACCTATTTAACATCATAA
1146949 AAAATACCTATTTAACATCATA
1 AAAATACCTATTTAACATCATA
1146971 CATAATCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATACCTATTTAACATCATAA
Found at i:1147723 original size:47 final size:51
Alignment explanation
Indices: 1147663--1147759 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 51
1147653 TCCTTCTGAG
*
1147663 CTGATGAACAGTAAGCTCATACGAGCCGA-A-AT-GGTAAGCTCTAATGAA
1 CTGATGAACAGTAAGCTCATACGAGCCGATATATCGGTAAGCTCAAATGAA
* *
1147711 CTGAT-AACAGTAAGCTCTTACGAGCTGATATATCGGTAAGCTCAAATGA
1 CTGATGAACAGTAAGCTCATACGAGCCGATATATCGGTAAGCTCAAATGA
1147760 GCAGTGGTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
47 21 0.49
48 6 0.14
49 2 0.05
50 14 0.33
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.24
Consensus pattern (51 bp):
CTGATGAACAGTAAGCTCATACGAGCCGATATATCGGTAAGCTCAAATGAA
Found at i:1147738 original size:24 final size:24
Alignment explanation
Indices: 1147645--1147740 Score: 88
Period size: 24 Copynumber: 4.0 Consensus size: 24
1147635 GAACCATGAT
1147645 CAGTAAGCTCCTT-CTGAGCTGATGAA
1 CAGTAAGCT-CTTAC-GAGCTGAT-AA
* *
1147671 CAGTAAGCTCATACGAGCCGA-AA
1 CAGTAAGCTCTTACGAGCTGATAA
** * * *
1147694 TGGTAAGCTCTAATGAACTGATAA
1 CAGTAAGCTCTTACGAGCTGATAA
1147718 CAGTAAGCTCTTACGAGCTGATA
1 CAGTAAGCTCTTACGAGCTGATA
1147741 TATCGGTAAG
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
23 16 0.30
24 20 0.37
25 8 0.15
26 10 0.19
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (24 bp):
CAGTAAGCTCTTACGAGCTGATAA
Found at i:1147752 original size:26 final size:25
Alignment explanation
Indices: 1147647--1147753 Score: 80
Period size: 24 Copynumber: 4.3 Consensus size: 25
1147637 ACCATGATCA
*
1147647 GTAAGCTCCTT-CTGAGCTGATGAA-CA
1 GTAAGCT-CTTAC-GAGCTGAT-AATCG
* *
1147673 GTAAGCTCATACGAGCCGA-AAT-G
1 GTAAGCTCTTACGAGCTGATAATCG
* * * *
1147696 GTAAGCTCTAATGAACTGATAA-CA
1 GTAAGCTCTTACGAGCTGATAATCG
1147720 GTAAGCTCTTACGAGCTGATATATCG
1 GTAAGCTCTTACGAGCTGATA-ATCG
1147746 GTAAGCTC
1 GTAAGCTC
1147754 AAATGAGCAG
Statistics
Matches: 62, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
23 16 0.26
24 20 0.32
25 9 0.15
26 17 0.27
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (25 bp):
GTAAGCTCTTACGAGCTGATAATCG
Found at i:1154442 original size:28 final size:28
Alignment explanation
Indices: 1154410--1154476 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
1154400 GTGGGAAGTA
* *
1154410 ATTGGGCCTAATGGGCCATATGAATGTG
1 ATTGGGCCTAATGGGCCATATGAACGAG
*
1154438 ATTGGGCCTAATGGGCCATGTGAACGAG
1 ATTGGGCCTAATGGGCCATATGAACGAG
*
1154466 ATTAGGCCTAA
1 ATTGGGCCTAA
1154477 AGGGGAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (28 bp):
ATTGGGCCTAATGGGCCATATGAACGAG
Found at i:1154847 original size:41 final size:41
Alignment explanation
Indices: 1154790--1154868 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
1154780 TAATAAAGAG
* *
1154790 AAATTACCAAAATACCCCTGATTTGTAAAATTATCGAAGTA
1 AAATTACCAAAATACCCCTAATTTGTAAAATTACCGAAGTA
*
1154831 AAATTACCGAAATACCCCTAATTTGTAAAATTACCGAA
1 AAATTACCAAAATACCCCTAATTTGTAAAATTACCGAA
1154869 ATACCCCCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (41 bp):
AAATTACCAAAATACCCCTAATTTGTAAAATTACCGAAGTA
Found at i:1154866 original size:27 final size:26
Alignment explanation
Indices: 1154828--1155089 Score: 238
Period size: 27 Copynumber: 9.7 Consensus size: 26
1154818 AATTATCGAA
*
1154828 GTAAAATTACCGAAATACCCCTAATTT
1 GTAAAATTACCGAAATA-CCCTGATTT
*
1154855 GTAAAATTACCGAAATACCCCCGATTT
1 GTAAAATTACCGAAATA-CCCTGATTT
**
1154882 GTAAAATTACTAAAATACCCTTGA-TT
1 GTAAAATTACCGAAATACCC-TGATTT
* * *
1154908 GTGAAATTACTGAAATACCATCGATTT
1 GTAAAATTACCGAAATACCCT-GATTT
* *
1154935 GTAAAATTAGCGAAACACCCTCGATTT
1 GTAAAATTACCGAAATACCCT-GATTT
* *
1154962 GTAAAATTACCGAAACACCCTCAATTTT
1 GTAAAATTACCGAAATACCCT-GA-TTT
*
1154990 GTAAAATTATCGAAATACCCTCGATTT
1 GTAAAATTACCGAAATACCCT-GATTT
* * * *
1155017 GTAAAATTATCAAAATACCCTTATAGT
1 GTAAAATTACCGAAATACCCTGAT-TT
* * *
1155044 GTAAAGTTACCGAAATACCCTTATAGT
1 GTAAAATTACCGAAATACCCTGAT-TT
* *
1155071 GTAAAATGACCGACATACC
1 GTAAAATTACCGAAATACC
1155090 TTTGTAGGGT
Statistics
Matches: 203, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
25 1 0.00
26 26 0.13
27 152 0.75
28 24 0.12
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.29
Consensus pattern (26 bp):
GTAAAATTACCGAAATACCCTGATTT
Found at i:1154935 original size:80 final size:81
Alignment explanation
Indices: 1154828--1155036 Score: 235
Period size: 80 Copynumber: 2.6 Consensus size: 81
1154818 AATTATCGAA
* * *
1154828 GTAAAATTACCGAAATACC-CCTAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTAC
1 GTAAAATTATCGAAATACCATC-GATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTAC
* * **
1154892 TAAAATACCCTTGA-TT
65 CAAAACACCCTCAATTT
* * * *
1154908 GTGAAATTA-CTGAAATACCATCGATTTGTAAAATTAGCGAAACACCCTCGATTTGTAAAATTAC
1 GTAAAATTATC-GAAATACCATCGATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTAC
*
1154972 CGAAACACCCTCAATTTT
65 CAAAACACCCTCAA-TTT
* * *
1154990 GTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCAAAATACCC
1 GTAAAATTATCGAAATACCATCGATTTGTAAAATTACCGAAATACCC
1155037 TTATAGTGTA
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
79 1 0.01
80 63 0.58
81 1 0.01
82 42 0.39
83 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (81 bp):
GTAAAATTATCGAAATACCATCGATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACC
AAAACACCCTCAATTT
Found at i:1155101 original size:27 final size:27
Alignment explanation
Indices: 1155029--1155106 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
1155019 AAAATTATCA
* * *
1155029 AAATACCCTTATAGTGTAAAGTTACCG
1 AAATACCCTTATAGGGTAAAATGACCG
*
1155056 AAATACCCTTATAGTGTAAAATGACCG
1 AAATACCCTTATAGGGTAAAATGACCG
* * *
1155083 ACATACCTTTGTAGGGTAAAATGA
1 AAATACCCTTATAGGGTAAAATGA
1155107 TTGTTTTGCC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (27 bp):
AAATACCCTTATAGGGTAAAATGACCG
Found at i:1161824 original size:55 final size:53
Alignment explanation
Indices: 1161737--1161991 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 53
1161727 ATTAGGGTTT
* *
1161737 AAGGATACCTTGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * *
1161792 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * *
1161847 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGC
* * *
1161900 AAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTATGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTTTCTAAGGC
* ** * *
1161949 AAGGATACCACGTAAGACCATAACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAG
1161992 GTACCCGTGT
Statistics
Matches: 167, Mismatches: 25, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
48 2 0.01
49 34 0.20
52 7 0.04
53 38 0.23
54 12 0.07
55 70 0.42
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:1169112 original size:30 final size:30
Alignment explanation
Indices: 1169058--1169114 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
1169048 CGAGTCTTGA
*
1169058 GGCAAAAGTGTAAATATGTAAAAGTTTAAG
1 GGCAAAAGTGTAAATATGCAAAAGTTTAAG
* * *
1169088 GGCAAAAGTGTAATTTTGCCAAAGTTT
1 GGCAAAAGTGTAAATATGCAAAAGTTT
1169115 GAGTCAAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (30 bp):
GGCAAAAGTGTAAATATGCAAAAGTTTAAG
Found at i:1169538 original size:55 final size:54
Alignment explanation
Indices: 1169449--1169704 Score: 212
Period size: 55 Copynumber: 4.8 Consensus size: 54
1169439 CATTAGGGTT
* *
1169449 TAAGAATACCATGTAAGACCATG-CAAAGGCATGGCAATTGGTAAGGTTTCTAAGG
1 TAAGGATACCATGTAAGACCATGTC-AAGACATGGCAATTGGTAA-GTTTCTAAGG
* * **
1169504 TAAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAC
1 TAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTA-AGG
* * * *
1169558 TCAAAGG-T-CACATGTAAGACCATGCCAAGGCAAGGC-ATTGGTGAG-TTCATAAGG
1 T--AAGGATAC-CATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTC-TAAGG
* *
1169612 CAAGGATACCATGTAAGACCATGTCAAGATATGGCAA-TGGTAAGTTTC-AA--
1 TAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGG
* * * **
1169662 -AAAGATACCACGTAAGACCATGACAATTCATGGCAA-TGGTAAG
1 TAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAG
1169705 GTACCCGTGT
Statistics
Matches: 165, Mismatches: 26, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
49 37 0.22
52 6 0.04
53 35 0.21
54 18 0.11
55 64 0.39
56 5 0.03
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (54 bp):
TAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGG
Found at i:1169656 original size:108 final size:110
Alignment explanation
Indices: 1169458--1169657 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 110
1169448 TTAAGAATAC
* *
1169458 CATGTAAGACCATGCAAAGGCATGGCAATTGGTAAGGTTTCTAAGGTAAGGATACCATGTAAGAC
1 CATGTAAGACCATGCAAAGGCAAGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGAC
*
1169523 CATGTCAAGACATGGCATTGATAAGTTACTATAACTCAAAGGTCA
66 CATGTCAAGACATGGCAATGATAAGTTACTATAACTCAAAGGTCA
* *
1169568 CATGTAAGACCATGCCAAGGCAAGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGA
1 CATGTAAGACCATGCAAAGGCAAGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAGA
* *
1169630 CCATGTCAAGATATGGCAATGGTAAGTT
65 CCATGTCAAGACATGGCAATGATAAGTT
1169658 TCAAAAAGAT
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.59
109 7 0.09
110 24 0.29
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (110 bp):
CATGTAAGACCATGCAAAGGCAAGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTATAACTCAAAGGTCA
Found at i:1173188 original size:27 final size:26
Alignment explanation
Indices: 1173144--1173195 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
1173134 CTCGCTGCAA
*
1173144 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
1173171 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
1173196 GCAGCCTCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:1173263 original size:26 final size:27
Alignment explanation
Indices: 1173234--1173293 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
1173224 CCACATATAT
*
1173234 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
1173260 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
1173287 ATATCTG
1 ATATCTG
1173294 GCAGCCTCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:1180650 original size:27 final size:26
Alignment explanation
Indices: 1180606--1180657 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
1180596 CTCGCTACAA
*
1180606 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
1180633 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
1180658 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:1180752 original size:27 final size:26
Alignment explanation
Indices: 1180700--1180759 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
1180690 ACACATATAT
*
1180700 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
1180726 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
1180753 ATATCTG
1 ATATCTG
1180760 GCAGCCTCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:1188846 original size:26 final size:24
Alignment explanation
Indices: 1188782--1188850 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
1188772 GAGTTGAAAT
*
1188782 GGTAGGCTCTAATGAGCTGATAAC
1 GGTAAGCTCTAATGAGCTGATAAC
* *
1188806 AGTAAGCTCTTATGAGCTGATATATC
1 GGTAAGCTCTAATGAGCTGATA-A-C
*
1188832 GGTAAGCTCAAATGAGCTG
1 GGTAAGCTCTAATGAGCTG
1188851 TGATGAGTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
24 19 0.51
25 1 0.03
26 17 0.46
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (24 bp):
GGTAAGCTCTAATGAGCTGATAAC
Found at i:1191327 original size:42 final size:42
Alignment explanation
Indices: 1191278--1191430 Score: 175
Period size: 42 Copynumber: 3.6 Consensus size: 42
1191268 TGAGACTATG
* * *
1191278 TGTAAGACCTTATCTGGGATATGGTATCTATATGAGACTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
* *
1191320 TGTAAGACCATATCTGGGGTATGGCATCGATATGAGACTTTA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
* * * ** *
1191362 TGTAAAACCATAGCTGGGCTATTGGCATCGATACAAGA-TCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACT-TCA
1191405 TGTAA-ACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
1191431 TGGTATGGTA
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
41 6 0.06
42 69 0.73
43 20 0.21
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
Found at i:1196032 original size:12 final size:12
Alignment explanation
Indices: 1196012--1196043 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
1196002 AGAATTTTTC
*
1196012 CACATGGGTAGA
1 CACACGGGTAGA
1196024 CACACGGGTAGA
1 CACACGGGTAGA
1196036 CACACGGG
1 CACACGGG
1196044 CATGTGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.25, G:0.34, T:0.09
Consensus pattern (12 bp):
CACACGGGTAGA
Found at i:1200697 original size:22 final size:23
Alignment explanation
Indices: 1200669--1200725 Score: 89
Period size: 22 Copynumber: 2.5 Consensus size: 23
1200659 CTAAGGACTG
**
1200669 AAATGGTAAGCTCCGAAGAGCT-
1 AAATGGTAAGCTCAAAAGAGCTA
1200691 AAATGGTAAGCTCAAAAGAGCTA
1 AAATGGTAAGCTCAAAAGAGCTA
1200714 AAATGGTAAGCT
1 AAATGGTAAGCT
1200726 TATACGAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 20 0.62
23 12 0.38
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (23 bp):
AAATGGTAAGCTCAAAAGAGCTA
Found at i:1211822 original size:20 final size:20
Alignment explanation
Indices: 1211797--1211836 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1211787 GCTGGACAAC
1211797 ATGCGCATGGGGCAGACTAT
1 ATGCGCATGGGGCAGACTAT
1211817 ATGCGCATGGGGCAGACTAT
1 ATGCGCATGGGGCAGACTAT
1211837 GTGTCACACA
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:0.25, C:0.20, G:0.35, T:0.20
Consensus pattern (20 bp):
ATGCGCATGGGGCAGACTAT
Found at i:1214746 original size:33 final size:33
Alignment explanation
Indices: 1214708--1214772 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
1214698 TCCATAATTT
1214708 TCCATACCATATAACAATGGTCTAATTACATCG
1 TCCATACCATATAACAATGGTCTAATTACATCG
*
1214741 TCCATACCATATAACAGTGGTCTAATTACATC
1 TCCATACCATATAACAATGGTCTAATTACATC
1214773 TTAAAGACCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (33 bp):
TCCATACCATATAACAATGGTCTAATTACATCG
Found at i:1221012 original size:43 final size:43
Alignment explanation
Indices: 1220923--1221025 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 43
1220913 CAATGCTAAC
* * * * * *
1220923 GTCCCAAACGTGGTCTTACATGTAATTCAATATTGAAGCCTCT
1 GTCCCAGACATGGTCTTACACGAAATTCAATATCGAAGCCTAT
* *
1220966 GTCCCAGATATGGTCTTACACGAAATCTCAA-ATCGAGGCCTAT
1 GTCCCAGACATGGTCTTACACGAAAT-TCAATATCGAAGCCTAT
*
1221009 GTCCCAGACACGGTCTT
1 GTCCCAGACATGGTCTT
1221026 GCACAATATC
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
43 45 0.92
44 4 0.08
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATTCAATATCGAAGCCTAT
Found at i:1224272 original size:19 final size:18
Alignment explanation
Indices: 1224233--1224275 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
1224223 CTTTATTATG
*
1224233 TTTTTGTATTTTAGCATA
1 TTTTTGTATTGTAGCATA
1224251 TTTTATGTATTGTAGC-TGA
1 TTTT-TGTATTGTAGCAT-A
1224270 TTTTTG
1 TTTTTG
1224276 AATCATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.60
Consensus pattern (18 bp):
TTTTTGTATTGTAGCATA
Found at i:1224518 original size:64 final size:66
Alignment explanation
Indices: 1224438--1224560 Score: 169
Period size: 64 Copynumber: 1.9 Consensus size: 66
1224428 AGACATTATG
* * * *
1224438 ATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCATGTAGACAAGAGAGCTATGGGATA
1 ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTAGACAAGAGAGCTATGGGATA
1224501 T
66 T
* *
1224502 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTA
1 ATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGTAGACAAGAGAGCTA
1224561 CGAGATAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 24 0.48
66 2 0.04
67 24 0.48
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (66 bp):
ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTAGACAAGAGAGCTATGGGATA
T
Found at i:1227400 original size:43 final size:42
Alignment explanation
Indices: 1227350--1227448 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
1227340 TCCCAAACGT
*
1227350 GGTCTTACATGTAATCAAATATCATTACC-ACTATCCCAGACAG
1 GGTCTTACATGTAATCAAATA-CAATACCGA-TATCCCAGACAG
* * * * * *
1227393 GGTCTTACATGAAATCATATACAATGCCGATGTCCTAGACAT
1 GGTCTTACATGTAATCAAATACAATACCGATATCCCAGACAG
1227435 GGTCTTACATGTAA
1 GGTCTTACATGTAA
1227449 CTCTCAAATC
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 27 0.57
43 20 0.43
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.29
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATACAATACCGATATCCCAGACAG
Found at i:1228994 original size:22 final size:21
Alignment explanation
Indices: 1228954--1228994 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1228944 CATTTGACAC
*
1228954 AGGGGCACACGCCCGTGTGGA
1 AGGGGCACACACCCGTGTGGA
*
1228975 AGGGGCAACACACCCTTGTG
1 AGGGGC-ACACACCCGTGTG
1228995 ATCAATTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.22, C:0.29, G:0.37, T:0.12
Consensus pattern (21 bp):
AGGGGCACACACCCGTGTGGA
Found at i:1230295 original size:46 final size:47
Alignment explanation
Indices: 1230201--1230318 Score: 152
Period size: 46 Copynumber: 2.5 Consensus size: 47
1230191 AAGTCGAAGC
* *
1230201 CATATCCCAGACATGGTCTTACACTGACTATCATCTTGTAGCCGATG
1 CATATCCCAGACATGGTCTTACACTGACTATCATCTCGTAGCCAATG
* * *
1230248 CATATCCCAAACAT-GTCTTACACTGGCT-TACGTCTCG-AGGCCAATG
1 CATATCCCAGACATGGTCTTACACTGACTAT-CATCTCGTA-GCCAATG
1230294 CATATCCCAGACATGGTCTTACACT
1 CATATCCCAGACATGGTCTTACACT
1230319 AGCTCACACA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
45 2 0.03
46 37 0.60
47 23 0.37
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (47 bp):
CATATCCCAGACATGGTCTTACACTGACTATCATCTCGTAGCCAATG
Found at i:1237492 original size:46 final size:46
Alignment explanation
Indices: 1237428--1238284 Score: 1540
Period size: 46 Copynumber: 18.6 Consensus size: 46
1237418 CCGCCCCTAA
* * * * *
1237428 GTGAACTCGGACTCAACTCAACAAGCTCAGGCGTTCGCATCCATAA
1 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
* * * * **
1237474 GTGAAATCAGACTCAACTCAACGAGTTC-GA-ATGC-CTAGTTACATCTC
1 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGC-A--TCCAT-AG
**
1237521 ACGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1237567 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1237613 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1237659 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1237705 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1237751 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1237797 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1237843 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1237889 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1237935 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1237981 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1238027 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1238073 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1238119 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1238165 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1238211 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
1238257 GTGAACTCGGACTCAACTCAACGAGTTC
1 GTGAACTCGGACTCAACTCAACGAGTTC
1238285 GGATGCTCAA
Statistics
Matches: 784, Mismatches: 20, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
43 1 0.00
44 3 0.00
45 1 0.00
46 744 0.95
47 28 0.04
48 2 0.00
49 4 0.01
50 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
GTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAG
Found at i:1245775 original size:46 final size:46
Alignment explanation
Indices: 1245708--1245880 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
1245698 AACCCGCCCC
* *
1245708 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
* * *
1245754 TAAGTGAACTTGGACTCAACTCAACGAGTTCGAATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG---GAC--GTTCGCATCCA
* * *
1245802 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
*
1245847 TAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1245881 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 1 0.01
46 59 0.56
47 26 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Found at i:1245820 original size:93 final size:93
Alignment explanation
Indices: 1245713--1245883 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
1245703 GCCCCTAAGT
* * *
1245713 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1245778 CGAGTTCGAATGCCTAGTTACATCTCAC
66 CGAGTTCGAATGCCTAGTTACATCTCAC
* *
1245806 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
1245871 CGAGTTCGGATGC
66 CGAGTTCGAATGC
1245884 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATCTCAC
Found at i:1246337 original size:30 final size:30
Alignment explanation
Indices: 1246303--1246362 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
1246293 ATTTAATACG
1246303 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
1246333 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
1246363 TGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:1255615 original size:40 final size:40
Alignment explanation
Indices: 1255555--1255632 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
1255545 CATACTCTAT
1255555 CTCTAACTTGGAACTCAATATCTTTTCTTTTCAAATCAGC
1 CTCTAACTTGGAACTCAATATCTTTTCTTTTCAAATCAGC
*
1255595 CTCTAACTTGGAACTTAATATCTTTTCTTTTCAAATCA
1 CTCTAACTTGGAACTCAATATCTTTTCTTTTCAAATCA
1255633 ACATATGACT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.28, C:0.23, G:0.06, T:0.42
Consensus pattern (40 bp):
CTCTAACTTGGAACTCAATATCTTTTCTTTTCAAATCAGC
Found at i:1267686 original size:42 final size:43
Alignment explanation
Indices: 1267572--1267692 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
1267562 TTGAAAAGCT
* * *
1267572 TATACAATGCCAACGTCCCAGACATGGTCTTACAT-ATAATCA
1 TATACGATGCCAATGTCCCAAACATGGTCTTACATGATAATCA
* * * * *
1267614 AATATCGATGCCATTATCCCATACAAGGTCTTACATGA-AATCA
1 TATA-CGATGCCAATGTCCCAAACATGGTCTTACATGATAATCA
*
1267657 TATACGATGTCAATGTCCCAAACATGGTCTTACATG
1 TATACGATGCCAATGTCCCAAACATGGTCTTACATG
1267693 TAACAGCTCG
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 30 0.47
43 33 0.52
44 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (43 bp):
TATACGATGCCAATGTCCCAAACATGGTCTTACATGATAATCA
Found at i:1278608 original size:29 final size:29
Alignment explanation
Indices: 1278550--1278648 Score: 159
Period size: 28 Copynumber: 3.5 Consensus size: 29
1278540 ATAGTAAGTC
1278550 CGCACACTTAGTG-TTATATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
*
1278578 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
1278607 CGCACACTTAGTGC-TATATAATCAAACAT
1 CGCACACTTAGTGCTTATATAATCAAAC-T
1278636 -GCACACTTAGTGC
1 CGCACACTTAGTGC
1278649 CGAAATCAAC
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
28 38 0.57
29 29 0.43
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTATATAATCAAACT
Found at i:1282898 original size:37 final size:37
Alignment explanation
Indices: 1282848--1282926 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
1282838 TTATTACGAA
* * *
1282848 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
1282885 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
1282922 GTCTT
1 GTCTT
1282927 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:1283123 original size:47 final size:47
Alignment explanation
Indices: 1283045--1284021 Score: 1821
Period size: 47 Copynumber: 20.7 Consensus size: 47
1283035 CCCTTCGGGA
* * * * * *
1283045 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
1283092 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1283139 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1283186 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1283233 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1283280 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1283327 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1283374 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1283421 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1283468 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1283515 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1283562 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1283609 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1283656 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1283703 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1283750 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1283797 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1283844 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1283891 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
1283938 CTTATCACATATATATACACTTTCACATTCATCACATCGTCCATTAGGT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
1283987 CTTATCACATATATACA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
1284022 AGAATCCTAA
Statistics
Matches: 914, Mismatches: 13, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
46 1 0.00
47 868 0.95
49 45 0.05
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:1288277 original size:42 final size:43
Alignment explanation
Indices: 1288185--1288336 Score: 150
Period size: 42 Copynumber: 3.5 Consensus size: 43
1288175 CAATGTCGAC
* * *
1288185 GTCCCAGAC-GTGGTCTTACATGTAATTCAG-TATCGATGCCTCT
1 GTCCCAGACAG-GGTCTTACACGAAATTCAGATA-CGATGCCTAT
*
1288228 ATCCCAGACAGGGTCTTACACGAAATT-AGATACGATGCCTAT
1 GTCCCAGACAGGGTCTTACACGAAATTCAGATACGATGCCTAT
* * * * *
1288270 GTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGAGGCATGT
1 GTCCCAGACAGGGTCTTACACG-AAAT-TCAGATACGATGCCTAT
*
1288314 GTCCCAGACACGGTCTTACACGA
1 GTCCCAGACAGGGTCTTACACGA
1288337 TATCTCATAT
Statistics
Matches: 93, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
42 31 0.33
43 29 0.31
44 30 0.32
45 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACACGAAATTCAGATACGATGCCTAT
Found at i:1298014 original size:90 final size:90
Alignment explanation
Indices: 1297795--1298014 Score: 239
Period size: 90 Copynumber: 2.4 Consensus size: 90
1297785 AATAGGGTGA
* * * *
1297795 CAAAGCCATGT-CCTAGACATGGTCTTACATGGGACCACACATCGATGCCATATCCCAGATATGG
1 CAAAGCCATGTCCCT-GACATGGTCTTACACGGGACCTCATATCGATGCCATATCCCAGACATGG
* * *
1297859 TCTTATATGAAGTCTCGAATCGGTGC
65 TCTTATATGAAATCACGAATCGATGC
* * * * *
1297885 CAACGCCATGTCCTTGACATGGTCTTATACAGGACCTCATATCGATGCCATGTCCC-GAACATGG
1 CAAAGCCATGTCCCTGACATGGTCTTACACGGGACCTCATATCGATGCCATATCCCAG-ACATGG
*
1297949 TCTTATATGAAATCACTTAAT-GATGC
65 TCTTATATGAAATCAC-GAATCGATGC
* * * *
1297975 TAAAGCCATATCCCTGATATGGTCTTACACGGGATCTCAT
1 CAAAGCCATGTCCCTGACATGGTCTTACACGGGACCTCAT
1298015 TAATTATGGT
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
89 1 0.01
90 100 0.94
91 5 0.05
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (90 bp):
CAAAGCCATGTCCCTGACATGGTCTTACACGGGACCTCATATCGATGCCATATCCCAGACATGGT
CTTATATGAAATCACGAATCGATGC
Found at i:1300310 original size:51 final size:51
Alignment explanation
Indices: 1300225--1300364 Score: 149
Period size: 51 Copynumber: 2.7 Consensus size: 51
1300215 TGGATGCCCG
*
1300225 GTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTT-CACAAA
1 GTGGCCTGCACATAGTACCACACTTGTGA-TCAAAGCTACCTT-TTACACAAA
* * * * **
1300276 GTGGCCTTCACGTAGTACCACACTTGTGACCAAAGCTATCTTTTACACATG
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTACCTTTTACACAAA
** * *
1300327 GTGGCCTGCATTTAGTACCACACATGTGATCGAAGCTA
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTA
1300365 TCGGGTACGC
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
50 2 0.03
51 71 0.96
52 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (51 bp):
GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTACCTTTTACACAAA
Found at i:1300385 original size:51 final size:51
Alignment explanation
Indices: 1300270--1300506 Score: 188
Period size: 51 Copynumber: 4.6 Consensus size: 51
1300260 CTACCTTCTT
* * * * * **
1300270 CACAAAGTGGCCTTCACGTAGTACCACACTTGTGACCAAAGCTATCTTTTA
1 CACATAGTAGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCTGGTA
* * * * * *
1300321 CACATGGTGGCCTGCATTTAGTACCACACATGTGATCGAAGCTATCGGGTA
1 CACATAGTAGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCTGGTA
* ** * * *
1300372 CGCATAGTAGCCTGCACTTAGTAATACACATGCGACCTAA-CCATCTGGTA
1 CACATAGTAGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCTGGTA
* * * * * * ***
1300422 CACTTAATAGCCTGCACTTAGTACTACACATGTGACCTAAAACCATTTTAAA
1 CACATAGTAGCCTGCACTTAGTACCACACATGTGACC-AAAGCTATCTGGTA
* *
1300474 CACATAGTAGCCTGCACATAGTACTACACATGT
1 CACATAGTAGCCTGCACTTAGTACCACACATGT
1300507 TTTCTCACAA
Statistics
Matches: 149, Mismatches: 35, Indels: 3
0.80 0.19 0.02
Matches are distributed among these distances:
50 40 0.27
51 73 0.49
52 36 0.24
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (51 bp):
CACATAGTAGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCTGGTA
Found at i:1300490 original size:52 final size:50
Alignment explanation
Indices: 1300320--1300506 Score: 167
Period size: 50 Copynumber: 3.7 Consensus size: 50
1300310 GCTATCTTTT
* * * * * * * * **
1300320 ACACATGGTGGCCTGCATTTAGTACCACACATGTGATCGAAGCTATCGGGT
1 ACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CCATCTGAA
* * * **
1300371 ACGCATAGTAGCCTGCACTTAGTAATACACATGCGACCTAACCATCTGGT
1 ACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGAA
* * * *
1300421 ACACTTAATAGCCTGCACTTAGTACTACACATGTGACCTAAAACCATTTTAA
1 ACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATCTGAA
*
1300473 ACACATAGTAGCCTGCACATAGTACTACACATGT
1 ACACATAGTAGCCTGCACTTAGTACTACACATGT
1300507 TTTCTCACAA
Statistics
Matches: 111, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 41 0.37
51 32 0.29
52 38 0.34
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
ACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGAA
Found at i:1305931 original size:79 final size:80
Alignment explanation
Indices: 1305795--1305945 Score: 200
Period size: 79 Copynumber: 1.9 Consensus size: 80
1305785 TTGAATGATG
* *
1305795 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
1305860 GTGCGAGATACTAAT
66 GTGCGAGATACTAAT
* * * **
1305875 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
1305937 TTGTGCGAG
64 TTGTGCGAG
1305946 TTATTATAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.02
79 43 0.69
80 18 0.29
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTAAT
Found at i:1305986 original size:40 final size:40
Alignment explanation
Indices: 1305795--1305979 Score: 182
Period size: 40 Copynumber: 4.7 Consensus size: 40
1305785 TTGAATGATG
* * * * *
1305795 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGAGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
1305835 TCCG-GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGAG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
1305875 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
1305914 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTATTATAA
1 TCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
1305955 -CCGAGCTATGTCCCGAAGGCATTTG
1 TCCGAGCTAAGTCCCGAAGGCATTTG
1305980 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 36 0.29
40 76 0.62
41 11 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:1306010 original size:79 final size:79
Alignment explanation
Indices: 1305847--1306012 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
1305837 CGGACTAAGA
* * * **
1305847 TCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCAATTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTTACTA
*
1305912 AATCCGGGTTAAGT
66 AATCCGGGTTAAAT
* * * *
1305926 CCCGAAGGCAATTGTGCGAGTTA-TTATAACCGAGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 TCCGAAGGCAATTGTGCGAGATACTAAT-ACCGAGCTAAG-CCCGAAGGCATTTGAACGAGTTA-
*
1305989 CTATATCC-GGTTAAAT
63 CTAAATCCGGGTTAAAT
1306005 TCCGAAGG
1 TCCGAAGG
1306013 TACATGATTT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 3 0.04
79 44 0.61
80 25 0.35
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGAAGGCAATTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTTACTA
AATCCGGGTTAAAT
Found at i:1308922 original size:15 final size:16
Alignment explanation
Indices: 1308902--1308940 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
1308892 AGTTTTAATA
1308902 TATTTTTAA-AATTTT
1 TATTTTTAATAATTTT
*
1308917 TATTTTTAATGATTTT
1 TATTTTTAATAATTTT
1308933 TAATTTTT
1 T-ATTTTT
1308941 TTATGATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 6 0.29
17 6 0.29
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TATTTTTAATAATTTT
Found at i:1308922 original size:25 final size:25
Alignment explanation
Indices: 1308894--1308944 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
1308884 TGGTCACAAG
*
1308894 TTTTAATATATTTTTAAAATTTTTAT
1 TTTTAAT-GATTTTTAAAATTTTTAT
**
1308920 TTTTAATGATTTTTAATTTTTTTAT
1 TTTTAATGATTTTTAAAATTTTTAT
1308945 GATGATTGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTTAATGATTTTTAAAATTTTTAT
Found at i:1310886 original size:21 final size:24
Alignment explanation
Indices: 1310852--1310919 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 24
1310842 ATTAATTCAC
* *
1310852 ATTTAATTAGTATAAATATATA-T
1 ATTTAATAATTATAAATATATATT
1310875 -TTTAA-AATTATAAGA-ATATATT
1 ATTTAATAATTATAA-ATATATATT
*
1310897 ATTTAATAATTAAAAAATATATA
1 ATTTAATAATT-ATAAATATATA
1310920 AAATCTAGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
21 11 0.31
22 7 0.19
23 5 0.14
24 5 0.14
25 8 0.22
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (24 bp):
ATTTAATAATTATAAATATATATT
Found at i:1310901 original size:23 final size:24
Alignment explanation
Indices: 1310865--1310918 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
1310855 TAATTAGTAT
1310865 AAATATA-TATTTTAA-AATTATAA
1 AAATATATTATTTTAATAATTA-AA
*
1310888 GAATATATTA-TTTAATAATTAAA
1 AAATATATTATTTTAATAATTAAA
1310911 AAATATAT
1 AAATATAT
1310919 AAAATCTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 20 0.74
24 7 0.26
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AAATATATTATTTTAATAATTAAA
Found at i:1312531 original size:17 final size:18
Alignment explanation
Indices: 1312506--1312543 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
1312496 TTCATATTAG
1312506 TTTATTTCCCATATTA-AT
1 TTTATTT-CCATATTATAT
1312524 TTTA-TTCCATATTATAT
1 TTTATTTCCATATTATAT
1312541 TTT
1 TTT
1312544 GCATTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 7 0.37
18 4 0.21
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATTTCCATATTATAT
Found at i:1312778 original size:16 final size:17
Alignment explanation
Indices: 1312746--1312778 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1312736 AAAAAAATTT
1312746 TAAATTGATAGATATTA
1 TAAATTGATAGATATTA
*
1312763 TAAATT-ATATATATTA
1 TAAATTGATAGATATTA
1312779 AGACTATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (17 bp):
TAAATTGATAGATATTA
Found at i:1321756 original size:55 final size:55
Alignment explanation
Indices: 1321674--1321786 Score: 138
Period size: 55 Copynumber: 2.1 Consensus size: 55
1321664 CTCGTGTTAA
* * * *
1321674 TTTAATAGGTTCGACCACGGGTGTTCCACA-AGGGCATGTCGAATGCCCGTGTTGT
1 TTTAACAGGTTCGACCACGAGTCTTCCACACA-GGCATGTCGAACGCCCGTGTTGT
* * * *
1321729 TTTAACAGGTTCGCCCACGATTCTTCCACACAGGCGTGTCGCACGCCCGTGTTGT
1 TTTAACAGGTTCGACCACGAGTCTTCCACACAGGCATGTCGAACGCCCGTGTTGT
1321784 TTT
1 TTT
1321787 GGAAGGCTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 48 0.98
56 1 0.02
ACGTcount: A:0.18, C:0.27, G:0.26, T:0.30
Consensus pattern (55 bp):
TTTAACAGGTTCGACCACGAGTCTTCCACACAGGCATGTCGAACGCCCGTGTTGT
Found at i:1328225 original size:40 final size:40
Alignment explanation
Indices: 1328185--1328345 Score: 200
Period size: 40 Copynumber: 4.0 Consensus size: 40
1328175 TAATTGATTT
* * * *
1328185 AGGGTTACCAAAGAACAAACAAGGGCACGTATGTGCATTT
1 AGGGATACCAAAGTACAAACAGGGGCACGTATGTGCATTC
* *
1328225 AGGGATATTC-AAGTACAAATAGGGGCACGTATGTGCATTC
1 AGGGATA-CCAAAGTACAAACAGGGGCACGTATGTGCATTC
* *
1328265 AGCGG-TACAAAAGTACAAACAGGGGCACGTATATGCATTC
1 AG-GGATACCAAAGTACAAACAGGGGCACGTATGTGCATTC
* *
1328305 AGGGATACTAAAGTACAAACAGGGGCACATATGTGCATTC
1 AGGGATACCAAAGTACAAACAGGGGCACGTATGTGCATTC
1328345 A
1 A
1328346 AACAATATTT
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
39 2 0.02
40 99 0.95
41 3 0.03
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.20
Consensus pattern (40 bp):
AGGGATACCAAAGTACAAACAGGGGCACGTATGTGCATTC
Found at i:1328332 original size:80 final size:80
Alignment explanation
Indices: 1328194--1328345 Score: 232
Period size: 80 Copynumber: 1.9 Consensus size: 80
1328184 TAGGGTTACC
* * * * * *
1328194 AAAGAACAAACAAGGGCACGTATGTGCATTTAGGGATATTCAAGTACAAATAGGGGCACGTATGT
1 AAAGAACAAACAAGGGCACGTATATGCATTCAGGGATACTAAAGTACAAACAGGGGCACATATGT
1328259 GCATTCAGCGGTACA
66 GCATTCAGCGGTACA
* *
1328274 AAAGTACAAACAGGGGCACGTATATGCATTCAGGGATACTAAAGTACAAACAGGGGCACATATGT
1 AAAGAACAAACAAGGGCACGTATATGCATTCAGGGATACTAAAGTACAAACAGGGGCACATATGT
1328339 GCATTCA
66 GCATTCA
1328346 AACAATATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (80 bp):
AAAGAACAAACAAGGGCACGTATATGCATTCAGGGATACTAAAGTACAAACAGGGGCACATATGT
GCATTCAGCGGTACA
Found at i:1339079 original size:40 final size:40
Alignment explanation
Indices: 1339024--1339241 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
1339014 TGGATGATAA
* * *
1339024 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
1339064 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1339104 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
1339144 CCGGGATAAGTCCCGAAGGCATTGGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
1339184 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
1339224 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
1339242 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 16 0.10
40 144 0.90
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:1356599 original size:43 final size:43
Alignment explanation
Indices: 1356527--1356696 Score: 218
Period size: 43 Copynumber: 4.0 Consensus size: 43
1356517 CAATAGCTCG
* * * *
1356527 TACAATGCC-ATATCCTAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
* * *
1356568 TATCAATGCCACTGTCCCAGACAGGGTCTTACATGAAATCACAA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
* * * *
1356612 TACGATGCCAATGTCCCAAACATGGTCTTACACGTAATCATAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
1356655 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1356697 TCTCGATATC
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
41 2 0.02
42 7 0.06
43 96 0.89
44 3 0.03
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
Found at i:1357014 original size:21 final size:21
Alignment explanation
Indices: 1356964--1357006 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1356954 TTTGTTCTTG
1356964 ATCTATTTACATTGAAAATTA
1 ATCTATTTACATTGAAAATTA
1356985 ATCTATTTACATTGAAAATTA
1 ATCTATTTACATTGAAAATTA
1357006 A
1 A
1357007 CTCGTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (21 bp):
ATCTATTTACATTGAAAATTA
Found at i:1360294 original size:18 final size:17
Alignment explanation
Indices: 1360268--1360302 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1360258 CCATTTTGCG
1360268 GCCCATGTGGGCCCACAT
1 GCCCATGT-GGCCCACAT
*
1360286 GCCCTTGTGGCCCACAT
1 GCCCATGTGGCCCACAT
1360303 ATCCCAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.14, C:0.40, G:0.26, T:0.20
Consensus pattern (17 bp):
GCCCATGTGGCCCACAT
Found at i:1368315 original size:43 final size:43
Alignment explanation
Indices: 1368247--1368401 Score: 204
Period size: 43 Copynumber: 3.6 Consensus size: 43
1368237 TAAGGATACT
* * *
1368247 CAGATATGGTCTTACATGTTATCAC-ATATCGATGCCACTGTCC
1 CAGACATGGTCTTACATGTAATCACAATA-CGATGCCAATGTCC
* *
1368290 CAGACAGGGTCTTACATGAAATCACAATACGATGCCAATGTCC
1 CAGACATGGTCTTACATGTAATCACAATACGATGCCAATGTCC
* * * *
1368333 CAGACATGGTCTTACACGTAATCATAATACAATGCCAGTGTCC
1 CAGACATGGTCTTACATGTAATCACAATACGATGCCAATGTCC
*
1368376 TAGACATGGTCTTACATGTAATCACA
1 CAGACATGGTCTTACATGTAATCACA
1368402 TCTCGATAAC
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 94 0.97
44 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
CAGACATGGTCTTACATGTAATCACAATACGATGCCAATGTCC
Found at i:1371308 original size:40 final size:39
Alignment explanation
Indices: 1371244--1371455 Score: 237
Period size: 40 Copynumber: 5.3 Consensus size: 39
1371234 TCTTCGGAAT
* * *
1371244 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCAGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
1371283 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
1371323 TTTGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * * *
1371363 TTAACCCGGGTATAGCAACTCGTACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
1371403 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
1371443 TTAGCCCGGATAT
1 TTAGCCCGGATAT
1371456 CATTCAAATG
Statistics
Matches: 143, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
39 10 0.07
40 126 0.88
41 7 0.05
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:1371382 original size:80 final size:80
Alignment explanation
Indices: 1371244--1371455 Score: 318
Period size: 80 Copynumber: 2.7 Consensus size: 80
1371234 TCTTCGGAAT
* * * * * *
1371244 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
1371308 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * * *
1371323 TTTGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGTAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
1371388 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
1371403 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
1371456 CATTCAAATG
Statistics
Matches: 118, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
79 3 0.03
80 115 0.97
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:1381433 original size:48 final size:48
Alignment explanation
Indices: 1381362--1381483 Score: 192
Period size: 48 Copynumber: 2.5 Consensus size: 48
1381352 GCCTCAAGCT
* *
1381362 GATGCCATGTCCC-GAACATGGTCTTACACTAGCTCACATAACGATGCC
1 GATGCCATGTCCCAG-ACATGGTCTTACACTAGCTCACATAACAATACC
*
1381410 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAATACC
*
1381458 AATGCCATGTCCCAGACATGGTCTTA
1 GATGCCATGTCCCAGACATGGTCTTA
1381484 TACGGGATCA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 68 0.99
49 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAATACC
Found at i:1381538 original size:42 final size:42
Alignment explanation
Indices: 1381363--1381538 Score: 140
Period size: 48 Copynumber: 3.9 Consensus size: 42
1381353 CCTCAAGCTG
* *
1381363 ATGCCATGTCCC-GAACATGGTCTTACACTAGCTCACATAACGATGCCG
1 ATGCCATGTCCCAG-ACATGGTCTTACAC--GGTCAC---AC-ATGCCA
*
1381411 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATACCA
1 ATGCCATGTCCCAGACATGGTCTTACAC-GG-TCAC---AC-ATGCCA
* *
1381459 ATGCCATGTCCCAGACATGGTCTTATACGG-GATCACATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACGGTCA-CACATGCCA
* * *
1381501 ATGCCATATCCCAGATATGGTCTTACACGGTTACACAT
1 ATGCCATGTCCCAGACATGGTCTTACACGGTCACACAT
1381539 ATTGCCATGG
Statistics
Matches: 112, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
42 37 0.33
43 3 0.03
45 1 0.01
46 1 0.01
47 3 0.03
48 66 0.59
49 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGGTCACACATGCCA
Found at i:1384897 original size:37 final size:37
Alignment explanation
Indices: 1384847--1384943 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
1384837 TACTTGATGT
*
1384847 CATAGTCCAACTATGGTCTTACACAAAATCACAATGC
1 CATAGCCCAACTATGGTCTTACACAAAATCACAATGC
**** * *
1384884 CATAGCCCAACTATGGTCTTACATGTCATTACGATGC
1 CATAGCCCAACTATGGTCTTACACAAAATCACAATGC
*
1384921 CATAGCCCAGCTATGGTCTTACA
1 CATAGCCCAACTATGGTCTTACA
1384944 ATCCATACTT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (37 bp):
CATAGCCCAACTATGGTCTTACACAAAATCACAATGC
Found at i:1385382 original size:69 final size:69
Alignment explanation
Indices: 1385306--1385445 Score: 262
Period size: 69 Copynumber: 2.0 Consensus size: 69
1385296 ATAGGTGGAT
1385306 TTGCATGTCAAATTTCCCACCCTAAAACATAGTGGCCGGCCATGATGGGCATGAAAAGCATTTGT
1 TTGCATGTCAAATTTCCCACCCTAAAACATAGTGGCCGGCCATGATGGGCATGAAAAGCATTTGT
1385371 GCAA
66 GCAA
* *
1385375 TTGCATGTCAAATTTCCCACCTTAAAACATAGTGGCCGGCCATGATGGGCATGATAAGCATTTGT
1 TTGCATGTCAAATTTCCCACCCTAAAACATAGTGGCCGGCCATGATGGGCATGAAAAGCATTTGT
1385440 GCAA
66 GCAA
1385444 TT
1 TT
1385446 TTTTTTATTG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (69 bp):
TTGCATGTCAAATTTCCCACCCTAAAACATAGTGGCCGGCCATGATGGGCATGAAAAGCATTTGT
GCAA
Found at i:1387203 original size:18 final size:18
Alignment explanation
Indices: 1387182--1387217 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1387172 TTGTGGTAGC
1387182 CGAATGTGGCTTGGTACT
1 CGAATGTGGCTTGGTACT
1387200 CGAATGTGGCTTGGTACT
1 CGAATGTGGCTTGGTACT
1387218 AATGTGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (18 bp):
CGAATGTGGCTTGGTACT
Found at i:1387223 original size:16 final size:17
Alignment explanation
Indices: 1387184--1387223 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
1387174 GTGGTAGCCG
1387184 AATGTGGCTTGGTACTC
1 AATGTGGCTTGGTACTC
1387201 GAATGTGGCTTGGTACT-
1 -AATGTGGCTTGGTACTC
1387218 AATGTG
1 AATGTG
1387224 ATTAAATGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 6 0.27
18 16 0.73
ACGTcount: A:0.20, C:0.12, G:0.33, T:0.35
Consensus pattern (17 bp):
AATGTGGCTTGGTACTC
Found at i:1388572 original size:113 final size:114
Alignment explanation
Indices: 1388389--1388634 Score: 404
Period size: 113 Copynumber: 2.2 Consensus size: 114
1388379 GCAGGCTATA
*
1388389 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAATTCC
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCCGGTTAATTCC
*
1388454 TGCAGGCTTCGTACTGGTATTATATCTGGGTTAAATCCCGCAGGCTTCG
66 CGCAGGCTTCGTACTGGTATTATATCTGGGTTAAATCCCGCAGGCTTCG
*
1388503 TGCTGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCCGGTTAATTCC
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCCGGTTAATTCC
** * *
1388567 CGCAGGCTTCGTACTGGTATTATATCTGGGTTAAATCCTACAGGCCTAG
66 CGCAGGCTTCGTACTGGTATTATATCTGGGTTAAATCCCGCAGGCTTCG
* *
1388616 TGCTGGTATTATATTCGGG
1 TGCTGGAATTATATCCGGG
1388635 CCTTTGAGCC
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
113 105 0.87
114 16 0.13
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.33
Consensus pattern (114 bp):
TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCCGGTTAATTCC
CGCAGGCTTCGTACTGGTATTATATCTGGGTTAAATCCCGCAGGCTTCG
Found at i:1388611 original size:38 final size:38
Alignment explanation
Indices: 1388362--1388634 Score: 334
Period size: 38 Copynumber: 7.2 Consensus size: 38
1388352 ATGATATTTG
* ** * *
1388362 TATCCGGCTTAAAGACCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGTATTA
*
1388400 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * *
1388438 TATCCGGGTTAATTCCTGCAGGCTTCGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* *
1388476 TATCTGGGTTAAATCCCGCAGGCTTCGTGCT-GTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
1388513 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * *
1388551 TATCCCGGTTAATTCCCGCAGGCTTCGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* ** * *
1388589 TATCTGGGTTAAATCCTACAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
1388627 TATTCGGG
1 TATCCGGG
1388635 CCTTTGAGCC
Statistics
Matches: 203, Mismatches: 30, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
37 36 0.18
38 167 0.82
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
Found at i:1388678 original size:45 final size:45
Alignment explanation
Indices: 1388627--1388752 Score: 200
Period size: 45 Copynumber: 2.8 Consensus size: 45
1388617 GCTGGTATTA
*
1388627 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* * *
1388672 TATTCGGGCCTTTGGGCCTAGCAAGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
1388717 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCG
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCG
1388753 ATGAAATGAT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
44 4 0.05
45 70 0.95
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.27
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
Found at i:1390241 original size:46 final size:46
Alignment explanation
Indices: 1390188--1390363 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
1390178 TGATTGAGCA
1390188 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
1390234 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
1390279 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
1390327 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1390364 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:1390344 original size:93 final size:93
Alignment explanation
Indices: 1390185--1390356 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
1390175 GGATGATTGA
* * * *
1390185 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
1390250 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
1390278 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
1390343 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
1390357 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:1395031 original size:40 final size:40
Alignment explanation
Indices: 1394947--1395171 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
1394937 TTGAATGATG
* * * *
1394947 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
1394987 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
1395027 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
1395066 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
1395106 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
1395147 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
1395172 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:1395193 original size:119 final size:119
Alignment explanation
Indices: 1394947--1395204 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
1394937 TTGAATGATG
* *
1394947 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
1395012 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
1395066 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
1395129 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
1395186 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
1395205 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:1405944 original size:46 final size:46
Alignment explanation
Indices: 1405894--1406069 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
1405884 TGATTGAGCA
1405894 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
1405940 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
1405985 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
1406033 -CCTGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1406070 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 60 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:1406050 original size:93 final size:93
Alignment explanation
Indices: 1405891--1406062 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
1405881 GGATGATTGA
* *
1405891 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
1405956 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
1405984 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCATTGAG
1406048 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
1406063 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:1408510 original size:39 final size:38
Alignment explanation
Indices: 1408455--1408532 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 38
1408445 GTCCTAAATC
*
1408455 TCAGAATACTTCTGCAGCCAGTGTAGGGACCTCGAGAT
1 TCAGAATACTTCTGCAGCCAGTGTAGGGAACTCGAGAT
1408493 TNCAGAATACTTCTGCAGCCAGTGTAGGGAACTCGAGAT
1 T-CAGAATACTTCTGCAGCCAGTGTAGGGAACTCGAGAT
1408532 T
1 T
1408533 TGTTAAACCC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 1 0.03
39 37 0.97
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (38 bp):
TCAGAATACTTCTGCAGCCAGTGTAGGGAACTCGAGAT
Found at i:1415016 original size:87 final size:86
Alignment explanation
Indices: 1414908--1415070 Score: 272
Period size: 87 Copynumber: 1.9 Consensus size: 86
1414898 GTACATGCTA
*
1414908 AGGTTAAGTTCTTACTCTTAATGAATTCATATCCCACAGTTTGGGTGGTCCTATTGAGATGGACT
1 AGGTTAAGTTCTTACTCTTAATGAATTCATATCCCACAGTTTGGGTGGTCCTAATGAGATGGACT
1414973 TGATGAATTCATTGATATGTG
66 TGATGAATTCATTGATATGTG
* * * *
1414994 AGGTTAAGTTTCTTACTTTTAATGAGTTCATATCCTAGAGTTTGGGTGGTCCTAATGAGATGGAC
1 AGGTTAAG-TTCTTACTCTTAATGAATTCATATCCCACAGTTTGGGTGGTCCTAATGAGATGGAC
1415059 TTGATGAATTCA
65 TTGATGAATTCA
1415071 CAGAATTTAA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
86 8 0.11
87 63 0.89
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (86 bp):
AGGTTAAGTTCTTACTCTTAATGAATTCATATCCCACAGTTTGGGTGGTCCTAATGAGATGGACT
TGATGAATTCATTGATATGTG
Found at i:1416771 original size:14 final size:13
Alignment explanation
Indices: 1416752--1416796 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 13
1416742 AATCTTTAAA
1416752 ATATTTTTAAATTT
1 ATATTTTT-AATTT
1416766 ATATTTTTAATTT
1 ATATTTTTAATTT
*
1416779 -T-TTTATAATTT
1 ATATTTTTAATTT
1416790 ATATTTT
1 ATATTTT
1416797 CTTTTTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 9 0.33
12 2 0.07
13 8 0.30
14 8 0.30
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATTTTTAATTT
Found at i:1419078 original size:16 final size:16
Alignment explanation
Indices: 1419046--1419088 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
1419036 ACATTTTCAA
*
1419046 AAAATATATTAAGTTT
1 AAAATATATAAAGTTT
*
1419062 AAAATATATAAATTTT
1 AAAATATATAAAGTTT
* *
1419078 ACATTATATAA
1 AAAATATATAA
1419089 GTAGAATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (16 bp):
AAAATATATAAAGTTT
Found at i:1421276 original size:20 final size:20
Alignment explanation
Indices: 1421248--1421302 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
1421238 TAATGCAATC
*
1421248 AAAGTCACCAGAGT-ACAAAT
1 AAAGACACCAGAGTGA-AAAT
*
1421268 AAAGACACCATAGTGAAAAT
1 AAAGACACCAGAGTGAAAAT
* *
1421288 AGAGACACCAAAGTG
1 AAAGACACCAGAGTG
1421303 CAATCTTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.13
Consensus pattern (20 bp):
AAAGACACCAGAGTGAAAAT
Found at i:1423859 original size:26 final size:26
Alignment explanation
Indices: 1423830--1423939 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
1423820 TGATACAAAT
*
1423830 TGATAATATGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
1423856 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
1423882 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
1423908 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
1423934 TGATAA
1 TGATAA
1423940 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:1425415 original size:28 final size:26
Alignment explanation
Indices: 1425373--1425447 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
1425363 AAAAGTAGCT
* * *
1425373 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
*
1425401 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
1425427 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
1425448 GGTTAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:1425592 original size:27 final size:26
Alignment explanation
Indices: 1425552--1425663 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
1425542 AGGAAGCGTC
*
1425552 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
1425579 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
1425606 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * * *
1425634 CTAGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
1425660 CTGG
1 CTGG
1425664 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:1425656 original size:54 final size:54
Alignment explanation
Indices: 1425552--1425663 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
1425542 AGGAAGCGTC
* *
1425552 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTAGTGACTCTGCCACATATATCTGTT
* *
1425606 CTGGTGGCTCTGCCACGATTATCTGTATCTAGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACGATTATCTG-ATCTAGTGACTCTGCCACATATATCTGTT
1425660 CTGG
1 CTGG
1425664 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 36 0.68
55 17 0.32
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTGATCTAGTGACTCTGCCACATATATCTGTT
Found at i:1430148 original size:44 final size:41
Alignment explanation
Indices: 1430100--1430248 Score: 129
Period size: 42 Copynumber: 3.5 Consensus size: 41
1430090 TATAAGATCG
* *
1430100 TGTCTGGGACATAGGCCTTGATTTGAGATTTACGTGTAAGACCA
1 TGTCTGGGACATAGGCATTGATCT--GATTT-CGTGTAAGACCA
* *
1430144 TGTCTGGGACATAGGCATCGTATCTGATTTCGTGTAAGACCC
1 TGTCTGGGACATAGGCATTG-ATCTGATTTCGTGTAAGACCA
* * * * *
1430186 TGTTTGGGACAGAGGCATTGATACTGAGTTACATGTAATACCA
1 TGTCTGGGACATAGGCATTGAT-CTGA-TTTCGTGTAAGACCA
* *
1430229 CGTCCGGGACATTA-GCATTG
1 TGTCTGGGACA-TAGGCATTG
1430249 TACCCATTTA
Statistics
Matches: 86, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.02
42 32 0.37
43 30 0.35
44 19 0.22
45 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTCTGGGACATAGGCATTGATCTGATTTCGTGTAAGACCA
Found at i:1436368 original size:20 final size:20
Alignment explanation
Indices: 1436325--1436368 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
1436315 ACTGTTTTGT
1436325 TATGGGCCAACTGTCTTGAA
1 TATGGGCCAACTGTCTTGAA
*
1436345 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTCTTGAA
1436364 TATGG
1 TATGG
1436369 ACAAGGCCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (20 bp):
TATGGGCCAACTGTCTTGAA
Found at i:1438286 original size:17 final size:17
Alignment explanation
Indices: 1438264--1438297 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1438254 TTAGATGTTG
1438264 ATTTCTCGTATTTTATT
1 ATTTCTCGTATTTTATT
1438281 ATTTCTCGTATTTTATT
1 ATTTCTCGTATTTTATT
1438298 TTTGAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
ATTTCTCGTATTTTATT
Found at i:1438411 original size:15 final size:15
Alignment explanation
Indices: 1438388--1438417 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1438378 GAATGAAAAC
*
1438388 GAAATAGAAAGGAAA
1 GAAAAAGAAAGGAAA
1438403 GAAAAAGAAAGGAAA
1 GAAAAAGAAAGGAAA
1438418 AATAGGGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (15 bp):
GAAAAAGAAAGGAAA
Found at i:1438412 original size:27 final size:27
Alignment explanation
Indices: 1438361--1438412 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
1438351 AAACAAAATA
* *
1438361 GAAATAGAAAGAACAGAGAATGAAAAC
1 GAAATAGAAAGAACAGAAAAAGAAAAC
1438388 GAAATAGAAAGGAA-AGAAAAAGAAA
1 GAAATAGAAA-GAACAGAAAAAGAAA
1438413 GGAAAAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.67, C:0.04, G:0.23, T:0.06
Consensus pattern (27 bp):
GAAATAGAAAGAACAGAAAAAGAAAAC
Found at i:1439280 original size:6 final size:6
Alignment explanation
Indices: 1439271--1439309 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
1439261 CTGCTACTGC
* * *
1439271 TACTTT TACTAT TACTGT TACTAT TACTAT TACTGT TAC
1 TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TAC
1439310 GATGTATTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.51
Consensus pattern (6 bp):
TACTAT
Found at i:1439306 original size:18 final size:18
Alignment explanation
Indices: 1439265--1439309 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1439255 TGTGTACTGC
* *
1439265 TACTGCTACTTTTACTAT
1 TACTGTTACTATTACTAT
1439283 TACTGTTACTATTACTAT
1 TACTGTTACTATTACTAT
1439301 TACTGTTAC
1 TACTGTTAC
1439310 GATGTATTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.07, T:0.49
Consensus pattern (18 bp):
TACTGTTACTATTACTAT
Found at i:1440089 original size:41 final size:42
Alignment explanation
Indices: 1440016--1440095 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
1440006 ATTTTGAGTC
*
1440016 CACACGGCATGTCACACAGGCTTGTGATTAGACCATGTGAGA
1 CACACGGCATGTCACACAGGCATGTGATTAGACCATGTGAGA
* *
1440058 CACACGGCTTG-CACACGGGCATGTTGA-TAGACCATGTG
1 CACACGGCATGTCACACAGGCATG-TGATTAGACCATGTG
1440096 TCCCCTGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 21 0.62
42 13 0.38
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.21
Consensus pattern (42 bp):
CACACGGCATGTCACACAGGCATGTGATTAGACCATGTGAGA
Found at i:1445776 original size:18 final size:17
Alignment explanation
Indices: 1445755--1445788 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1445745 TATAATAGTT
1445755 AAAATAAATAAAAGAAAC
1 AAAATAAA-AAAAGAAAC
*
1445773 AAAATAGAAAAAGAAA
1 AAAATAAAAAAAGAAA
1445789 GAACAGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAATAAAAAAAGAAAC
Found at i:1445803 original size:21 final size:19
Alignment explanation
Indices: 1445778--1445831 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
1445768 GAAACAAAAT
1445778 AGAAAAAGAAAGAACAGAGAA
1 AGAAAAAGAAAGAA-AG-GAA
* *
1445799 TGAAAACGAAATTGAAAGGAA
1 AGAAAAAGAAA--GAAAGGAA
1445820 AGAAAAAGAAAG
1 AGAAAAAGAAAG
1445832 GAAAAATAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
19 1 0.04
21 21 0.78
22 2 0.07
23 3 0.11
ACGTcount: A:0.67, C:0.04, G:0.24, T:0.06
Consensus pattern (19 bp):
AGAAAAAGAAAGAAAGGAA
Found at i:1454040 original size:27 final size:27
Alignment explanation
Indices: 1454003--1454990 Score: 1906
Period size: 27 Copynumber: 36.6 Consensus size: 27
1453993 TAAATTGTGC
*
1454003 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454030 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
1454058 AGCACT-AGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454084 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454111 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454138 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454165 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454192 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454219 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454246 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454273 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454300 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454327 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454354 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454381 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454408 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454435 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454462 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454489 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454516 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454543 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454570 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454597 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454624 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454651 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454678 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454705 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454732 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454759 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454786 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454813 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454840 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454867 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
1454894 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
1454921 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
1454949 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
1454976 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
1454991 GACTTAATAA
Statistics
Matches: 954, Mismatches: 4, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
26 16 0.02
27 896 0.94
28 42 0.04
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:1457657 original size:71 final size:71
Alignment explanation
Indices: 1457570--1457709 Score: 226
Period size: 71 Copynumber: 2.0 Consensus size: 71
1457560 CCTTCTTGAC
* ** * *
1457570 AGACTTGTCAGGCAACAACATTCCTCTTACCATATAAAGTATTTGAGCTCTAACATATCAATCAA
1 AGACTTGTCAGACAACAACATTCAACTTACCATATAAAGCATTTGAGCTCTAACATATCAACCAA
1457635 TCTCAT
66 TCTCAT
*
1457641 AGACTTGTCCGACAACAACATTCAACTTACCATATAAAGCATTTGAGCTCTAACATATCAACCAA
1 AGACTTGTCAGACAACAACATTCAACTTACCATATAAAGCATTTGAGCTCTAACATATCAACCAA
1457706 TCTC
66 TCTC
1457710 CTTCACAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.29
Consensus pattern (71 bp):
AGACTTGTCAGACAACAACATTCAACTTACCATATAAAGCATTTGAGCTCTAACATATCAACCAA
TCTCAT
Found at i:1458458 original size:25 final size:25
Alignment explanation
Indices: 1458430--1458478 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
1458420 ACAAAGGACA
1458430 AATAAAGGTTTTAGTCAGACTTCAG
1 AATAAAGGTTTTAGTCAGACTTCAG
1458455 AATAAAGGTTTTAGTCAGACTTCA
1 AATAAAGGTTTTAGTCAGACTTCA
1458479 CAATTTAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (25 bp):
AATAAAGGTTTTAGTCAGACTTCAG
Found at i:1466635 original size:31 final size:30
Alignment explanation
Indices: 1466580--1466667 Score: 95
Period size: 31 Copynumber: 2.9 Consensus size: 30
1466570 TAATCACTTA
* * * *
1466580 ATTAAAAAATATATAATTAGATTATTACATT
1 ATTAAAAAATTTAT-TTTAAATTATTAAATT
* *
1466611 ATTTAAAAATTTTTATTTAAATTATTAAATT
1 ATTAAAAAATTTAT-TTTAAATTATTAAATT
*
1466642 ATTAAAAAATTTATTTTAAATCATTA
1 ATTAAAAAATTTATTTTAAATTATTA
1466668 TAAAGGCATA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
30 11 0.23
31 37 0.77
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (30 bp):
ATTAAAAAATTTATTTTAAATTATTAAATT
Found at i:1468117 original size:49 final size:49
Alignment explanation
Indices: 1467991--1468117 Score: 127
Period size: 49 Copynumber: 2.6 Consensus size: 49
1467981 TTATTTTCTT
*
1467991 TAATTAATTTAAATTAACTAAGAGATAAATATTAAAAATTTCTATTATAAC
1 TAATTAATTTAAATTAA-TAAGAGAT-AAGATTAAAAATTTCTATTATAAC
* * **
1468042 TAATTAAATTTAAA-TATTAAGTGATAAGATTAAATAATTAT-T-TTATCTC
1 TAATT-AATTTAAATTAATAAGAGATAAGATTAAA-AATT-TCTATTATAAC
1468091 TATATT-ATTTAAATTAATAAGAGATAA
1 TA-ATTAATTTAAATTAATAAGAGATAA
1468118 ATATTAATTA
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
48 7 0.11
49 26 0.41
50 15 0.23
51 8 0.12
52 8 0.12
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.42
Consensus pattern (49 bp):
TAATTAATTTAAATTAATAAGAGATAAGATTAAAAATTTCTATTATAAC
Found at i:1470272 original size:20 final size:20
Alignment explanation
Indices: 1470247--1470285 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1470237 TGGAGTAGGA
*
1470247 ATATCGATACCTTATGAAAT
1 ATATCGATACCTTAAGAAAT
*
1470267 ATATCGATATCTTAAGAAA
1 ATATCGATACCTTAAGAAA
1470286 AGTATTGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:1474718 original size:33 final size:33
Alignment explanation
Indices: 1474671--1474852 Score: 244
Period size: 33 Copynumber: 5.5 Consensus size: 33
1474661 GCCGTGTGAT
1474671 CCACACGGCCAAGGCCAATTTGGACAAG-GTGGG
1 CCACACGGCCAAGGCCAATTTGGAC-AGTGTGGG
*
1474704 CCACACGGCTAAGGCCAATTTGGACAAG-GTGGG
1 CCACACGGCCAAGGCCAATTTGGAC-AGTGTGGG
* *
1474737 CCACACGGCCAAGGCCAATTTAGACCGTGTGGG
1 CCACACGGCCAAGGCCAATTTGGACAGTGTGGG
*
1474770 CCACACGGCCAAGGCCAATTTGGACCGTGTGGG
1 CCACACGGCCAAGGCCAATTTGGACAGTGTGGG
* * *
1474803 CCACACGACCAAGGCCAATTTAGACCGTGTGGG
1 CCACACGGCCAAGGCCAATTTGGACAGTGTGGG
*
1474836 TCCACACGGGC-AGGCCA
1 -CCACACGGCCAAGGCCA
1474853 CATTGGCGTG
Statistics
Matches: 138, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
32 1 0.01
33 129 0.93
34 8 0.06
ACGTcount: A:0.25, C:0.30, G:0.31, T:0.14
Consensus pattern (33 bp):
CCACACGGCCAAGGCCAATTTGGACAGTGTGGG
Found at i:1477156 original size:12 final size:11
Alignment explanation
Indices: 1477128--1477168 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
1477118 TATGAACATG
1477128 ATTAATTTTAT
1 ATTAATTTTAT
1477139 -TTAATTTTAT
1 ATTAATTTTAT
1477149 AATTAATTTTA-
1 -ATTAATTTTAT
*
1477160 AGTAATTTT
1 ATTAATTTT
1477169 GGTTATTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 18 0.67
12 9 0.33
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
ATTAATTTTAT
Found at i:1484396 original size:35 final size:35
Alignment explanation
Indices: 1484354--1484526 Score: 238
Period size: 35 Copynumber: 4.9 Consensus size: 35
1484344 TTTTTATATT
*
1484354 CTTTAAATGTTTATGTAAGTTATGATAATCATTAA
1 CTTTAAATGTTTATGTAAGTTATGATTATCATTAA
* *
1484389 CTTTAAATGCTCATGTAAGTTATGATTATCATTAA
1 CTTTAAATGTTTATGTAAGTTATGATTATCATTAA
* *
1484424 CTTTAAATGTTCATGTAAGTTATGATTACCATTAA
1 CTTTAAATGTTTATGTAAGTTATGATTATCATTAA
* * * * *
1484459 CCTTAAATGTTTATCTGAGTTATGCTAATCATTAA
1 CTTTAAATGTTTATGTAAGTTATGATTATCATTAA
* *
1484494 CTTCAAATGTTTATTTAAGTTATGATTATCATT
1 CTTTAAATGTTTATGTAAGTTATGATTATCATT
1484527 TTTTATCACC
Statistics
Matches: 120, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 120 1.00
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (35 bp):
CTTTAAATGTTTATGTAAGTTATGATTATCATTAA
Done.