Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 5 of 175
Found at i:1384841 original size:125 final size:124
Alignment explanation
Indices: 1384616--1384896 Score: 424
Period size: 125 Copynumber: 2.3 Consensus size: 124
1384606 CCACGAGGGC
* * * *
1384616 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAATAATTATTTCCTACATGACCAATGTAGCG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAATAATTATTTCCTACATGACCAATGTACCA
* * **
1384681 AAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCT-TATATAGCATCCTGGTATCA
66 AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCT-GATAGCATCCTGGTAGAA
*
1384740 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAA-AATTATTTCTTACATGACCAACTGTAC
1 GCGATTTTATACTATTTGCTCAG-AAACGTCAAAAAATAATTATTTCCTACATGACCAA-TGTAC
1384804 CAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGCATCCTGGTAGAA
64 CAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGCATCCTGGTAGAA
1384865 GCGATTTTATACTATTTGAC-CAGAAACGTCAA
1 GCGATTTTATACTATTTG-CTCAGAAACGTCAA
1384897 CTCGAAATAA
Statistics
Matches: 144, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
124 50 0.35
125 92 0.64
126 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (124 bp):
GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAATAATTATTTCCTACATGACCAATGTACCA
AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGCATCCTGGTAGAA
Found at i:1384961 original size:14 final size:14
Alignment explanation
Indices: 1384921--1384970 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
1384911 TCCCGGGATC
1384921 CCTAAACCCTAAAAA
1 CCTAAACCCT-AAAA
** *
1384936 GCCTGTACCCTAAAC
1 -CCTAAACCCTAAAA
1384951 CCTAAACCCTAAAA
1 CCTAAACCCTAAAA
1384965 CCTAAA
1 CCTAAA
1384971 AAACCCAAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 17 0.61
15 3 0.11
16 8 0.29
ACGTcount: A:0.44, C:0.36, G:0.04, T:0.16
Consensus pattern (14 bp):
CCTAAACCCTAAAA
Found at i:1386768 original size:9 final size:9
Alignment explanation
Indices: 1386754--1386812 Score: 66
Period size: 9 Copynumber: 6.4 Consensus size: 9
1386744 TTTGGTTAAA
1386754 AATTACCCG
1 AATTACCCG
1386763 AATTACCCG
1 AATTACCCG
*
1386772 AATTAACCG
1 AATTACCCG
1386781 AATTA-CCG
1 AATTACCCG
* *
1386789 AAAAATACCTG
1 --AATTACCCG
1386800 AATTACCCG
1 AATTACCCG
1386809 AATT
1 AATT
1386813 TTTTTATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
8 3 0.07
9 33 0.79
10 4 0.10
11 2 0.05
ACGTcount: A:0.41, C:0.25, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:1387126 original size:39 final size:38
Alignment explanation
Indices: 1387083--1387208 Score: 146
Period size: 39 Copynumber: 3.2 Consensus size: 38
1387073 TATTTTTATT
* *
1387083 TTTTTATTTTTAAAATACTTTTAAAATACTTTTTTTAAA
1 TTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTAAA
* *
1387122 TTTTTTTTAATTTTAAAATATTTTTAAAATACATTTTTAATT
1 ---TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA-A
*
1387164 TTTTTAATTTTAAAATATTTTTAAAATAAATTTTTT-AA
1 TTTTTAATTTTAAAATATTTTTAAAAT-ACTTTTTTAAA
1387202 TTTTTAA
1 TTTTTAA
1387209 AATAAATTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
38 7 0.09
39 28 0.37
40 6 0.08
41 7 0.09
42 27 0.36
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (38 bp):
TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAA
Found at i:1387137 original size:17 final size:17
Alignment explanation
Indices: 1387115--1387212 Score: 58
Period size: 17 Copynumber: 5.6 Consensus size: 17
1387105 AAAATACTTT
* *
1387115 TTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAA
1387132 TTTTAAAATATTTTTAAAA
1 TTTTAAAATATTTTT--AA
** *
1387151 TACATTTTTAATTTTTTTAA
1 T---TTTAAAATATTTTTAA
1387171 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
**
1387188 -AAT-AAAT-TTTTTAA
1 TTTTAAAATATTTTTAA
1387202 TTTTTAAAATA
1 -TTTTAAAATA
1387213 AATTTTTGGT
Statistics
Matches: 60, Mismatches: 12, Indels: 17
0.67 0.13 0.19
Matches are distributed among these distances:
14 7 0.12
15 4 0.07
16 2 0.03
17 30 0.50
19 3 0.05
20 3 0.05
22 11 0.18
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:1387159 original size:13 final size:11
Alignment explanation
Indices: 1387087--1387191 Score: 52
Period size: 11 Copynumber: 10.2 Consensus size: 11
1387077 TTTATTTTTT
1387087 TATTTTTAAAA
1 TATTTTTAAAA
*
1387098 TACTTTTAAAA
1 TATTTTTAAAA
*
1387109 TACTTTTTTTAAA
1 TA--TTTTTAAAA
*
1387122 T-TTTTT---T
1 TATTTTTAAAA
*
1387129 TAATTTTAAAA
1 TATTTTTAAAA
1387140 TATTTTTAAAA
1 TATTTTTAAAA
1387151 TACATTTTT--AA
1 T--ATTTTTAAAA
1387162 T-TTTTT----
1 TATTTTTAAAA
*
1387168 TAATTTTAAAA
1 TATTTTTAAAA
1387179 TATTTTTAAAA
1 TATTTTTAAAA
1387190 TA
1 TA
1387192 AATTTTTTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 26
0.67 0.08 0.24
Matches are distributed among these distances:
6 1 0.01
7 5 0.07
8 9 0.12
10 5 0.07
11 38 0.53
13 14 0.19
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:1387166 original size:21 final size:21
Alignment explanation
Indices: 1387142--1387219 Score: 69
Period size: 21 Copynumber: 3.9 Consensus size: 21
1387132 TTTTAAAATA
*
1387142 TTTTTAAAATACATTTTTAAT
1 TTTTTAAAATAAATTTTTAAT
*
1387163 TTTTT----T-AATTTTAAAAT
1 TTTTTAAAATAAATTTT-TAAT
1387180 ATTTTTAAAATAAATTTTTTAA-
1 -TTTTTAAAATAAA-TTTTTAAT
1387202 TTTTTAAAATAAATTTTT
1 TTTTTAAAATAAATTTTT
1387220 GGTATTTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 17
0.70 0.05 0.26
Matches are distributed among these distances:
16 5 0.11
17 4 0.09
18 5 0.11
20 5 0.11
21 18 0.39
22 1 0.02
23 4 0.09
24 4 0.09
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTTAAAATAAATTTTTAAT
Found at i:1393900 original size:18 final size:18
Alignment explanation
Indices: 1393877--1393913 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1393867 TGCTAGTCGG
1393877 ACTTAAAAAAAACTTAAT
1 ACTTAAAAAAAACTTAAT
1393895 ACTTAAAAAAAACTTAAT
1 ACTTAAAAAAAACTTAAT
1393913 A
1 A
1393914 ACCTAATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (18 bp):
ACTTAAAAAAAACTTAAT
Found at i:1398186 original size:85 final size:84
Alignment explanation
Indices: 1398048--1398211 Score: 265
Period size: 85 Copynumber: 1.9 Consensus size: 84
1398038 ATTGATAGGC
* * * *
1398048 TGAGGAGGATGGGACTTGTAAAACAGTTCACTCGGTGGGTTGAGAGTCGTAAAGTGAGGGTTTGA
1 TGAGGAGGATGGGACTTGTAAAACAATTCACTCGATGGGCTGAGAGTCGTAAAGTGAGAGTTTGA
1398113 AGTAAAAGAGTTGATGGAT
66 AGTAAAAGAGTTGATGGAT
* *
1398132 TGAGGAGGATGGGGACTTGTAAGACAATTCACTCGATGGGCTGAGAGTCTTAAAGTGAGAGTTTG
1 TGAGGAGGAT-GGGACTTGTAAAACAATTCACTCGATGGGCTGAGAGTCGTAAAGTGAGAGTTTG
1398197 AAGTAAAAGAGTTGA
65 AAGTAAAAGAGTTGA
1398212 AGACAAGGAT
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
84 10 0.14
85 63 0.86
ACGTcount: A:0.31, C:0.08, G:0.35, T:0.26
Consensus pattern (84 bp):
TGAGGAGGATGGGACTTGTAAAACAATTCACTCGATGGGCTGAGAGTCGTAAAGTGAGAGTTTGA
AGTAAAAGAGTTGATGGAT
Found at i:1398477 original size:22 final size:24
Alignment explanation
Indices: 1398452--1398501 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
1398442 GAACTTTTTT
1398452 AATTGAGTTTTGAA-ATTTTTA-A
1 AATTGAGTTTTGAATATTTTTATA
***
1398474 AATTTTTTTTTGAATATTTTTATA
1 AATTGAGTTTTGAATATTTTTATA
1398498 AATT
1 AATT
1398502 TTAATGTGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 11 0.48
23 7 0.30
24 5 0.22
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (24 bp):
AATTGAGTTTTGAATATTTTTATA
Found at i:1398503 original size:23 final size:22
Alignment explanation
Indices: 1398459--1398503 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1398449 TTTAATTGAG
1398459 TTTTGAAATTTTTAAAATTTTT
1 TTTTGAAATTTTTAAAATTTTT
1398481 TTTTGAATATTTTTATAAATTTT
1 TTTTGAA-ATTTTTA-AAATTTT
1398504 AATGTGGCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.33
23 7 0.33
24 7 0.33
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (22 bp):
TTTTGAAATTTTTAAAATTTTT
Found at i:1404119 original size:14 final size:14
Alignment explanation
Indices: 1404100--1404126 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1404090 TTCATATTTC
1404100 TAATAATTTTAATT
1 TAATAATTTTAATT
1404114 TAATAATTTTAAT
1 TAATAATTTTAAT
1404127 GTTCGTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TAATAATTTTAATT
Found at i:1404487 original size:15 final size:15
Alignment explanation
Indices: 1404464--1404497 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1404454 CCCACCAAAT
*
1404464 CACCCCCACCGACAC
1 CACCACCACCGACAC
*
1404479 CACCACCACCGTCAC
1 CACCACCACCGACAC
1404494 CACC
1 CACC
1404498 TCTTCCTCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.65, G:0.06, T:0.03
Consensus pattern (15 bp):
CACCACCACCGACAC
Found at i:1410622 original size:44 final size:46
Alignment explanation
Indices: 1410537--1410630 Score: 147
Period size: 46 Copynumber: 2.1 Consensus size: 46
1410527 TTTTAAAGAC
*
1410537 TAAAAAAATAATTTTATTCGCTTTAAAATAAAAAAATTAAAACAAT
1 TAAAAAAATAATTGTATTCGCTTTAAAATAAAAAAATTAAAACAAT
* *
1410583 TAAAAATATAATTGTATTTGCTTTAAAAT-AAAAAA-TAAAACAAT
1 TAAAAAAATAATTGTATTCGCTTTAAAATAAAAAAATTAAAACAAT
1410627 TAAA
1 TAAA
1410631 TTAAATTCGA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 13 0.29
45 6 0.13
46 26 0.58
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (46 bp):
TAAAAAAATAATTGTATTCGCTTTAAAATAAAAAAATTAAAACAAT
Found at i:1418684 original size:29 final size:29
Alignment explanation
Indices: 1418652--1418721 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
1418642 ACCAGGCCGC
** *
1418652 GTGAGCCATTCGGCTGTGTGGCAGGTCGT
1 GTGAGCCACACGGCTGTGTGGCAGATCGT
*
1418681 GTGAGCCACACGGCTTTGTGGCAGATCGT
1 GTGAGCCACACGGCTGTGTGGCAGATCGT
1418710 GTGAGCCACACG
1 GTGAGCCACACG
1418722 CCTGCATGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.16, C:0.24, G:0.37, T:0.23
Consensus pattern (29 bp):
GTGAGCCACACGGCTGTGTGGCAGATCGT
Found at i:1429909 original size:109 final size:109
Alignment explanation
Indices: 1429730--1429936 Score: 371
Period size: 109 Copynumber: 1.9 Consensus size: 109
1429720 TAACAGAGAA
*
1429730 ACTTGATTGATATATTATAGATATTTTGATAACTCGATTAGAATGCTTTAAAGTTTAGTGATCAA
1 ACTTAATTGATATATTATAGATATTTTGATAACTCGATTAGAATGCTTTAAAGTTTAGTGATCAA
1429795 TTTAAAATCTGAACAACAGGTGGTGGAGGTTTGCTAACGGAGGG
66 TTTAAAATCTGAACAACAGGTGGTGGAGGTTTGCTAACGGAGGG
*
1429839 ACTTAATTGTTATATTACT-GATATTTTGATAACTCGATTAGAATGCTTTAAAGTTTAGTGATCA
1 ACTTAATTGATATATTA-TAGATATTTTGATAACTCGATTAGAATGCTTTAAAGTTTAGTGATCA
*
1429903 ATTTAAAATCTGAATAACAGGTGGTGGAGGTTTG
65 ATTTAAAATCTGAACAACAGGTGGTGGAGGTTTG
1429937 GTGAAATTAA
Statistics
Matches: 94, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
109 93 0.99
110 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (109 bp):
ACTTAATTGATATATTATAGATATTTTGATAACTCGATTAGAATGCTTTAAAGTTTAGTGATCAA
TTTAAAATCTGAACAACAGGTGGTGGAGGTTTGCTAACGGAGGG
Found at i:1432597 original size:31 final size:31
Alignment explanation
Indices: 1432538--1432616 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
1432528 TTATATTCAG
*
1432538 TTTTAATGTTCAATTTGGTATCTGAGTTTAA
1 TTTTAATGTTCAATTTGGTATCTAAGTTTAA
* * *
1432569 TTTTGATGTTCAGTTTGGTA-CTTAAGTTTGA
1 TTTTAATGTTCAATTTGGTATC-TAAGTTTAA
* *
1432600 CTTTAATATTCAATTTG
1 TTTTAATGTTCAATTTG
1432617 ATTTTTGATT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 1 0.03
31 38 0.97
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (31 bp):
TTTTAATGTTCAATTTGGTATCTAAGTTTAA
Found at i:1433794 original size:14 final size:15
Alignment explanation
Indices: 1433775--1433803 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1433765 CAACCAACAA
1433775 TTTTAATTTT-AATT
1 TTTTAATTTTCAATT
1433789 TTTTAATTTTCAATT
1 TTTTAATTTTCAATT
1433804 ACGTATGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTAATTTTCAATT
Found at i:1440352 original size:30 final size:29
Alignment explanation
Indices: 1440306--1440362 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
1440296 TATTTCTTTT
1440306 AAAAATTTTGAAAAATTTTAATTAAGCCC
1 AAAAATTTTGAAAAATTTTAATTAAGCCC
* *
1440335 AAAAATCTTTTAAAAATTTTCATTAAGC
1 AAAAAT-TTTGAAAAATTTTAATTAAGC
1440363 TCCTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (29 bp):
AAAAATTTTGAAAAATTTTAATTAAGCCC
Found at i:1440814 original size:2 final size:2
Alignment explanation
Indices: 1440807--1440833 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1440797 GTCAGACTAA
1440807 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1440834 AAGCATATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1445963 original size:9 final size:9
Alignment explanation
Indices: 1445949--1445992 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
1445939 AATTATTTTT
1445949 TAAAAAATA
1 TAAAAAATA
1445958 TAAAAAA-A
1 TAAAAAATA
*
1445966 TCAAAAA-A
1 TAAAAAATA
*
1445974 TAAAAAGTA
1 TAAAAAATA
1445983 TAAAAAATA
1 TAAAAAATA
1445992 T
1 T
1445993 TTTTAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 13 0.43
9 17 0.57
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (9 bp):
TAAAAAATA
Found at i:1445987 original size:16 final size:17
Alignment explanation
Indices: 1445949--1445992 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
1445939 AATTATTTTT
1445949 TAAAAAATATAAAAAAA
1 TAAAAAATATAAAAAAA
**
1445966 TCAAAAAATA-AAAAGTA
1 T-AAAAAATATAAAAAAA
1445983 TAAAAAATAT
1 TAAAAAATAT
1445993 TTTTAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.35
17 7 0.30
18 8 0.35
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (17 bp):
TAAAAAATATAAAAAAA
Found at i:1446611 original size:7 final size:7
Alignment explanation
Indices: 1446599--1446628 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
1446589 AATTCGATTA
1446599 AATATTT
1 AATATTT
1446606 AATATTT
1 AATATTT
1446613 AATATTT
1 AATATTT
1446620 AATATTT
1 AATATTT
1446627 AA
1 AA
1446629 AAGTTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AATATTT
Found at i:1451382 original size:3 final size:3
Alignment explanation
Indices: 1451369--1451399 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1451359 TCCCAAGGTT
*
1451369 ACC ATC ACC ACC ACC ACC ACC ACC ACC ACC A
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC A
1451400 TCAAGCAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.61, G:0.00, T:0.03
Consensus pattern (3 bp):
ACC
Found at i:1457322 original size:214 final size:214
Alignment explanation
Indices: 1456946--1457382 Score: 865
Period size: 214 Copynumber: 2.0 Consensus size: 214
1456936 TCCAACCGTC
1456946 ATATTTCATATTCTATTTATATAGATCATGCATGTCAAATTTAACGTAAATTAAAATTTTCTAAC
1 ATATTT-ATATTCTATTTATATAGATCATGCATGTCAAATTTAACGTAAATTAAAATTTTCTAAC
1457011 TATTTATTTTATATAAAAACACTGTCAACTGTTTAATAAATATTAATATATACAATACTTTAGAT
65 TATTTATTTTATATAAAAACACTGTCAACTGTTTAATAAATATTAATATATACAATACTTTAGAT
1457076 TGATATGATAGATATCGAATCAATTCAACAATTATAATGCATGACAATTATAATTACATCAAAAT
130 TGATATGATAGATATCGAATCAATTCAACAATTATAATGCATGACAATTATAATTACATCAAAAT
1457141 TTAATGGTTGGATCGTTAAA
195 TTAATGGTTGGATCGTTAAA
1457161 ATATTTATATTCTATTTATATAGATCATGCATGTCAAATTTAACGTAAATTAAAATTTTCTAACT
1 ATATTTATATTCTATTTATATAGATCATGCATGTCAAATTTAACGTAAATTAAAATTTTCTAACT
1457226 ATTTATTTTATATAAAAACACTGTCAACTGTTTAATAAATATTAATATATACAATACTTTAGATT
66 ATTTATTTTATATAAAAACACTGTCAACTGTTTAATAAATATTAATATATACAATACTTTAGATT
1457291 GATATGATAGATATCGAATCAATTCAACAATTATAATGCATGACAATTATAATTACATCAAAATT
131 GATATGATAGATATCGAATCAATTCAACAATTATAATGCATGACAATTATAATTACATCAAAATT
1457356 TAATGGTTGGATCGTTAAA
196 TAATGGTTGGATCGTTAAA
1457375 ATATTTAT
1 ATATTTAT
1457383 CGTACAAAGA
Statistics
Matches: 222, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
214 216 0.97
215 6 0.03
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (214 bp):
ATATTTATATTCTATTTATATAGATCATGCATGTCAAATTTAACGTAAATTAAAATTTTCTAACT
ATTTATTTTATATAAAAACACTGTCAACTGTTTAATAAATATTAATATATACAATACTTTAGATT
GATATGATAGATATCGAATCAATTCAACAATTATAATGCATGACAATTATAATTACATCAAAATT
TAATGGTTGGATCGTTAAA
Found at i:1460797 original size:26 final size:27
Alignment explanation
Indices: 1460737--1460806 Score: 97
Period size: 26 Copynumber: 2.6 Consensus size: 27
1460727 TCATTAATCA
* *
1460737 GGAAGCTCACAAAGAGCCAATTTAACT
1 GGAAGCTCACAAAGAGCCAATGTAACG
*
1460764 GGAAGCTCACGAAGAGCC-ATGTAACG
1 GGAAGCTCACAAAGAGCCAATGTAACG
*
1460790 GGACGCTCACAAAGAGC
1 GGAAGCTCACAAAGAGC
1460807 TGTGGTATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
26 21 0.55
27 17 0.45
ACGTcount: A:0.37, C:0.24, G:0.26, T:0.13
Consensus pattern (27 bp):
GGAAGCTCACAAAGAGCCAATGTAACG
Found at i:1462896 original size:29 final size:30
Alignment explanation
Indices: 1462863--1462919 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1462853 TCTGAGCCTT
*
1462863 GGGGCAAAA-TGTAATTATGTAAAAGTTTA
1 GGGGCAAAATTGTAATTATGAAAAAGTTTA
*
1462892 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAATTGTAATTATGAAAAAGTT
1462920 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (30 bp):
GGGGCAAAATTGTAATTATGAAAAAGTTTA
Found at i:1463149 original size:13 final size:13
Alignment explanation
Indices: 1463131--1463162 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1463121 TTTCCAGCAA
1463131 TTATGAATTTATT
1 TTATGAATTTATT
1463144 TTATGAATTTATT
1 TTATGAATTTATT
*
1463157 TGATGA
1 TTATGA
1463163 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:1463387 original size:50 final size:50
Alignment explanation
Indices: 1463265--1463497 Score: 272
Period size: 50 Copynumber: 4.5 Consensus size: 50
1463255 AAAGAGATCT
* * *
1463265 CATGTAAGACCATGTCTGGGACATGGCATTGGTATCCTTAAGATCCTGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA--C-GAGAGGTCC
*
1463321 CCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGGTCC
* * *
1463371 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGGTCC
* * **
1463421 C-TATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACGAGAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACGAG-AGGTCC
*
1463471 CATGTAAGACCATGTCTGAGACATGGC
1 CATGTAAGACCATGTCTGGGACATGGC
1463498 TTTGGCATGT
Statistics
Matches: 157, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
48 1 0.01
49 35 0.22
50 61 0.39
51 24 0.15
53 3 0.02
55 2 0.01
56 31 0.20
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGGTCC
Found at i:1463450 original size:99 final size:104
Alignment explanation
Indices: 1463265--1463505 Score: 323
Period size: 100 Copynumber: 2.3 Consensus size: 104
1463255 AAAGAGATCT
* *
1463265 CATGTAAGACCATGTCTGGGACATGGCATTGGTATCCTTAAGATCCTGAGAGGTCCCCTGTAAGA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TAAGA--CTGAGAGGTCCCCTATAAGA
* **
1463330 CCATGTCTGGGACATGGCATGGGCACCGA-GACGAG-AGGTCC
63 CCATGTCTGGGACATGGCATGGGCACC-ATCACGAGAACATCC
* *
1463371 CATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAGA-TGAGAGGT-CCCTATAAGACCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAAGACTGAGAGGTCCCCTATAAGACCA
1463432 TGTCTGGGACATGGCATGGGCACCATCACGAGAACATCC
66 TGTCTGGGACATGGCATGGGCACCATCACGAGAACATCC
* *
1463471 CATGTAAGACCATGTCTGAGACATGGCTTTGGCAT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCAT
1463506 GTTATTATCA
Statistics
Matches: 123, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
98 1 0.01
99 41 0.33
100 44 0.36
103 3 0.02
105 2 0.02
106 32 0.26
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.22
Consensus pattern (104 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAAGACTGAGAGGTCCCCTATAAGACCA
TGTCTGGGACATGGCATGGGCACCATCACGAGAACATCC
Found at i:1464513 original size:14 final size:14
Alignment explanation
Indices: 1464494--1464524 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1464484 GTAATTGTTT
*
1464494 TAATCTAAATTTAC
1 TAATCTAAATTAAC
1464508 TAATCTAAATTAAC
1 TAATCTAAATTAAC
1464522 TAA
1 TAA
1464525 GAACCCGGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:1466245 original size:5 final size:5
Alignment explanation
Indices: 1466235--1466281 Score: 57
Period size: 5 Copynumber: 10.2 Consensus size: 5
1466225 TATAGATATA
*
1466235 CTTTT CTTTT CTTTT CTTTT C-TTT C-TTT C-TTT C-TTT CTTTT TTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
1466281 C
1 C
1466282 AACATGAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
4 16 0.41
5 23 0.59
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
CTTTT
Found at i:1466265 original size:8 final size:9
Alignment explanation
Indices: 1466237--1466278 Score: 54
Period size: 8 Copynumber: 4.9 Consensus size: 9
1466227 TAGATATACT
1466237 TTTCTTTTC
1 TTTCTTTTC
1466246 TTTTCTTTTC
1 -TTTCTTTTC
1466256 TTTC-TTTC
1 TTTCTTTTC
1466264 TTTC-TTTC
1 TTTCTTTTC
1466272 TTT-TTTT
1 TTTCTTTT
1466279 TTCAACATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 18 0.58
9 4 0.13
10 9 0.29
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:1467269 original size:6 final size:6
Alignment explanation
Indices: 1467251--1467288 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
1467241 TAAATAGAAG
* *
1467251 AAAATA ACAATA AACATA AAAATA AAAAT- AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
1467289 CAAAATAGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:1467274 original size:18 final size:17
Alignment explanation
Indices: 1467251--1467288 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
1467241 TAAATAGAAG
*
1467251 AAAATAACAATAAACATA
1 AAAATAAAAATAAA-ATA
1467269 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAATA
1467286 AAA
1 AAA
1467289 CAAAATAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:1471524 original size:36 final size:36
Alignment explanation
Indices: 1471484--1471554 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
1471474 ACCACTTTTA
* * * *
1471484 AATATTACAACTATATCATTATGCCGAATCACTTAC
1 AATATTACAAATACATCAATAGGCCGAATCACTTAC
1471520 AATATTACAAATACATCAATAGGCCGAATCACTTA
1 AATATTACAAATACATCAATAGGCCGAATCACTTA
1471555 TAAGTTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (36 bp):
AATATTACAAATACATCAATAGGCCGAATCACTTAC
Found at i:1471850 original size:43 final size:43
Alignment explanation
Indices: 1471781--1471889 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 43
1471771 CCCGGACGTG
* * * *
1471781 GTCTTACATGTAATCACATATTGATGCCACTGTCCCAGACACA
1 GTCTTACACGTAAACACATATCGATGCCAATGTCCCAGACACA
* ****
1471824 GTCTTACACGTAAACACA-AGTCGATGCCAATGTCTCAGATGTG
1 GTCTTACACGTAAACACATA-TCGATGCCAATGTCCCAGACACA
*
1471867 GTCTTACACGAAAACACATATCG
1 GTCTTACACGTAAACACATATCG
1471890 GAATCTGATG
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 1 0.02
43 52 0.96
44 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
GTCTTACACGTAAACACATATCGATGCCAATGTCCCAGACACA
Found at i:1476175 original size:14 final size:14
Alignment explanation
Indices: 1476156--1476186 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1476146 GGAATTGTTT
*
1476156 TAATCTAAATTTAC
1 TAATCTAAATTAAC
1476170 TAATCTAAATTAAC
1 TAATCTAAATTAAC
1476184 TAA
1 TAA
1476187 GAACCCGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:1483790 original size:26 final size:27
Alignment explanation
Indices: 1483728--1483797 Score: 97
Period size: 26 Copynumber: 2.6 Consensus size: 27
1483718 CCATTAATCA
* *
1483728 GGAAGCTCACAAAGAGCCAATTTAATG
1 GGAAGCTCACAAAGAGCCAATGTAACG
*
1483755 GGAAGCTCACGAAGAGCC-ATGTAACG
1 GGAAGCTCACAAAGAGCCAATGTAACG
*
1483781 GGACGCTCACAAAGAGC
1 GGAAGCTCACAAAGAGC
1483798 TGTGGTATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
26 21 0.55
27 17 0.45
ACGTcount: A:0.37, C:0.23, G:0.27, T:0.13
Consensus pattern (27 bp):
GGAAGCTCACAAAGAGCCAATGTAACG
Found at i:1497841 original size:66 final size:66
Alignment explanation
Indices: 1497720--1497851 Score: 185
Period size: 66 Copynumber: 2.0 Consensus size: 66
1497710 AAATAATTTT
* * *
1497720 AAATAATATCAAATAAATTAATGTTTTTGGTCAGTTTAATTTGGGAATTCGAAAAAAAGATAATT
1 AAATAATATAAAATAAATAAATGTTTTTGGTCAGTTCAATTTGGGAATTCGAAAAAAAGATAATT
1497785 A
66 A
* *
1497786 AAATAATATAAAATAAATCAAAT-TTTTTGGTCAAGTTCAATTTGGGGATTCAAAAAAAACGATA
1 AAATAATATAAAATAAAT-AAATGTTTTTGGTC-AGTTCAATTTGGGAATTCGAAAAAAA-GATA
1497850 AT
63 AT
1497852 AGACCGAATT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
66 26 0.45
67 26 0.45
68 6 0.10
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.34
Consensus pattern (66 bp):
AAATAATATAAAATAAATAAATGTTTTTGGTCAGTTCAATTTGGGAATTCGAAAAAAAGATAATT
A
Found at i:1503615 original size:18 final size:19
Alignment explanation
Indices: 1503570--1503620 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
1503560 TCCAAGTCAG
1503570 ATAAA-AAAATTAAAATAA
1 ATAAATAAAATTAAAATAA
*
1503588 ATAACTAAAA-TAAAAT-A
1 ATAAATAAAATTAAAATAA
1503605 ATAAATCAAAAATTAA
1 ATAAAT--AAAATTAA
1503621 GTAAGCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 6 0.22
18 10 0.37
19 8 0.30
20 3 0.11
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (19 bp):
ATAAATAAAATTAAAATAA
Found at i:1504528 original size:11 final size:11
Alignment explanation
Indices: 1504512--1504636 Score: 60
Period size: 11 Copynumber: 11.9 Consensus size: 11
1504502 ATTTTTTTAA
1504512 TTTTAAAATAT
1 TTTTAAAATAT
1504523 TTTTAAAATACTTTT
1 TTTTAAAATA----T
1504538 TTTTAAAAT-T
1 TTTTAAAATAT
*
1504548 TTTT----TAA
1 TTTTAAAATAT
1504555 TTTTAAAATAT
1 TTTTAAAATAT
1504566 TTTTAAAATACT
1 TTTTAAAATA-T
*
1504578 TTTT-TAAT-T
1 TTTTAAAATAT
*
1504587 TTTT----TAA
1 TTTTAAAATAT
1504594 TTTTAAAATAT
1 TTTTAAAATAT
1504605 TTTTAAAATAAAT
1 TTTTAAAAT--AT
*
1504618 TTTT-TAA-AT
1 TTTTAAAATAT
1504627 TTTTAAAATA
1 TTTTAAAATA
1504637 AATTTTTGGT
Statistics
Matches: 88, Mismatches: 7, Indels: 38
0.66 0.05 0.29
Matches are distributed among these distances:
6 2 0.02
7 8 0.09
9 11 0.12
10 7 0.08
11 37 0.42
12 7 0.08
13 6 0.07
15 10 0.11
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:1504551 original size:14 final size:15
Alignment explanation
Indices: 1504522--1504582 Score: 58
Period size: 15 Copynumber: 4.2 Consensus size: 15
1504512 TTTTAAAATA
1504522 TTTTTAAAATACTTT
1 TTTTTAAAATACTTT
**
1504537 TTTTTAAAATTTTTT
1 TTTTTAAAATACTTT
1504552 TAATTTTAAAATA----
1 T--TTTTAAAATACTTT
1504565 TTTTTAAAATACTTT
1 TTTTTAAAATACTTT
1504580 TTT
1 TTT
1504583 AATTTTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
11 10 0.27
13 1 0.03
15 17 0.46
17 9 0.24
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTTAAAATACTTT
Found at i:1504554 original size:43 final size:40
Alignment explanation
Indices: 1504502--1504630 Score: 206
Period size: 43 Copynumber: 3.1 Consensus size: 40
1504492 AAATATTTTT
1504502 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTAAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATAC--TTTTTT-AA
1504545 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTT-A
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
*
1504584 ATTTTTTTAATTTTAAAATATTTTTAAAATAAATTTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAAT-ACTTTTTTAA
1504625 ATTTTT
1 ATTTTT
1504631 AAAATAAATT
Statistics
Matches: 83, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
39 31 0.37
40 7 0.08
41 13 0.16
43 32 0.39
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
Found at i:1504621 original size:13 final size:13
Alignment explanation
Indices: 1504594--1504643 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 13
1504584 ATTTTTTTAA
1504594 TTTTAAAAT--AT
1 TTTTAAAATAAAT
1504605 TTTTAAAATAAAT
1 TTTTAAAATAAAT
1504618 TTTT----TAAAT
1 TTTTAAAATAAAT
1504627 TTTTAAAATAAAT
1 TTTTAAAATAAAT
1504640 TTTT
1 TTTT
1504644 GGTATTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
9 9 0.27
11 9 0.27
13 15 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTAAAATAAAT
Found at i:1504631 original size:39 final size:39
Alignment explanation
Indices: 1504489--1504632 Score: 173
Period size: 39 Copynumber: 3.6 Consensus size: 39
1504479 GCCCGAATAT
**
1504489 AATAAATATTTTTATTTTTTTAATTTTAAAATATTTTTAA
1 AATAAAT-TTTTTAAATTTTTAATTTTAAAATATTTTTAA
**
1504529 AATACTTTTTTTTAAAATTTTTTTAATTTTAAAATATTTTTAA
1 AATA-AATTTTTT-AAA--TTTTTAATTTTAAAATATTTTTAA
* *
1504572 AAT-ACTTTTTTAATTTTTTTAATTTTAAAATATTTTTAA
1 AATAAATTTTTTAA-ATTTTTAATTTTAAAATATTTTTAA
1504611 AATAAATTTTTTAAATTTTTAA
1 AATAAATTTTTTAAATTTTTAA
1504633 AATAAATTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
39 34 0.38
40 20 0.22
41 8 0.09
43 27 0.30
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (39 bp):
AATAAATTTTTTAAATTTTTAATTTTAAAATATTTTTAA
Found at i:1504650 original size:22 final size:22
Alignment explanation
Indices: 1504601--1504650 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
1504591 TAATTTTAAA
*
1504601 ATATTTTTAAAATAAATTTTTT
1 ATATTTTTAAAATAAATTTTTG
*
1504623 AAATTTTTAAAATAAATTTTTG
1 ATATTTTTAAAATAAATTTTTG
*
1504645 GTATTT
1 ATATTT
1504651 ATTTAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
ATATTTTTAAAATAAATTTTTG
Found at i:1506640 original size:21 final size:21
Alignment explanation
Indices: 1506608--1506648 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1506598 AGGCTCGAGG
1506608 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
1506629 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
1506649 CCAATTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:1514031 original size:24 final size:24
Alignment explanation
Indices: 1514004--1514049 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1513994 CTAATTAAAT
* *
1514004 TTTATAAATAATTAATATTTATTG
1 TTTAAAAATAATTAAAATTTATTG
*
1514028 TTTAAAAATATTTAAAATTTAT
1 TTTAAAAATAATTAAAATTTAT
1514050 ATTTCATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAAAAATAATTAAAATTTATTG
Found at i:1516498 original size:21 final size:21
Alignment explanation
Indices: 1516466--1516506 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1516456 AGGCTCGAGG
1516466 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
1516487 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
1516507 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:1533766 original size:2 final size:2
Alignment explanation
Indices: 1533759--1533784 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1533749 TTGAGAAAGC
1533759 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
1533785 TCAGATTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1534243 original size:48 final size:48
Alignment explanation
Indices: 1534191--1534286 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
1534181 TTGCAAAATT
*
1534191 TGATTAAGGGAATTTTAGAATTTTATTTTGTTATATCAAAACATTTAA
1 TGATTAAGGGAATTTTAAAATTTTATTTTGTTATATCAAAACATTTAA
1534239 TGATTAAGGGAATTTTAAAATTTTATTTTGTTATATCAAAACATTTAA
1 TGATTAAGGGAATTTTAAAATTTTATTTTGTTATATCAAAACATTTAA
1534287 AAATCAAAGC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (48 bp):
TGATTAAGGGAATTTTAAAATTTTATTTTGTTATATCAAAACATTTAA
Found at i:1535339 original size:34 final size:34
Alignment explanation
Indices: 1535235--1535326 Score: 166
Period size: 34 Copynumber: 2.7 Consensus size: 34
1535225 AATTTTTTTT
*
1535235 TAAATTAATTAAATTAGGCTTTAAGGGTTTTAAA
1 TAAATTAATTAAATTAGGGTTTAAGGGTTTTAAA
*
1535269 TAAATTAATTAAATTAGGGTTTAGGGGTTTTAAA
1 TAAATTAATTAAATTAGGGTTTAAGGGTTTTAAA
1535303 TAAATTAATTAAATTAGGGTTTAA
1 TAAATTAATTAAATTAGGGTTTAA
1535327 TTTTTTTAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.41, C:0.01, G:0.16, T:0.41
Consensus pattern (34 bp):
TAAATTAATTAAATTAGGGTTTAAGGGTTTTAAA
Found at i:1535624 original size:49 final size:49
Alignment explanation
Indices: 1535570--1535677 Score: 180
Period size: 49 Copynumber: 2.2 Consensus size: 49
1535560 CGAAATGATA
*
1535570 TATTTTTTTAATCGCGCCTATCTGACAAGCGCGAATCAATTTTTTATAT
1 TATTTTTTTAATCGAGCCTATCTGACAAGCGCGAATCAATTTTTTATAT
* *
1535619 TATTTTTTTAATCGAGCCTATCTGATAGGCGCGAATCAATTTTTTATAT
1 TATTTTTTTAATCGAGCCTATCTGACAAGCGCGAATCAATTTTTTATAT
1535668 TAATTTTTTT
1 T-ATTTTTTT
1535678 CGTTTAATAA
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
49 47 0.85
50 8 0.15
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (49 bp):
TATTTTTTTAATCGAGCCTATCTGACAAGCGCGAATCAATTTTTTATAT
Found at i:1535775 original size:27 final size:27
Alignment explanation
Indices: 1535737--1535826 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
1535727 GTATAGATAC
1535737 GAGGCGCGACTAGTTGAGCCTATCTCA
1 GAGGCGCGACTAGTTGAGCCTATCTCA
* *
1535764 GAGGCGCGACTATTTGAGCCTATCT-G
1 GAGGCGCGACTAGTTGAGCCTATCTCA
* * *
1535790 GCAGGCACGACTAGTTGTGCCTAACTCA
1 G-AGGCGCGACTAGTTGAGCCTATCTCA
*
1535818 AAGGCGCGA
1 GAGGCGCGA
1535827 ATGGTGGGGC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.02
27 51 0.98
ACGTcount: A:0.23, C:0.26, G:0.30, T:0.21
Consensus pattern (27 bp):
GAGGCGCGACTAGTTGAGCCTATCTCA
Found at i:1540653 original size:20 final size:20
Alignment explanation
Indices: 1540628--1540668 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1540618 TTTTCCCATT
*
1540628 GAAGGGACAACAGCCTGGTG
1 GAAGGGACAACAGCATGGTG
*
1540648 GAAGGGACAGCAGCATGGTG
1 GAAGGGACAACAGCATGGTG
1540668 G
1 G
1540669 TGCAACAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.17, G:0.44, T:0.10
Consensus pattern (20 bp):
GAAGGGACAACAGCATGGTG
Found at i:1541282 original size:127 final size:125
Alignment explanation
Indices: 1540994--1541331 Score: 484
Period size: 127 Copynumber: 2.7 Consensus size: 125
1540984 AAAAACTCCA
* * *
1540994 TAAAAAACGCTTCAAGTAGGATGTACTGTCAGCAAAATTACT-AAAAAAAGCTCCCAC-ATGAAC
1 TAAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAAGCTCCCACGTTG-AC
* *
1541057 GCTCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAACGGTTCTGAAAAAATAGTG
65 GCTCTTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAACGGTTCTAAAAAAATAGTG
* * *
1541118 TAAAAAACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAAGCTCTCACGTTGACA
1 TAAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAAGCTCCCACGTTGACG
* *
1541183 CTTTTTTTCTATAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTG
66 CTCTTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAG-A-ACGGTTCTAAAAAAATAGTG
* * * * *
1541245 TCAAAAACGCTTTAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAA-CTCCCACGTGGATG
1 TAAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAAGCTCCCACGTTGACG
*
1541309 CTCTTTTTCTACATTAGTTCTTG
66 CTCTTTTTCTACAGTAGTTCTTG
1541332 CATGGCCTTA
Statistics
Matches: 189, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
124 39 0.21
125 52 0.28
126 33 0.17
127 65 0.34
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (125 bp):
TAAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAAGCTCCCACGTTGACG
CTCTTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAACGGTTCTAAAAAAATAGTG
Found at i:1544608 original size:21 final size:21
Alignment explanation
Indices: 1544583--1544642 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
1544573 GTTTAGCTTT
1544583 CGACGAGGGTTGTGGTTGCTC
1 CGACGAGGGTTGTGGTTGCTC
* *
1544604 CGACGAGGATTGTGGTTACTC
1 CGACGAGGGTTGTGGTTGCTC
*
1544625 CGAC-AGGGGTTATGGTTG
1 CGACGA-GGGTTGTGGTTG
1544643 TTCTGGCTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 1 0.03
21 32 0.97
ACGTcount: A:0.15, C:0.17, G:0.40, T:0.28
Consensus pattern (21 bp):
CGACGAGGGTTGTGGTTGCTC
Found at i:1544918 original size:18 final size:18
Alignment explanation
Indices: 1544892--1544934 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1544882 AACTGGGAAA
* **
1544892 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGACT
1544910 AGGATACATATAAGGACT
1 AGGATACATATAAGGACT
1544928 AGGATAC
1 AGGATAC
1544935 GCACCTGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGACT
Found at i:1546486 original size:24 final size:24
Alignment explanation
Indices: 1546455--1546505 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
1546445 GCTGTTATAA
* *
1546455 AAAATTATA-AAATTAAAATTAATT
1 AAAATTATATAAATAAAAAAT-ATT
1546479 AAAATTATATAAATAAAAAATATT
1 AAAATTATATAAATAAAAAATATT
1546503 AAA
1 AAA
1546506 TAATATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAATTATATAAATAAAAAATATT
Found at i:1556093 original size:3 final size:3
Alignment explanation
Indices: 1556087--1556124 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
1556077 ATTATTGAGT
* *
1556087 TTA TTA TTA TTA TTG TTA TTA TCA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1556125 TCTTCCTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1581961 original size:23 final size:23
Alignment explanation
Indices: 1581935--1582032 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
1581925 ATAAGTGCCA
1581935 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
1581958 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
1581981 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
1582003 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
1582026 CACTGAT
1 CACTGAT
1582033 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:1582000 original size:45 final size:45
Alignment explanation
Indices: 1581942--1582030 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
1581932 CCACACTGAT
* *
1581942 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
1581987 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1582031 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:1583456 original size:23 final size:23
Alignment explanation
Indices: 1583422--1583466 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1583412 TTTATAAATT
* *
1583422 ATAAATTATGTAGTTTGATTTTA
1 ATAAATTATGTAATTTAATTTTA
*
1583445 ATAAATTGTGTAATTTAATTTT
1 ATAAATTATGTAATTTAATTTT
1583467 CTTTTTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (23 bp):
ATAAATTATGTAATTTAATTTTA
Found at i:1583478 original size:6 final size:6
Alignment explanation
Indices: 1583458--1583492 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
1583448 AATTGTGTAA
**
1583458 TTTAAT TTTCTT TTTAAT TTTAAT TTTAAT TTTAA
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAA
1583493 AATCAAGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTAAT
Found at i:1585486 original size:17 final size:17
Alignment explanation
Indices: 1585464--1585496 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1585454 ATATATTTAA
1585464 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
1585481 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
1585497 TAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:1586275 original size:34 final size:34
Alignment explanation
Indices: 1586237--1586302 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
1586227 ACTCTAATAT
*
1586237 TTAAATCTCAAACCCAAATCCTAAACCTTAAACC
1 TTAAATCTCAAACCCAAACCCTAAACCTTAAACC
* * *
1586271 TTAAATCTCAAACTCGAACCCTAAATCTTAAA
1 TTAAATCTCAAACCCAAACCCTAAACCTTAAA
1586303 TCTCGAACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.44, C:0.29, G:0.02, T:0.26
Consensus pattern (34 bp):
TTAAATCTCAAACCCAAACCCTAAACCTTAAACC
Found at i:1586295 original size:20 final size:21
Alignment explanation
Indices: 1586267--1586312 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
1586257 CTAAACCTTA
*
1586267 AACCTTAAATCTCAAA-CTCG
1 AACCCTAAATCTCAAATCTCG
*
1586287 AACCCTAAATCTTAAATCTCG
1 AACCCTAAATCTCAAATCTCG
1586308 AACCC
1 AACCC
1586313 CAAACCCTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.39, C:0.33, G:0.04, T:0.24
Consensus pattern (21 bp):
AACCCTAAATCTCAAATCTCG
Found at i:1590258 original size:27 final size:28
Alignment explanation
Indices: 1590177--1590260 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 28
1590167 GATTGAATCA
*
1590177 AAATTAAAGTTTCATGTATACATTTAAACC
1 AAATAAAAGTTTCATGTATA-A-TTAAACC
*
1590207 ACAATATCAAAGTTTCACTGTATAATTACACC
1 A-AATA--AAAGTTTCA-TGTATAATTAAACC
1590239 AAATAAAAGTTT-ATGTATAATT
1 AAATAAAAGTTTCATGTATAATT
1590261 TTGAGATTTG
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
27 9 0.19
28 1 0.02
29 7 0.15
30 1 0.02
31 7 0.15
32 7 0.15
33 10 0.21
34 6 0.12
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (28 bp):
AAATAAAAGTTTCATGTATAATTAAACC
Found at i:1590958 original size:17 final size:17
Alignment explanation
Indices: 1590936--1590970 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1590926 CCTTCCACAT
1590936 GTGTAATATTTTGATCA
1 GTGTAATATTTTGATCA
1590953 GTGTAATATTTTGATCA
1 GTGTAATATTTTGATCA
1590970 G
1 G
1590971 ATGTTGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.46
Consensus pattern (17 bp):
GTGTAATATTTTGATCA
Found at i:1592552 original size:58 final size:58
Alignment explanation
Indices: 1592489--1592628 Score: 192
Period size: 59 Copynumber: 2.4 Consensus size: 58
1592479 TTGAGGACTG
* * * *
1592489 AACTTTTTTTGTCTAAGTTAGTCCTTAAATTTGGCAATTGTTCCCACATT-AAGGCCTA
1 AACTTTTTTTGTCCAAGTTAGTCCCTAAACTTGGCAATTGTTCCCACATTCAA-ACCTA
* *
1592547 AACTTTTTTTTGTCCAAGTTAATCCCTAAACTTGGCAATTGTTCCCACTTTCAAACCTA
1 AAC-TTTTTTTGTCCAAGTTAGTCCCTAAACTTGGCAATTGTTCCCACATTCAAACCTA
1592606 AACTTTTTTTGGTCCAAGTTAGT
1 AACTTTTTTT-GTCCAAGTTAGT
1592629 TCCTGATATT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
58 10 0.14
59 60 0.83
60 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (58 bp):
AACTTTTTTTGTCCAAGTTAGTCCCTAAACTTGGCAATTGTTCCCACATTCAAACCTA
Found at i:1592737 original size:59 final size:60
Alignment explanation
Indices: 1592674--1592790 Score: 141
Period size: 59 Copynumber: 2.0 Consensus size: 60
1592664 CCTGATACGA
* * * *
1592674 GAACAATTGCAAAGTTCATA-GATTAACTTGGACAAA-AATAA-GTTCAAGTCCCAATATGG
1 GAACAATTACAAAGTTCA-AGGACTAACTTGAACAAAGAA-AATGTTCAAGCCCCAATATGG
* *
1592733 GAACAATTACCAAGTTCAAGGGCTAACTTGAACAAAGAAAATGTTCAAGCCCCAATAT
1 GAACAATTACAAAGTTCAAGGACTAACTTGAACAAAGAAAATGTTCAAGCCCCAATAT
1592791 AAGAATTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
58 1 0.02
59 31 0.63
60 17 0.35
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (60 bp):
GAACAATTACAAAGTTCAAGGACTAACTTGAACAAAGAAAATGTTCAAGCCCCAATATGG
Found at i:1594410 original size:18 final size:19
Alignment explanation
Indices: 1594389--1594424 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1594379 TTTTTAAAAT
1594389 TTATAAAT-TTTAGAATTC
1 TTATAAATATTTAGAATTC
*
1594407 TTATAAATATTTTGAATT
1 TTATAAATATTTAGAATT
1594425 TTTGAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (19 bp):
TTATAAATATTTAGAATTC
Found at i:1594413 original size:27 final size:27
Alignment explanation
Indices: 1594370--1594431 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
1594360 TTATATATTC
*
1594370 TTTAGAAATTTTTTAAA-ATTTATAAAT
1 TTTAGAAATTTTATAAATATTT-TAAAT
*
1594397 TTTAG-AATTCTTATAAATATTTTGAAT
1 TTTAGAAATT-TTATAAATATTTTAAAT
*
1594424 TTTTGAAA
1 TTTAGAAA
1594432 ATTATTTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 4 0.14
27 19 0.66
28 6 0.21
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (27 bp):
TTTAGAAATTTTATAAATATTTTAAAT
Found at i:1595230 original size:24 final size:23
Alignment explanation
Indices: 1595181--1595231 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
1595171 AATCAAAGTC
* *
1595181 AAATATATATGCTAATAAATGCT
1 AAATATATATACTAATAAATACT
* *
1595204 AAATATATTATACTCATAAATATT
1 AAATATA-TATACTAATAAATACT
1595228 AAAT
1 AAAT
1595232 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (23 bp):
AAATATATATACTAATAAATACT
Found at i:1604858 original size:2 final size:2
Alignment explanation
Indices: 1604851--1604879 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1604841 GAAGCTTTTC
1604851 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1604880 ATGTAAGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1605153 original size:29 final size:29
Alignment explanation
Indices: 1605092--1605154 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
1605082 TTTAAGATTT
*
1605092 TTTTAGGGATTAAAATATAAAAGTTTTAT
1 TTTTAGGGATTAAAATATAAAAGTTTTAA
1605121 TTTTAGAGGAATTAAAAT-T-AAA-TTTTAAA
1 TTTTAG-GG-ATTAAAATATAAAAGTTTT-AA
1605150 TTTTA
1 TTTTA
1605155 AATTTTACGG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
28 4 0.13
29 15 0.50
30 3 0.10
31 8 0.27
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (29 bp):
TTTTAGGGATTAAAATATAAAAGTTTTAA
Found at i:1608863 original size:34 final size:35
Alignment explanation
Indices: 1608797--1608863 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
1608787 CAAACACCAG
* *
1608797 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTTCAGAAAATCATTTTACAGAAAAGT
* *
1608832 AAAACATTTTTCA-AAAATTATTTTACGGAAAA
1 AAAACATTTTTCAGAAAATCATTTTACAGAAAA
1608864 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (35 bp):
AAAACATTTTTCAGAAAATCATTTTACAGAAAAGT
Found at i:1612039 original size:29 final size:29
Alignment explanation
Indices: 1612005--1612060 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
1611995 ATGATTTAAT
*
1612005 ATGTAATT-TCATACGTAAATTTTAATTTG
1 ATGTAATTAT-ATACGTAAATTTGAATTTG
1612034 ATGTAATTATATACGTAAATTTGAATT
1 ATGTAATTATATACGTAAATTTGAATT
1612061 GCGATTCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (29 bp):
ATGTAATTATATACGTAAATTTGAATTTG
Found at i:1613159 original size:20 final size:20
Alignment explanation
Indices: 1613121--1613160 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1613111 TTATACTAAT
* * *
1613121 TTTAAAGTGTCTAACATAAA
1 TTTAAAGTGACCAAAATAAA
1613141 TTTAAAGTGACCAAAATAAA
1 TTTAAAGTGACCAAAATAAA
1613161 ACAAAATAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
TTTAAAGTGACCAAAATAAA
Found at i:1613341 original size:19 final size:18
Alignment explanation
Indices: 1613313--1613355 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
1613303 ATATTACATA
*
1613313 TTAAATCTAAACTAATAT
1 TTAAATCTAAACTAATAG
*
1613331 TTAACATCTAAATTAATAG
1 TTAA-ATCTAAACTAATAG
1613350 TTAAAT
1 TTAAAT
1613356 TAAGGGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (18 bp):
TTAAATCTAAACTAATAG
Found at i:1621584 original size:40 final size:41
Alignment explanation
Indices: 1621500--1621587 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 41
1621490 TATTGACAGG
1621500 TAAAACATACCTTAAATTCAAGTCAAACAAAAAAAAGACTA
1 TAAAACATACCTTAAATTCAAGTCAAACAAAAAAAAGACTA
1621541 TAAAACATACCTTAAATTCAAGTCAAACAAAAAAAAG-CTA
1 TAAAACATACCTTAAATTCAAGTCAAACAAAAAAAAGACTA
1621581 TAAAACA
1 TAAAACA
1621588 ACGATACAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 10 0.21
41 37 0.79
ACGTcount: A:0.59, C:0.17, G:0.05, T:0.19
Consensus pattern (41 bp):
TAAAACATACCTTAAATTCAAGTCAAACAAAAAAAAGACTA
Found at i:1626604 original size:6 final size:6
Alignment explanation
Indices: 1626593--1626617 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1626583 TAATAATTAT
1626593 ATTTTA ATTTTA ATTTTA ATTTTA A
1 ATTTTA ATTTTA ATTTTA ATTTTA A
1626618 GTGTAATTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATTTTA
Found at i:1633778 original size:18 final size:18
Alignment explanation
Indices: 1633744--1633779 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1633734 AAAAAGCTAG
*
1633744 TGATGAAGAAGAGTTGCT
1 TGATGAAGAAGAATTGCT
*
1633762 TGATGAAGATGAATTGCT
1 TGATGAAGAAGAATTGCT
1633780 GAGAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.31, T:0.31
Consensus pattern (18 bp):
TGATGAAGAAGAATTGCT
Found at i:1635284 original size:29 final size:31
Alignment explanation
Indices: 1635237--1635305 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
1635227 AAATTAATAC
1635237 ATGATAAAATTACATTTTAA-CTTCTT-AAA
1 ATGATAAAATTACATTTTAATCTTCTTAAAA
* *
1635266 ATGATAAAATTTCGA-TTTAATCTTTTTAAAA
1 ATGATAAAATTAC-ATTTTAATCTTCTTAAAA
*
1635297 ATTATAAAA
1 ATGATAAAA
1635306 AATTAAAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 17 0.50
30 6 0.18
31 11 0.32
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.42
Consensus pattern (31 bp):
ATGATAAAATTACATTTTAATCTTCTTAAAA
Found at i:1635599 original size:20 final size:20
Alignment explanation
Indices: 1635574--1635613 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1635564 CATAAAATTA
*
1635574 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
1635594 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
1635614 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:1635728 original size:20 final size:20
Alignment explanation
Indices: 1635703--1635754 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
1635693 GGAAAAGTTT
1635703 TTTTTACATATATT-AATAAA
1 TTTTTACATATATTAAAT-AA
* *
1635723 TTTTT--ATATTTTAAATTA
1 TTTTTACATATATTAAATAA
1635741 TTTTTACATATATT
1 TTTTTACATATATT
1635755 GCAATGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 12 0.46
19 3 0.12
20 11 0.42
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTACATATATTAAATAA
Found at i:1637002 original size:18 final size:18
Alignment explanation
Indices: 1636970--1637011 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1636960 CGATAATAAT
1636970 ATTTA-ATTTAAATTTAA
1 ATTTAGATTTAAATTTAA
*
1636987 ATTTAGATTTAGATTTAA
1 ATTTAGATTTAAATTTAA
*
1637005 ATATAGA
1 ATTTAGA
1637012 CAATAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (18 bp):
ATTTAGATTTAAATTTAA
Found at i:1637011 original size:12 final size:12
Alignment explanation
Indices: 1636970--1637011 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
1636960 CGATAATAAT
1636970 ATTTA-ATTTAA
1 ATTTAGATTTAA
* *
1636981 ATTTAAATTTAG
1 ATTTAGATTTAA
1636993 ATTTAGATTTAA
1 ATTTAGATTTAA
*
1637005 ATATAGA
1 ATTTAGA
1637012 CAATAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 5 0.19
12 21 0.81
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
ATTTAGATTTAA
Found at i:1640205 original size:25 final size:25
Alignment explanation
Indices: 1640171--1640220 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
1640161 GCTAGGCTAC
1640171 CACTTATCACTTTGTCACTTGATCA
1 CACTTATCACTTTGTCACTTGATCA
1640196 CACTTATCACTTTGTCACTTGATCA
1 CACTTATCACTTTGTCACTTGATCA
1640221 GATAAGTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.08, T:0.40
Consensus pattern (25 bp):
CACTTATCACTTTGTCACTTGATCA
Found at i:1640256 original size:71 final size:68
Alignment explanation
Indices: 1640128--1640266 Score: 224
Period size: 71 Copynumber: 2.0 Consensus size: 68
1640118 TACGTATGAT
*
1640128 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGA
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
1640193 TCA
66 TCA
* *
1640196 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTTACT
1 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACT
1640261 TGATCA
63 TGATCA
1640267 GATAAGTGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
68 10 0.15
69 5 0.08
70 20 0.31
71 30 0.46
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (68 bp):
CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
TCA
Found at i:1640263 original size:46 final size:46
Alignment explanation
Indices: 1640196--1640396 Score: 257
Period size: 46 Copynumber: 4.6 Consensus size: 46
1640186 CACTTGATCA
*
1640196 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
1640242 CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTAC
1640288 CACTTATCACTTTGTCTA-TTGATCAGATAA--GT-G-T--AG----
1 CACTTATCACTTTGT-TACTTGATCAGATAAGTGTAGCTAAAGCTAC
1640324 CACTTATCACTTT-TTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTT-ACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
1640370 CACTTATCACTTTATCT-CTTGATCAGA
1 CACTTATCACTTTGT-TACTTGATCAGA
1640397 AGTACTCAAA
Statistics
Matches: 137, Mismatches: 3, Indels: 30
0.81 0.02 0.18
Matches are distributed among these distances:
34 1 0.01
35 2 0.01
36 25 0.18
38 2 0.01
39 1 0.01
40 2 0.01
42 3 0.02
43 1 0.01
44 2 0.01
46 94 0.69
47 3 0.02
48 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:1640328 original size:36 final size:36
Alignment explanation
Indices: 1640288--1640360 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 36
1640278 CTAATGCTAC
1640288 CACTTATCACTTTGTCTA-TTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTC-ACTTGATCAGATAAGTGTAG
*
1640324 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1640360 C
1 C
1640361 TAAAGCTACC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 1 0.03
36 34 0.97
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:1640379 original size:82 final size:82
Alignment explanation
Indices: 1640242--1640396 Score: 267
Period size: 82 Copynumber: 1.9 Consensus size: 82
1640232 CTAAAGCTAC
* *
1640242 CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTGTCTAT
1 CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTAT
1640307 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
*
1640324 CACTTATCACTTT-TTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTC
1 CACTTATCACTTTGTT-ACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTA
1640388 TTGATCAGA
65 TTGATCAGA
1640397 AGTACTCAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
81 2 0.03
82 67 0.97
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (82 bp):
CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTAT
TGATCAGATAAGTGTAG
Found at i:1642894 original size:31 final size:31
Alignment explanation
Indices: 1642856--1642929 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
1642846 TAAATTTTTA
*
1642856 GACAAGTTCAGGTACCAATTAGGTACTTCCG
1 GACAAGTTCAGGTACCAAATAGGTACTTCCG
* * *
1642887 GACAAGTTCAGGTATCAAATAGGTATTTCTG
1 GACAAGTTCAGGTACCAAATAGGTACTTCCG
1642918 GACAAGTTCAGG
1 GACAAGTTCAGG
1642930 GGACAAACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (31 bp):
GACAAGTTCAGGTACCAAATAGGTACTTCCG
Found at i:1646639 original size:3 final size:3
Alignment explanation
Indices: 1646631--1646659 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1646621 CATTGTCTAA
1646631 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1646660 GAAAATAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1671718 original size:18 final size:17
Alignment explanation
Indices: 1671694--1671738 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
1671684 ATTTTAGTTG
1671694 AATTTTTATATTTTTAA
1 AATTTTTATATTTTTAA
*
1671711 ATATTTTTGA-ATTTTTAC
1 A-ATTTTT-ATATTTTTAA
1671729 AATTTTTATA
1 AATTTTTATA
1671739 CAAAATTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 1 0.04
17 8 0.33
18 14 0.58
19 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
AATTTTTATATTTTTAA
Found at i:1673509 original size:21 final size:21
Alignment explanation
Indices: 1673485--1673537 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1673475 CATTGTTTCT
*
1673485 AATCTCACCGTTACAGTATCC
1 AATCTCACCGTTACAGTAACC
* *
1673506 AATCTCACCGCTACAGTAACT
1 AATCTCACCGTTACAGTAACC
1673527 AATCTCACCGT
1 AATCTCACCGT
1673538 CACCACTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.34, G:0.09, T:0.26
Consensus pattern (21 bp):
AATCTCACCGTTACAGTAACC
Found at i:1675727 original size:14 final size:14
Alignment explanation
Indices: 1675703--1675737 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
1675693 GACATCTACC
1675703 ACATG-TAAATCAT
1 ACATGATAAATCAT
1675716 ACATGATAAATCAT
1 ACATGATAAATCAT
1675730 ACAATGAT
1 AC-ATGAT
1675738 TATTTTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 5 0.25
14 10 0.50
15 5 0.25
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.29
Consensus pattern (14 bp):
ACATGATAAATCAT
Found at i:1691201 original size:73 final size:73
Alignment explanation
Indices: 1691082--1691267 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
1691072 TATTATTATT
*
1691082 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1691147 ATTTTAAG
66 ATTTTAAG
1691155 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1691220 ATTTTAAG
66 ATTTTAAG
1691228 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1691268 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:1695491 original size:3 final size:3
Alignment explanation
Indices: 1695483--1695520 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1695473 ATCACATGTT
1695483 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1695521 TGGATGTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1697003 original size:27 final size:27
Alignment explanation
Indices: 1696973--1697150 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
1696963 ATATAGAGTC
* * * *
1696973 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
1697000 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
1697027 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
1697055 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
1697082 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
1697109 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
1697136 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
1697151 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:1697112 original size:82 final size:81
Alignment explanation
Indices: 1696994--1697149 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
1696984 TGCTATATAA
* *
1696994 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
1697059 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
1697076 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
1697140 CACTTAGTGC
65 CACTTAGTGC
1697150 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:1704347 original size:13 final size:13
Alignment explanation
Indices: 1704329--1704353 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1704319 TGTAGAAGCA
1704329 ATTTTTTATACAT
1 ATTTTTTATACAT
1704342 ATTTTTTATACA
1 ATTTTTTATACA
1704354 ATTCCTTCGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTTTTATACAT
Found at i:1707972 original size:22 final size:23
Alignment explanation
Indices: 1707932--1707979 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 23
1707922 GAAAGGCATA
*
1707932 TTTTAAATGTTTTATAATATTATT
1 TTTTAAATATTTTATAATA-TATT
1707956 TTTTAAA-ATTTTA-AATATATT
1 TTTTAAATATTTTATAATATATT
1707977 TTT
1 TTT
1707980 ATATTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 4 0.17
23 5 0.22
24 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTAAATATTTTATAATATATT
Found at i:1708073 original size:13 final size:12
Alignment explanation
Indices: 1708055--1708131 Score: 60
Period size: 13 Copynumber: 6.6 Consensus size: 12
1708045 CTGTTTTATA
1708055 ATATTTTAAATGT
1 ATATTTTAAAT-T
1708068 ATATTTTAAA--
1 ATATTTTAAATT
1708078 ATA-TTTAAATAT
1 ATATTTTAAAT-T
1708090 ATATTTT---TT
1 ATATTTTAAATT
1708099 A-ATTTTAAATAT
1 ATATTTTAAAT-T
1708111 ATATTTTTAAATT
1 ATA-TTTTAAATT
1708124 ATAATTTT
1 AT-ATTTT
1708132 TTAAAATTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 22
0.71 0.00 0.29
Matches are distributed among these distances:
8 5 0.09
9 8 0.15
10 4 0.08
11 1 0.02
12 5 0.09
13 21 0.40
14 9 0.17
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (12 bp):
ATATTTTAAATT
Found at i:1708103 original size:20 final size:20
Alignment explanation
Indices: 1708059--1708123 Score: 76
Period size: 22 Copynumber: 3.1 Consensus size: 20
1708049 TTTATAATAT
* *
1708059 TTTAAATGTATATTTTAAAATA
1 TTTAAATATATATTTT-TAA-A
*
1708081 TTTAAATATATATTTTTTAAT
1 TTTAAATATATA-TTTTTAAA
1708102 TTTAAATATATATTTTTAAA
1 TTTAAATATATATTTTTAAA
1708122 TT
1 TT
1708124 ATAATTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.24
21 12 0.32
22 13 0.34
23 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTAAATATATATTTTTAAA
Found at i:1708107 original size:21 final size:21
Alignment explanation
Indices: 1708048--1708123 Score: 98
Period size: 21 Copynumber: 3.5 Consensus size: 21
1708038 TTATTATCTG
*
1708048 TTTTATAATATTTTAAATGTATA
1 TTTT-TAA-ATTTTAAATATATA
*
1708071 TTTTAAAATATTTAAATATATA
1 TTTTTAAAT-TTTAAATATATA
*
1708093 TTTTTTAATTTTAAATATATA
1 TTTTTAAATTTTAAATATATA
1708114 TTTTTAAATT
1 TTTTTAAATT
1708124 ATAATTTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 23 0.49
22 20 0.43
23 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (21 bp):
TTTTTAAATTTTAAATATATA
Found at i:1708211 original size:10 final size:12
Alignment explanation
Indices: 1708186--1708295 Score: 63
Period size: 12 Copynumber: 9.6 Consensus size: 12
1708176 AATATATACA
1708186 TTAAAATTATAT
1 TTAAAATTATAT
1708198 TTAAAA-TA-AT
1 TTAAAATTATAT
*
1708208 TTAAAAATATAAT
1 TTAAAATTAT-AT
* *
1708221 TTTAAATTCTAT
1 TTAAAATTATAT
1708233 TTAAAATT-T-T
1 TTAAAATTATAT
** * *
1708243 AAAAAATCATAA
1 TTAAAATTATAT
* *
1708255 TTAAAAATATTT
1 TTAAAATTATAT
1708267 TTAAAA-T-T-T
1 TTAAAATTATAT
*
1708276 TTAAAATATACAT
1 TTAAAAT-TATAT
1708289 TTAAAAT
1 TTAAAAT
1708296 ATTATAAAAC
Statistics
Matches: 74, Mismatches: 15, Indels: 17
0.70 0.14 0.16
Matches are distributed among these distances:
9 7 0.09
10 15 0.20
11 8 0.11
12 27 0.36
13 17 0.23
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
TTAAAATTATAT
Found at i:1708216 original size:11 final size:12
Alignment explanation
Indices: 1708164--1708294 Score: 71
Period size: 11 Copynumber: 11.1 Consensus size: 12
1708154 AAAATGTTTG
*
1708164 AATATCTTTAAA
1 AATATATTTAAA
1708176 AATATATACATTAAA
1 AATATAT---TTAAA
*
1708191 ATTATATTT-AA
1 AATATATTTAAA
1708202 AATA-ATTTAAA
1 AATATATTTAAA
*
1708213 AATATAATTTTAA
1 AATAT-ATTTAAA
* *
1708226 ATTCTATTT-AA
1 AATATATTTAAA
*
1708237 AAT-T-TTAAAA
1 AATATATTTAAA
*
1708247 AATCATAATTAAA
1 AAT-ATATTTAAA
*
1708260 AATAT-TTTTAA
1 AATATATTTAAA
1708271 AAT-T-TTTAAA
1 AATATATTTAAA
*
1708281 ATATACATTTAAA
1 A-ATATATTTAAA
1708294 A
1 A
1708295 TATTATAAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
9 2 0.02
10 17 0.18
11 24 0.26
12 15 0.16
13 23 0.25
15 11 0.12
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (12 bp):
AATATATTTAAA
Found at i:1708228 original size:35 final size:34
Alignment explanation
Indices: 1708174--1708295 Score: 126
Period size: 34 Copynumber: 3.6 Consensus size: 34
1708164 AATATCTTTA
1708174 AAAATATATACA-TTAAAATTATATTTAAAATAATTT
1 AAAA-ATATACATTTAAAATTATATTTAAAAT--TTT
* *
1708210 AAAAATATA-ATTTTAAATTCTATTTAAAATTTT
1 AAAAATATACATTTAAAATTATATTTAAAATTTT
* *
1708243 AAAAA-AT-CATAATTAAAAATATTTTTAAAATTTT
1 AAAAATATACAT--TTAAAATTATATTTAAAATTTT
*
1708277 TAAAATATACATTTAAAAT
1 AAAAATATACATTTAAAAT
1708296 ATTATAAAAC
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
32 4 0.06
33 8 0.11
34 29 0.40
35 24 0.33
36 7 0.10
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (34 bp):
AAAAATATACATTTAAAATTATATTTAAAATTTT
Found at i:1708443 original size:15 final size:15
Alignment explanation
Indices: 1708407--1708446 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
1708397 ATAATATTTA
1708407 AATTTAAAAAAAACT
1 AATTTAAAAAAAACT
1708422 AATTTTAAAAAAAA-T
1 AA-TTTAAAAAAAACT
1708437 ATATTTAAAA
1 A-ATTTAAAA
1708447 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
AATTTAAAAAAAACT
Found at i:1708464 original size:23 final size:25
Alignment explanation
Indices: 1708424--1708469 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
1708414 AAAAAACTAA
1708424 TTTTAAAAAAAATATATT-TAAAAT
1 TTTTAAAAAAAATATATTATAAAAT
*
1708448 TTTTAAAAAATA-ATATTATAAA
1 TTTTAAAAAAAATATATTATAAA
1708470 GCATTTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
TTTTAAAAAAAATATATTATAAAAT
Found at i:1714743 original size:132 final size:132
Alignment explanation
Indices: 1713810--1714735 Score: 1654
Period size: 132 Copynumber: 7.0 Consensus size: 132
1713800 CAAATACAGG
* * * *
1713810 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* * *
1713875 TCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATG
1713940 AA
131 AA
* * *
1713942 GACAAGATCTGCCTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAATATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1714007 TCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATG
1714072 AA
131 AA
1714074 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1714139 TCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATG
1714204 AA
131 AA
*
1714206 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
1714271 TCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATTTTCTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATG
1714336 AA
131 AA
* *
1714338 GACAAGATCTGCTTTCTTCGATCTACTTCGCCATCAGTATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1714403 TCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATG
1714468 AA
131 AA
1714470 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
1714535 TCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATTTTCTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATG
1714600 AA
131 AA
* * *
1714602 GACAAGATCTGCTTTCTTCGATCTACTTCGCCATCAGTATGGGAAGACAAGATCTGGATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
1714667 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATG
1714732 AA
131 AA
1714734 GA
1 GA
1714736 TAGGATCTAC
Statistics
Matches: 762, Mismatches: 32, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 762 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (132 bp):
GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
TCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATG
AA
Found at i:1720155 original size:266 final size:266
Alignment explanation
Indices: 1719681--1720212 Score: 1028
Period size: 266 Copynumber: 2.0 Consensus size: 266
1719671 GCGGATACAT
*
1719681 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCGTTCGAGCGTTAAGATAAGT
1 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
* *
1719746 CTTACGAACTCTTCAAAAGGGACGTATCTTATATCTCTTTTTTACTCAATCCGGGCCGTGACTCG
66 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
*
1719811 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCGAATA
131 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
1719876 ATCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
196 ATCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
1719941 TCCTTC
261 TCCTTC
1719947 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
1 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
1720012 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
66 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
1720077 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
131 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
1720142 ATCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
196 ATCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
1720207 TCCTTC
261 TCCTTC
1720213 TCTTATCACG
Statistics
Matches: 262, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
266 262 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (266 bp):
ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
ATCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
TCCTTC
Found at i:1734726 original size:94 final size:94
Alignment explanation
Indices: 1734554--1734917 Score: 563
Period size: 94 Copynumber: 4.0 Consensus size: 94
1734544 TTAAAACAAC
* *
1734554 GTGTTATAAATTTTCTGAAATCCCCACTTTTACTGCCACTCAACGTGCATGGATCGGACCTTAAC
1 GTGTTATAAATTTTCTGAAATCCCCACTTTTACCGCCACTCAACGTGCATGGATCGGAGCTTAAC
1734619 AATGTGGAATTAAATGTGGAAGTAAAATT
66 AATGTGGAATTAAATGTGGAAGTAAAATT
*
1734648 GTGTTATAAATTTTCTGAAATCCCCACTTTTACCGTCACTCAACGTGCATGGATCGGAGCTTAAC
1 GTGTTATAAATTTTCTGAAATCCCCACTTTTACCGCCACTCAACGTGCATGGATCGGAGCTTAAC
* * *
1734713 ACTATGGATTTAAATGTGGAAGTAAAATT
66 AATGTGGAATTAAATGTGGAAGTAAAATT
*
1734742 GTGTTATAAATTTTCTGAAATCCCCACTTTTACCGCCACTCAACGTGCATGGATCGTAGCTTAAC
1 GTGTTATAAATTTTCTGAAATCCCCACTTTTACCGCCACTCAACGTGCATGGATCGGAGCTTAAC
1734807 ------------AATGTGGAAGTAAAATT
66 AATGTGGAATTAAATGTGGAAGTAAAATT
* *
1734824 GTGTTATAAATTTTCTGAAATCCCCACTTTTACCGCCACTCAACGCGCATGGATCGTAGCTTAAC
1 GTGTTATAAATTTTCTGAAATCCCCACTTTTACCGCCACTCAACGTGCATGGATCGGAGCTTAAC
1734889 AATGTGGAATTAAATGTGGAAGTAAAATT
66 AATGTGGAATTAAATGTGGAAGTAAAATT
1734918 ACGATATTTA
Statistics
Matches: 249, Mismatches: 9, Indels: 24
0.88 0.03 0.09
Matches are distributed among these distances:
82 81 0.33
94 168 0.67
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (94 bp):
GTGTTATAAATTTTCTGAAATCCCCACTTTTACCGCCACTCAACGTGCATGGATCGGAGCTTAAC
AATGTGGAATTAAATGTGGAAGTAAAATT
Found at i:1734862 original size:82 final size:82
Alignment explanation
Indices: 1734725--1734902 Score: 338
Period size: 82 Copynumber: 2.2 Consensus size: 82
1734715 TATGGATTTA
*
1734725 AATGTGGAAGTAAAATTGTGTTATAAATTTTCTGAAATCCCCACTTTTACCGCCACTCAACGTGC
1 AATGTGGAAGTAAAATTGTGTTATAAATTTTCTGAAATCCCCACTTTTACCGCCACTCAACGCGC
1734790 ATGGATCGTAGCTTAAC
66 ATGGATCGTAGCTTAAC
1734807 AATGTGGAAGTAAAATTGTGTTATAAATTTTCTGAAATCCCCACTTTTACCGCCACTCAACGCGC
1 AATGTGGAAGTAAAATTGTGTTATAAATTTTCTGAAATCCCCACTTTTACCGCCACTCAACGCGC
1734872 ATGGATCGTAGCTTAAC
66 ATGGATCGTAGCTTAAC
*
1734889 AATGTGGAATTAAA
1 AATGTGGAAGTAAA
1734903 TGTGGAAGTA
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 94 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (82 bp):
AATGTGGAAGTAAAATTGTGTTATAAATTTTCTGAAATCCCCACTTTTACCGCCACTCAACGCGC
ATGGATCGTAGCTTAAC
Found at i:1738877 original size:44 final size:44
Alignment explanation
Indices: 1738773--1739956 Score: 1010
Period size: 44 Copynumber: 27.0 Consensus size: 44
1738763 CAAATACAGG
* * * *
1738773 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-GCACCAATATAGGAA
* * *
1738818 GACAAGATCTG-TATCTTGGATCCACTTC-CTATCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCGC-ACCAATATAGGAA
* * * * * * *
1738861 GATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCGCACCAATATAGGAA
* *
1738905 GACAAGATCTGCCT-TCTGCGATCTACTTCGCCACCAATATGGGAA
1 GACAAGATCTG-CTATCTTCGATCTACTTCG-CACCAATATAGGAA
* *
1738950 GACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGAAA
1 GACAAGATCTGCTATCTTCGATCTACTTCGC-ACCAATATAGGAA
* * * * * * *
1738993 GATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCGCACCAATATAGGAA
* * * *
1739037 GACAAGATCTG-TTTCTGCGATCTACTTCGCCATCAATATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCG-CACCAATATAGGAA
* *
1739081 GACAAGATCTGC-ATCTTCGATCTACTTCGCCACCAGTATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCG-CACCAATATAGGAA
* *
1739125 GACAAGATCTGC-ATCGTCGATCCACTTC-CTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCGC-ACCAATATAGGAA
** * * * * * * *
1739168 GACCGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCGCACCAATATAGGAA
* * *
1739212 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCG-CACCAATATAGGAA
* *
1739257 GACAAGATCTGC-ATCGTCGATCCACTTC-CTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCGC-ACCAATATAGGAA
* * * * * * *
1739300 GACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCGCACCAATATAGGAA
*
1739344 GACAAGATCTGCTTTCTGT-GATCTACTTCGCCACCAATAT-GTGAA
1 GACAAGATCTGCTATCT-TCGATCTACTTCG-CACCAATATAG-GAA
* *
1739389 GACAAGATCTGC-ATCGTCGATCCACTT----CCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCGCACCAATATAGGAA
* * * * * * *
1739428 GACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCGCACCAATATAGGAA
*
1739472 GACAAGATCTGCTTTCTGT-GATCTACTTCGCCACCAATAT-GTGAA
1 GACAAGATCTGCTATCT-TCGATCTACTTCG-CACCAATATAG-GAA
* *
1739517 GACAAGATCTGC-ATCGTCGATCCACTTC-CTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCGC-ACCAATATAGGAA
* * * * * * *
1739560 GACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCGCACCAATATAGGAA
* * *
1739604 GACAAGATCTGCTTTCTGT-AATCTACTTCGCCACCAATATGGGAA
1 GACAAGATCTGCTATCT-TCGATCTACTTCG-CACCAATATAGGAA
* *
1739649 GACAAGATCTGC-ATCGTCGATCCACTTC-CTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCGC-ACCAATATAGGAA
* * * * * * *
1739692 GACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCGCACCAATATAGGAA
*
1739736 GACAAGATCTGCTTTCTGT-GATCTACTTCGCCACCAATATAGGAA
1 GACAAGATCTGCTATCT-TCGATCTACTTCG-CACCAATATAGGAA
* *
1739781 GACAAGATCTGC-ATCGTCGATCCACTTC-CTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCGC-ACCAATATAGGAA
* * * * * * *
1739824 GACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCGCACCAATATAGGAA
* *
1739868 GACAAGATCTGCTTTCTGT-GATCTACTTCGCCACCAATATGGGAA
1 GACAAGATCTGCTATCT-TCGATCTACTTCG-CACCAATATAGGAA
* *
1739913 GACAAGATCTGC-ATCTTTGATCCACTTC-CTACC-ATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCGC-ACCAATATAGGAA
1739955 GA
1 GA
1739957 TAGGATATGC
Statistics
Matches: 911, Mismatches: 176, Indels: 107
0.76 0.15 0.09
Matches are distributed among these distances:
39 20 0.02
40 13 0.01
42 18 0.02
43 168 0.18
44 513 0.56
45 179 0.20
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (44 bp):
GACAAGATCTGCTATCTTCGATCTACTTCGCACCAATATAGGAA
Found at i:1739261 original size:132 final size:132
Alignment explanation
Indices: 1739078--1739956 Score: 1583
Period size: 132 Copynumber: 6.7 Consensus size: 132
1739068 ATCAATATGG
* *
1739078 GAAGACAAGATCTGC-ATCT-TCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCG
1 GAAGACAAGATCTGCTTTCTGT-GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCG
** **
1739141 TCGATCCACTTCCTACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCACGCCAATA
65 TCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATA
1739206 CAT
130 CAT
*
1739209 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
1 GAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
1739274 CGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATAC
1739339 AT
131 AT
*
1739341 GAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGTGAAGACAAGATCTGCATCGT
1 GAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
1739406 CGATCCAC-T--T-CCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATAC
1739467 AT
131 AT
*
1739469 GAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGTGAAGACAAGATCTGCATCGT
1 GAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
1739534 CGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATAC
1739599 AT
131 AT
*
1739601 GAAGACAAGATCTGCTTTCTGTAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
1 GAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
1739666 CGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATAC
1739731 AT
131 AT
*
1739733 GAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCATCGT
1 GAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
1739798 CGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATAC
1739863 AT
131 AT
*
1739865 GAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
*
1739930 TGATCCACTTCCTACC-ATATAGGAAGA
66 CGATCCACTTCCTACCAATATAGGAAGA
1739957 TAGGATATGC
Statistics
Matches: 726, Mismatches: 16, Indels: 12
0.96 0.02 0.02
Matches are distributed among these distances:
128 126 0.17
129 2 0.00
131 28 0.04
132 570 0.79
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (132 bp):
GAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
CGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATAC
AT
Found at i:1739520 original size:392 final size:395
Alignment explanation
Indices: 1739078--1739956 Score: 1583
Period size: 392 Copynumber: 2.2 Consensus size: 395
1739068 ATCAATATGG
* *
1739078 GAAGACAAGATCTGC-ATCT-TCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCG
1 GAAGACAAGATCTGCTTTCTGT-GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCG
** **
1739141 TCGATCCACTTCCTACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCACGCCAATA
65 TCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATA
*
1739206 CATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAT
130 CATGAAGACAAGATCTGCTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAT
1739271 CGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAA
195 CGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAA
1739336 TACATGAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATAT-GTGAAGACAAGATCTG
260 TACATGAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATAG-GAAGACAAGATCTG
1739400 CATCGTCGATCCAC-T-T-CCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCC
324 CATCGTCGATCCACTTCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCC
1739462 AATACAT
389 AATACAT
*
1739469 GAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGTGAAGACAAGATCTGCATCGT
1 GAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
1739534 CGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATAC
*
1739599 ATGAAGACAAGATCTGCTTTCTGTAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
131 ATGAAGACAAGATCTGCTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
1739664 GTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAAT
196 GTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAAT
1739729 ACATGAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCA
261 ACATGAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCA
1739794 TCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCA
326 TCGTCGATCCACTT-CTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCA
1739859 ATACAT
390 ATACAT
*
1739865 GAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
*
1739930 TGATCCACTTCCTACC-ATATAGGAAGA
66 CGATCCACTTCCTACCAATATAGGAAGA
1739957 TAGGATATGC
Statistics
Matches: 469, Mismatches: 12, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
391 15 0.03
392 308 0.66
393 3 0.01
395 12 0.03
396 131 0.28
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (395 bp):
GAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGT
CGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATAC
ATGAAGACAAGATCTGCTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
GTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAAT
ACATGAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCA
TCGTCGATCCACTTCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAA
TACAT
Done.