Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold113
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: 3764034
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Warning! 4009 characters in sequence are not A, C, G, or T
File 11 of 23
Found at i:1665387 original size:13 final size:13
Alignment explanation
Indices: 1665369--1665397 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1665359 ACATTTGGTC
1665369 ATGTATCGATACA
1 ATGTATCGATACA
1665382 ATGTATCGATACA
1 ATGTATCGATACA
1665395 ATG
1 ATG
1665398 CAATCTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1666282 original size:13 final size:13
Alignment explanation
Indices: 1666264--1666289 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1666254 CAATTTTTTG
1666264 TGTATCGATACAT
1 TGTATCGATACAT
1666277 TGTATCGATACAT
1 TGTATCGATACAT
1666290 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1666354 original size:21 final size:20
Alignment explanation
Indices: 1666328--1666404 Score: 91
Period size: 21 Copynumber: 3.8 Consensus size: 20
1666318 CTGCCAAGAA
1666328 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACAT-TTTTTT
*****
1666349 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTTTTTT
1666369 ATGTATCGATACATTTTTTT
1 ATGTATCGATACATTTTTTT
1666389 CATGTATCGATACATT
1 -ATGTATCGATACATT
1666405 GCAACATGTA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTTT
Found at i:1666374 original size:20 final size:20
Alignment explanation
Indices: 1666349--1666421 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1666339 CATCTTTTTT
1666349 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1666369 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
1666390 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1666410 ATGTATCGATAC
1 ATGTATCGATAC
1666422 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1666388 original size:41 final size:41
Alignment explanation
Indices: 1666328--1666421 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
1666318 CTGCCAAGAA
*
1666328 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
*
1666369 ATGTATCGATACATTTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1666410 ATGTATCGATAC
1 ATGTATCGATAC
1666422 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1667079 original size:34 final size:33
Alignment explanation
Indices: 1667040--1667134 Score: 167
Period size: 34 Copynumber: 2.9 Consensus size: 33
1667030 CCCGTTTATT
1667040 AAAAAATCTCCCCCTTAATCAAGTAATTCAAAAA
1 AAAAAATCTCCCCCTTAATCAAGTAATTC-AAAA
1667074 AAAAAATCTCCCCCTTAATCAAGTAATTC-AAA
1 AAAAAATCTCCCCCTTAATCAAGTAATTCAAAA
1667106 AAAAAATCT-CCCCTTAATCAAGTAATTCA
1 AAAAAATCTCCCCCTTAATCAAGTAATTCA
1667135 TATCAAAATT
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 19 0.32
32 12 0.20
34 29 0.48
ACGTcount: A:0.47, C:0.24, G:0.03, T:0.25
Consensus pattern (33 bp):
AAAAAATCTCCCCCTTAATCAAGTAATTCAAAA
Found at i:1674336 original size:13 final size:13
Alignment explanation
Indices: 1674318--1674343 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1674308 CAATTTTTTG
1674318 TGTATCGATACAT
1 TGTATCGATACAT
1674331 TGTATCGATACAT
1 TGTATCGATACAT
1674344 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1674429 original size:20 final size:20
Alignment explanation
Indices: 1674404--1674476 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
1674394 AATCTTTTTT
1674404 ATGTATCGATACA-TGCAAAC
1 ATGTATCGATACATTGC-AAC
****
1674424 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
1674445 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1674465 ATGTATCGATAC
1 ATGTATCGATAC
1674477 TTGGAGATTG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 28 0.65
21 14 0.33
22 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1674449 original size:21 final size:21
Alignment explanation
Indices: 1674382--1674459 Score: 79
Period size: 21 Copynumber: 3.7 Consensus size: 21
1674372 CTGCCAAGAA
1674382 ATGTATCGATACAATCTTTTTT-
1 ATGTATCGATAC-AT-TTTTTTC
*****
1674404 ATGTATCGATACA-TGCAAAC
1 ATGTATCGATACATTTTTTTC
1674424 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACATTTTTTTC
1674445 ATGTATCGATACATT
1 ATGTATCGATACATT
1674460 GCAACATGTA
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
19 1 0.02
20 13 0.30
21 18 0.41
22 12 0.27
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTC
Found at i:1674452 original size:41 final size:42
Alignment explanation
Indices: 1674382--1674476 Score: 151
Period size: 41 Copynumber: 2.3 Consensus size: 42
1674372 CTGCCAAGAA
1674382 ATGTATCGATACAATCTTTTTTATGTATCGATACA-TGCAAAC
1 ATGTATCGATACAATCTTTTTTATGTATCGATACATTGC-AAC
1674424 ATGTATCGATAC-AT-TTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAATCTTTTTT-ATGTATCGATACATTGCAAC
1674465 ATGTATCGATAC
1 ATGTATCGATAC
1674477 TTGGAGATTG
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
40 6 0.12
41 30 0.59
42 15 0.29
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.39
Consensus pattern (42 bp):
ATGTATCGATACAATCTTTTTTATGTATCGATACATTGCAAC
Found at i:1677477 original size:20 final size:21
Alignment explanation
Indices: 1677454--1677494 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1677444 TAAAACAAAC
*
1677454 CACC-ACCCCCAAAAAACCCA
1 CACCAACCCACAAAAAACCCA
1677474 CACCAACCCACAAAAAACCCA
1 CACCAACCCACAAAAAACCCA
1677495 AACCCACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (21 bp):
CACCAACCCACAAAAAACCCA
Found at i:1677482 original size:21 final size:20
Alignment explanation
Indices: 1677454--1677505 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
1677444 TAAAACAAAC
*
1677454 CACCACCCCCAAAAAACCCA
1 CACCACCCACAAAAAACCCA
1677474 CACCAACCCACAAAAAACCCA
1 CACC-ACCCACAAAAAACCCA
1677495 -A--ACCCACAAAA
1 CACCACCCACAAAA
1677506 CCAACAAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 10 0.33
20 5 0.17
21 15 0.50
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (20 bp):
CACCACCCACAAAAAACCCA
Found at i:1677720 original size:31 final size:30
Alignment explanation
Indices: 1677684--1677792 Score: 87
Period size: 31 Copynumber: 3.6 Consensus size: 30
1677674 CACACCCCAC
*
1677684 ACAAAAACAACACCACCAACCCACCAAAAAA
1 ACAAAAA-AACACCACCAAACCACCAAAAAA
* * * **
1677715 AC-AAAAACCCCCACCAAGACAACCCCAAAA
1 ACAAAAAAACACCACCAA-ACCACCAAAAAA
* * *
1677745 ACAAAAAAAGACAACCCAAACCA-AAAAAAA
1 ACAAAAAAACACCA-CCAAACCACCAAAAAA
1677775 ACCAAAAAAACACCACCA
1 A-CAAAAAAACACCACCA
1677793 CCCCACAACA
Statistics
Matches: 58, Mismatches: 16, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
29 9 0.16
30 22 0.38
31 23 0.40
32 4 0.07
ACGTcount: A:0.62, C:0.36, G:0.02, T:0.00
Consensus pattern (30 bp):
ACAAAAAAACACCACCAAACCACCAAAAAA
Found at i:1677775 original size:22 final size:22
Alignment explanation
Indices: 1677730--1677773 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
1677720 AACCCCCACC
1677730 AAGACAACCCCAAAAACAAAAA
1 AAGACAACCCCAAAAACAAAAA
*
1677752 AAGACAA-CCC-AAACCAAAAA
1 AAGACAACCCCAAAAACAAAAA
1677772 AA
1 AA
1677774 AACCAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 3 0.14
22 7 0.33
ACGTcount: A:0.68, C:0.27, G:0.05, T:0.00
Consensus pattern (22 bp):
AAGACAACCCCAAAAACAAAAA
Found at i:1677868 original size:15 final size:15
Alignment explanation
Indices: 1677824--1677891 Score: 51
Period size: 13 Copynumber: 5.0 Consensus size: 15
1677814 CCAACCCGCC
1677824 CAAACCAACA-CACA
1 CAAACCAACACCACA
** *
1677838 C--ACCCCCACCAAA
1 CAAACCAACACCACA
1677851 CAAACCAACACCACA
1 CAAACCAACACCACA
1677866 CAAA--AACACCAC-
1 CAAACCAACACCACA
*
1677878 C-AACAAACACCACA
1 CAAACCAACACCACA
1677892 AACCAAAAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
11 2 0.05
12 6 0.14
13 20 0.48
14 1 0.02
15 13 0.31
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (15 bp):
CAAACCAACACCACA
Found at i:1677875 original size:13 final size:14
Alignment explanation
Indices: 1677857--1677891 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
1677847 CAAACAAACC
1677857 AACACCACACAA-A
1 AACACCACACAACA
1677870 AACACCAC-CAACA
1 AACACCACACAACA
1677883 AACACCACA
1 AACACCACA
1677892 AACCAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.15
13 17 0.85
ACGTcount: A:0.57, C:0.43, G:0.00, T:0.00
Consensus pattern (14 bp):
AACACCACACAACA
Found at i:1677973 original size:26 final size:23
Alignment explanation
Indices: 1677930--1678030 Score: 73
Period size: 23 Copynumber: 4.3 Consensus size: 23
1677920 CAACACAACC
* **
1677930 AAAACCAACACAAAAAAAACCCA
1 AAAACCCACACACCAAAAACCCA
*
1677953 AAAACAACACACACACCAAAAAACCA
1 AAAAC--C-CACACACCAAAAACCCA
*
1677979 AAAACCCACCCACC-AAAACCCA
1 AAAACCCACACACCAAAAACCCA
* *
1678001 ACAAA-CCA-AAACAAAAAACCCCA
1 A-AAACCCACACACCAAAAA-CCCA
1678024 AAAACCC
1 AAAACCC
1678031 CCCAACAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
21 2 0.03
22 18 0.29
23 22 0.35
24 1 0.02
25 1 0.02
26 18 0.29
ACGTcount: A:0.62, C:0.38, G:0.00, T:0.00
Consensus pattern (23 bp):
AAAACCCACACACCAAAAACCCA
Found at i:1678061 original size:24 final size:24
Alignment explanation
Indices: 1677993--1678061 Score: 70
Period size: 25 Copynumber: 2.9 Consensus size: 24
1677983 CCCACCCACC
*
1677993 AAAA-CCCAACAAACCAAAAC-AA
1 AAAACCCCAAAAAACCAAAACAAA
* **
1678015 AAAACCCCAAAAACCCCCCAACAAA
1 AAAACCCCAAAAA-ACCAAAACAAA
*
1678040 AAAACCCCAAAAAACAAAAACA
1 AAAACCCCAAAAAACCAAAACA
1678062 CACACCAAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 4 0.11
23 7 0.19
24 10 0.28
25 15 0.42
ACGTcount: A:0.65, C:0.35, G:0.00, T:0.00
Consensus pattern (24 bp):
AAAACCCCAAAAAACCAAAACAAA
Found at i:1678165 original size:19 final size:19
Alignment explanation
Indices: 1678141--1678183 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1678131 CAACCCAGAC
1678141 CAACCAACA-AAAAAACCAA
1 CAACCAACACAAAAAA-CAA
*
1678160 CAACCAACACAAACAACAA
1 CAACCAACACAAAAAACAA
1678179 CAACC
1 CAACC
1678184 CAACCAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.63, C:0.37, G:0.00, T:0.00
Consensus pattern (19 bp):
CAACCAACACAAAAAACAA
Found at i:1678236 original size:33 final size:34
Alignment explanation
Indices: 1678175--1678249 Score: 91
Period size: 33 Copynumber: 2.2 Consensus size: 34
1678165 AACACAAACA
*
1678175 ACAACAACCCAACCAAACCCCAAAAAACAC-CGCAC
1 ACAACAACCCAA-CAAACCACAAAAAACACAC-CAC
**
1678210 ACAACAACCCAA-AAACCACACCAAACACACCAC
1 ACAACAACCCAACAAACCACAAAAAACACACCAC
1678243 ACAACAA
1 ACAACAA
1678250 AAACCACTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 23 0.64
34 1 0.03
35 12 0.33
ACGTcount: A:0.55, C:0.44, G:0.01, T:0.00
Consensus pattern (34 bp):
ACAACAACCCAACAAACCACAAAAAACACACCAC
Found at i:1684193 original size:19 final size:20
Alignment explanation
Indices: 1684148--1684199 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1684138 TTACAAGCCA
*
1684148 ATGTATCGATACATTTGATG
1 ATGTATCGATACATCTGATG
1684168 ATGTATCGATACATACTG-TG
1 ATGTATCGATACAT-CTGATG
1684188 -TGTATCGATACA
1 ATGTATCGATACA
1684200 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 12 0.40
20 16 0.53
21 2 0.07
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATCTGATG
Found at i:1684279 original size:20 final size:21
Alignment explanation
Indices: 1684232--1684284 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
1684222 GCCAATGACC
**
1684232 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
1684253 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
1684273 TGTATCGATACA
1 TGTATCGATACA
1684285 ATGCAATCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:1686645 original size:16 final size:16
Alignment explanation
Indices: 1686610--1686644 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1686600 AGAAGAAAAT
1686610 AAAATAAAAACTATTG
1 AAAATAAAAACTATTG
*
1686626 AAAATAAAAA-TCTTG
1 AAAATAAAAACTATTG
1686641 AAAA
1 AAAA
1686645 AAATATTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.23
Consensus pattern (16 bp):
AAAATAAAAACTATTG
Found at i:1690639 original size:31 final size:34
Alignment explanation
Indices: 1690578--1690639 Score: 85
Period size: 31 Copynumber: 1.9 Consensus size: 34
1690568 TAGGGTCAAA
* *
1690578 ATCTGGAAAAATTCCAGAATGTATCGATACATTT
1 ATCTGGAAAAACTCCAGAATGTATCAATACATTT
1690612 ATCTGG-AAAACT-CAG-ATGTATCAATACA
1 ATCTGGAAAAACTCCAGAATGTATCAATACA
1690640 GCATTCTCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 12 0.46
32 3 0.12
33 5 0.19
34 6 0.23
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (34 bp):
ATCTGGAAAAACTCCAGAATGTATCAATACATTT
Found at i:1690666 original size:13 final size:13
Alignment explanation
Indices: 1690648--1690685 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1690638 CAGCATTCTC
*
1690648 TGTATCGATACAT
1 TGTATCGATACAG
1690661 TGTATCGATACAG
1 TGTATCGATACAG
1690674 TGTATCGATACA
1 TGTATCGATACA
1690686 AAGGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1691160 original size:20 final size:22
Alignment explanation
Indices: 1691127--1691171 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
1691117 GCAGCACTCA
*
1691127 CCAGGTTACGACC-GGC-ACCC
1 CCAGGTTACAACCGGGCAACCC
*
1691147 CCAGGTTGCAACCGGGCAACCC
1 CCAGGTTACAACCGGGCAACCC
1691169 CCA
1 CCA
1691172 CACTTACAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 3 0.14
22 7 0.33
ACGTcount: A:0.22, C:0.44, G:0.24, T:0.09
Consensus pattern (22 bp):
CCAGGTTACAACCGGGCAACCC
Found at i:1693316 original size:33 final size:32
Alignment explanation
Indices: 1693255--1693322 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
1693245 CCTTAACTGT
*
1693255 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
* *
1693287 TTGTATCGATATATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
1693320 TTG
1 TTG
1693323 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:1693385 original size:23 final size:23
Alignment explanation
Indices: 1693353--1693404 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
1693343 ACTATATTTT
*
1693353 CAAATGCATGTATCGATACATCC
1 CAAATTCATGTATCGATACATCC
1693376 CAAATTCATGTATCGATACATCC
1 CAAATTCATGTATCGATACATCC
1693399 CAAATT
1 CAAATT
1693405 GTATCAATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.29
Consensus pattern (23 bp):
CAAATTCATGTATCGATACATCC
Found at i:1693409 original size:20 final size:22
Alignment explanation
Indices: 1693360--1693416 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 22
1693350 TTTCAAATGC
1693360 ATGTATCGATACATCCCAAATT
1 ATGTATCGATACATCCCAAATT
1693382 CATGTATCGATACATCCCAAA-T
1 -ATGTATCGATACATCCCAAATT
*
1693404 -TGTATCAATACAT
1 ATGTATCGATACAT
1693417 TTACATGGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 12 0.36
22 1 0.03
23 20 0.61
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.32
Consensus pattern (22 bp):
ATGTATCGATACATCCCAAATT
Found at i:1698636 original size:21 final size:20
Alignment explanation
Indices: 1698611--1698664 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
1698601 TTACAAGCTA
1698611 ATGTATCGATACAAT-TTAGTT
1 ATGTATCGATACAATCTT-G-T
1698632 ATGTATCGATAC-ATCTTGT
1 ATGTATCGATACAATCTTGT
1698651 ATGTATCGATACAA
1 ATGTATCGATACAA
1698665 ATAGTTAGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 13 0.42
20 4 0.13
21 14 0.45
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACAATCTTGT
Found at i:1698655 original size:19 final size:20
Alignment explanation
Indices: 1698611--1698663 Score: 74
Period size: 19 Copynumber: 2.6 Consensus size: 20
1698601 TTACAAGCTA
1698611 ATGTATCGATACAATTTAGTT
1 ATGTATCGATAC-ATTTAGTT
1698632 ATGTATCGATACATCTT-G-T
1 ATGTATCGATACAT-TTAGTT
1698651 ATGTATCGATACA
1 ATGTATCGATACA
1698664 AATAGTTAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.45
20 3 0.10
21 14 0.45
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTAGTT
Found at i:1698752 original size:13 final size:13
Alignment explanation
Indices: 1698734--1698765 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1698724 ACATTTGGTC
1698734 ATGTATCGATACA
1 ATGTATCGATACA
*
1698747 ATGTATCGATACT
1 ATGTATCGATACA
1698760 ATGTAT
1 ATGTAT
1698766 TATGTATCGA
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:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1699376 original size:36 final size:36
Alignment explanation
Indices: 1699329--1699403 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
1699319 CTTAATCAAA
1699329 TAAAAAATTTCTCCCCCTTAATAAAACATTTTCCTT
1 TAAAAAATTTCTCCCCCTTAATAAAACATTTTCCTT
*
1699365 TAAAAAATTTCTCCCCCTTAATAAAACGTTTTCCTT
1 TAAAAAATTTCTCCCCCTTAATAAAACATTTTCCTT
1699401 TAA
1 TAA
1699404 TCTCATGTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.36, C:0.24, G:0.01, T:0.39
Consensus pattern (36 bp):
TAAAAAATTTCTCCCCCTTAATAAAACATTTTCCTT
Found at i:1699385 original size:18 final size:18
Alignment explanation
Indices: 1699329--1699390 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
1699319 CTTAATCAAA
1699329 TAAAAAATTTCTCCCCCT
1 TAAAAAATTTCTCCCCCT
*
1699347 TAATAAAACATTT-T--CCTT
1 T-A-AAAA-ATTTCTCCCCCT
1699365 TAAAAAATTTCTCCCCCT
1 TAAAAAATTTCTCCCCCT
1699383 TAATAAAA
1 TAA-AAAA
1699391 CGTTTTCCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 13
0.70 0.04 0.26
Matches are distributed among these distances:
15 4 0.11
16 5 0.14
17 1 0.03
18 11 0.31
19 5 0.14
20 5 0.14
21 4 0.11
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAAAATTTCTCCCCCT
Found at i:1699403 original size:18 final size:17
Alignment explanation
Indices: 1699346--1699404 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 17
1699336 TTTCTCCCCC
1699346 TTAATAAAACATTTTCCT
1 TTAATAAAAC-TTTTCCT
*
1699364 TTAA-AAAA-TTTCTCCCCC
1 TTAATAAAACTTT-T--CCT
1699382 TTAATAAAACGTTTTCCT
1 TTAATAAAAC-TTTTCCT
1699400 TTAAT
1 TTAAT
1699405 CTCATGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 3 0.09
16 1 0.03
17 4 0.12
18 17 0.52
19 4 0.12
20 1 0.03
21 3 0.09
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.42
Consensus pattern (17 bp):
TTAATAAAACTTTTCCT
Found at i:1705810 original size:3 final size:3
Alignment explanation
Indices: 1705802--1705832 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1705792 TCTGAGTCAC
*
1705802 CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1705833 GTCCTTGATG
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:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:1707479 original size:32 final size:32
Alignment explanation
Indices: 1707443--1707519 Score: 145
Period size: 32 Copynumber: 2.4 Consensus size: 32
1707433 CAATTTGGTC
1707443 ATGTATCGATACATTGCATCGATACATCTTGT
1 ATGTATCGATACATTGCATCGATACATCTTGT
1707475 ATGTATCGATACATTGCATCGATACATCTTGT
1 ATGTATCGATACATTGCATCGATACATCTTGT
*
1707507 ATGTATTGATACA
1 ATGTATCGATACA
1707520 AACAGTTAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (32 bp):
ATGTATCGATACATTGCATCGATACATCTTGT
Found at i:1707484 original size:19 final size:19
Alignment explanation
Indices: 1707460--1707519 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
1707450 GATACATTGC
1707460 ATCGATACATCTTGTATGT
1 ATCGATACATCTTGTATGT
*
1707479 ATCGATACA-----T-TGC
1 ATCGATACATCTTGTATGT
1707492 ATCGATACATCTTGTATGT
1 ATCGATACATCTTGTATGT
*
1707511 ATTGATACA
1 ATCGATACA
1707520 AACAGTTAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 12
0.68 0.06 0.26
Matches are distributed among these distances:
13 11 0.34
14 1 0.03
18 1 0.03
19 19 0.59
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (19 bp):
ATCGATACATCTTGTATGT
Found at i:1707605 original size:20 final size:20
Alignment explanation
Indices: 1707561--1707612 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1707551 GCCAAACACC
*
1707561 TGTATCGATACATTTTTGCA
1 TGTATCGATACATTTGTGCA
*
1707581 AGTATCGATACATTTG-GTCA
1 TGTATCGATACATTTGTG-CA
1707601 TGTATCGATACA
1 TGTATCGATACA
1707613 ATGTATCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTTGTGCA
Found at i:1717832 original size:22 final size:23
Alignment explanation
Indices: 1717805--1717849 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
1717795 AACATTATAG
1717805 AAATATTTT-TATTTCAATAATT
1 AAATATTTTATATTTCAATAATT
1717827 AAATATTTTATATTTCAATAATT
1 AAATATTTTATATTTCAATAATT
1717850 TTGTGAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
AAATATTTTATATTTCAATAATT
Found at i:1718446 original size:25 final size:26
Alignment explanation
Indices: 1718383--1718446 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 26
1718373 GTAAGCTCTT
*
1718383 AATAATATAATAATAAATAATTTATAA
1 AATAATATAA-AATAAATAATTGATAA
* *
1718410 TATAAGAATAAAA-AAAT-ATTGATAA
1 AATAA-TATAAAATAAATAATTGATAA
1718435 AATAATAGTAAA
1 AATAATA-TAAA
1718447 TGATATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
24 1 0.03
25 15 0.50
26 4 0.13
27 6 0.20
28 4 0.13
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (26 bp):
AATAATATAAAATAAATAATTGATAA
Found at i:1718502 original size:43 final size:43
Alignment explanation
Indices: 1718419--1718502 Score: 96
Period size: 43 Copynumber: 2.0 Consensus size: 43
1718409 ATATAAGAAT
* * *
1718419 AAAAAAATATTGATAAAATAATAGTAAATGATATAAAATATAG
1 AAAAAAATATTGATAAAATAATAATAAATGAAAGAAAATATAG
* * ** *
1718462 AAAAAATTATTGATAATATGGTAATAAATGAAAGATAATAT
1 AAAAAAATATTGATAAAATAATAATAAATGAAAGAAAATAT
1718503 TAAATTTTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.30
Consensus pattern (43 bp):
AAAAAAATATTGATAAAATAATAATAAATGAAAGAAAATATAG
Found at i:1718692 original size:16 final size:17
Alignment explanation
Indices: 1718657--1718707 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 17
1718647 ATTACATGAA
1718657 ATTAATAAATTATTAAATT
1 ATTAATAAATTATT--ATT
1718676 ATTAATAAATT-TTATT
1 ATTAATAAATTATTATT
1718692 A-TAATAAATTATTATT
1 ATTAATAAATTATTATT
1718708 TAAATACAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.29
16 9 0.29
18 2 0.06
19 11 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTAATAAATTATTATT
Found at i:1722041 original size:26 final size:25
Alignment explanation
Indices: 1721998--1722059 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
1721988 AATTAATTTA
**
1721998 TAATTTAAAA-AAATTAATTTTTTT
1 TAATTTAAAATAAATTAATTTAATT
*
1722022 TAATTTAAAATGAATCTAATTTAATT
1 TAATTTAAAATAAAT-TAATTTAATT
1722048 TAATTTTAAAAT
1 TAA-TTTAAAAT
1722060 TTTATATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.31
25 3 0.09
26 11 0.34
27 8 0.25
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
TAATTTAAAATAAATTAATTTAATT
Found at i:1726533 original size:16 final size:17
Alignment explanation
Indices: 1726512--1726546 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1726502 GCTAAACGAG
1726512 TTTATAT-AATAAAAAT
1 TTTATATCAATAAAAAT
*
1726528 TTTATATCCATAAAAAT
1 TTTATATCAATAAAAAT
1726545 TT
1 TT
1726547 GATAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTATATCAATAAAAAT
Found at i:1727157 original size:29 final size:31
Alignment explanation
Indices: 1727109--1727172 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 31
1727099 TAGCGAAAAA
* *
1727109 AATATTTTAATGTTTGTATTATT-AAATT-T
1 AATATATTAATGTTTATATTATTAAAATTAT
* *
1727138 AATATATTAATTTTTATATTTTTAAAATTAT
1 AATATATTAATGTTTATATTATTAAAATTAT
1727169 AATA
1 AATA
1727173 AATAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 19 0.66
30 5 0.17
31 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (31 bp):
AATATATTAATGTTTATATTATTAAAATTAT
Found at i:1727235 original size:13 final size:13
Alignment explanation
Indices: 1727217--1727241 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1727207 TTAAATGTTG
1727217 ATAAAATTTTAAC
1 ATAAAATTTTAAC
1727230 ATAAAATTTTAA
1 ATAAAATTTTAA
1727242 ATTTTATATC
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:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAAAATTTTAAC
Found at i:1732761 original size:10 final size:10
Alignment explanation
Indices: 1732742--1732910 Score: 146
Period size: 10 Copynumber: 16.7 Consensus size: 10
1732732 ACCCAAGGGC
*
1732742 GTATGTATAT
1 GTATATATAT
*
1732752 GTATACATAT
1 GTATATATAT
1732762 GTATATATAT
1 GTATATATAT
*
1732772 ATATATATGTAT
1 GTATATA--TAT
1732784 GTATATATAT
1 GTATATATAT
1732794 GTATATATA-
1 GTATATATAT
*
1732803 -TATGT-TAT
1 GTATATATAT
* *
1732811 ATATATGTAT
1 GTATATATAT
*
1732821 GTTATATGTAT
1 G-TATATATAT
*
1732832 GTTATATAGAT
1 G-TATATATAT
*
1732843 GTATGTTATAT
1 GTAT-ATATAT
*
1732854 GTATGTATAT
1 GTATATATAT
*
1732864 GTATGTATAT
1 GTATATATAT
*
1732874 GTATACATAT
1 GTATATATAT
1732884 GTATATATAT
1 GTATATATAT
*
1732894 GTGTATATAT
1 GTATATATAT
*
1732904 ATATATA
1 GTATATA
1732911 CTAAAGGAAT
Statistics
Matches: 133, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
7 2 0.02
8 4 0.03
9 4 0.03
10 87 0.65
11 27 0.20
12 9 0.07
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.49
Consensus pattern (10 bp):
GTATATATAT
Found at i:1732772 original size:4 final size:4
Alignment explanation
Indices: 1732747--1732910 Score: 93
Period size: 4 Copynumber: 42.0 Consensus size: 4
1732737 AGGGCGTATG
* * * * * *
1732747 TATA TGTA TACA TATG TATA TATA TATA TATA TGTA TGTA TATA TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * *
1732795 TATA TATA TATG T-TA TATA TATG TATG T-TA TATG TATG T-TA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * * * *
1732840 GATG TATG T-TA TATG TATG TATA TGTA TGTA TATG TATA CATA TGTA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* *
1732887 TATA TATG TGTA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA
1732911 CTAAAGGAAT
Statistics
Matches: 122, Mismatches: 34, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
3 8 0.07
4 114 0.93
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.49
Consensus pattern (4 bp):
TATA
Found at i:1732792 original size:26 final size:26
Alignment explanation
Indices: 1732763--1732905 Score: 161
Period size: 26 Copynumber: 5.7 Consensus size: 26
1732753 TATACATATG
*
1732763 TATATATATATATATATGTATGTATA
1 TATATGTATATATATATGTATGTATA
1732789 TATATGTATATATATATG--T-TATA
1 TATATGTATATATATATGTATGTATA
*
1732812 TATATGTATGT-TATATGTATGTTATA
1 TATATGTATATATATATGTATG-TATA
* *
1732838 TAGATGTATGT-TATATGTATGTATA
1 TATATGTATATATATATGTATGTATA
* * **
1732863 TGTATGTATATGTATACATATGTATA
1 TATATGTATATATATATGTATGTATA
*
1732889 TATATGTGTATATATAT
1 TATATGTATATATATAT
1732906 ATATACTAAA
Statistics
Matches: 100, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
22 6 0.06
23 14 0.14
24 2 0.02
25 12 0.12
26 66 0.66
ACGTcount: A:0.36, C:0.01, G:0.13, T:0.50
Consensus pattern (26 bp):
TATATGTATATATATATGTATGTATA
Found at i:1732909 original size:26 final size:26
Alignment explanation
Indices: 1732747--1732909 Score: 159
Period size: 26 Copynumber: 6.2 Consensus size: 26
1732737 AGGGCGTATG
*
1732747 TATATGTATACATATGTATATATATATA
1 TATATGTATATATATG--TATATATATA
* * *
1732775 TATATGTATGTATATATATGTATATA
1 TATATGTATATATATGTATATATATA
*
1732801 TATATGTTATATATATGTATGT-TATA
1 TATATG-TATATATATGTATATATATA
* * *
1732827 TGTATGTTATATAGATGTATGT-TATA
1 TATATG-TATATATATGTATATATATA
* * *
1732853 TGTATGTATATGTATGTATATGTATA
1 TATATGTATATATATGTATATATATA
* *
1732879 CATATGTATATATATGTGTATATATA
1 TATATGTATATATATGTATATATATA
1732905 TATAT
1 TATAT
1732910 ACTAAAGGAA
Statistics
Matches: 116, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.10
26 78 0.67
27 13 0.11
28 13 0.11
ACGTcount: A:0.36, C:0.01, G:0.13, T:0.50
Consensus pattern (26 bp):
TATATGTATATATATGTATATATATA
Found at i:1736298 original size:2 final size:2
Alignment explanation
Indices: 1736291--1736324 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1736281 AAACCATAAG
1736291 AC AC AC AC AC AC AC A- AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1736325 TATATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1737483 original size:16 final size:16
Alignment explanation
Indices: 1737448--1737492 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
1737438 ATATCAAACT
* * *
1737448 AAAAAAATTTAAATTT
1 AAAATAATTTAAAATC
1737464 AAAATAATTTAAAATC
1 AAAATAATTTAAAATC
1737480 AAAATAATCTTAA
1 AAAATAAT-TTAA
1737493 TTCTTAACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATAATTTAAAATC
Found at i:1738478 original size:22 final size:20
Alignment explanation
Indices: 1738435--1738478 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
1738425 TTAATATTAC
*
1738435 ATATTTTTATATAATTATAT
1 ATATTTTTATATAATTAAAT
*
1738455 ATATTATTTATTTACATTAAAT
1 ATATT-TTTATATA-ATTAAAT
1738477 AT
1 AT
1738479 GATAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 7 0.35
22 8 0.40
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTTTTATATAATTAAAT
Found at i:1738586 original size:15 final size:15
Alignment explanation
Indices: 1738562--1738595 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1738552 TACTAACATG
1738562 TAATAAAAAATAGTA
1 TAATAAAAAATAGTA
* *
1738577 TAATATAAAATATTA
1 TAATAAAAAATAGTA
1738592 TAAT
1 TAAT
1738596 TATATAAATT
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:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
TAATAAAAAATAGTA
Found at i:1738606 original size:15 final size:16
Alignment explanation
Indices: 1738568--1738612 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
1738558 CATGTAATAA
*
1738568 AAAATAGTATAA-TAT
1 AAAATATTATAATTAT
1738583 AAAATATTATAATTAT
1 AAAATATTATAATTAT
*
1738599 ATAA-ATTAT-ATTAT
1 AAAATATTATAATTAT
1738613 TTAATTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 5 0.19
15 16 0.59
16 6 0.22
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
AAAATATTATAATTAT
Found at i:1740691 original size:20 final size:21
Alignment explanation
Indices: 1740653--1740691 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1740643 TGTTTTTCAA
* *
1740653 AGTTTTTATGTATATTTTCTT
1 AGTTTTTATGCATACTTTCTT
1740674 AGTTTTTATGCA-ACTTTC
1 AGTTTTTATGCATACTTTC
1740692 ATTATATGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.59
Consensus pattern (21 bp):
AGTTTTTATGCATACTTTCTT
Found at i:1741124 original size:58 final size:58
Alignment explanation
Indices: 1741059--1741203 Score: 182
Period size: 58 Copynumber: 2.5 Consensus size: 58
1741049 TATTTCAATT
* * *
1741059 ATTTTTATGCCATTTTTGTAATTTTTCATGACTTAGGAACTTTTATATTATTTAATGC
1 ATTTTTATGTCATTTTAGTAATTTTTCATGACTTAAGAACTTTTATATTATTTAATGC
* * * * * * *
1741117 ATTTTTATGTCATTTTAGTTATTGTTCATGGCTTAAGAATTTTTATGTTATTTTATGT
1 ATTTTTATGTCATTTTAGTAATTTTTCATGACTTAAGAACTTTTATATTATTTAATGC
* *
1741175 ATTTTTATGTCATTTTGGTCATTTTTCAT
1 ATTTTTATGTCATTTTAGTAATTTTTCAT
1741204 AATTTAAAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 74 1.00
ACGTcount: A:0.23, C:0.08, G:0.12, T:0.57
Consensus pattern (58 bp):
ATTTTTATGTCATTTTAGTAATTTTTCATGACTTAAGAACTTTTATATTATTTAATGC
Found at i:1741198 original size:20 final size:20
Alignment explanation
Indices: 1741117--1741200 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 20
1741107 TATTTAATGC
*
1741117 ATTTTTATGTCATTTTAGTT
1 ATTTTTATGTCATTTTAGGT
* * * *
1741137 ATTGTTCATGGC---TTAAGA
1 ATT-TTTATGTCATTTTAGGT
* *
1741155 ATTTTTATGTTATTTTATGT
1 ATTTTTATGTCATTTTAGGT
1741175 ATTTTTATGTCATTTT-GGT
1 ATTTTTATGTCATTTTAGGT
1741194 CATTTTT
1 -ATTTTT
1741201 CATAATTTAA
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
17 5 0.11
18 6 0.13
19 2 0.04
20 28 0.60
21 6 0.13
ACGTcount: A:0.20, C:0.06, G:0.13, T:0.61
Consensus pattern (20 bp):
ATTTTTATGTCATTTTAGGT
Found at i:1742401 original size:19 final size:20
Alignment explanation
Indices: 1742357--1742410 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1742347 CACAGGGTGA
* *
1742357 ATGTATCAATACATTCACTT
1 ATGTATCGATACATTCACTG
1742377 ATGTATCGATACATTCAC-G
1 ATGTATCGATACATTCACTG
1742396 ATGTATCGATACATT
1 ATGTATCGATACATT
1742411 TTGGTCTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTCACTG
Found at i:1743312 original size:20 final size:20
Alignment explanation
Indices: 1743268--1743325 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1743258 ATTTCAACGA
***
1743268 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATATTTT
*
1743288 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
1743308 TTTGTATCGATACA-ATTT
1 TTTGTATCGATACATATTT
1743326 AAGCTACTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (20 bp):
TTTGTATCGATACATATTTT
Found at i:1743382 original size:13 final size:13
Alignment explanation
Indices: 1743364--1743391 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1743354 ATTACTCAAA
1743364 TGTATCGATACAT
1 TGTATCGATACAT
1743377 TGTATCGATACAT
1 TGTATCGATACAT
1743390 TG
1 TG
1743392 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1743440 original size:52 final size:52
Alignment explanation
Indices: 1743398--1743521 Score: 203
Period size: 52 Copynumber: 2.4 Consensus size: 52
1743388 ATTGATCTTT
*
1743398 GTATTGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAAA
1 GTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAAA
* * *
1743450 GTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAAT
1 GTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAAA
*
1743502 GTATCGATACATGCAAGCAA
1 GTATCGATACATGCAGGCAA
1743522 CTTTTCATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (52 bp):
GTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAAA
Found at i:1749226 original size:19 final size:19
Alignment explanation
Indices: 1749179--1749264 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
1749169 ATTCAACAAT
*
1749179 TTGTATCGATACAAACAAGTAA
1 TTGTATCGATAC--ATAAGT-A
*
1749201 CTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
1749220 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
*
1749234 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTA
1749252 TTGTATCGATACA
1 TTGTATCGATACA
1749265 ATGTATCGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
19 24 0.44
20 5 0.09
22 11 0.20
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:1749239 original size:13 final size:13
Alignment explanation
Indices: 1749221--1749245 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1749211 ACATAAGTAT
1749221 TGTATCGATACAA
1 TGTATCGATACAA
1749234 TGTATCGATACA
1 TGTATCGATACA
1749246 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1749243 original size:32 final size:32
Alignment explanation
Indices: 1749202--1749272 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
1749192 AACAAGTAAC
1749202 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
1749234 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1749266 TGTATCG
1 TGTATCG
1749273 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1749335 original size:13 final size:13
Alignment explanation
Indices: 1749317--1749344 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1749307 ATTACTCAAA
1749317 TGTATCGATACAT
1 TGTATCGATACAT
1749330 TGTATCGATACAT
1 TGTATCGATACAT
1749343 TG
1 TG
1749345 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1757577 original size:29 final size:28
Alignment explanation
Indices: 1757414--1758332 Score: 975
Period size: 28 Copynumber: 32.5 Consensus size: 28
1757404 CACCAACTTA
* *
1757414 TGTGGGCTTTGAAAAGGGTTGCCACGAACT
1 TGTGGGCTTTG-AAA-GGATGCCACTAACT
** * *
1757444 TGTGGGCTTTGAAAATATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
*
1757472 TGTTGGCTTTTGAAAGG-TGCCACTAACT
1 TGTGGGC-TTTGAAAGGATGCCACTAACT
** * *
1757500 TGTTGGTTTTTGAAAGG-TGCCATTGACT
1 TG-TGGGCTTTGAAAGGATGCCACTAACT
*
1757528 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
1757556 TGTGGGCTTTTGAAAGGATGCCACTAACT
1 TGTGGGC-TTTGAAAGGATGCCACTAACT
1757585 TGTGGGCTTTTGAAAGGATGCCAC-AACT
1 TGTGGGC-TTTGAAAGGATGCCACTAACT
*
1757613 TGTGGGCTTTGAAATG-TGCCAC-AGACT
1 TGTGGGCTTTGAAAGGATGCCACTA-ACT
1757640 TGTGGGCTTTGAAAGG-TGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
*
1757667 TGTGGGCTTTGAAAGGATGCCACTAACC
1 TGTGGGCTTTGAAAGGATGCCACTAACT
* *
1757695 TGTTGGCCTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
* *
1757723 TGTGGGCTTTGAAAAGG-TACCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTAACT
*
1757751 TGTGGGCTTTTGAAAAGATGCCACTAACT
1 TGTGGGC-TTTGAAAGGATGCCACTAACT
* * *
1757780 TATGGGGTTTTGAAATGATGCCACTAACT
1 TGT-GGGCTTTGAAAGGATGCCACTAACT
*
1757809 TGTGGGCTTTGAAACGG-TGCCACTAGCT
1 TGTGGGCTTTGAAA-GGATGCCACTAACT
* *
1757837 TTTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
* *
1757865 TATGGGCTTTTGAAAAGATGCCACTAACT
1 TGTGGGC-TTTGAAAGGATGCCACTAACT
1757894 TGTGGGCTTTTGAAAGGATGCCACTAACT
1 TGTGGGC-TTTGAAAGGATGCCACTAACT
*
1757923 TGTGGGCTTTTGAAAGGGTGCCAC-AACT
1 TGTGGGC-TTTGAAAGGATGCCACTAACT
*
1757951 TGTGGGCTTTGAAATG-TGCCAC-AGACT
1 TGTGGGCTTTGAAAGGATGCCACTA-ACT
* *
1757978 TGTGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
* * * * *
1758006 TATGTGCTTTTGAAAGGATGCCGCTGAGT
1 TGTGGGC-TTTGAAAGGATGCCACTAACT
*
1758035 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
* *
1758063 TATGGGCTTTTGAAATGATGCCACTAACT
1 TGTGGGC-TTTGAAAGGATGCCACTAACT
* * * *
1758092 TGTAGCCTTTGAAAAGG-TACCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTAACT
**
1758120 TGTGAGTTTTTGAAAGGATGCCACTAACT
1 TGTG-GGCTTTGAAAGGATGCCACTAACT
* *
1758149 TATAGGGTTTTGAAAGGATGCCACTAACT
1 TGT-GGGCTTTGAAAGGATGCCACTAACT
* * *
1758178 TGTGGACTTTGAAAGGATGCTACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
* * * *
1758206 TGTGGGTTTTTTAAAAGATGTCACTAACT
1 TGTGGG-CTTTGAAAGGATGCCACTAACT
* *
1758235 TGTGGGCTTTGAAAAGG-TACCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTAACT
* * * **
1758263 TATGAGCTTTGAAAATG-TGCCACTGCCT
1 TGTGGGCTTTG-AAAGGATGCCACTAACT
*
1758291 TGTGGGTTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
1758319 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
1758333 AAGGGTCGTA
Statistics
Matches: 755, Mismatches: 108, Indels: 54
0.82 0.12 0.06
Matches are distributed among these distances:
26 14 0.02
27 95 0.13
28 346 0.46
29 285 0.38
30 15 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTAACT
Found at i:1757614 original size:57 final size:56
Alignment explanation
Indices: 1757414--1758332 Score: 975
Period size: 57 Copynumber: 16.2 Consensus size: 56
1757404 CACCAACTTA
* * ** * *
1757414 TGTGGGCTTTGAAAAGGGTTGCCACGAACTTGTGGGCTTTGAAAATATGCCATTGACT
1 TGTGGGCTTTG-AAA-GGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACT
* ** * *
1757472 TGTTGGCTTTTGAAAGG-TGCCACTAACTTGTTGGTTTTTGAAAGG-TGCCATTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTAACTTG-TGGGCTTTGAAAGGATGCCACTAACT
*
1757528 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGC-TTTGAAAGGATGCCACTAACT
*
1757585 TGTGGGCTTTTGAAAGGATGCCAC-AACTTGTGGGCTTTGAAATG-TGCCAC-AGACT
1 TGTGGGC-TTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTA-ACT
*
1757640 TGTGGGCTTTGAAAGG-TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACC
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACT
* * * *
1757695 TGTTGGCCTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGG-TACCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTG-AAAGGATGCCACTAACT
* * * *
1757751 TGTGGGCTTTTGAAAAGATGCCACTAACTTATGGGGTTTTGAAATGATGCCACTAACT
1 TGTGGGC-TTTGAAAGGATGCCACTAACTTGT-GGGCTTTGAAAGGATGCCACTAACT
* * *
1757809 TGTGGGCTTTGAAACGG-TGCCACTAGCTTTTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACT
* *
1757865 TATGGGCTTTTGAAAAGATGCCACTAACTTGTGGGCTTTTGAAAGGATGCCACTAACT
1 TGTGGGC-TTTGAAAGGATGCCACTAACTTGTGGGC-TTTGAAAGGATGCCACTAACT
* *
1757923 TGTGGGCTTTTGAAAGGGTGCCAC-AACTTGTGGGCTTTGAAATG-TGCCAC-AGACT
1 TGTGGGC-TTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTA-ACT
* * * * * * *
1757978 TGTGGGCTTTGAAAGGATGCCATTGACTTATGTGCTTTTGAAAGGATGCCGCTGAGT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGC-TTTGAAAGGATGCCACTAACT
* * *
1758035 TGTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGC-TTTGAAAGGATGCCACTAACT
* * * * **
1758092 TGTAGCCTTTGAAAAGG-TACCACTGACTTGTGAGTTTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTAACTTGTG-GGCTTTGAAAGGATGCCACTAACT
* * * * *
1758149 TATAGGGTTTTGAAAGGATGCCACTAACTTGTGGACTTTGAAAGGATGCTACTGACT
1 TGT-GGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACT
* * * * * *
1758206 TGTGGGTTTTTTAAAAGATGTCACTAACTTGTGGGCTTTGAAAAGG-TACCACTGACT
1 TGTGGG-CTTTGAAAGGATGCCACTAACTTGTGGGCTTTG-AAAGGATGCCACTAACT
* * * ** *
1758263 TATGAGCTTTGAAAATG-TGCCACTGCCTTGTGGGTTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACT
1758319 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
1758333 AAGGGTCGTA
Statistics
Matches: 733, Mismatches: 96, Indels: 67
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.01
54 44 0.06
55 82 0.11
56 182 0.25
57 296 0.40
58 119 0.16
59 4 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (56 bp):
TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACT
Found at i:1765694 original size:15 final size:15
Alignment explanation
Indices: 1765652--1765699 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
1765642 GCGGTGTATC
1765652 GATGATTTTGTGGTG
1 GATGATTTTGTGGTG
* * **
1765667 GGTAATTAGGTGGTG
1 GATGATTTTGTGGTG
1765682 GATGATTTTGTGGTG
1 GATGATTTTGTGGTG
1765697 GAT
1 GAT
1765700 TTGGCAGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (15 bp):
GATGATTTTGTGGTG
Found at i:1776658 original size:22 final size:22
Alignment explanation
Indices: 1776616--1776677 Score: 54
Period size: 24 Copynumber: 2.7 Consensus size: 22
1776606 TAGCATTACT
*
1776616 TTTTTTCTAC-CTATTTGTTTCTA
1 TTTTTTCT-CTCT-TTTCTTTCTA
*
1776639 TTTTTTCTCTCTTTTCTTTCTC
1 TTTTTTCTCTCTTTTCTTTCTA
*
1776661 TCATTTTTCTCTTTTTT
1 T--TTTTTCTCTCTTTT
1776678 TTTTAGTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 10 0.30
23 10 0.30
24 13 0.39
ACGTcount: A:0.06, C:0.21, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTTTCTCTCTTTTCTTTCTA
Found at i:1781159 original size:10 final size:10
Alignment explanation
Indices: 1781144--1781210 Score: 61
Period size: 10 Copynumber: 6.9 Consensus size: 10
1781134 TTTTTAAAAA
1781144 ATTTATTTAT
1 ATTTATTTAT
1781154 ATTTATAATTA-
1 ATTTAT--TTAT
* * *
1781165 AATAATTTAA
1 ATTTATTTAT
1781175 ATTTATTTAT
1 ATTTATTTAT
1781185 ATTTATTTAT
1 ATTTATTTAT
1781195 A-TT-TTTAT
1 ATTTATTTAT
1781203 ATTT-TTTA
1 ATTTATTTA
1781211 AAAATATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
8 6 0.12
9 11 0.23
10 24 0.50
11 4 0.08
12 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTTATTTAT
Found at i:1781263 original size:54 final size:54
Alignment explanation
Indices: 1781167--1781273 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
1781157 TATAATTAAA
* * * *
1781167 TAATTTAAATTTATTTATATTTATTTATATTTTTATATTTTTTAAAAATATTTT
1 TAATTTAAATTTATTAATAATTAATTATATTTTTATAATTTTTAAAAATATTTT
**
1781221 TAATTT-AATTT-TTAATAATTAATTATATTTTTATTAAATTTTTATTAATATTT
1 TAATTTAAATTTATTAATAATTAATTATATTTTTA-T-AATTTTTAAAAATATTT
1781274 ATTTAAAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
52 19 0.42
53 6 0.13
54 20 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (54 bp):
TAATTTAAATTTATTAATAATTAATTATATTTTTATAATTTTTAAAAATATTTT
Found at i:1781367 original size:18 final size:18
Alignment explanation
Indices: 1781337--1781394 Score: 75
Period size: 17 Copynumber: 3.2 Consensus size: 18
1781327 AATTAGTAAA
*
1781337 ATAAAATTATAAT-TATT
1 ATAAAAATATAATATATT
1781354 ATAAAACATATAATTATATT
1 ATAAAA-ATATAA-TATATT
1781374 ATAAAAATATAATATA-T
1 ATAAAAATATAATATATT
1781391 ATAA
1 ATAA
1781395 TAGAAAGACA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
17 11 0.30
18 9 0.24
19 7 0.19
20 10 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAAAATATAATATATT
Found at i:1781375 original size:20 final size:20
Alignment explanation
Indices: 1781350--1781392 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
1781340 AAATTATAAT
1781350 TATTATAAAACATATAAT-TA
1 TATTATAAAA-ATATAATATA
1781370 TATTATAAAAATATAATATA
1 TATTATAAAAATATAATATA
1781390 TAT
1 TAT
1781393 AATAGAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TATTATAAAAATATAATATA
Found at i:1781702 original size:24 final size:24
Alignment explanation
Indices: 1781670--1781729 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
1781660 AAAAAATCCT
* * * *
1781670 TAATAAGAATCCCTAATTTTATGC
1 TAATTAGAATCACTAATATGATGC
1781694 TAATTAGAATCACTAATATGATGC
1 TAATTAGAATCACTAATATGATGC
*
1781718 TAATTACAATCA
1 TAATTAGAATCA
1781730 AAGATATACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (24 bp):
TAATTAGAATCACTAATATGATGC
Found at i:1784434 original size:147 final size:147
Alignment explanation
Indices: 1784265--1784561 Score: 576
Period size: 147 Copynumber: 2.0 Consensus size: 147
1784255 AAACCACCTA
1784265 TAGTGTCATAAGGAGCAAGACCCTAAATATCTGAATAAATCATATCAAAAAATGCTAAAGAAATA
1 TAGTGTCATAAGGAGCAAGACCCTAAATATCTGAATAAATCATATCAAAAAATGCTAAAGAAATA
1784330 GAATAATTAAGAGAAAAGGTAAAGTATGATTCTTAGAAAGTTGACGAGGAACACAATCAAAATTT
66 GAATAATTAAGAGAAAAGGTAAAGTATGATTCTTAGAAAGTTGACGAGGAACACAATCAAAATTT
1784395 TCATACTTAACAGAACC
131 TCATACTTAACAGAACC
*
1784412 TAGTGTCATAAGGAGCAGGACCCTAAATATCTGAATAAATCATATCAAAAAATGCTAAAGAAATA
1 TAGTGTCATAAGGAGCAAGACCCTAAATATCTGAATAAATCATATCAAAAAATGCTAAAGAAATA
1784477 GAATAATTAAGAGAAAAGGTAAAGTATGATTCTTAGAAAGTTGACGAGGAACACAATCAAAATTT
66 GAATAATTAAGAGAAAAGGTAAAGTATGATTCTTAGAAAGTTGACGAGGAACACAATCAAAATTT
*
1784542 TCATACTTAATAGAACC
131 TCATACTTAACAGAACC
1784559 TAG
1 TAG
1784562 GGAACCATTA
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 148 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.24
Consensus pattern (147 bp):
TAGTGTCATAAGGAGCAAGACCCTAAATATCTGAATAAATCATATCAAAAAATGCTAAAGAAATA
GAATAATTAAGAGAAAAGGTAAAGTATGATTCTTAGAAAGTTGACGAGGAACACAATCAAAATTT
TCATACTTAACAGAACC
Found at i:1789393 original size:10 final size:10
Alignment explanation
Indices: 1789378--1789414 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
1789368 AATTTTTTAT
1789378 TTTTTATTAA
1 TTTTTATTAA
*
1789388 TTTTTATTTTA
1 TTTTTA-TTAA
1789399 TTTTTATTAA
1 TTTTTATTAA
1789409 TTTTTA
1 TTTTTA
1789415 AAAATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTATTAA
Found at i:1789404 original size:21 final size:22
Alignment explanation
Indices: 1789372--1789414 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
1789362 ATAAATAATT
1789372 TTTTATTTTTTATTAATTTTTA
1 TTTTATTTTTTATTAATTTTTA
1789394 TTTTA-TTTTTATTAATTTTTA
1 TTTTATTTTTTATTAATTTTTA
1789415 AAAATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTATTTTTTATTAATTTTTA
Found at i:1789413 original size:60 final size:60
Alignment explanation
Indices: 1789349--1789476 Score: 156
Period size: 60 Copynumber: 2.1 Consensus size: 60
1789339 GTAGATAGGT
*
1789349 TTTTTAAAAAT-AAA-TAAATAATT-TTTTATTTTTTATTAATTTTTATTTTAT-TTTTATTAA
1 TTTTTAAAAATAAAAGTAAATAATTATTTT-TATTTTA-T--TTTTTATTTTATATTTTATTAA
*
1789409 TTTTTAAAAATAAAATGTACATAATTATTTTTATTTTATTTTTTATTTTATAATTTTATTAA
1 TTTTTAAAAATAAAA-GTAAATAATTATTTTTATTTTATTTTTTATTTTAT-ATTTTATTAA
1789471 TTTTTA
1 TTTTTA
1789477 TTTTTTATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
60 23 0.38
61 3 0.05
62 16 0.27
63 14 0.23
64 4 0.07
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (60 bp):
TTTTTAAAAATAAAAGTAAATAATTATTTTTATTTTATTTTTTATTTTATATTTTATTAA
Found at i:1789454 original size:7 final size:7
Alignment explanation
Indices: 1789442--1789485 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
1789432 ATTATTTTTA
1789442 TTTTATT
1 TTTTATT
1789449 TTTTATT
1 TTTTATT
*
1789456 TTATAATT
1 TT-TTATT
*
1789464 TTATTAAT
1 TT-TTATT
1789472 TTTTATT
1 TTTTATT
1789479 TTTTATT
1 TTTTATT
1789486 AATTAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 20 0.62
8 12 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTATT
Found at i:1789473 original size:17 final size:17
Alignment explanation
Indices: 1789454--1789489 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1789444 TTATTTTTTA
1789454 TTTTATAATTTTATTAAT
1 TTTTAT-ATTTTATTAAT
*
1789472 TTTTATTTTTTATTAAT
1 TTTTATATTTTATTAAT
1789489 T
1 T
1789490 AAATTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTATATTTTATTAAT
Found at i:1789506 original size:15 final size:17
Alignment explanation
Indices: 1789482--1789519 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
1789472 TTTTATTTTT
1789482 TATTAATTAA-AT-TAA
1 TATTAATTAATATATAA
*
1789497 TATTATTTAATATATAA
1 TATTAATTAATATATAA
1789514 TATTAA
1 TATTAA
1789520 ACTTAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 9 0.47
16 2 0.11
17 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTAATTAATATATAA
Found at i:1792316 original size:20 final size:20
Alignment explanation
Indices: 1792288--1792325 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1792278 ATATTTATAT
*
1792288 ATTTCAATAAAAAAATTTAA
1 ATTTAAATAAAAAAATTTAA
*
1792308 ATTTAAATAAAAATATTT
1 ATTTAAATAAAAAAATTT
1792326 TTTATTGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTTAAATAAAAAAATTTAA
Found at i:1793898 original size:2 final size:2
Alignment explanation
Indices: 1793891--1793917 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1793881 TTATGAATGA
1793891 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
1793918 ATTTGATGAC
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:1802468 original size:15 final size:15
Alignment explanation
Indices: 1802450--1802499 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
1802440 CACTACTAAT
*
1802450 CCTGTCCATCCACCA
1 CCTGTGCATCCACCA
1802465 CCTGTGCATCCA-CA
1 CCTGTGCATCCACCA
*
1802479 ACTCGTGCATCCACCA
1 CCT-GTGCATCCACCA
1802495 CCTGT
1 CCTGT
1802500 TTACCCACCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 4 0.13
15 22 0.73
16 4 0.13
ACGTcount: A:0.20, C:0.46, G:0.12, T:0.22
Consensus pattern (15 bp):
CCTGTGCATCCACCA
Found at i:1803058 original size:75 final size:75
Alignment explanation
Indices: 1802954--1803229 Score: 480
Period size: 75 Copynumber: 3.7 Consensus size: 75
1802944 ATGTGAAATA
1802954 TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGATT
1 TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGATT
1803019 GTAGTTATTG
66 GTAGTTATTG
* *
1803029 TGCATATTATCTTGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGATT
1 TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGATT
* *
1803094 GCAGTTATCG
66 GTAGTTATTG
* * *
1803104 TGCAGATTAACTCGGATTAGTTGTTGATAGTAGTAATATGAAATATGTAGAAACATTTGTTGATT
1 TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGATT
1803169 GTAGTTATTG
66 GTAGTTATTG
*
1803179 TGCATATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGA
1 TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGA
1803230 TTACCTCGGA
Statistics
Matches: 186, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 186 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.39
Consensus pattern (75 bp):
TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGATT
GTAGTTATTG
Found at i:1803253 original size:45 final size:45
Alignment explanation
Indices: 1803179--1803274 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 45
1803169 GTAGTTATTG
* * *
1803179 TGCATATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATA
1 TGCAGATTACCTCGGATTAGTTGTTGATAGTAGTAATATGAAATA
*
1803224 TGCAGATTACCTCGGATTAGTTGTTGATAGTAGTATTATGAAATA
1 TGCAGATTACCTCGGATTAGTTGTTGATAGTAGTAATATGAAATA
1803269 TGCAGA
1 TGCAGA
1803275 AACATTTGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (45 bp):
TGCAGATTACCTCGGATTAGTTGTTGATAGTAGTAATATGAAATA
Found at i:1803258 original size:195 final size:189
Alignment explanation
Indices: 1803042--1803418 Score: 592
Period size: 195 Copynumber: 2.0 Consensus size: 189
1803032 ATATTATCTT
*
1803042 GGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGATTGCAGTTATCGTGC
1 GGATTAGTTGTTGATAGTAGTAATATGAAATATGCAGAAACATTTGTTGATTGCAGTTATCGTGC
* *
1803107 AGATTAACTCGGATTAGTTGTTGATAGTAGTAATATGAAATATGTAGAAACATTTGTTGATTGTA
66 AGATTAACTCGGATTAGTTGTTGATAGTAGTAATATGAAATATGCAGAAACATTTGTTCATTGTA
* * *
1803172 GTTATTGTGCATATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGATTACCTC
131 GTTA---T-C--ATTATCTCAGATTAGTTATTGATAGTAGTAATGTAAAATATGCAGATTACCTC
* * *
1803237 GGATTAGTTGTTGATAGTAGTATTATGAAATATGCAGAAACATTTGTTGATTGTAGTTATTGTGC
1 GGATTAGTTGTTGATAGTAGTAATATGAAATATGCAGAAACATTTGTTGATTGCAGTTATCGTGC
* *
1803302 AGATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAATATGCAGAAACGTTTGTTCATTGTA
66 AGATTAACTCGGATTAGTTGTTGATAGTAGTAATATGAAATATGCAGAAACATTTGTTCATTGTA
*
1803367 GTTATCGTTATCTCAGATTAGTTATTGATAGTAGTAATGTAAAATATGCAGA
131 GTTATCATTATCTCAGATTAGTTATTGATAGTAGTAATGTAAAATATGCAGA
1803419 AACATTTGTT
Statistics
Matches: 170, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
189 42 0.25
191 1 0.01
192 1 0.01
195 126 0.74
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.39
Consensus pattern (189 bp):
GGATTAGTTGTTGATAGTAGTAATATGAAATATGCAGAAACATTTGTTGATTGCAGTTATCGTGC
AGATTAACTCGGATTAGTTGTTGATAGTAGTAATATGAAATATGCAGAAACATTTGTTCATTGTA
GTTATCATTATCTCAGATTAGTTATTGATAGTAGTAATGTAAAATATGCAGATTACCTC
Found at i:1803314 original size:75 final size:75
Alignment explanation
Indices: 1803224--1803643 Score: 593
Period size: 75 Copynumber: 5.7 Consensus size: 75
1803214 ATGTGAAATA
* *
1803224 TGCAGATTACCTCGGATTAGTTGTTGATAGTAGTATTATGAAATATGCAGAAACATTTGTTGATT
1 TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAATATGCAGAAACATTTGTTGATT
*
1803289 GTAGTTATTG
66 GTAGTTATCG
* *
1803299 TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAATATGCAGAAACGTTTGTTCATT
1 TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAATATGCAGAAACATTTGTTGATT
1803364 GTAGTTA---
66 GTAGTTATCG
* * * *
1803371 T-C-G-TTATCTCAGATTAGTTATTGATAGTAGTAATGTAAAATATGCAGAAACATTTGTTGATT
1 TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAATATGCAGAAACATTTGTTGATT
1803433 GTAGTTATCG
66 GTAGTTATCG
* *
1803443 TACAGATTATCTCGGATTAGTTGTTGATAGTAGTATTGA-GAAATATGCAGAAACATTTGTTGAT
1 TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAAT-ATGAAATATGCAGAAACATTTGTTGAT
*
1803507 TGCAGTTATCG
65 TGTAGTTATCG
* * * * *
1803518 TGCAGATTAACTCGAAATAGTTGTTGATAGTAGTAATATGAAATGTGTAGAAACATTTGTTGATT
1 TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAATATGCAGAAACATTTGTTGATT
1803583 GTAGTTATCG
66 GTAGTTATCG
* * * *
1803593 TGCATATTATCTCAGATTAGTTGTTGATAGTAGTAATGTAAAATATGCAGA
1 TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAATATGCAGA
1803644 TTATCTCGGA
Statistics
Matches: 304, Mismatches: 33, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
69 60 0.20
70 1 0.00
71 1 0.00
72 2 0.01
73 1 0.00
74 2 0.01
75 237 0.78
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.39
Consensus pattern (75 bp):
TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAATATGCAGAAACATTTGTTGATT
GTAGTTATCG
Found at i:1803502 original size:144 final size:147
Alignment explanation
Indices: 1803224--1803643 Score: 582
Period size: 144 Copynumber: 2.9 Consensus size: 147
1803214 ATGTGAAATA
* *
1803224 TGCAGATTACCTCGGATTAGTTGTTGATAGTAGTATTATGAAATATGCAGAAACATTTGTTGATT
1 TGCAGATTAACTC-GATTAGTTGTTGATAGTAGTAATATGAAATATGCAGAAACATTTGTTGATT
*
1803289 GTAGTTATTGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAAT-ATGAAATATGCAGAAAC
65 GTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGA-GAAATATGCAGAAAC
* *
1803353 GTTTGTTCATTGTAGTTA-
129 ATTTGTTCATTGCAGTTAC
* * * *
1803371 T-C-G-TTATCTCAGATTAGTTATTGATAGTAGTAATGTAAAATATGCAGAAACATTTGTTGATT
1 TGCAGATTAACTC-GATTAGTTGTTGATAGTAGTAATATGAAATATGCAGAAACATTTGTTGATT
* *
1803433 GTAGTTATCGTACAGATTATCTCGGATTAGTTGTTGATAGTAGTATTGAGAAATATGCAGAAACA
65 GTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGAGAAATATGCAGAAACA
*
1803498 TTTGTTGATTGCAGTTATC
130 TTTGTTCATTGCAGTTA-C
* * *
1803517 GTGCAGATTAACTCGAAATAGTTGTTGATAGTAGTAATATGAAATGTGTAGAAACATTTGTTGAT
1 -TGCAGATTAACTCG-ATTAGTTGTTGATAGTAGTAATATGAAATATGCAGAAACATTTGTTGAT
* *
1803582 TGTAGTTATCGTGCATATTATCTCAGATTAGTTGTTGATAGTAGTAATGTA-AAATATGCAGA
64 TGTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATG-AGAAATATGCAGA
1803644 TTATCTCGGA
Statistics
Matches: 241, Mismatches: 23, Indels: 15
0.86 0.08 0.05
Matches are distributed among these distances:
144 127 0.53
145 2 0.01
146 1 0.00
147 2 0.01
148 1 0.00
149 2 0.01
150 105 0.44
151 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.39
Consensus pattern (147 bp):
TGCAGATTAACTCGATTAGTTGTTGATAGTAGTAATATGAAATATGCAGAAACATTTGTTGATTG
TAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGAGAAATATGCAGAAACAT
TTGTTCATTGCAGTTAC
Found at i:1803662 original size:45 final size:45
Alignment explanation
Indices: 1803593--1803684 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
1803583 GTAGTTATCG
*
1803593 TGCATATTATCTCAGATTAGTTGTTGATAGTAGTAATGTAAAATA
1 TGCAGATTATCTCAGATTAGTTGTTGATAGTAGTAATGTAAAATA
* *
1803638 TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATA
1 TGCAGATTATCTCAGATTAGTTGTTGATAGTAGTAATGTAAAATA
1803683 TG
1 TG
1803685 TAGAAACATT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.39
Consensus pattern (45 bp):
TGCAGATTATCTCAGATTAGTTGTTGATAGTAGTAATGTAAAATA
Found at i:1803704 original size:270 final size:271
Alignment explanation
Indices: 1803374--1803911 Score: 853
Period size: 270 Copynumber: 2.0 Consensus size: 271
1803364 GTAGTTATCG
1803374 TTATCTCAGATTAGTTATTGATAGTAGTAATGTAAAATATGCAGAAACATTTGTTGATTGTAGTT
1 TTATCTCAGATTAGTTATTGATAGTAGTAATGTAAAATATGCAGAAACATTTGTTGATTGTAGTT
* * * *
1803439 ATCGTACAGATTATCTCGGATTAGTTGTTGATAGTAGTATTGAGAAATATGCAGAAACATTTGTT
66 ATCATACAAATTATCTCGGATTAGTTATTGATAGTAGTAATGAGAAATATGCAGAAACATTTGTT
* * **
1803504 GATTGCAGTTATCGTGCAGATTAACTCGAAATAGTTGTTGATAGTAGTAATATGAAATGTGTAGA
131 CATTGCAGTTATCGTGCAGATTAACTCGAAATAGTTGTTGATAGTAGTAATATGAAATATACAGA
*
1803569 AACATTTGTTGATTGTAGTTATCGTGCATATTATCTCAGATTAGTTGTTGATAGTA-GTAATGTA
196 AACATTTGTTGATTGTAGTTATCGTGCAGATTATCTCAGATTAGTTGTTGATAGTAGGTAATGTA
1803633 AAATATGCAGA
261 AAATATGCAGA
* * * *
1803644 TTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGTAGAAACATTTGTTGATTGTAGTT
1 TTATCTCAGATTAGTTATTGATAGTAGTAATGTAAAATATGCAGAAACATTTGTTGATTGTAGTT
* * *
1803709 ATCATGCAAATTATTTCGGATTAGTTATTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTT
66 ATCATACAAATTATCTCGGATTAGTTATTGATAGTAGTAATGAGAAATATGCAGAAACATTTGTT
* * * * *
1803774 CATTGTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATACAGA
131 CATTGCAGTTATCGTGCAGATTAACTCGAAATAGTTGTTGATAGTAGTAATATGAAATATACAGA
* * *
1803839 AACATTTGTTGATTGTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGGTACTGTG
196 AACATTTGTTGATTGTAGTTATCGTGCAGATTATCTCAGATTAGTTGTTGATAGTAGGTAATGTA
1803904 AAATATGC
261 AAATATGC
1803912 TGAAACATTT
Statistics
Matches: 243, Mismatches: 24, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
270 229 0.94
271 14 0.06
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.39
Consensus pattern (271 bp):
TTATCTCAGATTAGTTATTGATAGTAGTAATGTAAAATATGCAGAAACATTTGTTGATTGTAGTT
ATCATACAAATTATCTCGGATTAGTTATTGATAGTAGTAATGAGAAATATGCAGAAACATTTGTT
CATTGCAGTTATCGTGCAGATTAACTCGAAATAGTTGTTGATAGTAGTAATATGAAATATACAGA
AACATTTGTTGATTGTAGTTATCGTGCAGATTATCTCAGATTAGTTGTTGATAGTAGGTAATGTA
AAATATGCAGA
Found at i:1803742 original size:75 final size:75
Alignment explanation
Indices: 1803637--1804064 Score: 685
Period size: 75 Copynumber: 5.7 Consensus size: 75
1803627 AATGTAAAAT
*
1803637 ATGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGTAGAAACATTTGTTGAT
1 ATGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGAT
1803702 TGTAGTTATC
66 TGTAGTTATC
* * * *
1803712 ATGCAAATTATTTCGGATTAGTTATTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTCAT
1 ATGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGAT
1803777 TGTAGTTATC
66 TGTAGTTATC
* *
1803787 GTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATACAGAAACATTTGTTGAT
1 ATGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGAT
1803852 TGTAGTTATC
66 TGTAGTTATC
* * *
1803862 GTGCAGATTATCTCGGATTAGTTGTTGATAGTAGGTACTGTGAAATATGCTGAAACATTTGTTGA
1 ATGCAGATTATCTCGGATTAGTTGTTGATAGTA-GTAATGTGAAATATGCAGAAACATTTGTTGA
*
1803927 TTGCAGTTATC
65 TTGTAGTTATC
* * *
1803938 ATGCAGATTAACTCGGATTAGTTGTTGATAATAGTAATGTGAAATATGCAGAAACATTTTTTGAT
1 ATGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGAT
1804003 TGTAGTTATC
66 TGTAGTTATC
* * * *
1804013 GTGCATATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAATATACAGA
1 ATGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGA
1804065 TTATCTCGAA
Statistics
Matches: 324, Mismatches: 28, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
75 256 0.79
76 68 0.21
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (75 bp):
ATGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGAT
TGTAGTTATC
Found at i:1803781 original size:195 final size:195
Alignment explanation
Indices: 1803443--1803838 Score: 621
Period size: 195 Copynumber: 2.0 Consensus size: 195
1803433 GTAGTTATCG
*
1803443 TACAGATTATCTCGGATTAGTTGTTGATAGTAGTATTGAGAAATATGCAGAAACATTTGTTGATT
1 TACAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGAGAAATATGCAGAAACATTTGTTGATT
* * * * *
1803508 GCAGTTATCGTGCAGATTAACTCGAAATAGTTGTTGATAGTAGTAATATGAAATGTGTAGAAACA
66 GCAGTTATCATGCAAATTAACTCGAAATAGTTATTGATAGTAGTAATATGAAATATGCAGAAACA
* *
1803573 TTTGTTGATTGTAGTTATCGTGCATATTATCTCAGATTAGTTGTTGATAGTAGTAATGTAAAATA
131 TTTGTTCATTGTAGTTATCGTGCAGATTATCTCAGATTAGTTGTTGATAGTAGTAATGTAAAATA
* * *
1803638 TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGTAGAAACATTTGTTGATT
1 TACAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGAGAAATATGCAGAAACATTTGTTGATT
* ** * * *
1803703 GTAGTTATCATGCAAATTATTTCGGATTAGTTATTGATAGTAGTAATGTGAAATATGCAGAAACA
66 GCAGTTATCATGCAAATTAACTCGAAATAGTTATTGATAGTAGTAATATGAAATATGCAGAAACA
* *
1803768 TTTGTTCATTGTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATA
131 TTTGTTCATTGTAGTTATCGTGCAGATTATCTCAGATTAGTTGTTGATAGTAGTAATGTAAAATA
1803833 TACAGA
1 TACAGA
1803839 AACATTTGTT
Statistics
Matches: 181, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
195 181 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (195 bp):
TACAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGAGAAATATGCAGAAACATTTGTTGATT
GCAGTTATCATGCAAATTAACTCGAAATAGTTATTGATAGTAGTAATATGAAATATGCAGAAACA
TTTGTTCATTGTAGTTATCGTGCAGATTATCTCAGATTAGTTGTTGATAGTAGTAATGTAAAATA
Found at i:1803983 original size:151 final size:150
Alignment explanation
Indices: 1803637--1804064 Score: 694
Period size: 151 Copynumber: 2.8 Consensus size: 150
1803627 AATGTAAAAT
*
1803637 ATGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGTAGAAACATTTGTTGAT
1 ATGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGAT
* * *
1803702 TGTAGTTATCATGCAAATTATTTCGGATTAGTTATTGATAGTAGTAATGTGAAATATGCAGAAAC
66 TGTAGTTATCGTGCAAATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAAC
*
1803767 ATTTGTTCATTGTAGTTATC
131 ATTTGTTCATTGCAGTTATC
* *
1803787 GTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATACAGAAACATTTGTTGAT
1 ATGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGAT
* * *
1803852 TGTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGGTACTGTGAAATATGCTGAAA
66 TGTAGTTATCGTGCAAATTATCTCGGATTAGTTGTTGATAGTA-GTAATGTGAAATATGCAGAAA
*
1803917 CATTTGTTGATTGCAGTTATC
130 CATTTGTTCATTGCAGTTATC
* * *
1803938 ATGCAGATTAACTCGGATTAGTTGTTGATAATAGTAATGTGAAATATGCAGAAACATTTTTTGAT
1 ATGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGAT
* * *
1804003 TGTAGTTATCGTGCATATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAATATACAGA
66 TGTAGTTATCGTGCAAATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGA
1804065 TTATCTCGAA
Statistics
Matches: 256, Mismatches: 21, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
150 116 0.45
151 140 0.55
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (150 bp):
ATGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGAT
TGTAGTTATCGTGCAAATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAAC
ATTTGTTCATTGCAGTTATC
Found at i:1804031 original size:226 final size:225
Alignment explanation
Indices: 1803638--1804064 Score: 730
Period size: 226 Copynumber: 1.9 Consensus size: 225
1803628 ATGTAAAATA
1803638 TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGTAGAAACATTTGTTGATT
1 TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGTAGAAACATTTGTTGATT
* ** *
1803703 GTAGTTATCATGCAAATTATTTCGGATTAGTTATTGATAGTAGTAATGTGAAATATGCAGAAACA
66 GCAGTTATCATGCAAATTAACTCGGATTAGTTATTGATAATAGTAATGTGAAATATGCAGAAACA
*
1803768 TTTGTTCATTGTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATA
131 TTTGTTCATTGTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAATA
1803833 TACAGAAACATTTGTTGATTGTAGTTATCG
196 TACAGAAACATTTGTTGATTGTAGTTATCG
*
1803863 TGCAGATTATCTCGGATTAGTTGTTGATAGTAGGTACTGTGAAATATGCT-GAAACATTTGTTGA
1 TGCAGATTATCTCGGATTAGTTGTTGATAGTA-GTAATGTGAAATATG-TAGAAACATTTGTTGA
* *
1803927 TTGCAGTTATCATGCAGATTAACTCGGATTAGTTGTTGATAATAGTAATGTGAAATATGCAGAAA
64 TTGCAGTTATCATGCAAATTAACTCGGATTAGTTATTGATAATAGTAATGTGAAATATGCAGAAA
* * *
1803992 CATTTTTTGATTGTAGTTATCGTGCATATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAA
129 CATTTGTTCATTGTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAA
1804057 TATACAGA
194 TATACAGA
1804065 TTATCTCGAA
Statistics
Matches: 189, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
225 32 0.17
226 156 0.83
227 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (225 bp):
TGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGTAGAAACATTTGTTGATT
GCAGTTATCATGCAAATTAACTCGGATTAGTTATTGATAATAGTAATGTGAAATATGCAGAAACA
TTTGTTCATTGTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAATA
TACAGAAACATTTGTTGATTGTAGTTATCG
Found at i:1804083 original size:45 final size:45
Alignment explanation
Indices: 1804019--1804109 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
1804009 TATCGTGCAT
*
1804019 ATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAATATACAG
1 ATTATCTCGAATTAGTTGTTGATAGTAGTAATATGAAATATACAG
* *
1804064 ATTATCTCGAATTAGTTGTTGATAGTAGTAATGTGAAATATGCAG
1 ATTATCTCGAATTAGTTGTTGATAGTAGTAATATGAAATATACAG
1804109 A
1 A
1804110 AACATTTGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (45 bp):
ATTATCTCGAATTAGTTGTTGATAGTAGTAATATGAAATATACAG
Found at i:1804154 original size:120 final size:120
Alignment explanation
Indices: 1803941--1804184 Score: 434
Period size: 120 Copynumber: 2.0 Consensus size: 120
1803931 AGTTATCATG
* *
1803941 CAGATTAACTCGGATTAGTTGTTGATAATAGTAATGTGAAATATGCAGAAACATTTTTTGATTGT
1 CAGATTAACTCGAATTAGTTGTTGATAATAGTAATGTGAAATATGCAGAAACATTTGTTGATTGT
*
1804006 AGTTATCGTGCATATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAATATA
66 AGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAATATA
* *
1804061 CAGATTATCTCGAATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGATTGT
1 CAGATTAACTCGAATTAGTTGTTGATAATAGTAATGTGAAATATGCAGAAACATTTGTTGATTGT
*
1804126 AGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATA
66 AGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAATATA
1804181 CAGA
1 CAGA
1804185 AATATTTGTT
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 118 1.00
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (120 bp):
CAGATTAACTCGAATTAGTTGTTGATAATAGTAATGTGAAATATGCAGAAACATTTGTTGATTGT
AGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAATATA
Found at i:1804163 original size:75 final size:75
Alignment explanation
Indices: 1804061--1804377 Score: 526
Period size: 75 Copynumber: 4.2 Consensus size: 75
1804051 ATGAAATATA
*
1804061 CAGATTATCTCGAATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGATTGT
1 CAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGATTGT
1804126 AGTTATCGTG
66 AGTTATCGTG
* *
1804136 CAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATACAGAAATATTTGTTGATTGT
1 CAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGATTGT
*
1804201 AGTTATTGTG
66 AGTTATCGTG
* * * *
1804211 TAGATTATCTAGGATTAGTTGTTGATAGTAGCAATGTGAAATATGCAGAAATATTTGTTGATTGT
1 CAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGATTGT
1804276 AGTTATCGTG
66 AGTTATCGTG
* * *
1804286 CAGATTATTTCGGATTAGTTGTTGATAGTAGTACTGTGAAATATGCTGAAACATTTGTTGATTGT
1 CAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGATTGT
*
1804351 AATTATCGTG
66 AGTTATCGTG
1804361 CAGATTATCTCGGATTA
1 CAGATTATCTCGGATTA
1804378 TCGTTTCATC
Statistics
Matches: 224, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 224 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (75 bp):
CAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGATTGT
AGTTATCGTG
Found at i:1804199 original size:195 final size:196
Alignment explanation
Indices: 1803865--1804259 Score: 630
Period size: 195 Copynumber: 2.0 Consensus size: 196
1803855 AGTTATCGTG
* * *
1803865 CAGATTATCTCGGATTAGTTGTTGATAGTAGGTACTGTGAAATATGCTGAAACATTTGTTGATTG
1 CAGATTATCTCGAATTAGTTGTTGATAGTAGGTAATGTGAAATATGCAGAAACATTTGTTGATTG
*
1803930 CAGTTATCATGCAGATTAACTCGGATTAGTTGTTGATAATAGTAATGTGAAATATGCAGAAACAT
66 CAGTTATCATGCAGATTAACTCGGATTAGTTGTTGATAATAGTAATGTGAAATATACAGAAACAT
* * * *
1803995 TTTTTGATTGTAGTTATCGTGCATATTATCTCGGATTAGTTGTTGATAGTAGTAATATGAAATAT
131 TTGTTGATTGTAGTTATCGTGCAGATTATCTAGGATTAGTTGTTGATAGTAGCAATATGAAATAT
1804060 A
196 A
1804061 CAGATTATCTCGAATTAGTTGTTGATAGTA-GTAATGTGAAATATGCAGAAACATTTGTTGATTG
1 CAGATTATCTCGAATTAGTTGTTGATAGTAGGTAATGTGAAATATGCAGAAACATTTGTTGATTG
* * * * *
1804125 TAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATACAGAAATAT
66 CAGTTATCATGCAGATTAACTCGGATTAGTTGTTGATAATAGTAATGTGAAATATACAGAAACAT
* * *
1804190 TTGTTGATTGTAGTTATTGTGTAGATTATCTAGGATTAGTTGTTGATAGTAGCAATGTGAAATAT
131 TTGTTGATTGTAGTTATCGTGCAGATTATCTAGGATTAGTTGTTGATAGTAGCAATATGAAATAT
*
1804255 G
196 A
1804256 CAGA
1 CAGA
1804260 AATATTTGTT
Statistics
Matches: 182, Mismatches: 17, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
195 153 0.84
196 29 0.16
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (196 bp):
CAGATTATCTCGAATTAGTTGTTGATAGTAGGTAATGTGAAATATGCAGAAACATTTGTTGATTG
CAGTTATCATGCAGATTAACTCGGATTAGTTGTTGATAATAGTAATGTGAAATATACAGAAACAT
TTGTTGATTGTAGTTATCGTGCAGATTATCTAGGATTAGTTGTTGATAGTAGCAATATGAAATAT
A
Found at i:1804328 original size:270 final size:271
Alignment explanation
Indices: 1803790--1804329 Score: 893
Period size: 270 Copynumber: 2.0 Consensus size: 271
1803780 AGTTATCGTG
*
1803790 CAGATTATCTCGGATTAGTTGTTGATAGTAGTAATGTGAAATATACAGAAACATTTGTTGATTGT
1 CAGATTATCTCGAATTAGTTGTTGATAGTAGTAATGTGAAATATACAGAAACATTTGTTGATTGT
* * *
1803855 AGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGGTACTGTGAAATATGCTGAAACAT
66 AGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGGTAATGTGAAATATACAGAAACAT
* *
1803920 TTGTTGATTGCAGTTATCATGCAGATTAACTCGGATTAGTTGTTGATAATAGTAATGTGAAATAT
131 TTGTTGATTGCAGTTATCATGCAGATTAACTAGGATTAGTTGTTGATAATAGCAATGTGAAATAT
* *
1803985 GCAGAAACATTTTTTGATTGTAGTTATCGTGCATATTATCTCGGATTAGTTGTTGATAGTAGTAA
196 GCAGAAACATTTGTTGATTGTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAA
1804050 TATGAAATATA
261 TATGAAATATA
*
1804061 CAGATTATCTCGAATTAGTTGTTGATAGTAGTAATGTGAAATATGCAGAAACATTTGTTGATTGT
1 CAGATTATCTCGAATTAGTTGTTGATAGTAGTAATGTGAAATATACAGAAACATTTGTTGATTGT
*
1804126 AGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTA-GTAATGTGAAATATACAGAAATAT
66 AGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGGTAATGTGAAATATACAGAAACAT
* ** * * *
1804190 TTGTTGATTGTAGTTATTGTGTAGATTATCTAGGATTAGTTGTTGATAGTAGCAATGTGAAATAT
131 TTGTTGATTGCAGTTATCATGCAGATTAACTAGGATTAGTTGTTGATAATAGCAATGTGAAATAT
* * *
1804255 GCAGAAATATTTGTTGATTGTAGTTATCGTGCAGATTATTTCGGATTAGTTGTTGATAGTAGTAC
196 GCAGAAACATTTGTTGATTGTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAA
*
1804320 TGTGAAATAT
261 TATGAAATAT
1804330 GCTGAAACAT
Statistics
Matches: 249, Mismatches: 20, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
270 146 0.59
271 103 0.41
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.39
Consensus pattern (271 bp):
CAGATTATCTCGAATTAGTTGTTGATAGTAGTAATGTGAAATATACAGAAACATTTGTTGATTGT
AGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGGTAATGTGAAATATACAGAAACAT
TTGTTGATTGCAGTTATCATGCAGATTAACTAGGATTAGTTGTTGATAATAGCAATGTGAAATAT
GCAGAAACATTTGTTGATTGTAGTTATCGTGCAGATTATCTCGGATTAGTTGTTGATAGTAGTAA
TATGAAATATA
Found at i:1807274 original size:25 final size:25
Alignment explanation
Indices: 1807246--1807320 Score: 114
Period size: 25 Copynumber: 3.0 Consensus size: 25
1807236 GAAGCACATG
*
1807246 AATTCGAGGATATTACCTCAATTTT
1 AATTCGGGGATATTACCTCAATTTT
* *
1807271 AATTCGGGGATGTTACCTCAATTTA
1 AATTCGGGGATATTACCTCAATTTT
*
1807296 AATTCGGGGATATTATCTCAATTTT
1 AATTCGGGGATATTACCTCAATTTT
1807321 TTTAAAAAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (25 bp):
AATTCGGGGATATTACCTCAATTTT
Found at i:1809275 original size:21 final size:21
Alignment explanation
Indices: 1809251--1809328 Score: 104
Period size: 21 Copynumber: 3.7 Consensus size: 21
1809241 AAATTTATCC
1809251 AAATGTATCGATACATTTGTA
1 AAATGTATCGATACATTTGTA
* *
1809272 AAATGTATCAATACATTTGTG
1 AAATGTATCGATACATTTGTA
* *
1809293 GAATGTATCGATACA-TTCTA
1 AAATGTATCGATACATTTGTA
1809313 CAAATGTATCGATACA
1 -AAATGTATCGATACA
1809329 GGGTCCCAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
20 3 0.06
21 46 0.94
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (21 bp):
AAATGTATCGATACATTTGTA
Found at i:1809457 original size:13 final size:13
Alignment explanation
Indices: 1809439--1809464 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1809429 CATTTTTTTG
1809439 TGTATCGATACAT
1 TGTATCGATACAT
1809452 TGTATCGATACAT
1 TGTATCGATACAT
1809465 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1811919 original size:51 final size:53
Alignment explanation
Indices: 1811858--1812221 Score: 204
Period size: 52 Copynumber: 7.0 Consensus size: 53
1811848 ATTCCATCTT
* * *
1811858 CGATTTTATTTTC-AAAACACTAATTTTCT-ATAATCGGGGATACTCCAACTC
1 CGATTTTATTTTCAAAAACACCAATTTTCTCACAATCGGGGATACTCCAACCC
* *
1811909 CGATTTTATTTCCAAAGAAACACCAATTTT-TCACAATCGGGGATACTCAAACCC
1 CGATTTTATTTTC-AA-AAACACCAATTTTCTCACAATCGGGGATACTCCAACCC
* ** ** * * * *
1811963 CG--TTAATCATCGGGGATACTCCAACCCCGTTT-TC-CGA--GGGGATACTCCAACCC
1 CGATTTTATTTTC--AAAAACACCAA----TTTTCTCACAATCGGGGATACTCCAACCC
* * *** *
1812016 CTG-CTTTATTCTT--AAAATATTGA-TTTCTCATAATCGGGGATACTCCAACCC
1 C-GATTTTATT-TTCAAAAACACCAATTTTCTCACAATCGGGGATACTCCAACCC
* * * * * * *
1812067 CGGTTTTA-TTGCTAAAACACTAATTTTTTCACAATTGGGGATACTCTAACCC
1 CGATTTTATTTTCAAAAACACCAATTTTCTCACAATCGGGGATACTCCAACCC
** * *
1812119 CGGCTTTATTTTC-AAAACACCAATTTTC-CTTCAATCGGGGATACTCCAACTC
1 CGATTTTATTTTCAAAAACACCAATTTTCTC-ACAATCGGGGATACTCCAACCC
* * *
1812171 CGATTTTATTTCCAAAAACACCAATTTT-TCACAATTGAGGATACTCCAACC
1 CGATTTTATTTTCAAAAACACCAATTTTCTCACAATCGGGGATACTCCAACC
1812222 TCGTTATTTC
Statistics
Matches: 236, Mismatches: 53, Indels: 47
0.70 0.16 0.14
Matches are distributed among these distances:
47 3 0.01
48 2 0.01
49 2 0.01
50 2 0.01
51 41 0.17
52 104 0.44
53 36 0.15
54 34 0.14
55 6 0.03
56 6 0.03
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (53 bp):
CGATTTTATTTTCAAAAACACCAATTTTCTCACAATCGGGGATACTCCAACCC
Found at i:1812010 original size:26 final size:27
Alignment explanation
Indices: 1811947--1812016 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
1811937 TTTCACAATC
* **
1811947 GGGGATACTCAAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
1811974 GGGGATACTCCAACCCCGTT-TTCCGA
1 GGGGATACTCCAACCCCGTTAATCAGA
1812000 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
1812017 TGCTTTATTC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
26 19 0.50
27 19 0.50
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.20
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:1813939 original size:21 final size:21
Alignment explanation
Indices: 1813900--1813941 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1813890 TTTAAAGCCT
* *
1813900 AACACCTTAATTTATTTACAC
1 AACACCATAATTTACTTACAC
*
1813921 AACACCATAATTTCCTTACAC
1 AACACCATAATTTACTTACAC
1813942 TCGGCCCATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.29, G:0.00, T:0.33
Consensus pattern (21 bp):
AACACCATAATTTACTTACAC
Found at i:1815705 original size:11 final size:11
Alignment explanation
Indices: 1815689--1815713 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1815679 AAAATAATAA
1815689 TATTTTATGGT
1 TATTTTATGGT
1815700 TATTTTATGGT
1 TATTTTATGGT
1815711 TAT
1 TAT
1815714 CAAAAAAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (11 bp):
TATTTTATGGT
Found at i:1815747 original size:13 final size:13
Alignment explanation
Indices: 1815729--1815759 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1815719 AAGTCAAGAA
*
1815729 AATATTTTAAAAT
1 AATATTTTAAAAG
1815742 AATATTTTAAAAG
1 AATATTTTAAAAG
1815755 AATAT
1 AATAT
1815760 CAAAAAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (13 bp):
AATATTTTAAAAG
Found at i:1817796 original size:2 final size:2
Alignment explanation
Indices: 1817789--1817854 Score: 68
Period size: 2 Copynumber: 34.0 Consensus size: 2
1817779 ATAGGCTAGA
* *
1817789 AT AT AT AT A- AT AT AC AT A- AT AT AT GAT -T AT CAA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT -AT AT AT AT AT
1817830 AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1817855 GCAATCATGA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
1 4 0.07
2 47 0.87
3 3 0.06
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:1820082 original size:2 final size:2
Alignment explanation
Indices: 1820075--1820130 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
1820065 ATGAGTGAAT
1820075 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1820117 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
1820131 AAGGTAGAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1823321 original size:153 final size:150
Alignment explanation
Indices: 1822995--1823492 Score: 510
Period size: 153 Copynumber: 3.2 Consensus size: 150
1822985 TCCTAAGACC
* ** * * *
1822995 TACCATCGACGTAAAAGTACTTGGTACCCCTAAAGGACTTAAAAAGGTTTGAGATGGGATGAACC
1 TACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGACTTAAAAA-GTTTAAAATGGGATGAACC
* * * *
1823060 TATCCTAACTGCCCACCTTTAGCATAAAAGCGAACCCGATGATAACCTAAGAGTTGGTTTTAAAA
65 TATCCTAACTACCCACCTTTAGCATAAAAGCGGA-CCGA-GACAACCTAGGAGTTGG-TTTAAAA
* *
1823125 AATTATGAAAATACCCCTAGGGGA
127 AATTATGAAAATGCCCCTAGAGGA
* * * * * *
1823149 TACCTTCAACATAAAAGTACCCGATGCCCTTAAAGGACTTAAAAAGTTTCAAATGGGATAAACCT
1 TACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGACTTAAAAAGTTTAAAATGGGATGAACCT
*
1823214 ATCCTAACTACCCACCTTTGGCATAAAAGCGGATCCGACGACAACCTAGGAGTTGGTTTAGAAAA
66 ATCCTAACTACCCACCTTTAGCATAAAAGCGGA-CCGA-GACAACCTAGGAGTTGGTTTA-AAAA
1823279 ATTATGAAAATGCCCCTAGAGGA
128 ATTATGAAAATGCCCCTAGAGGA
* * ** * ** *
1823302 TACCTTCGATGTAAGAGTACTTGATACCCCTAAAGAACTTAAAAAGGATAATAGATGAGATGAAC
1 TACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGACTTAAAAAGTTTAA-A-ATGGGATGAAC
* * * * * * * * ***
1823367 CTATCCTAAATATCTACCTTCAGCATAAAAACAGACCTGGAGACAACTTAGGACTCAATTTTAAA
64 CTATCCTAACTACCCACCTTTAGCATAAAAGCGGACC--GAGACAACCTAGGAGT-TGGTTTAAA
**
1823432 AAATTATGAAAATGCCCCTAGAATA
126 AAATTATGAAAATGCCCCTAGAGGA
* *
1823457 TACCTTTGACGTAAAAGTACCCGGTACCCCTAAAGG
1 TACCTTCGACGTAAAAGTACCCGATACCCCTAAAGG
1823493 GTTTGGGATA
Statistics
Matches: 283, Mismatches: 55, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
152 4 0.01
153 130 0.46
154 40 0.14
155 103 0.36
156 6 0.02
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (150 bp):
TACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGACTTAAAAAGTTTAAAATGGGATGAACCT
ATCCTAACTACCCACCTTTAGCATAAAAGCGGACCGAGACAACCTAGGAGTTGGTTTAAAAAATT
ATGAAAATGCCCCTAGAGGA
Found at i:1825567 original size:18 final size:19
Alignment explanation
Indices: 1825546--1825581 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1825536 AAAAATTTAA
1825546 AATTTATGAAAA-TGAATG
1 AATTTATGAAAACTGAATG
*
1825564 AATTTTTGAAAACTGAAT
1 AATTTATGAAAACTGAAT
1825582 TAATGTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.47, C:0.03, G:0.14, T:0.36
Consensus pattern (19 bp):
AATTTATGAAAACTGAATG
Found at i:1825784 original size:164 final size:163
Alignment explanation
Indices: 1825480--1825872 Score: 524
Period size: 164 Copynumber: 2.4 Consensus size: 163
1825470 AATCACCCCC
* * *
1825480 AAAAAATTTATGGAGA-AAAAAACTCCGT-TTCTCAGAAAAAAAGAGATTTTCAAGAAAAAAATT
1 AAAAAATTTACGGA-ATAGAAAACTCTGTATT-TCA-AAAAAAAGA-A-TTTCAAG-AAAAAATT
* * * * *
1825543 TAAAATTTATGAAAATGAATGAATTTTTGAAAACTGAATTAATGTGAAATAAATAATAATATTTT
60 CAAAAATTATGAAAATGAATGAATTTTTGAAAACTGAATAAATATGAAATAAATAATAATATTTG
1825608 ATAAATTTTAAAAATTAAAAACCAAGAAAAATTC-TCCAG
125 ATAAATTTTAAAAATTAAAAACCAAGAAAAATTCTTCC-G
* *
1825647 AAAAAATTTACGGAATAGAAAACTCTGTATTTCAAAAAAAGGCAAATTTCAAGGAAAAATTCAAA
1 AAAAAATTTACGGAATAGAAAACTCTGTATTTCAAAAAAAAG--AATTTCAAGAAAAAATTCAAA
* *
1825712 AATTATGGAAATGAATGAATTTTT-AAAACTGAATAAATATGAAATAAATAATAATATTTGATGA
64 AATTATGAAAATGAATGAATTTTTGAAAACTGAATAAATATGAAATAAATAATAATATTTGATAA
**
1825776 ATTTTAAAAATTAAAAATTAAGAAAAATTCTTCCG
129 ATTTTAAAAATTAAAAACCAAGAAAAATTCTTCCG
* * *
1825811 AAAAAATTTATGGAGTAGAAAACTCTGTATTTTAAAAAAAAGAATTTCAAGAAAAAATTCAA
1 AAAAAATTTACGGAATAGAAAACTCTGTATTTCAAAAAAAAGAATTTCAAGAAAAAATTCAA
1825873 GAAAAAATTC
Statistics
Matches: 202, Mismatches: 19, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
162 19 0.09
164 103 0.51
165 35 0.17
166 15 0.07
167 27 0.13
168 3 0.01
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.30
Consensus pattern (163 bp):
AAAAAATTTACGGAATAGAAAACTCTGTATTTCAAAAAAAAGAATTTCAAGAAAAAATTCAAAAA
TTATGAAAATGAATGAATTTTTGAAAACTGAATAAATATGAAATAAATAATAATATTTGATAAAT
TTTAAAAATTAAAAACCAAGAAAAATTCTTCCG
Found at i:1825890 original size:25 final size:24
Alignment explanation
Indices: 1825856--1825906 Score: 93
Period size: 25 Copynumber: 2.1 Consensus size: 24
1825846 AAAAAAGAAT
1825856 TTCAAGAAAAAATTCAAGAAAAAA
1 TTCAAGAAAAAATTCAAGAAAAAA
1825880 TTCAAGAAAAAATTTCAAGAAAAAA
1 TTCAAGAAAAAA-TTCAAGAAAAAA
1825905 TT
1 TT
1825907 TCAAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.63, C:0.08, G:0.08, T:0.22
Consensus pattern (24 bp):
TTCAAGAAAAAATTCAAGAAAAAA
Found at i:1825907 original size:13 final size:13
Alignment explanation
Indices: 1825848--1825910 Score: 103
Period size: 12 Copynumber: 4.9 Consensus size: 13
1825838 TATTTTAAAA
1825848 AAAAGAATTTCAAG
1 AAAA-AATTTCAAG
1825862 AAAAAA-TTCAAG
1 AAAAAATTTCAAG
1825874 AAAAAA-TTCAAG
1 AAAAAATTTCAAG
1825886 AAAAAATTTCAAG
1 AAAAAATTTCAAG
1825899 AAAAAATTTCAA
1 AAAAAATTTCAA
1825911 AATTTATGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
12 24 0.50
13 20 0.42
14 4 0.08
ACGTcount: A:0.63, C:0.08, G:0.08, T:0.21
Consensus pattern (13 bp):
AAAAAATTTCAAG
Found at i:1826052 original size:201 final size:199
Alignment explanation
Indices: 1825690--1826055 Score: 588
Period size: 201 Copynumber: 1.8 Consensus size: 199
1825680 AAAAAAAGGC
* *
1825690 AAATTTCAAGGAAAAATTCAAAAATTATGGAAATGAATGAATTTTTAAAACTGAATAAATATGAA
1 AAATTTCAAGAAAAAATTCAAAAATTATGAAAATGAATGAATTTTTAAAACTGAATAAATATGAA
** ** *
1825755 ATAAATAATAATATTTGATGAATTTTAAAAATTAAAAATTAAGAAAAATTCTTCCGAAAAAATTT
66 ATAAATAATAATATTCAATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTTCCGAAAAAATTT
* * *
1825820 ATGGAGTAGAAAACTCTGTATTTTAAAAAAAAGAATTTCAAGAAAAAATTCAAGAAAAAATTCAA
131 ACGGAGTAGAAAACTCTATATTTCAAAAAAAAGAATTTCAAGAAAAAATTCAAGAAAAAATTCAA
1825885 GAAA
196 GAAA
* *
1825889 AAATTTCAAGAAAAAATTTCAAAATTTATGAAAATGAATGAATTTTTTAAAACTGAATTAATATG
1 AAATTTCAAGAAAAAA-TTCAAAAATTATGAAAATGAATGAA-TTTTTAAAACTGAATAAATATG
1825954 AAATAAATAATAATATTCAATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTTCCGAAAAAAT
64 AAATAAATAATAATATTCAATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTTCCGAAAAAAT
* *
1826019 TTACGGAGTAGAAAACTTTATATTTCGAAAAAAAGAA
129 TTACGGAGTAGAAAACTCTATATTTCAAAAAAAAGAA
1826056 AACTTCAAGG
Statistics
Matches: 151, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
199 15 0.10
200 23 0.15
201 113 0.75
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.30
Consensus pattern (199 bp):
AAATTTCAAGAAAAAATTCAAAAATTATGAAAATGAATGAATTTTTAAAACTGAATAAATATGAA
ATAAATAATAATATTCAATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTTCCGAAAAAATTT
ACGGAGTAGAAAACTCTATATTTCAAAAAAAAGAATTTCAAGAAAAAATTCAAGAAAAAATTCAA
GAAA
Found at i:1826229 original size:157 final size:157
Alignment explanation
Indices: 1825915--1826200 Score: 466
Period size: 157 Copynumber: 1.8 Consensus size: 157
1825905 TTTCAAAATT
* * *
1825915 TATGAAAATGAATGAATTTTTTAAAACTGAATTAATATGAAATAAATAATAATATTCAATGAATT
1 TATGAAAATGAATGAATTTTTAAAAAATGAATTAATATGAAATAAATAATAACATTCAATGAATT
* *
1825980 TTAAAAATTAAAAACCAAGAAAAATCCTTCCGAAAAAATTTACGGAGTAGAAAACTTTATATTTC
66 TTAAAAATTAAAAACCAAGAAAAATCCTCCCGAAAAAATTTACGGAGTAGAAAACTTCATATTTC
*
1826045 GAAAAAAAGAAAACTTCAAGGAAAAAA
131 GAAAAAAAGAAAACTTCAAGAAAAAAA
*
1826072 TATGGAAATGAATGAATTTTTAAAAAATGAATTAATATGAAATAAATAATAACATT-AGATGAAT
1 TATGAAAATGAATGAATTTTTAAAAAATGAATTAATATGAAATAAATAATAACATTCA-ATGAAT
* * *
1826136 TTTAAAAATTAAAAACTAAGAAAAATCCTCCCGAAAAAATTTATGGAGTAGAAAACTTCGTATTT
65 TTTAAAAATTAAAAACCAAGAAAAATCCTCCCGAAAAAATTTACGGAGTAGAAAACTTCATATTT
1826201 TGGAAACAGG
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
156 1 0.01
157 118 0.99
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (157 bp):
TATGAAAATGAATGAATTTTTAAAAAATGAATTAATATGAAATAAATAATAACATTCAATGAATT
TTAAAAATTAAAAACCAAGAAAAATCCTCCCGAAAAAATTTACGGAGTAGAAAACTTCATATTTC
GAAAAAAAGAAAACTTCAAGAAAAAAA
Found at i:1830870 original size:105 final size:105
Alignment explanation
Indices: 1830694--1830889 Score: 245
Period size: 105 Copynumber: 1.9 Consensus size: 105
1830684 ATATCTTTTA
* * * * * *
1830694 AACAAATAAGGAAGATAAAATTTTATTTTCTTAAATTTTATAACTAAATCATATCCAAGTAACGT
1 AACAAATAACGAAGATAAAATTTAATTTTATAAAATTTCATAACTAAATCATATCCAAGTAACAT
* *
1830759 GAAAATTTTATAATGTATTTTAATTTAAATAAATCTTATG
66 GAAAATTTTATAATGAATTTCAATTTAAATAAATCTTATG
* *
1830799 AACAAATAACGAAGATAAACA-TTAATTTTATAAAATTTCATAACTAAATCCTAT-TAAGGTAAC
1 AACAAATAACGAAGATAAA-ATTTAATTTTATAAAATTTCATAACTAAATCATATCCAA-GTAAC
*
1830862 AT-AGAAATTTTGTAATGAATTTCAATTT
64 ATGA-AAATTTTATAATGAATTTCAATTT
1830890 TTTTCAATTT
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
104 3 0.04
105 73 0.95
106 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.38
Consensus pattern (105 bp):
AACAAATAACGAAGATAAAATTTAATTTTATAAAATTTCATAACTAAATCATATCCAAGTAACAT
GAAAATTTTATAATGAATTTCAATTTAAATAAATCTTATG
Done.