Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5289199
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 23
Found at i:4659 original size:85 final size:85
Alignment explanation
Indices: 4516--4693 Score: 266
Period size: 85 Copynumber: 2.1 Consensus size: 85
4506 ATACAATCAC
* * * *
4516 GACACACGAATGTGTGTCATTTTCATTTATGACAGGGGCTTCAATGACACGTAATGTAAGTCATA
1 GACACACAAATGTGTGACATCTTCATTTATGACAGGGGCTTCAATGACACGCAATGTAAGTCATA
* *
4581 AATGCGTGCCATAAATTTAT
66 AATACGCGCCATAAATTTAT
* *
4601 GACACACAAATGTGTGACATCTTCATTTATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATA
1 GACACACAAATGTGTGACATCTTCATTTATGACAGGGGCTTCAATGACACGCAATGTAAGTCATA
*
4666 AATACGCGTCATAAATTTAT
66 AATACGCGCCATAAATTTAT
*
4686 GACGCACA
1 GACACACA
4694 GTTGCGCGTC
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (85 bp):
GACACACAAATGTGTGACATCTTCATTTATGACAGGGGCTTCAATGACACGCAATGTAAGTCATA
AATACGCGCCATAAATTTAT
Found at i:7420 original size:22 final size:22
Alignment explanation
Indices: 7354--7430 Score: 67
Period size: 20 Copynumber: 3.8 Consensus size: 22
7344 ACTGAATATT
*
7354 TGTCCCGATGGACCACTG-AT-
1 TGTCCCGAAGGACCACTGTATA
* * *
7374 TGTTCCAAAGAACCAC--TATA
1 TGTCCCGAAGGACCACTGTATA
7394 --TCCCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCACTGTATA
*
7414 TGTCCCGAAGGATCACT
1 TGTCCCGAAGGACCACT
7431 CCTTAAGAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
18 11 0.26
19 2 0.05
20 16 0.37
22 14 0.33
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (22 bp):
TGTCCCGAAGGACCACTGTATA
Found at i:14366 original size:18 final size:18
Alignment explanation
Indices: 14345--14432 Score: 86
Period size: 18 Copynumber: 4.6 Consensus size: 18
14335 ATTTGTCCTG
14345 AAGGACCACTATGTCCCA
1 AAGGACCACTATGTCCCA
* *
14363 AAGGACCACTGATTGTTCCG
1 AAGGACCACT-A-TGTCCCA
* *
14383 AAGAACCACTATGTCCCG
1 AAGGACCACTATGTCCCA
14401 AAGGACCACTGTATATGTCCCA
1 AAGGACCAC----TATGTCCCA
14423 AAGGACCACT
1 AAGGACCACT
14433 CTTTAAGAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
18 25 0.43
19 2 0.03
20 14 0.24
22 17 0.29
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (18 bp):
AAGGACCACTATGTCCCA
Found at i:14420 original size:22 final size:21
Alignment explanation
Indices: 14354--14432 Score: 85
Period size: 22 Copynumber: 3.9 Consensus size: 21
14344 GAAGGACCAC
14354 TATGTCCCAAAGGACCACTGA
1 TATGTCCCAAAGGACCACTGA
* * *
14375 T-TGTTCCGAAGAACCAC---
1 TATGTCCCAAAGGACCACTGA
*
14392 TATGTCCCGAAGGACCACTGTA
1 TATGTCCCAAAGGACCACTG-A
14414 TATGTCCCAAAGGACCACT
1 TATGTCCCAAAGGACCACT
14433 CTTTAAGAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
17 1 0.02
18 14 0.30
20 13 0.28
21 1 0.02
22 18 0.38
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (21 bp):
TATGTCCCAAAGGACCACTGA
Found at i:15093 original size:20 final size:20
Alignment explanation
Indices: 15068--15116 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
15058 GAAAGTATGC
15068 ATCGATGCACTACACCATGT
1 ATCGATGCACTACACCATGT
15088 ATCGATGCACTACACCATGT
1 ATCGATGCACTACACCATGT
15108 ATCGATGCA
1 ATCGATGCA
15117 TCCCTTGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (20 bp):
ATCGATGCACTACACCATGT
Found at i:20610 original size:20 final size:19
Alignment explanation
Indices: 20566--20611 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
20556 AATGGTCAAT
*
20566 GGGTCAAAGTCAATGGGTT
1 GGGTCAAAGTCAATGGGTC
* *
20585 GAGTCAAAGTTCAATGTGTC
1 GGGTCAAAG-TCAATGGGTC
20605 GGGTCAA
1 GGGTCAA
20612 TGATTAACGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (19 bp):
GGGTCAAAGTCAATGGGTC
Found at i:20723 original size:20 final size:20
Alignment explanation
Indices: 20667--20731 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
20657 TCTATTCAAA
* * *
20667 GTTAAGGGGTCAGGTCAAAG
1 GTTAATGGGTTAGGTCAATG
*
20687 GTCAATGGGTTAGGTCAATG
1 GTTAATGGGTTAGGTCAATG
20707 GTTAATGGGTT-GAGTCAATG
1 GTTAATGGGTTAG-GTCAATG
20727 GTTAA
1 GTTAA
20732 CAGGTAAGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 1 0.03
20 38 0.97
ACGTcount: A:0.28, C:0.08, G:0.35, T:0.29
Consensus pattern (20 bp):
GTTAATGGGTTAGGTCAATG
Found at i:27387 original size:30 final size:30
Alignment explanation
Indices: 27353--27412 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
27343 ATAAATCTTT
27353 TAATAGTTTAGAATACATGATAATATTATA
1 TAATAGTTTAGAATACATGATAATATTATA
*
27383 TAATAGTTTATAATACATGATAATATTATA
1 TAATAGTTTAGAATACATGATAATATTATA
27413 AAAGTAGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (30 bp):
TAATAGTTTAGAATACATGATAATATTATA
Found at i:27656 original size:3 final size:3
Alignment explanation
Indices: 27648--27700 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
27638 TATCCCATCA
27648 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27696 AAT AA
1 AAT AA
27701 ATTTTTAGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:31722 original size:81 final size:81
Alignment explanation
Indices: 31614--32167 Score: 673
Period size: 81 Copynumber: 6.9 Consensus size: 81
31604 CTTTTCTATC
* * * * ** * *
31614 AATGCAGAGTGAGTCCATTATTATTTTACTCAACAATGTTTAACCGTTAATCTAACTGGCATAAT
1 AATGCACAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAAT
31679 TGACACATTTCTGCCA
66 TGACACATTTCTGCCA
* * * *
31695 AATGTAGAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAATCGTTCATCTTACTGGCATAAT
1 AATGCACAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAAT
*
31760 TGACAC-CTTCTGCCA
66 TGACACATTTCTGCCA
* * * *
31775 AATGCACAGATAGGCCATTATTCTTTTACCCAACGATATTTAACTGTTCATCTAACTGGCATAAT
1 AATGCACAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAAT
* *
31840 TGACACCTTGCTGCCA
66 TGACACATTTCTGCCA
* * * *
31856 AATGCACAGTTAGACCATTTTTCTTTTAGTCAACGGTATTTAACCGTTCATCTAACTTGCATAAT
1 AATGCACAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAAT
* *
31921 TAACACATTTATGCCA
66 TGACACATTTCTGCCA
** * * * * *
31937 AATGCACAGTTATACAATTATTTTTTTACTCAACGATATTTAACCGTTCATCTATCTGGTATAAT
1 AATGCACAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAAT
** *
32002 TGACATTTTTTTGCCA
66 TGACACATTTCTGCCA
* *
32018 AATGCACAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTAGCATAAT
1 AATGCACAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAAT
* *
32083 TGACACCTTGT-TGTCA
66 TGACACATT-TCTGCCA
* ** ** *
32099 AATGAACAGTTAGGTTATTATTCTTTT-CTCAATAGTATTTAACTGTTCATCTAACTGGCATAAT
1 AATGCACAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAAT
32163 TGACA
66 TGACA
32168 TTAGTGCAAC
Statistics
Matches: 405, Mismatches: 66, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
80 108 0.27
81 296 0.73
82 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (81 bp):
AATGCACAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAAT
TGACACATTTCTGCCA
Found at i:38172 original size:22 final size:22
Alignment explanation
Indices: 38140--38185 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
38130 CCGAAATAAC
38140 ATTCATAATAAACATCATATAT
1 ATTCATAATAAACATCATATAT
*
38162 ATTCATGATAAACATCATATAT
1 ATTCATAATAAACATCATATAT
38184 AT
1 AT
38186 AATAACCAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (22 bp):
ATTCATAATAAACATCATATAT
Found at i:39443 original size:19 final size:20
Alignment explanation
Indices: 39419--39465 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
39409 CCGAAATGAC
39419 TCAATTTC-ACA-TCCTAACA
1 TCAATTTCAACACT-CTAACA
39438 TCAATTTCAACACTCTAACA
1 TCAATTTCAACACTCTAACA
*
39458 TTAATTTC
1 TCAATTTC
39466 TAGCATAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 8 0.32
20 16 0.64
21 1 0.04
ACGTcount: A:0.36, C:0.28, G:0.00, T:0.36
Consensus pattern (20 bp):
TCAATTTCAACACTCTAACA
Found at i:40674 original size:30 final size:30
Alignment explanation
Indices: 40640--40697 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
40630 CTAACTTTTG
*
40640 AAAATTGCACTTTTTGGTCC-TGAACTTTCA
1 AAAATTACA-TTTTTGGTCCATGAACTTTCA
* *
40670 AAAATTATATTTTTTGTCCATGAACTTT
1 AAAATTACATTTTTGGTCCATGAACTTT
40698 TCCAAACTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (30 bp):
AAAATTACATTTTTGGTCCATGAACTTTCA
Found at i:58205 original size:23 final size:23
Alignment explanation
Indices: 58175--58230 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
58165 TAAGCAATAT
58175 GAGAGAATTTGAAACGGAAATGA
1 GAGAGAATTTGAAACGGAAATGA
58198 GAGAGAATTTGAAACGGAAATGA
1 GAGAGAATTTGAAACGGAAATGA
58221 GAGAGAATTT
1 GAGAGAATTT
58231 TGAGTAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.46, C:0.04, G:0.30, T:0.20
Consensus pattern (23 bp):
GAGAGAATTTGAAACGGAAATGA
Found at i:62622 original size:26 final size:26
Alignment explanation
Indices: 62586--62635 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
62576 TTTACCTACC
62586 GACCTTCCTTGGTGTCCACCATAAAT
1 GACCTTCCTTGGTGTCCACCATAAAT
*
62612 GACCTTCCTTGGTGTCCTCCATAA
1 GACCTTCCTTGGTGTCCACCATAA
62636 GAAGAGATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (26 bp):
GACCTTCCTTGGTGTCCACCATAAAT
Found at i:63788 original size:30 final size:30
Alignment explanation
Indices: 63754--63811 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
63744 TCTTGTATGA
63754 TTCTATTTATT-TCAATTTAGTCCTTTAAAT
1 TTCTATTT-TTGTCAATTTAGTCCTTTAAAT
* *
63784 TTCTATTTTTGTCATTTTAGTTCTTTAA
1 TTCTATTTTTGTCAATTTAGTCCTTTAA
63812 CCTTTTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.22, C:0.12, G:0.05, T:0.60
Consensus pattern (30 bp):
TTCTATTTTTGTCAATTTAGTCCTTTAAAT
Found at i:66756 original size:84 final size:84
Alignment explanation
Indices: 66553--66803 Score: 255
Period size: 84 Copynumber: 3.0 Consensus size: 84
66543 ATCTACAAAC
* * * * * * *
66553 AAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAACTTTACAGCCTAGCTCAAG-GCA
1 AAACCTTTGAGTTCGATTACATTAAACTCAAAGGCATATCAAATTTACAGCATAGATCAAGAGGA
*
66617 AGAA-GGC-A--TATCACCA
66 A-AAGGGCTATCTGTCACCA
* * * *
66633 AAGACCTTTGAGTTCGATAATAATAAACTCAAAGGCATATCAAATTTACCGCATAGATCAAGAGG
1 AA-ACCTTTGAGTTCGATTACATTAAACTCAAAGGCATATCAAATTTACAGCATAGATCAAGAGG
66698 AAAAGGGCTATCTGTCACCA
65 AAAAGGGCTATCTGTCACCA
* * * *
66718 AAACCTTTGAGTTCGATTACATTTATCTC-AAGGACATATCAAATTTACATCGTAGATCAATGA-
1 AAACCTTTGAGTTCGATTACATTAAACTCAAAGG-CATATCAAATTTACAGCATAGATCAA-GAG
*
66781 GAGAAGGGCTATCTGTCAACCA
64 GAAAAGGGCTATCTGTC-ACCA
66803 A
1 A
66804 CACAAGGACA
Statistics
Matches: 141, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
80 2 0.01
81 51 0.36
82 6 0.04
83 5 0.04
84 61 0.43
85 16 0.11
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (84 bp):
AAACCTTTGAGTTCGATTACATTAAACTCAAAGGCATATCAAATTTACAGCATAGATCAAGAGGA
AAAGGGCTATCTGTCACCA
Found at i:66845 original size:60 final size:60
Alignment explanation
Indices: 66746--66858 Score: 163
Period size: 60 Copynumber: 1.9 Consensus size: 60
66736 ACATTTATCT
* * *
66746 CAAGGACATATCAAATTTACATCGTAGATCAATGAGAGAAGGGCTATCTGTCAACCAACA
1 CAAGGACATATCAAATTTACAGCATAGATCAAGGAGAGAAGGGCTATCTGTCAACCAACA
* * * *
66806 CAAGGACATATCAAATTTATAGCATAGCTCAAGGCGAGAAGGGCTATTTGTCA
1 CAAGGACATATCAAATTTACAGCATAGATCAAGGAGAGAAGGGCTATCTGTCA
66859 GTAAAAAACC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (60 bp):
CAAGGACATATCAAATTTACAGCATAGATCAAGGAGAGAAGGGCTATCTGTCAACCAACA
Found at i:67664 original size:37 final size:36
Alignment explanation
Indices: 67605--67845 Score: 266
Period size: 34 Copynumber: 6.8 Consensus size: 36
67595 AAAAAATCGG
* * *
67605 TTTTTG-AAA-ATATACTATATAGTTTTTTAGAACAA
1 TTTTTGAAAATATATATTATATAG-TTTTGAAAACAA
*
67640 TTTTTGAAAATATATATTATATAGTTTTTGAAAA-TA
1 TTTTTGAAAATATATATTATATAG-TTTTGAAAACAA
* *
67676 TTTTTTAAACATATATAATATATAGTTTTGAAAAC-A
1 TTTTTGAAA-ATATATATTATATAGTTTTGAAAACAA
*
67712 TTTTTGAAAATATATATTATATAGTTTTAAAAAC-A
1 TTTTTGAAAATATATATTATATAGTTTTGAAAACAA
* *
67747 TTTTTG-AAATACATATTATATAGTTTTGAAAACCA
1 TTTTTGAAAATATATATTATATAGTTTTGAAAACAA
*
67782 -TTTTGAAAATATATATATATTATATAGTTTTGAAAATAA
1 TTTTTG--AA-A-ATATATATTATATAGTTTTGAAAACAA
67821 TTTTTGAAAATA-A-ATTATATAGTTT
1 TTTTTGAAAATATATATTATATAGTTT
67846 CATAAAAACT
Statistics
Matches: 181, Mismatches: 14, Indels: 23
0.83 0.06 0.11
Matches are distributed among these distances:
34 42 0.23
35 38 0.21
36 33 0.18
37 36 0.20
38 3 0.02
39 24 0.13
40 5 0.03
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
TTTTTGAAAATATATATTATATAGTTTTGAAAACAA
Found at i:67763 original size:34 final size:35
Alignment explanation
Indices: 67605--67866 Score: 259
Period size: 35 Copynumber: 7.3 Consensus size: 35
67595 AAAAAATCGG
* * *
67605 TTTTTG-AAA-ATATACTATATAGTTTTTTAGAACAA
1 TTTTTGAAAATATATATTATATAG-TTTTAAAAAC-A
* *
67640 TTTTTGAAAATATATATTATATAGTTTTTGAAAATA
1 TTTTTGAAAATATATATTATATAG-TTTTAAAAACA
* * *
67676 TTTTTTAAACATATATAATATATAGTTTTGAAAACA
1 TTTTTGAAA-ATATATATTATATAGTTTTAAAAACA
67712 TTTTTGAAAATATATATTATATAGTTTTAAAAACA
1 TTTTTGAAAATATATATTATATAGTTTTAAAAACA
* *
67747 TTTTTG-AAATACATATTATATAGTTTTGAAAACCA
1 TTTTTGAAAATATATATTATATAGTTTT-AAAAACA
67782 -TTTTGAAAATATATATATATTATATAGTTTTGAAAATA-A
1 TTTTTG--AA-A-ATATATATTATATAGTTTT-AAAA-ACA
*
67821 TTTTTGAAAATA-A-ATTATATAGTTTCATAAAAACT
1 TTTTTGAAAATATATATTATATAGTTT--TAAAAACA
67856 TTTTTGAAAAT
1 TTTTTGAAAAT
67867 GTTTTGGAAA
Statistics
Matches: 198, Mismatches: 15, Indels: 28
0.82 0.06 0.12
Matches are distributed among these distances:
34 38 0.19
35 58 0.29
36 34 0.17
37 36 0.18
38 3 0.02
39 24 0.12
40 5 0.03
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (35 bp):
TTTTTGAAAATATATATTATATAGTTTTAAAAACA
Found at i:67825 original size:13 final size:13
Alignment explanation
Indices: 67809--67833 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67799 TATTATATAG
67809 TTTTGAAAATAAT
1 TTTTGAAAATAAT
67822 TTTTGAAAATAA
1 TTTTGAAAATAA
67834 ATTATATAGT
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
TTTTGAAAATAAT
Found at i:67916 original size:2 final size:2
Alignment explanation
Indices: 67909--67937 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
67899 AATATTTTCA
67909 AT AT 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 AT AT
67938 GATTTTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:67978 original size:6 final size:6
Alignment explanation
Indices: 67967--67998 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
67957 AATATATGTA
67967 ATTTTC ATTTTC A-TTTC ATTTTC ATTTTC ATT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATT
67999 GTATTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.66
Consensus pattern (6 bp):
ATTTTC
Found at i:68004 original size:11 final size:12
Alignment explanation
Indices: 67967--67998 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
67957 AATATATGTA
67967 ATTTTCATTTTC
1 ATTTTCATTTTC
67979 A-TTTCATTTTC
1 ATTTTCATTTTC
67990 ATTTTCATT
1 ATTTTCATT
67999 GTATTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.66
Consensus pattern (12 bp):
ATTTTCATTTTC
Found at i:69261 original size:34 final size:34
Alignment explanation
Indices: 69223--69294 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
69213 TTGTTTTTGC
* * *
69223 TATTTCGATCCTTT-ACATTTATTTATTTTATATA
1 TATTTAGATCCTTTAACATTTATATA-TATATATA
**
69257 TATTTATTTCCTTTAACATTTATATATATATATA
1 TATTTAGATCCTTTAACATTTATATATATATATA
69291 TATT
1 TATT
69295 GTTTTTTTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 22 0.69
35 10 0.31
ACGTcount: A:0.31, C:0.10, G:0.01, T:0.58
Consensus pattern (34 bp):
TATTTAGATCCTTTAACATTTATATATATATATA
Found at i:69351 original size:17 final size:17
Alignment explanation
Indices: 69331--69364 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
69321 GAGTCTGAAC
*
69331 ATTTTTCTTCTTTTTTT
1 ATTTTTCTTATTTTTTT
*
69348 ATTTTTTTTATTTTTTT
1 ATTTTTCTTATTTTTTT
69365 CGCCTCTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (17 bp):
ATTTTTCTTATTTTTTT
Found at i:72674 original size:65 final size:64
Alignment explanation
Indices: 72605--72767 Score: 195
Period size: 65 Copynumber: 2.5 Consensus size: 64
72595 GAATAAATTG
72605 AACATCGAATGCATTTTATGCATCGATGCACTCTCCATGCATCAATGCACTC-AGGATT-TTATG
1 AACATCGAATGCATTTTATGCATCGATGCACTCTCCATGCATCAATGCACTCTA-GATTGTT-TG
72668 AA
64 -A
*** * * *
72670 AACATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCAGTCTAGCTTGTTTGA
1 AACATCGAATGCATTTTATGCATCGATGCACTCTCCATGCATCAATGCACTCTAGATTGTTTGA
* * * *
72734 AACATCAAATGCACTTCATGCATCGATTCACTCT
1 AACATCGAATGCATTTTATGCATCGATGCACTCT
72768 TAGTGCATGG
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
64 28 0.34
65 52 0.63
66 3 0.04
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACTCTCCATGCATCAATGCACTCTAGATTGTTTGA
Found at i:83014 original size:106 final size:106
Alignment explanation
Indices: 82885--83099 Score: 358
Period size: 106 Copynumber: 2.0 Consensus size: 106
82875 TTCAAACGAT
82885 CCATGAAGAAGAACACCCGATGAATGAAGAGATTTGAAGCTGATTAAAGAATTCCTTTAAAGGTG
1 CCATGAAGAAGAACACCCGATGAATGAAGAGATTTGAAGCTGATTAAAGAATTCCTTTAAAGGTG
* *
82950 CAAAGTCCAAGATGTTGACTAAAGGGATAGATACAGTCATA
66 CAAAGGCCAAGATGTTGACTAAAGGGATAAATACAGTCATA
** * *
82991 CCATGAAGAAGGGCACCTGATGAATGAAGAGATTTGAAGCTGATTGAAGAATTCCTTTAAAGGTG
1 CCATGAAGAAGAACACCCGATGAATGAAGAGATTTGAAGCTGATTAAAGAATTCCTTTAAAGGTG
* *
83056 CAAAGGCCAAGATGTTGACTCAAGGGATAAATACATTCATA
66 CAAAGGCCAAGATGTTGACTAAAGGGATAAATACAGTCATA
83097 CCA
1 CCA
83100 AGGAGGAGAA
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 101 1.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (106 bp):
CCATGAAGAAGAACACCCGATGAATGAAGAGATTTGAAGCTGATTAAAGAATTCCTTTAAAGGTG
CAAAGGCCAAGATGTTGACTAAAGGGATAAATACAGTCATA
Found at i:88203 original size:114 final size:114
Alignment explanation
Indices: 88003--88230 Score: 402
Period size: 114 Copynumber: 2.0 Consensus size: 114
87993 GAAGAGTGGG
*
88003 GGAATGATACACGTACCAGAGTCCATAATACATGCTTCTTTAGACTAATGTTTCTACTCGAACCT
1 GGAATGATACACGCACCAGAGTCCATAATACATGCTTCTTTAGACTAATGTTTCTACTCGAACCT
*
88068 ATTAGAAGAACAAAGTCTCAAAGATTCAAAGAACATCTATTCGATTCGA
66 ATTAGAAGAACAAAGTCTCAAAGATTCAAACAACATCTATTCGATTCGA
* *
88117 GGAATGATACATGCACCAGAGTCCATAATACATGCTTCTTTGGACTAATGTTTCTACTCGAACCT
1 GGAATGATACACGCACCAGAGTCCATAATACATGCTTCTTTAGACTAATGTTTCTACTCGAACCT
* *
88182 ATTAGAAGAACAAAGTCTCAAAGATTCAGACCACATCTATTCGATTCGA
66 ATTAGAAGAACAAAGTCTCAAAGATTCAAACAACATCTATTCGATTCGA
88231 TGTCGAATAT
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 108 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (114 bp):
GGAATGATACACGCACCAGAGTCCATAATACATGCTTCTTTAGACTAATGTTTCTACTCGAACCT
ATTAGAAGAACAAAGTCTCAAAGATTCAAACAACATCTATTCGATTCGA
Found at i:89033 original size:50 final size:50
Alignment explanation
Indices: 88928--89034 Score: 112
Period size: 50 Copynumber: 2.1 Consensus size: 50
88918 TCACACTCCA
* * * * * *
88928 ATTTGCCTTTTCATTGCGACTAGGAGGGTTGGTTAGAGCCATATTATCGTG
1 ATTTTCCTTTTCATTGCAACTAGGAGGGCTCGATAGAG-CACATTATCGTG
88979 -TTTTCCTTTTCATTGCAACTAGGAGGGCTCGATA-AG-ACATTATCGTTCG
1 ATTTTCCTTTTCATTGCAACTAGGAGGGCTCGATAGAGCACATTATCG-T-G
89028 ATTTTCC
1 ATTTTCC
89035 ACATATCCAT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
47 8 0.17
48 1 0.02
49 3 0.06
50 35 0.74
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (50 bp):
ATTTTCCTTTTCATTGCAACTAGGAGGGCTCGATAGAGCACATTATCGTG
Found at i:92963 original size:36 final size:37
Alignment explanation
Indices: 92884--93042 Score: 232
Period size: 36 Copynumber: 4.4 Consensus size: 37
92874 GGGCAATTCT
92884 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCC
* * *
92921 ATCTTAAGCATTCACTGATGAGTAGTGAAGC-AATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCC
* * *
92957 ATCTTAAGCCTTCGCCGAAGAGTAATGAAGC-AAGCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCC
*
92993 ATCTTAAGCCTTCACCGAAGAGTATTGAAGCAAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCC
*
93030 ATTTTAAGCCTTC
1 ATCTTAAGCCTTC
93043 TTAGAAGAGT
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
36 64 0.59
37 44 0.41
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (37 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCC
Found at i:92967 original size:73 final size:73
Alignment explanation
Indices: 92884--93042 Score: 230
Period size: 73 Copynumber: 2.2 Consensus size: 73
92874 GGGCAATTCT
* * * *
92884 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCTTAAGCATTCACTGATGAGTAGTGA
1 ATCTTAAGCCTTCACCGAAGAGTAATGAAGC-AAGCCATCTTAAGCATTCACCGAAGAGTAGTGA
92949 AGC-AATCC
65 AGCAAATCC
* * *
92957 ATCTTAAGCCTTCGCCGAAGAGTAATGAAGCAAGCCATCTTAAGCCTTCACCGAAGAGTATTGAA
1 ATCTTAAGCCTTCACCGAAGAGTAATGAAGCAAGCCATCTTAAGCATTCACCGAAGAGTAGTGAA
93022 GCAAATCC
66 GCAAATCC
*
93030 ATTTTAAGCCTTC
1 ATCTTAAGCCTTC
93043 TTAGAAGAGT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
72 31 0.40
73 46 0.60
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (73 bp):
ATCTTAAGCCTTCACCGAAGAGTAATGAAGCAAGCCATCTTAAGCATTCACCGAAGAGTAGTGAA
GCAAATCC
Found at i:93488 original size:54 final size:54
Alignment explanation
Indices: 93405--93620 Score: 200
Period size: 54 Copynumber: 4.0 Consensus size: 54
93395 AGTAGTGAAG
*
93405 AAAAAGAAGATTGTTCGAGTTCTATACTCCCTAAAGAAAAATGGAGCAAACCCGT
1 AAAAAGAAGA-TGTTCGAGTTCTATACTCCCTAAAGAAAAAGGGAGCAAACCCGT
* * * *
93460 AAAAAGAAGATGTTCGAGTTTTATACTCCCTAAAGCAAGAGGGAGCAAACCTGT
1 AAAAAGAAGATGTTCGAGTTCTATACTCCCTAAAGAAAAAGGGAGCAAACCCGT
*** * * * * * * **
93514 TTCAAGAATATGTTTGAGTTCCT-TACTCCCTAAAGAAAGAGGAAACGAACTTGT
1 AAAAAGAAGATGTTCGAGTT-CTATACTCCCTAAAGAAAAAGGGAGCAAACCCGT
***** * *
93568 TTGCTGAAGTTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCAAACCCG
1 AAAAAGAAGATGTTCGAGTTCTATACTCCCTAAAGAAAAAGGGAGCAAACCCG
93621 ATTATTAAAG
Statistics
Matches: 132, Mismatches: 27, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
53 2 0.02
54 119 0.90
55 11 0.08
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (54 bp):
AAAAAGAAGATGTTCGAGTTCTATACTCCCTAAAGAAAAAGGGAGCAAACCCGT
Found at i:93666 original size:55 final size:55
Alignment explanation
Indices: 93572--94260 Score: 854
Period size: 55 Copynumber: 12.6 Consensus size: 55
93562 ACTTGTTTGC
* * * * * * *
93572 TGAAG-TTGTTCGAGT-TCTATACTCCCTAAAGAAAGAGGGAGCAAACCCGATTAT
1 TGAAGATTGTTCGAGTCT-TATACTCTCTGAAGGAATAGGGAGCAGACACGATTGT
*
93626 TAAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGT
** * *
93681 TGAAGATTGTTAAAGTCTTTTACTCTCTGAAGGAATAGGGAGTAGACACGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGT
*
93736 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGAAGCAGACACGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGT
* * * * * *
93791 TGAAGATTGTTCGAATCTTATACTCTCCGAAGAAATAGGGAGCATACATGATTAT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGT
* * * *
93846 TGAAGA-TGTTCGAGTCTTATATTCTCT-AAAGAATAGAGAGTAGACACGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGT
* *
93899 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATTGGGAGCAGACACGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGT
*
93954 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAAACACGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGT
* *
94009 TGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACATGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGT
* *
94064 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGC
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGT
* * ** * * * * *
94119 AGAATATTGTTTTAGT-TCTATACTCCCTGAAAGAAAAAGGGAGC-GAACTCGTTTGT
1 TGAAGATTGTTCGAGTCT-TATACTCTCTG-AAGGAATAGGGAGCAG-ACACGATTGT
* * * * *
94175 AGAA-ACTTGTTTGAGACTTATACTTTCTGAAGGAATAGGGAGCAGACACGATTGC
1 TGAAGA-TTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGT
* *
94230 AGAAGATTGTTCGAGT-TCTATACTCCCTGAA
1 TGAAGATTGTTCGAGTCT-TATACTCTCTGAA
94261 AGAAAGAGGG
Statistics
Matches: 550, Mismatches: 73, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
53 25 0.05
54 44 0.08
55 436 0.79
56 44 0.08
57 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (55 bp):
TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGT
Found at i:93957 original size:273 final size:273
Alignment explanation
Indices: 93619--94116 Score: 852
Period size: 273 Copynumber: 1.8 Consensus size: 273
93609 GGAGCAAACC
*
93619 CGATTATTAAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGA
1 CGATTATTAAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGA
* * *
93684 AGATTGTTAAAGTCTTTTACTCTCTGAAGGAATAGGGAGTAGACACGATTGTTGAAGATTGTTCG
66 AGATTGTTAAAGTCTTATACTCTCTGAAGGAATAGGGAGCAAACACGATTGTTGAAGATTGTTCG
*
93749 AGTCTTATACTCTCTGAAGGAATAGGAAGCAGACACGATTGTTGAAGATTGTTCGAATCTTATAC
131 AGTCCTATACTCTCTGAAGGAATAGGAAGCAGACACGATTGTTGAAGATTGTTCGAATCTTATAC
* *
93814 TCTCCGAAGAAATAGGGAGCATACATGATTATTGAAGATGTTCGAGTCTTATATTCTCTAAAGAA
196 TCTCCGAAGAAATAGGGAGCAGACACGATTATTGAAGATGTTCGAGTCTTATATTCTCTAAAGAA
93879 TAGAGAGTAGACA
261 TAGAGAGTAGACA
* * *
93892 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATTGGGAGCAGACACGATTGTTGA
1 CGATTATTAAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGA
**
93957 AGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAAACACGATTGTTGAAGATTGTTCG
66 AGATTGTTAAAGTCTTATACTCTCTGAAGGAATAGGGAGCAAACACGATTGTTGAAGATTGTTCG
* * *
94022 AGTCCTATACTCTCTGAAGGAATAGGGAGCAGACATGATTGTTGAAGATTGTTCGAGTCTTATAC
131 AGTCCTATACTCTCTGAAGGAATAGGAAGCAGACACGATTGTTGAAGATTGTTCGAATCTTATAC
*
94087 TCTCTGAAGAAATAGGGAGCAGACACGATT
196 TCTCCGAAGAAATAGGGAGCAGACACGATT
94117 GCAGAATATT
Statistics
Matches: 209, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
273 209 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (273 bp):
CGATTATTAAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGA
AGATTGTTAAAGTCTTATACTCTCTGAAGGAATAGGGAGCAAACACGATTGTTGAAGATTGTTCG
AGTCCTATACTCTCTGAAGGAATAGGAAGCAGACACGATTGTTGAAGATTGTTCGAATCTTATAC
TCTCCGAAGAAATAGGGAGCAGACACGATTATTGAAGATGTTCGAGTCTTATATTCTCTAAAGAA
TAGAGAGTAGACA
Found at i:94185 original size:56 final size:56
Alignment explanation
Indices: 93409--94333 Score: 417
Period size: 55 Copynumber: 16.9 Consensus size: 56
93399 GTGAAGAAAA
* * * * * ***
93409 AGAAGATTGTTCGAGTTCTATACTCCCT-AAAGAAAAATGGAGCAAACCCG-TAAAA
1 AGAAGATTGTTTGAGTTCTATACTCCCTGAAAGAAATAGGGAGCGAACACGAT-TGC
* * * * * *
93464 AGAAGA-TGTTCGAGTTTTATACTCCCT-AAAGCAAGAGGGAGCAAAC-CTG-TTTC
1 AGAAGATTGTTTGAGTTCTATACTCCCTGAAAGAAATAGGGAGCGAACAC-GATTGC
* * * * ** *
93517 AAGAATA-TGTTTGAGTTCCT-TACTCCCT-AAAGAAAGAGGAAACGAACTTGTTTGC
1 -AGAAGATTGTTTGAGTT-CTATACTCCCTGAAAGAAATAGGGAGCGAACACGATTGC
* * * * * **
93572 TGAAG-TTGTTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCAAACCCGATTATT
1 AGAAGATTGTTTGAGTTCTATACTCCCTGAAAGAAATAGGGAGCGAACACGATT-GC
* * * *
93627 A-AAGATTGTTCGAG-TCTTATACTCTCTG-AAGGAATAGGGAGC-AGACACGATTGT
1 AGAAGATTGTTTGAGTTC-TATACTCCCTGAAAGAAATAGGGAGCGA-ACACGATTGC
* ** * * * * *
93681 TGAAGATTGTTAAAG-TCTTTTACTCTCTG-AAGGAATAGGGAG-TAGACACGATTGT
1 AGAAGATTGTTTGAGTTC-TATACTCCCTGAAAGAAATAGGGAGCGA-ACACGATTGC
* * * * * *
93736 TGAAGATTGTTCGAG-TCTTATACTCTCTG-AAGGAATAGGAAGC-AGACACGATTGT
1 AGAAGATTGTTTGAGTTC-TATACTCCCTGAAAGAAATAGGGAGCGA-ACACGATTGC
* * * * **
93791 TGAAGATTGTTCGA-ATCTTATACTCTCC-G-AAGAAATAGGGAGC-ATACATGATTAT
1 AGAAGATTGTTTGAGTTC-TATACTC-CCTGAAAGAAATAGGGAGCGA-ACACGATTGC
* * * * * * *
93846 TGAAGA-TGTTCGAG-TCTTATATTCTCT-AAAG-AATAGAGAG-TAGACACGATTGT
1 AGAAGATTGTTTGAGTTC-TATACTCCCTGAAAGAAATAGGGAGCGA-ACACGATTGC
* * * * *
93899 TGAAGATTGTTCGAG-TCTTATACTCTCTG-AAGAAATTGGGAGC-AGACACGATTGT
1 AGAAGATTGTTTGAGTTC-TATACTCCCTGAAAGAAATAGGGAGCGA-ACACGATTGC
* * * * * *
93954 TGAAGATTGTTCGAG-TCTTATACTCTCTG-AAGGAATAGGGAGCAAACACGATTGT
1 AGAAGATTGTTTGAGTTC-TATACTCCCTGAAAGAAATAGGGAGCGAACACGATTGC
* * * * * * *
94009 TGAAGATTGTTCGAGTCCTATACTCTCTG-AAGGAATAGGGAGC-AGACATGATTGT
1 AGAAGATTGTTTGAGTTCTATACTCCCTGAAAGAAATAGGGAGCGA-ACACGATTGC
* * *
94064 TGAAGATTGTTCGAG-TCTTATACTCTCTG-AAGAAATAGGGAGC-AGACACGATTGC
1 AGAAGATTGTTTGAGTTC-TATACTCCCTGAAAGAAATAGGGAGCGA-ACACGATTGC
* * * * * *
94119 AGAATATTGTTTTAGTTCTATACTCCCTGAAAGAAAAAGGGAGCGAACTCGTTTGT
1 AGAAGATTGTTTGAGTTCTATACTCCCTGAAAGAAATAGGGAGCGAACACGATTGC
* ** *
94175 AGAA-ACTTGTTTGAG-ACTTATACTTTCTG-AAGGAATAGGGAGC-AGACACGATTGC
1 AGAAGA-TTGTTTGAGTTC-TATACTCCCTGAAAGAAATAGGGAGCGA-ACACGATTGC
* * * *
94230 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACTCGTTTGC
1 AGAAGATTGTTTGAGTTCTATACTCCCTGAAAGAAATAGGGAGCGAACACGATTGC
** * * * *
94286 AGAATTTTTTTTGAGTTCTATACGCCTTGAAAGAGATAGGGAGCGAAC
1 AGAAGATTGTTTGAGTTCTATACTCCCTGAAAGAAATAGGGAGCGAAC
94334 CCATTTTTAG
Statistics
Matches: 733, Mismatches: 98, Indels: 77
0.81 0.11 0.08
Matches are distributed among these distances:
53 27 0.04
54 167 0.23
55 429 0.59
56 108 0.15
57 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (56 bp):
AGAAGATTGTTTGAGTTCTATACTCCCTGAAAGAAATAGGGAGCGAACACGATTGC
Found at i:94600 original size:2 final size:2
Alignment explanation
Indices: 94593--94638 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
94583 GTAGTTATTA
*
94593 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94635 AT AT
1 AT AT
94639 GCAAACAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:101949 original size:28 final size:28
Alignment explanation
Indices: 101917--101973 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
101907 CTCCATTGAA
101917 ACCAATGAAATGACAACACTTTAAAATT
1 ACCAATGAAATGACAACACTTTAAAATT
101945 ACCAATGAAATGACAACACTTTAAAATT
1 ACCAATGAAATGACAACACTTTAAAATT
101973 A
1 A
101974 ATTTGGCGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.51, C:0.18, G:0.07, T:0.25
Consensus pattern (28 bp):
ACCAATGAAATGACAACACTTTAAAATT
Found at i:103281 original size:45 final size:47
Alignment explanation
Indices: 103230--103322 Score: 163
Period size: 45 Copynumber: 2.0 Consensus size: 47
103220 TAAGAAACAA
103230 TGGAAGGGCTATGGATAGTATCTT-A-AACAAGGAAGAAACTAAGTT
1 TGGAAGGGCTATGGATAGTATCTTAACAACAAGGAAGAAACTAAGTT
103275 TGGAAGGGCTATGGATAGTATCTTAAACAACAAGGAAGAAACTAAGTT
1 TGGAAGGGCTATGGATAGTATCTT-AACAACAAGGAAGAAACTAAGTT
103323 ATAAAGAACT
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
45 24 0.53
47 1 0.02
48 20 0.44
ACGTcount: A:0.41, C:0.10, G:0.26, T:0.24
Consensus pattern (47 bp):
TGGAAGGGCTATGGATAGTATCTTAACAACAAGGAAGAAACTAAGTT
Found at i:107322 original size:34 final size:32
Alignment explanation
Indices: 107279--107348 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
107269 TTTTGTAAAG
*
107279 GGGAAAGGTTCTAGCTAATCCCGTGAAAAAGCTA
1 GGGAAAGGTTCTAGCTAAGCCCG-GAAAAA-CTA
* *
107313 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTAAGCCCGGAAAAACTA
107345 GGGA
1 GGGA
107349 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 6 0.18
34 20 0.61
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTAAGCCCGGAAAAACTA
Found at i:108249 original size:20 final size:19
Alignment explanation
Indices: 108208--108255 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
108198 AATGATTTTC
*
108208 TTTTGAAAACAAAAATAGA
1 TTTTGAAAACAAAAATAAA
* *
108227 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAAT-AAA
*
108247 TTTTTAAAA
1 TTTTGAAAA
108256 AGGATTTAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.31
Consensus pattern (19 bp):
TTTTGAAAACAAAAATAAA
Found at i:109719 original size:18 final size:18
Alignment explanation
Indices: 109696--109761 Score: 87
Period size: 18 Copynumber: 3.6 Consensus size: 18
109686 CAAGAAAAAT
*
109696 CAGATTCTCCAAGGGGTA
1 CAGATTCCCCAAGGGGTA
109714 CAGATTCCCCCCAAGGGGTA
1 CAGATT--CCCCAAGGGGTA
*
109734 CAGATTCCCCCAGGGGTA
1 CAGATTCCCCAAGGGGTA
*
109752 CTGATTCCCC
1 CAGATTCCCC
109762 CTTGTTTAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
18 26 0.60
20 17 0.40
ACGTcount: A:0.23, C:0.33, G:0.24, T:0.20
Consensus pattern (18 bp):
CAGATTCCCCAAGGGGTA
Found at i:109729 original size:20 final size:20
Alignment explanation
Indices: 109704--109762 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
109694 ATCAGATTCT
109704 CCAAGGGGTACAGATTCCCC
1 CCAAGGGGTACAGATTCCCC
109724 CCAAGGGGTACAGATT-CCC
1 CCAAGGGGTACAGATTCCCC
*
109743 CC-AGGGGTACTGATTCCCC
1 CCAAGGGGTACAGATTCCCC
109762 C
1 C
109763 TTGTTTAACG
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
18 12 0.32
19 9 0.24
20 16 0.43
ACGTcount: A:0.22, C:0.36, G:0.25, T:0.17
Consensus pattern (20 bp):
CCAAGGGGTACAGATTCCCC
Found at i:109762 original size:18 final size:19
Alignment explanation
Indices: 109704--109762 Score: 93
Period size: 18 Copynumber: 3.1 Consensus size: 19
109694 ATCAGATTCT
109704 CCAAGGGGTACAGATTCCCC
1 CCAAGGGGTACAGATT-CCC
109724 CCAAGGGGTACAGATTCCC
1 CCAAGGGGTACAGATTCCC
*
109743 CC-AGGGGTACTGATTCCC
1 CCAAGGGGTACAGATTCCC
109761 CC
1 CC
109763 TTGTTTAACG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
18 17 0.45
19 5 0.13
20 16 0.42
ACGTcount: A:0.22, C:0.36, G:0.25, T:0.17
Consensus pattern (19 bp):
CCAAGGGGTACAGATTCCC
Found at i:111247 original size:25 final size:25
Alignment explanation
Indices: 111219--111269 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
111209 TTTTTAGATC
111219 AAAACACCTAACTTTTGAAAATTAT
1 AAAACACCTAACTTTTGAAAATTAT
*
111244 AAAACACCTAACTTTTGGAAATTAT
1 AAAACACCTAACTTTTGAAAATTAT
111269 A
1 A
111270 CTTTTGGTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.31
Consensus pattern (25 bp):
AAAACACCTAACTTTTGAAAATTAT
Found at i:113750 original size:38 final size:42
Alignment explanation
Indices: 113696--113825 Score: 124
Period size: 47 Copynumber: 3.0 Consensus size: 42
113686 GGTTTATTGG
*
113696 TTAATAAATGGTAAG-TAT-G-AAAATAAGCTTACGAGCTTA
1 TTAATAAATGGCAAGATATGGAAAAATAAGCTTACGAGCTTA
113735 TTAAT-AATGGCAAGTATATGGATAAAATAAGCTTACGAGCTTA
1 TTAATAAATGGCAAG-ATATGGA-AAAATAAGCTTACGAGCTTA
* * * *
113778 TGGAATTTAAATGGTAAGTATTTTGATAAAATAAGCTTACGAGCTTA
1 T-TAA--TAAATGGCAAG-ATATGGA-AAAATAAGCTTACGAGCTTA
113825 T
1 T
113826 GGGATAAATG
Statistics
Matches: 77, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
38 8 0.10
39 5 0.06
40 3 0.04
41 1 0.01
43 21 0.27
44 2 0.03
46 1 0.01
47 36 0.47
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (42 bp):
TTAATAAATGGCAAGATATGGAAAAATAAGCTTACGAGCTTA
Found at i:113809 original size:47 final size:45
Alignment explanation
Indices: 113715--113840 Score: 175
Period size: 47 Copynumber: 2.8 Consensus size: 45
113705 GGTAAGTATG
* *
113715 AAAATAAGCTTACGAGCTTAT-TAAT-AATGGCAAGTATATGGAT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGAT
* *
113758 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGAT
1 AAAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATGGAT
*
113805 AAAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
113841 AGATTTTATA
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
43 21 0.28
44 2 0.03
45 11 0.15
46 1 0.01
47 39 0.53
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGAT
Found at i:114378 original size:14 final size:14
Alignment explanation
Indices: 114335--114378 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
114325 TCGATTCCCC
*
114335 CACTGTTCATTGTA
1 CACTGTTCATTGTT
* *
114349 CACTTTTCACTGTT
1 CACTGTTCATTGTT
*
114363 CACTGTTCATTATT
1 CACTGTTCATTGTT
114377 CA
1 CA
114379 TAAAAAAATC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.20, C:0.25, G:0.09, T:0.45
Consensus pattern (14 bp):
CACTGTTCATTGTT
Found at i:127062 original size:23 final size:21
Alignment explanation
Indices: 127010--127070 Score: 79
Period size: 23 Copynumber: 2.9 Consensus size: 21
127000 TTTTGGTACA
*
127010 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
127030 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
127051 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATTCCCCC
127071 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.34, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:127078 original size:20 final size:20
Alignment explanation
Indices: 127053--127090 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
127043 CCCCCTTTGA
*
127053 AGGGGAACCGATTCCCCCAC
1 AGGGGAACCGATACCCCCAC
*
127073 AGGGGAATCGATACCCCC
1 AGGGGAACCGATACCCCC
127091 TGGGGTTCTG
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:0.26, C:0.37, G:0.26, T:0.11
Consensus pattern (20 bp):
AGGGGAACCGATACCCCCAC
Found at i:129053 original size:17 final size:17
Alignment explanation
Indices: 129027--129062 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
129017 TGTTTCAACA
*
129027 TTTTGAATTGTTTGATT
1 TTTTGAATTGTTGGATT
*
129044 TTTTGGATTGTTGGATT
1 TTTTGAATTGTTGGATT
129061 TT
1 TT
129063 GGATTTATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.22, T:0.64
Consensus pattern (17 bp):
TTTTGAATTGTTGGATT
Found at i:135398 original size:23 final size:22
Alignment explanation
Indices: 135372--135416 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
135362 AAGGATACAA
*
135372 GAAATCAAGTCATAGGAAACATT
1 GAAA-CAAGTCATAAGAAACATT
* *
135395 GAAACAATTTATAAGAAACATT
1 GAAACAAGTCATAAGAAACATT
135417 TTTTTCAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.24
Consensus pattern (22 bp):
GAAACAAGTCATAAGAAACATT
Found at i:136685 original size:30 final size:30
Alignment explanation
Indices: 136649--136712 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
136639 GAAGGACCTG
* *
136649 TCCAGAGGTTACAAAGAACCCCGGTAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
* * *
136679 TCCAGAGGTCATAAAGATCCTCGGCAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
136709 TCCA
1 TCCA
136713 TATTTTCCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (30 bp):
TCCAGAGGTCACAAAGAACCCCGGCAACTA
Found at i:137481 original size:64 final size:63
Alignment explanation
Indices: 137386--137597 Score: 214
Period size: 64 Copynumber: 3.3 Consensus size: 63
137376 TCTTTTAATG
*
137386 AAGGTATGCATCGATGCACTACTTGTGCATCGATGCATAAAATGCATTCGATGTTTCATTAATAA
1 AAGG-ATGCATCGATGCACTACTTATGCATCGATGCATAAAATGCATTCGATGTTTCATT-ATAA
** ** * * * *
137451 CGGGATGCATCGATGCACTACTTATGCATCGATGCACGAATTACATTCGATGTTTTTATTTTAA
1 AAGGATGCATCGATGCACTACTTATGCATCGATGCATAAAATGCATTCGATG-TTTCATTATAA
* * * * *
137515 AAGGATGCATCGATGCATTAGC-GATGCATCGATGCATCAAAGGCATTCGATGTTCTTC-TT-TT
1 AAGGATGCATCGATGCACTA-CTTATGCATCGATGCATAAAATGCATTCGATG-T-TTCATTATA
137577 A
63 A
137578 AAGGAATGCATCGATGCACT
1 AAGG-ATGCATCGATGCACT
137598 TATGAATGTT
Statistics
Matches: 122, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
63 6 0.05
64 105 0.86
65 11 0.09
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (63 bp):
AAGGATGCATCGATGCACTACTTATGCATCGATGCATAAAATGCATTCGATGTTTCATTATAA
Found at i:138558 original size:14 final size:14
Alignment explanation
Indices: 138539--138573 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
138529 TATTTATTCC
138539 TCCTTATCAAGATT
1 TCCTTATCAAGATT
138553 TCCTTATCAAGATT
1 TCCTTATCAAGATT
138567 TCCTTAT
1 TCCTTAT
138574 AGCATAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.46
Consensus pattern (14 bp):
TCCTTATCAAGATT
Found at i:140940 original size:30 final size:30
Alignment explanation
Indices: 140904--140967 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
140894 GAAGGACCTG
* *
140904 TCCAGAGGTTACAAAGAACCCCGGTAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
* * *
140934 TCCAGAGGTCATAAAGATCCTCGGCAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
140964 TCCA
1 TCCA
140968 TATGTTCCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (30 bp):
TCCAGAGGTCACAAAGAACCCCGGCAACTA
Found at i:141735 original size:64 final size:64
Alignment explanation
Indices: 141645--141886 Score: 287
Period size: 64 Copynumber: 3.8 Consensus size: 64
141635 TAATGAAGGT
* ** *
141645 ATGCATCGATGCACTACTTGTGCATCGATGCATAAAATGCATTCGATGTTTCATTAATAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAAATACATTCGATGTTTCATTAATAATGGG
* *
141709 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTACATTCGATGTTTCATTAATAACGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAAATACATTCGATGTTTCATTAATAATGGG
* * *
141773 ATGCATCGATGCACTACTTATGCATCGGTGCACGAACTACATTCGATGTTTTTATTTTAA-AAT-
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAAATACATTCGATG-TTTCA--TTAATAATG
141836 -G
63 GG
* * **
141837 ATGCATCGATGCATTAGC-GATGCATCGATGCATC-AAAGGCATTCGATGTT
1 ATGCATCGATGCACTA-CTTATGCATCGATGCA-CGAAATACATTCGATGTT
141887 CTTCTTTTAA
Statistics
Matches: 157, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
63 2 0.01
64 143 0.91
65 6 0.04
66 2 0.01
67 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACGAAATACATTCGATGTTTCATTAATAATGGG
Found at i:141905 original size:128 final size:127
Alignment explanation
Indices: 141634--141915 Score: 297
Period size: 128 Copynumber: 2.2 Consensus size: 127
141624 ATTTCCTCTT
* * * * *
141634 TTAATGAAGGTATGCATCGATGCACTACTTGTGCATCGATGCATAAAATGCATTCGATGTTTCAT
1 TTAATAAAGGAATGCATCGATGCACTACTTATGCATCGATGCACAAAATACATTCGATGTTTCAT
* **
141699 TAATAATGGGATGCATCGATGCACTACTTATGCATCGATGCACGAATTACATTCGATGTTTCA
66 TAATAAT-GGATGCATCGATGCACTACTGATGCATCGATGCACGAAAGACATTCGATGTTTCA
* * * * * *
141762 TTAATAACGGGATGCATCGATGCACTACTTATGCATCGGTGCACGAACTACATTCGATGTTTTTA
1 TTAATAAAGGAATGCATCGATGCACTACTTATGCATCGATGCACAAAATACATTCGATG-TTTCA
* *
141827 TTTTAA-AAT-GATGCATCGATGCATTAGC-GATGCATCGATGCATC-AAAGGCATTCGATGTTC
65 --TTAATAATGGATGCATCGATGCACTA-CTGATGCATCGATGCA-CGAAAGACATTCGATG-T-
141888 TTC-
124 TTCA
*
141891 TT-TTAAAGGAATGCATCGATGCACT
1 TTAATAAAGGAATGCATCGATGCACT
141916 TATGAATGTG
Statistics
Matches: 129, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
128 110 0.85
129 9 0.07
130 6 0.05
131 4 0.03
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (127 bp):
TTAATAAAGGAATGCATCGATGCACTACTTATGCATCGATGCACAAAATACATTCGATGTTTCAT
TAATAATGGATGCATCGATGCACTACTGATGCATCGATGCACGAAAGACATTCGATGTTTCA
Found at i:142007 original size:13 final size:13
Alignment explanation
Indices: 141989--142022 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
141979 TTCATTCAAT
141989 TCTTCTATTTTAA
1 TCTTCTATTTTAA
142002 TCTTCTATTTTAA
1 TCTTCTATTTTAA
*
142015 TCCTCTAT
1 TCTTCTAT
142023 CATGTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (13 bp):
TCTTCTATTTTAA
Found at i:144090 original size:51 final size:51
Alignment explanation
Indices: 144033--144146 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 51
144023 GGTTTAGATT
* * * * **
144033 TATTATTTTATTAGGAATTAAGA-TTGAGTTAAAACCTTATCTTTAATTTAC
1 TATTATTTTACTAGGAAGTAAGACAT-AGTCAAAACAGTATCTTTAATTTAC
* * *
144084 TATTATTTTACTAGGAAGTAGGACATAGTCAAAACAGTATCTTTAGTTTAT
1 TATTATTTTACTAGGAAGTAAGACATAGTCAAAACAGTATCTTTAATTTAC
144135 TATTATTTTACT
1 TATTATTTTACT
144147 CAGTAGTTAC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 52 0.98
52 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (51 bp):
TATTATTTTACTAGGAAGTAAGACATAGTCAAAACAGTATCTTTAATTTAC
Found at i:144307 original size:10 final size:10
Alignment explanation
Indices: 144292--144321 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
144282 ATCTCCATCA
144292 TCAAGTTCTT
1 TCAAGTTCTT
144302 TCAAGTTCTT
1 TCAAGTTCTT
144312 TCAAGTTCTT
1 TCAAGTTCTT
144322 CTTGAGAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (10 bp):
TCAAGTTCTT
Found at i:149687 original size:15 final size:15
Alignment explanation
Indices: 149667--149696 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
149657 TTGACTATGG
*
149667 GATATTTTAATGGAA
1 GATATTTCAATGGAA
149682 GATATTTCAATGGAA
1 GATATTTCAATGGAA
149697 AATGATAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.37
Consensus pattern (15 bp):
GATATTTCAATGGAA
Found at i:150491 original size:21 final size:21
Alignment explanation
Indices: 150467--150519 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
150457 AGAAATTGTG
* *
150467 CAATTTTGAGTATTCAATGTT
1 CAATTTTAAGTATTAAATGTT
*
150488 CAATTTTAATTATTAAATGTT
1 CAATTTTAAGTATTAAATGTT
**
150509 GGATTTTAAGT
1 CAATTTTAAGT
150520 TAGAATGTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (21 bp):
CAATTTTAAGTATTAAATGTT
Found at i:151847 original size:19 final size:19
Alignment explanation
Indices: 151820--151859 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
151810 CAAAAAAATT
* *
151820 AAAGGCAAAATAATGAGAA
1 AAAGCCAAAAAAATGAGAA
*
151839 AAAGCCAAAAAAATTAGAA
1 AAAGCCAAAAAAATGAGAA
151858 AA
1 AA
151860 CAAAAATGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.68, C:0.07, G:0.15, T:0.10
Consensus pattern (19 bp):
AAAGCCAAAAAAATGAGAA
Found at i:153133 original size:10 final size:9
Alignment explanation
Indices: 153089--153148 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
153079 AAACAATTAT
*
153089 AATTACATA
1 AATTAAATA
* *
153098 CATTAATTA
1 AATTAAATA
*
153107 AATGAAATA
1 AATTAAATA
153116 AA-TAAATAA
1 AATTAAAT-A
153125 AATTAAATA
1 AATTAAATA
153134 AATATAAAT-
1 AAT-TAAATA
153143 AATTAA
1 AATTAA
153149 GAATGTATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
8 7 0.17
9 24 0.59
10 10 0.24
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (9 bp):
AATTAAATA
Found at i:153133 original size:14 final size:14
Alignment explanation
Indices: 153099--153142 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
153089 AATTACATAC
* *
153099 ATTAATTAAATGAA
1 ATTAAATAAATAAA
153113 A-TAAATAAATAAA
1 ATTAAATAAATAAA
153126 ATTAAATAAATATAA
1 ATTAAATAAATA-AA
153141 AT
1 AT
153143 AATTAAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 11 0.42
14 11 0.42
15 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (14 bp):
ATTAAATAAATAAA
Found at i:153654 original size:22 final size:22
Alignment explanation
Indices: 153629--153677 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
153619 CCTTGTCTTT
153629 TTTCCCAAGAAAAATCTTTATA
1 TTTCCCAAGAAAAATCTTTATA
* *
153651 TTTCCTAGGAAAAATCTTTATA
1 TTTCCCAAGAAAAATCTTTATA
153673 TTTCC
1 TTTCC
153678 TAATTTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (22 bp):
TTTCCCAAGAAAAATCTTTATA
Found at i:153678 original size:22 final size:22
Alignment explanation
Indices: 153637--153679 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
153627 TTTTTCCCAA
153637 GAAAAATCTTTATATTTCCTAG
1 GAAAAATCTTTATATTTCCTAG
153659 GAAAAATCTTTATATTTCCTA
1 GAAAAATCTTTATATTTCCTA
153680 ATTTTAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (22 bp):
GAAAAATCTTTATATTTCCTAG
Found at i:157491 original size:12 final size:12
Alignment explanation
Indices: 157474--157498 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
157464 ATCATTAAAA
157474 ATTAATTTTTTT
1 ATTAATTTTTTT
157486 ATTAATTTTTTT
1 ATTAATTTTTTT
157498 A
1 A
157499 AAATTATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
ATTAATTTTTTT
Found at i:157530 original size:22 final size:22
Alignment explanation
Indices: 157487--157530 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
157477 AATTTTTTTA
*
157487 TTAATTTTTTTAAAATTATAAT
1 TTAATTTTTTAAAAATTATAAT
157509 TTAACTTTTTTAAAAATT-TAAT
1 TTAA-TTTTTTAAAAATTATAAT
157531 GACTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAATTTTTTAAAAATTATAAT
Found at i:158121 original size:18 final size:19
Alignment explanation
Indices: 158098--158140 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
158088 GAAGCATTTT
*
158098 TTTAATTTTGGATTAA-AA
1 TTTAATTATGGATTAAGAA
*
158116 TTTAATTATGTATTAAGAA
1 TTTAATTATGGATTAAGAA
158135 TTTAAT
1 TTTAAT
158141 AAGTCTAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (19 bp):
TTTAATTATGGATTAAGAA
Found at i:159477 original size:23 final size:23
Alignment explanation
Indices: 159444--159495 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
159434 TTGATGTCAC
* *
159444 GTTTTTTTCTA-CATTTGTGGTAA
1 GTTTTTCTCTATC-TTTGTGGCAA
*
159467 GTTTTTCTCTATCTTTGTGGCAC
1 GTTTTTCTCTATCTTTGTGGCAA
159490 GTTTTT
1 GTTTTT
159496 TGTTTTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.12, C:0.13, G:0.17, T:0.58
Consensus pattern (23 bp):
GTTTTTCTCTATCTTTGTGGCAA
Found at i:162351 original size:14 final size:14
Alignment explanation
Indices: 162332--162358 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
162322 TAATAATAAA
162332 AAATTTTAAAATAC
1 AAATTTTAAAATAC
162346 AAATTTTAAAATA
1 AAATTTTAAAATA
162359 ACATAAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATTTTAAAATAC
Found at i:168161 original size:85 final size:85
Alignment explanation
Indices: 168018--168190 Score: 283
Period size: 85 Copynumber: 2.0 Consensus size: 85
168008 ATACAATCAC
* * *
168018 GACACACGAATGTGTGTCATTTTCATTTATGACGGGGGCTTCAATGACACGTAATGTAAGTCATA
1 GACACACGAATGTGTGACATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATA
* *
168083 AATGTGTGCCATAAATTTAT
66 AATGCGCGCCATAAATTTAT
*
168103 GACACACGAATGTGTGACATCTTCATTTATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATA
1 GACACACGAATGTGTGACATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATA
*
168168 AATGCGCGTCATAAATTTAT
66 AATGCGCGCCATAAATTTAT
168188 GAC
1 GAC
168191 GTACAGTTGC
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 81 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (85 bp):
GACACACGAATGTGTGACATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATA
AATGCGCGCCATAAATTTAT
Found at i:168209 original size:85 final size:85
Alignment explanation
Indices: 168018--168242 Score: 247
Period size: 85 Copynumber: 2.6 Consensus size: 85
168008 ATACAATCAC
* * * *
168018 GACACACGAATGTGTGTCATTTTCATTTATGACGGGGGCTTCAATGACACGTAATGTAAGTCATA
1 GACACACGAATGCGCGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATA
* *
168083 AATGTGTGCCATAAATTTAT
66 AATGCGCGCCATAAATTTAT
* * * *
168103 GACACACGAATGTGTGACATCTTCATTTATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATA
1 GACACACGAATGCGCGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATA
*
168168 AATGCGCGTCATAAATTTAT
66 AATGCGCGCCATAAATTTAT
* * * * * * *
168188 GACGTACA-G-TTGCGCGTCATCTTAAATTCATGTCGGTGGCTTCAACGACAGGCAA
1 GAC--ACACGAATGCGCGTCATCTT-CATTTATGACGGGGGCTTCAATGACACGCAA
168243 ATGTGTGTCA
Statistics
Matches: 119, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
85 91 0.76
86 25 0.21
87 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (85 bp):
GACACACGAATGCGCGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATA
AATGCGCGCCATAAATTTAT
Found at i:170876 original size:18 final size:18
Alignment explanation
Indices: 170853--170887 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
170843 ACTGAATATT
170853 TGTCCCGAAGAACCACTA
1 TGTCCCGAAGAACCACTA
*
170871 TGTCCCGAAGGACCACT
1 TGTCCCGAAGAACCACT
170888 GTATATGTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.34, G:0.20, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGAACCACTA
Found at i:177806 original size:18 final size:18
Alignment explanation
Indices: 177738--177808 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
177728 TGAATATTAA
177738 TCCCGAAGGACCACTATG
1 TCCCGAAGGACCACTATG
* * *
177756 TACCAAAGGACCACTGATTA
1 TCCCGAAGGACCACT-A-TG
* * *
177776 TTCTGAAGAACCACTATG
1 TCCCGAAGGACCACTATG
177794 TCCCGAAGGACCACT
1 TCCCGAAGGACCACT
177809 GTATATGTCC
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
18 26 0.65
19 2 0.05
20 12 0.30
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (18 bp):
TCCCGAAGGACCACTATG
Found at i:179145 original size:8 final size:8
Alignment explanation
Indices: 179132--179157 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
179122 CGTATGGGGA
179132 AAGAAGAG
1 AAGAAGAG
179140 AAGAAGAG
1 AAGAAGAG
179148 AAGAAGAG
1 AAGAAGAG
179156 AA
1 AA
179158 CTCTGGAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (8 bp):
AAGAAGAG
Found at i:182356 original size:23 final size:24
Alignment explanation
Indices: 182329--182381 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
182319 TTTTGATTTA
*
182329 GATGACAACGACATTGAT-CCCTT
1 GATGACAACAACATTGATCCCCTT
*
182352 GATGACAACAAGATTGATCCCCTT
1 GATGACAACAACATTGATCCCCTT
182376 GATGAC
1 GATGAC
182382 GATGTTATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (24 bp):
GATGACAACAACATTGATCCCCTT
Found at i:183133 original size:37 final size:37
Alignment explanation
Indices: 183092--183176 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 37
183082 CATTCCAAGG
* *
183092 GATGATCCAGTCGATAATTAGATTTATCATCCTAACA
1 GATGATCCAGTCGATAATCAGATTAATCATCCTAACA
* * * *
183129 GATGAAT-CAATCGGTAATCAGGTTAATCATCCTAATA
1 GATG-ATCCAGTCGATAATCAGATTAATCATCCTAACA
*
183166 GATGAACCAGT
1 GATGATCCAGT
183177 TGTAATTCGA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
36 1 0.03
37 35 0.92
38 2 0.05
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (37 bp):
GATGATCCAGTCGATAATCAGATTAATCATCCTAACA
Found at i:183910 original size:12 final size:13
Alignment explanation
Indices: 183888--183923 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
183878 AAATCAACAA
*
183888 TCAACAGTCAAAT
1 TCAACAGTCAAAG
183901 TCAA-AGTCAAAG
1 TCAACAGTCAAAG
183913 TCAACAGTCAA
1 TCAACAGTCAA
183924 TTATCAATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.19
Consensus pattern (13 bp):
TCAACAGTCAAAG
Found at i:183983 original size:20 final size:19
Alignment explanation
Indices: 183939--183984 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
183929 AATGGTCAAT
*
183939 GGGTCAAAGTCAATGGGTT
1 GGGTCAAAGTCAATGGGTC
* *
183958 GAGTCAAAGTTCAATGTGTC
1 GGGTCAAAG-TCAATGGGTC
183978 GGGTCAA
1 GGGTCAA
183985 TGATTAACGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (19 bp):
GGGTCAAAGTCAATGGGTC
Found at i:184096 original size:20 final size:20
Alignment explanation
Indices: 184040--184104 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
184030 TCTATTCAAA
* * *
184040 GTTAAGGGGTCAGGTCAAAG
1 GTTAATGGGTTAGGTCAATG
*
184060 GTCAATGGGTTAGGTCAATG
1 GTTAATGGGTTAGGTCAATG
184080 GTTAATGGGTT-GAGTCAATG
1 GTTAATGGGTTAG-GTCAATG
184100 GTTAA
1 GTTAA
184105 CATGTAAGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 1 0.03
20 38 0.97
ACGTcount: A:0.28, C:0.08, G:0.35, T:0.29
Consensus pattern (20 bp):
GTTAATGGGTTAGGTCAATG
Found at i:185794 original size:8 final size:8
Alignment explanation
Indices: 185781--185805 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
185771 ATAATATCTT
185781 ATAAAATA
1 ATAAAATA
185789 ATAAAATA
1 ATAAAATA
185797 ATAAAATA
1 ATAAAATA
185805 A
1 A
185806 AGAAAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
ATAAAATA
Found at i:190825 original size:23 final size:23
Alignment explanation
Indices: 190799--190843 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
190789 CACCACAGCT
*
190799 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
190822 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
190844 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:191092 original size:149 final size:149
Alignment explanation
Indices: 190822--191125 Score: 599
Period size: 149 Copynumber: 2.0 Consensus size: 149
190812 CGAAGTGCCC
190822 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
*
190887 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
190952 CATATGTCCCAAAGAACCG
131 CATATGTCCCAAAGAACCG
190971 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
191036 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
191101 CATATGTCCCAAAGAACCG
131 CATATGTCCCAAAGAACCG
191120 CGTAGA
1 CGTAGA
191126 CCCTCTACCC
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 154 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCAAAGAACCG
Found at i:191697 original size:19 final size:20
Alignment explanation
Indices: 191673--191712 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
191663 ATCCGTTGAG
*
191673 GGGGTATCGGTTCCCC-CTA
1 GGGGTATCGATTCCCCTCTA
191692 GGGGTATCGATTCCCCTCTA
1 GGGGTATCGATTCCCCTCTA
191712 G
1 G
191713 CATTCTGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.12, C:0.30, G:0.30, T:0.28
Consensus pattern (20 bp):
GGGGTATCGATTCCCCTCTA
Found at i:191712 original size:66 final size:67
Alignment explanation
Indices: 191604--191754 Score: 232
Period size: 66 Copynumber: 2.3 Consensus size: 67
191594 TTTTTCTCAT
* * * *
191604 GGGGGAATCGGTTCCCCCCTTGGGGGTATCGGTTCCCCTCTAGCATTCTGGAATTTCATATCCGT
1 GGGGGTATCGGTT-CCCCCTTAGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGT
191669 TGA
65 TGA
**
191672 GGGGGTATCGGTTCCCCC-TAGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATTTGTT
1 GGGGGTATCGGTTCCCCCTTAGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTT
191736 GA
66 GA
191738 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
191755 TTGAATAGGT
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
66 60 0.78
67 5 0.06
68 12 0.16
ACGTcount: A:0.15, C:0.25, G:0.28, T:0.31
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCTTAGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTT
GA
Found at i:192281 original size:19 final size:20
Alignment explanation
Indices: 192235--192271 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
192225 CCATGTTTGG
*
192235 AGAAGGAAGAGAAGAAGATA
1 AGAAAGAAGAGAAGAAGATA
192255 AGAAAGAAG-GAAGAAGA
1 AGAAAGAAGAGAAGAAGA
192272 AATGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.03
Consensus pattern (20 bp):
AGAAAGAAGAGAAGAAGATA
Found at i:197848 original size:23 final size:23
Alignment explanation
Indices: 197822--197866 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
197812 CACCACAGCT
*
197822 CGTATAAATGCACCGA-AGTGCCC
1 CGTAGAAATGCACC-ATAGTGCCC
*
197845 CGTAGAATTGCACCATAGTGCC
1 CGTAGAAATGCACCATAGTGCC
197867 ATATAATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCATAGTGCCC
Found at i:198117 original size:149 final size:149
Alignment explanation
Indices: 197845--198148 Score: 574
Period size: 149 Copynumber: 2.0 Consensus size: 149
197835 CGAAGTGCCC
197845 CGTAGAATTGCACCATAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCATAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
*
197910 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
197975 CATATGTCCCAAAGAACCG
131 CATATGTCCCAAAGAACCG
*
197994 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCATAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
198059 CATATACATATACTAAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT-CAAAGAATAT
66 CATATACATATACT-AGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATAT
198123 ACATATGTCCCAAAGAACCG
130 ACATATGTCCCAAAGAACCG
198143 CGTAGA
1 CGTAGA
198149 CCCTCTACCC
Statistics
Matches: 152, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
149 114 0.75
150 38 0.25
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCATAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCAAAGAACCG
Found at i:198731 original size:18 final size:19
Alignment explanation
Indices: 198696--198732 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
198686 TATCCGTTGA
*
198696 GGGGGTATCGGTTACCCCT
1 GGGGGTATCGATTACCCCT
198715 GGGGGTATCGATT-CCCCT
1 GGGGGTATCGATTACCCCT
198733 CTAGCATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.11, C:0.27, G:0.35, T:0.27
Consensus pattern (19 bp):
GGGGGTATCGATTACCCCT
Found at i:198736 original size:66 final size:65
Alignment explanation
Indices: 198643--198779 Score: 211
Period size: 66 Copynumber: 2.1 Consensus size: 65
198633 ATCGGTTCCC
* * *
198643 CCCCTTGGGGGTATCGGTTCCCCTCTAGCATTTTGGAATTTCATATCCGTTGAGGGGGTATCGGT
1 CCCC-TGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTTGAGGGGGTATCGGT
198708 T
65 T
**
198709 ACCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATTTGTTGAGGGGGTATCGGT
1 -CCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTTGAGGGGGTATCGGT
198774 T
65 T
198775 CCCCT
1 CCCCT
198780 TGAATAGGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 5 0.08
66 56 0.86
67 4 0.06
ACGTcount: A:0.15, C:0.24, G:0.27, T:0.34
Consensus pattern (65 bp):
CCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTTGAGGGGGTATCGGTT
Found at i:199301 original size:19 final size:20
Alignment explanation
Indices: 199255--199291 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
199245 CCACGTTTGG
*
199255 AGAAGGAAGAGAAGAAGATA
1 AGAAAGAAGAGAAGAAGATA
199275 AGAAAGAAG-GAAGAAGA
1 AGAAAGAAGAGAAGAAGA
199292 AATGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.03
Consensus pattern (20 bp):
AGAAAGAAGAGAAGAAGATA
Found at i:200060 original size:30 final size:30
Alignment explanation
Indices: 200026--200085 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
200016 ATAAATCTTT
200026 TAATAGTTTAGAATACATGATAATATTATA
1 TAATAGTTTAGAATACATGATAATATTATA
*
200056 TAATAGTTTATAATACATGATAATATTATA
1 TAATAGTTTAGAATACATGATAATATTATA
200086 AAAGTAGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (30 bp):
TAATAGTTTAGAATACATGATAATATTATA
Found at i:200338 original size:3 final size:3
Alignment explanation
Indices: 200330--200373 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
200320 TATCCCATCA
200330 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
200374 ATTTTTAGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:203145 original size:2 final size:2
Alignment explanation
Indices: 203138--203185 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
203128 GATTAGAATA
203138 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
203180 AT AT AT
1 AT AT AT
203186 GGGATGAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:203334 original size:2 final size:2
Alignment explanation
Indices: 203327--203353 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
203317 TCAATCTCAA
203327 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
203354 GCAAAGAAAT
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:204648 original size:21 final size:21
Alignment explanation
Indices: 204622--204664 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
204612 AGCGTGATAG
204622 TTCACGATATTGACATGACAA
1 TTCACGATATTGACATGACAA
*
204643 TTCACGATGTTGACATGACAA
1 TTCACGATATTGACATGACAA
204664 T
1 T
204665 ACATTGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (21 bp):
TTCACGATATTGACATGACAA
Found at i:208989 original size:21 final size:20
Alignment explanation
Indices: 208965--209006 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
208955 TGCAAACTAT
208965 TAATATAGT-TAGTATCAAATA
1 TAATATAGTAT-GTA-CAAATA
*
208986 TAATTTAGTATGTACAAATA
1 TAATATAGTATGTACAAATA
209006 T
1 T
209007 TATGATACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 7 0.37
21 11 0.58
22 1 0.05
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (20 bp):
TAATATAGTATGTACAAATA
Found at i:213787 original size:31 final size:30
Alignment explanation
Indices: 213752--213819 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
213742 TAAAGTTTGA
* *
213752 AAAAGTTTAAG-GACTAAAAGGGTAATTTTTT
1 AAAAGTTT-AGTGACCAAAAGGGTAA-TTTTC
*
213783 AAAAGTTTAGTGACCAAAAGTGTAATTTTC
1 AAAAGTTTAGTGACCAAAAGGGTAATTTTC
213813 AAAAGTT
1 AAAAGTT
213820 ATGTATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 13 0.39
31 20 0.61
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.34
Consensus pattern (30 bp):
AAAAGTTTAGTGACCAAAAGGGTAATTTTC
Found at i:215036 original size:20 final size:20
Alignment explanation
Indices: 214998--215036 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
214988 TATTATGATG
*
214998 GAAATTAATGTTAGAATGTT
1 GAAATTAATGCTAGAATGTT
* *
215018 GAAATTGATGCTAGGATGT
1 GAAATTAATGCTAGAATGT
215037 GACATTGGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.36
Consensus pattern (20 bp):
GAAATTAATGCTAGAATGTT
Found at i:216419 original size:65 final size:64
Alignment explanation
Indices: 216350--216502 Score: 186
Period size: 65 Copynumber: 2.4 Consensus size: 64
216340 GAATAAATTG
* * *
216350 AACATCGAATGCATTTTATGCATCGAT-TCACATA-CCATGCATTGATGCACTCAGGGT-TTTAT
1 AACATCGAATGCATTTTATGCATCGATGT-AC-TAGCCATGAATCGATGCACTCAGGCTATTT-T
216412 GAA
63 G-A
* * *
216415 AACATCGAATGCATTTGATGCATTGATGTACTAGCCATGAATCGATGCACTCATGCTATTTTGA
1 AACATCGAATGCATTTTATGCATCGATGTACTAGCCATGAATCGATGCACTCAGGCTATTTTGA
*
216479 AACATCTAATGCATTTTATGCATC
1 AACATCGAATGCATTTTATGCATC
216503 CATGCACTGT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
64 24 0.32
65 48 0.63
66 4 0.05
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGTACTAGCCATGAATCGATGCACTCAGGCTATTTTGA
Found at i:222351 original size:23 final size:22
Alignment explanation
Indices: 222279--222358 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 22
222269 ACACTTAATA
*
222279 GTGCATCGATGTATCTCTCTGAAT
1 GTGCATCGATGCATC-CT-TGAAT
* *
222303 GTGCATCGATACAT-CATGAA-
1 GTGCATCGATGCATCCTTGAAT
222323 GATGCATCGATGCACTCCTTGAAT
1 G-TGCATCGATGCA-TCCTTGAAT
*
222347 GTGCATCTATGC
1 GTGCATCGATGC
222359 TCAAGGCCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 1 0.02
21 15 0.33
22 2 0.04
23 15 0.33
24 13 0.28
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTGAAT
Found at i:225142 original size:28 final size:28
Alignment explanation
Indices: 225111--225168 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
225101 AATAAATTGA
* *
225111 ACATCGAATGCATTTTATGCATCGATGC
1 ACATAGAATGCATTTTATGCATCAATGC
**
225139 ACATATCATGCATTTTATGCATCAATGC
1 ACATAGAATGCATTTTATGCATCAATGC
225167 AC
1 AC
225169 TCAGGCTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (28 bp):
ACATAGAATGCATTTTATGCATCAATGC
Found at i:226404 original size:39 final size:39
Alignment explanation
Indices: 226328--226404 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 39
226318 ATAGTCTATA
* * *
226328 TGGTGGACACAACGTTATGAATAAGCACTTCTATGCAAG
1 TGGTGGACACAACCTTATGAATAAGAACTTCGATGCAAG
* ** *
226367 TGGTGGACATAACCTTATGCGTAAGAACTTCGGTGCAA
1 TGGTGGACACAACCTTATGAATAAGAACTTCGATGCAA
226405 AATGTCTGAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (39 bp):
TGGTGGACACAACCTTATGAATAAGAACTTCGATGCAAG
Found at i:227222 original size:2 final size:2
Alignment explanation
Indices: 227215--227267 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
227205 GGGTGTTACA
227215 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
227257 AT AT AT AT AT A
1 AT AT AT AT AT A
227268 AAATACTATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:227889 original size:18 final size:18
Alignment explanation
Indices: 227847--227902 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
227837 ATAATTTTTG
* * *
227847 TATTTTTAATATATATAT
1 TATTTTTAGTATTTATTT
* *
227865 AATTTTTATTAATTTATTT
1 TATTTTTAGT-ATTTATTT
227884 TATTTTTAGTATTTATTT
1 TATTTTTAGTATTTATTT
227902 T
1 T
227903 TTTAAATACT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
18 17 0.55
19 14 0.45
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
TATTTTTAGTATTTATTT
Found at i:262610 original size:28 final size:28
Alignment explanation
Indices: 262542--262600 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
262532 ACCCTCATTT
262542 AAAACCTCTTCTAAGACCTAAAAAAGGA
1 AAAACCTCTTCTAAGACCTAAAAAAGGA
*
262570 AAAACCTCTTCTAAGACCTAAAAGAGGA
1 AAAACCTCTTCTAAGACCTAAAAAAGGA
262598 AAA
1 AAA
262601 GAGTGTTCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.51, C:0.20, G:0.12, T:0.17
Consensus pattern (28 bp):
AAAACCTCTTCTAAGACCTAAAAAAGGA
Found at i:264341 original size:31 final size:32
Alignment explanation
Indices: 264306--264376 Score: 74
Period size: 32 Copynumber: 2.2 Consensus size: 32
264296 CATCCGACCT
* *
264306 GAACCCGAATTTAAT-CGA-AAATATGATACCC
1 GAACCCGAACTGAATCCGACAAATATGA-ACCC
* * *
264337 GAACCTGAACTGCATCCGACTAATATGAACCC
1 GAACCCGAACTGAATCCGACAAATATGAACCC
264369 GAACCCGA
1 GAACCCGA
264377 GATTGACCTG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
31 11 0.34
32 14 0.44
33 7 0.22
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.18
Consensus pattern (32 bp):
GAACCCGAACTGAATCCGACAAATATGAACCC
Found at i:264428 original size:16 final size:16
Alignment explanation
Indices: 264403--264445 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
264393 AACTGGTATT
264403 ACCCGACCTGTTTTCA
1 ACCCGACCTGTTTTCA
* *
264419 ACCTGACCTGTTTTTA
1 ACCCGACCTGTTTTCA
264435 ACCCGACCTGT
1 ACCCGACCTGT
264446 AAATGTTCCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.19, C:0.35, G:0.14, T:0.33
Consensus pattern (16 bp):
ACCCGACCTGTTTTCA
Found at i:264723 original size:21 final size:22
Alignment explanation
Indices: 264697--264738 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
264687 AGGAAACTTA
264697 ATATAG-TTAATTTATATAAAT
1 ATATAGTTTAATTTATATAAAT
*
264718 ATATAGTTTAATTTATCTAAA
1 ATATAGTTTAATTTATATAAA
264739 GAAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (22 bp):
ATATAGTTTAATTTATATAAAT
Found at i:265239 original size:19 final size:20
Alignment explanation
Indices: 265203--265240 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
265193 TTTTCTATTC
*
265203 CCTCTAAATTTTCCAATTTT
1 CCTCTAAATTTCCCAATTTT
265223 CCTCTAAA-TTCCCAATTT
1 CCTCTAAATTTCCCAATTT
265241 CCCTATATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (20 bp):
CCTCTAAATTTCCCAATTTT
Found at i:265372 original size:2 final size:2
Alignment explanation
Indices: 265354--265406 Score: 81
Period size: 2 Copynumber: 26.5 Consensus size: 2
265344 TTTGAATAAA
*
265354 AT AT AC AT AT A- AT AT AT AT AT AT AT AT AT AGT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
265396 AT AT AT AT AT A
1 AT AT AT AT AT A
265407 GATAATTATA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
1 1 0.02
2 44 0.94
3 2 0.04
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:265865 original size:2 final size:2
Alignment explanation
Indices: 265858--265903 Score: 76
Period size: 2 Copynumber: 23.0 Consensus size: 2
265848 CTTATGTTTA
265858 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
265900 AT AT
1 AT AT
265904 TATTCAAAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.02
2 40 0.95
3 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:266274 original size:15 final size:15
Alignment explanation
Indices: 266249--266285 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
266239 CCAAACCATG
266249 TATAGTATATATAAAC
1 TATA-TATATATAAAC
*
266265 TATATATATATAACC
1 TATATATATATAAAC
266280 TATATA
1 TATATA
266286 ATGTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:266451 original size:15 final size:15
Alignment explanation
Indices: 266431--266466 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
266421 ACATATAAAC
266431 TATATAGTTTATACA
1 TATATAGTTTATACA
*
266446 TATATAGTTTATATA
1 TATATAGTTTATACA
266461 TATATA
1 TATATA
266467 CTATATCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:266478 original size:66 final size:67
Alignment explanation
Indices: 266392--266527 Score: 184
Period size: 66 Copynumber: 2.0 Consensus size: 67
266382 TAATGCATAC
* * * *
266392 ATATATATACTATATTAATATAAATTATAACATATAAACTATATAGTTTA-TACATATATAGTTT
1 ATATATATACTATATCAATATAAATAATAACATATAAACTATATACTTTAGTACACATATAGTTT
266456 AT
66 AT
*** **
266458 ATATATATACTATATCAATATAAATAATATTTTATAAACTATATACTTTAGTTTACATATAGTTT
1 ATATATATACTATATCAATATAAATAATAACATATAAACTATATACTTTAGTACACATATAGTTT
266523 AT
66 AT
266525 ATA
1 ATA
266528 CATAGTTCAC
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
66 44 0.73
67 16 0.27
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.45
Consensus pattern (67 bp):
ATATATATACTATATCAATATAAATAATAACATATAAACTATATACTTTAGTACACATATAGTTT
AT
Found at i:266531 original size:15 final size:15
Alignment explanation
Indices: 266432--266531 Score: 56
Period size: 15 Copynumber: 6.2 Consensus size: 15
266422 CATATAAACT
* *
266432 ATATAGTTTATACAT
1 ATATAGTTTATATAC
*
266447 ATATAGTTTATATAT
1 ATATAGTTTATATAC
* *
266462 ATATACTATATCAATATAA
1 ATATAGT-T-T--ATATAC
* *
266481 ATAATATTTTATAAAC
1 AT-ATAGTTTATATAC
* *
266497 TATATACTTTAGTTTAC
1 -ATATAGTTTA-TATAC
266514 ATATAGTTTATATAC
1 ATATAGTTTATATAC
266529 ATA
1 ATA
266532 GTTCACATAA
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
15 27 0.40
16 21 0.31
17 6 0.09
18 1 0.01
19 8 0.12
20 4 0.06
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (15 bp):
ATATAGTTTATATAC
Found at i:266661 original size:21 final size:19
Alignment explanation
Indices: 266635--266683 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
266625 ATAATTTATA
*
266635 TATAATAATAATTATGTAGTT
1 TATAATAATAA--ATATAGTT
266656 TATAAT-ATAAATATAGTT
1 TATAATAATAAATATAGTT
266674 TATATATAAT
1 TATA-ATAAT
266684 TTAAATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 11 0.44
19 2 0.08
20 6 0.24
21 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (19 bp):
TATAATAATAAATATAGTT
Done.