Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold14
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: 2879421
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 64274 characters in sequence are not A, C, G, or T
File 9 of 17
Found at i:1493888 original size:2 final size:2
Alignment explanation
Indices: 1493881--1493930 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
1493871 GTATGTGAAA
*
1493881 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1493923 AT AT AT AT
1 AT AT AT AT
1493931 GATTTTCATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1494882 original size:13 final size:13
Alignment explanation
Indices: 1494864--1494888 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1494854 GTTTAAGACA
1494864 AAATGTTATTAAT
1 AAATGTTATTAAT
1494877 AAATGTTATTAA
1 AAATGTTATTAA
1494889 ACATATGAGG
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):
AAATGTTATTAAT
Found at i:1497661 original size:26 final size:25
Alignment explanation
Indices: 1497632--1497683 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
1497622 GGAAAAACTC
1497632 AAGAA-AAAGAAAAACTGAAAAAATAA
1 AAGAAGAAAGAAAAA-TG-AAAAATAA
*
1497658 AAGAAGAAATAAAAATGAAAAATAA
1 AAGAAGAAAGAAAAATGAAAAATAA
1497683 A
1 A
1497684 TATAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 9 0.38
26 7 0.29
27 8 0.33
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.10
Consensus pattern (25 bp):
AAGAAGAAAGAAAAATGAAAAATAA
Found at i:1497684 original size:17 final size:18
Alignment explanation
Indices: 1497650--1497693 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
1497640 GAAAAACTGA
1497650 AAAAATAAAAGAAGAAAT
1 AAAAATAAAAGAAGAAAT
* *
1497668 AAAAATGAAA-AATAAAT
1 AAAAATAAAAGAAGAAAT
*
1497685 ATAAATAAA
1 AAAAATAAA
1497694 TAAAGCAGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (18 bp):
AAAAATAAAAGAAGAAAT
Found at i:1500210 original size:18 final size:18
Alignment explanation
Indices: 1500189--1500224 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1500179 TAAATTATTC
*
1500189 AACAAATTTATTTTATAT
1 AACAAATTAATTTTATAT
1500207 AACAAATTAATTTTATAT
1 AACAAATTAATTTTATAT
1500225 CTTTTTGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (18 bp):
AACAAATTAATTTTATAT
Found at i:1500434 original size:16 final size:16
Alignment explanation
Indices: 1500393--1500471 Score: 68
Period size: 16 Copynumber: 4.8 Consensus size: 16
1500383 AAATTGATGT
*
1500393 AAAAAATATTAGAACCTG
1 AAAAAAT-TTA-AACCTA
*
1500411 AAATAATTTAAACCTA
1 AAAAAATTTAAACCTA
* *
1500427 AAAAAATTCAAACATA
1 AAAAAATTTAAACCTA
* * * *
1500443 AAATAACTTGAACTTA
1 AAAAAATTTAAACCTA
1500459 AAAAAATTTAAAC
1 AAAAAATTTAAAC
1500472 TCGAAATAAT
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
16 39 0.81
17 3 0.06
18 6 0.12
ACGTcount: A:0.59, C:0.11, G:0.04, T:0.25
Consensus pattern (16 bp):
AAAAAATTTAAACCTA
Found at i:1500447 original size:32 final size:31
Alignment explanation
Indices: 1500411--1500495 Score: 91
Period size: 32 Copynumber: 2.7 Consensus size: 31
1500401 TTAGAACCTG
1500411 AAATAATTTAAACCTAAAAAAATTCAAACAT-A
1 AAATAA-TTAAACCTAAAAAAATTCAAAC-TCA
* * * *
1500443 AAATAACTTGAACTTAAAAAAATTTAAACTCG
1 AAATAA-TTAAACCTAAAAAAATTCAAACTCA
*
1500475 AAATAATTAAAACTAAAAAAA
1 AAATAATTAAACCTAAAAAAA
1500496 GTCTGACCCG
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
31 13 0.30
32 31 0.70
ACGTcount: A:0.62, C:0.11, G:0.02, T:0.25
Consensus pattern (31 bp):
AAATAATTAAACCTAAAAAAATTCAAACTCA
Found at i:1500472 original size:16 final size:16
Alignment explanation
Indices: 1500415--1500495 Score: 65
Period size: 16 Copynumber: 5.1 Consensus size: 16
1500405 AACCTGAAAT
*
1500415 AATTTAAACCTAAAAA
1 AATTTAAACTTAAAAA
* * *
1500431 AATTCAAACATAAAAT
1 AATTTAAACTTAAAAA
* *
1500447 AACTTGAACTTAAAAA
1 AATTTAAACTTAAAAA
** *
1500463 AATTTAAACTCGAAAT
1 AATTTAAACTTAAAAA
*
1500479 AATTAAAAC-TAAAAA
1 AATTTAAACTTAAAAA
1500494 AA
1 AA
1500496 GTCTGACCCG
Statistics
Matches: 48, Mismatches: 17, Indels: 1
0.73 0.26 0.02
Matches are distributed among these distances:
15 5 0.10
16 43 0.90
ACGTcount: A:0.62, C:0.11, G:0.02, T:0.25
Consensus pattern (16 bp):
AATTTAAACTTAAAAA
Found at i:1501233 original size:19 final size:19
Alignment explanation
Indices: 1501209--1501276 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
1501199 AATTCAACAA
*
1501209 TTTGTATCAATACATAAGT
1 TTTGTATCGATACATAAGT
1501228 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1501243 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1501260 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1501277 TTAGCTACTG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 27 0.64
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1501248 original size:13 final size:13
Alignment explanation
Indices: 1501230--1501254 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1501220 ACATAAGTTT
1501230 TGTATCGATACAA
1 TGTATCGATACAA
1501243 TGTATCGATACA
1 TGTATCGATACA
1501255 TAAGTATTGT
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:1501254 original size:32 final size:32
Alignment explanation
Indices: 1501211--1501273 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1501201 TTCAACAATT
*
1501211 TGTATCAATACATAAGTTTTGTATCGATACAA
1 TGTATCAATACATAAGTATTGTATCGATACAA
*
1501243 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCAATACATAAGTATTGTATCGATACA
1501274 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (32 bp):
TGTATCAATACATAAGTATTGTATCGATACAA
Found at i:1503862 original size:31 final size:28
Alignment explanation
Indices: 1503780--1503851 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
1503770 TTTCACAATC
* * **
1503780 GGGATACTCAAACCCCGTTA-ATCATAG
1 GGGATACTCCAACCCCGTTATTTCCGAG
1503807 GGGATACTCCAACCCCGTTATTTCCGAG
1 GGGATACTCCAACCCCGTTATTTCCGAG
1503835 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
1503852 ACTTTATTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 19 0.47
28 21 0.52
ACGTcount: A:0.26, C:0.32, G:0.21, T:0.21
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATTTCCGAG
Found at i:1504013 original size:53 final size:53
Alignment explanation
Indices: 1503834--1504056 Score: 204
Period size: 52 Copynumber: 4.3 Consensus size: 53
1503824 TTATTTCCGA
* ** * ***
1503834 GGGGATACTCCAACCCCGACTTTATTTCC-AAAATATTGATTTTT-CATAATC
1 GGGGATACTCAAACCCCGGTTTTATTTCCAAAAACACCAATTTTTCCATAATC
* * * *
1503885 GGGGATACTCAAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCAAACCCCGGTTTTATTTCCAAAAACACCAATTTTTCCATAATC
* * *
1503937 GGGGATACTCTAACCCCGGTTTTATTTTC-AAAACACCAATTTTTCCTTTAATC
1 GGGGATACTCAAACCCCGGTTTTATTTCCAAAAACACCAATTTTTCC-ATAATC
* ** * * *
1503990 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCAAACCCCGGTTTTATTTCCAAAAACACCAATTTTTCCATAATC
* *
1504042 GAGGATACTCCAACC
1 GGGGATACTCAAACC
1504057 TCGTTATCTC
Statistics
Matches: 143, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
50 3 0.02
51 33 0.23
52 61 0.43
53 32 0.22
54 14 0.10
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (53 bp):
GGGGATACTCAAACCCCGGTTTTATTTCCAAAAACACCAATTTTTCCATAATC
Found at i:1504130 original size:28 final size:28
Alignment explanation
Indices: 1504044--1504143 Score: 107
Period size: 28 Copynumber: 3.6 Consensus size: 28
1504034 TCACAATCGA
* *
1504044 GGATACTCCAACCTCGTTATCTCATCG--G
1 GGATACTCCAACCCCGTTAT-T-TTCGAAG
* *
1504072 GGATACTCCAACCCCGTTA-CTTCCAAGG
1 GGATACTCCAACCCCGTTATTTTCGAA-G
1504100 GGATACTCCAACCCCGTTATTTTCGAAG
1 GGATACTCCAACCCCGTTATTTTCGAAG
*
1504128 GGATACTCCAATCCCG
1 GGATACTCCAACCCCG
1504144 ATTTTTTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
25 2 0.03
28 54 0.89
29 5 0.08
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATTTTCGAAG
Found at i:1505881 original size:20 final size:20
Alignment explanation
Indices: 1505856--1505901 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
1505846 AAATAGAGGC
*
1505856 TCCCTCCTCCCTCTCAAGTA
1 TCCCTCATCCCTCTCAAGTA
**
1505876 TCCCTCATCCCTCTCTTGTA
1 TCCCTCATCCCTCTCAAGTA
1505896 TCCCTC
1 TCCCTC
1505902 TTCAATTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.11, C:0.50, G:0.04, T:0.35
Consensus pattern (20 bp):
TCCCTCATCCCTCTCAAGTA
Found at i:1510313 original size:27 final size:28
Alignment explanation
Indices: 1510279--1510349 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 28
1510269 GCCACCCATT
1510279 TGTTTGTCAAAAATGGTGG-TTATTTTG
1 TGTTTGTCAAAAATGGTGGTTTATTTTG
*
1510306 TGTTTGTCAAAAATGGTGGTTTCTTTTG
1 TGTTTGTCAAAAATGGTGGTTTATTTTG
*
1510334 -GATTTGTCAAATATGG
1 TG-TTTGTCAAAAATGG
1510350 AGGCTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.23, C:0.06, G:0.25, T:0.46
Consensus pattern (28 bp):
TGTTTGTCAAAAATGGTGGTTTATTTTG
Found at i:1511847 original size:21 final size:23
Alignment explanation
Indices: 1511797--1511847 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
1511787 TTTACATTTA
* *
1511797 AAAGAAAATTACATTGAAGTATG
1 AAAGAAAATTACATTGAAATAGG
1511820 AAA-AAAA-TACATT-AAATAGG
1 AAAGAAAATTACATTGAAATAGG
1511840 AAAGAAAA
1 AAAGAAAA
1511848 GTGATACTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 8 0.32
21 10 0.40
22 4 0.16
23 3 0.12
ACGTcount: A:0.63, C:0.04, G:0.14, T:0.20
Consensus pattern (23 bp):
AAAGAAAATTACATTGAAATAGG
Found at i:1513087 original size:21 final size:21
Alignment explanation
Indices: 1513051--1513097 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
1513041 TTTGTTTGAT
1513051 AATTATATAAATATAATAAAAA
1 AATTATATAAATATAA-AAAAA
*
1513073 AATTAT-TATATATAAAAAAA
1 AATTATATAAATATAAAAAAA
1513093 AATTA
1 AATTA
1513098 ATTTGAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.42
21 8 0.33
22 6 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AATTATATAAATATAAAAAAA
Found at i:1514562 original size:19 final size:18
Alignment explanation
Indices: 1514526--1514576 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
1514516 TCAAAATCAT
1514526 ATTTATTTTTTAAATAAA
1 ATTTATTTTTTAAATAAA
* *
1514544 ATTTAATTTTTT-ATTTAA
1 ATTT-ATTTTTTAAATAAA
*
1514562 ATTCATTTTTTAAAT
1 ATTTATTTTTTAAAT
1514577 CTAATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 7 0.26
18 13 0.48
19 7 0.26
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTATTTTTTAAATAAA
Found at i:1514767 original size:11 final size:11
Alignment explanation
Indices: 1514731--1514769 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1514721 ATACTCTTAG
*
1514731 TTTTATATTTA
1 TTTTAAATTTA
*
1514742 TATTAAATTTA
1 TTTTAAATTTA
*
1514753 TTTTAAATTTT
1 TTTTAAATTTA
1514764 TTTTAA
1 TTTTAA
1514770 TAAATTCACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTAAATTTA
Found at i:1515297 original size:17 final size:17
Alignment explanation
Indices: 1515277--1515328 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
1515267 TATCAGTTTA
1515277 TTAAATAATTAATTATT
1 TTAAATAATTAATTATT
* *
1515294 TTAAATATTTACTTA-T
1 TTAAATAATTAATTATT
*
1515310 TTAAAAAATT-A-TATT
1 TTAAATAATTAATTATT
1515325 TTAA
1 TTAA
1515329 GTACTTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 2 0.07
15 5 0.17
16 9 0.31
17 13 0.45
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATAATTAATTATT
Found at i:1516621 original size:14 final size:14
Alignment explanation
Indices: 1516604--1516637 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1516594 GGATTATTTT
1516604 TTAAAAAATAATCA
1 TTAAAAAATAATCA
*
1516618 TTAACAAATAATCA
1 TTAAAAAATAATCA
*
1516632 TCAAAA
1 TTAAAA
1516638 TTTTTTTCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (14 bp):
TTAAAAAATAATCA
Found at i:1517606 original size:52 final size:55
Alignment explanation
Indices: 1517545--1517654 Score: 138
Period size: 52 Copynumber: 2.1 Consensus size: 55
1517535 GATTTAATAA
* * *
1517545 AAAAAAATTAACTTTCA-ATTTAAATATTATTTAAATCAAATTAA-A-A-ATAATT
1 AAAAAAATTAA-TTTCATAATAAAATATAATTTAAATCAAATTAATAGATATAATT
* *
1517597 AAAAAAATTAATTTGATAATAAAATATAATTTAATTCAAATTAATAGATATAATT
1 AAAAAAATTAATTTCATAATAAAATATAATTTAAATCAAATTAATAGATATAATT
1517652 AAA
1 AAA
1517655 GATTTTAAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
51 4 0.08
52 34 0.69
53 1 0.02
54 1 0.02
55 9 0.18
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (55 bp):
AAAAAAATTAATTTCATAATAAAATATAATTTAAATCAAATTAATAGATATAATT
Found at i:1518904 original size:21 final size:22
Alignment explanation
Indices: 1518880--1518931 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
1518870 TTTTATAATT
1518880 TTAATTTATTATT-AATAAAAA
1 TTAATTTATTATTAAATAAAAA
* *
1518901 TTAATTTTTTATTAAATAATAA
1 TTAATTTATTATTAAATAAAAA
1518923 TT-ATTTATT
1 TTAATTTATT
1518932 TAAAATTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTTATTATTAAATAAAAA
Found at i:1522629 original size:17 final size:17
Alignment explanation
Indices: 1522607--1522640 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1522597 AAATAAACAC
1522607 TTGTAACAGCAGGAGAA
1 TTGTAACAGCAGGAGAA
1522624 TTGTAACAGCAGGAGAA
1 TTGTAACAGCAGGAGAA
1522641 AGAACCCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.29, T:0.18
Consensus pattern (17 bp):
TTGTAACAGCAGGAGAA
Found at i:1523964 original size:21 final size:20
Alignment explanation
Indices: 1523922--1523967 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
1523912 CTTAAAATTA
*
1523922 AAAAAATTATTTAATTATAT
1 AAAAAATTATTCAATTATAT
1523942 AAAAAATTATTCATATCTA-AT
1 AAAAAATTATTCA-AT-TATAT
1523963 AAAAA
1 AAAAA
1523968 TGTGAGTGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 12 0.52
21 9 0.39
22 2 0.09
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAAATTATTCAATTATAT
Found at i:1524675 original size:48 final size:48
Alignment explanation
Indices: 1524603--1524706 Score: 145
Period size: 48 Copynumber: 2.1 Consensus size: 48
1524593 TATCATATAT
* *
1524603 ATATATATATATATGCACATAACATTTAAAATTAACAAAATATATCTA
1 ATATATAGATATATGCACACAACATTTAAAATTAACAAAATATATCTA
** * *
1524651 ATATATAGATATATGCATGCAACATTTTAAATTAACAAAATGTATCTA
1 ATATATAGATATATGCACACAACATTTAAAATTAACAAAATATATCTA
1524699 ATTATATA
1 A-TATATA
1524707 TTATTAAGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
48 43 0.88
49 6 0.12
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.37
Consensus pattern (48 bp):
ATATATAGATATATGCACACAACATTTAAAATTAACAAAATATATCTA
Found at i:1526205 original size:20 final size:21
Alignment explanation
Indices: 1526164--1526205 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
1526154 AAAATTGGAT
* *
1526164 ATAATTTGAACCAATAAGAAA
1 ATAATTTGAACCAACAAAAAA
1526185 ATAATTT-AACCAACAAAAAA
1 ATAATTTGAACCAACAAAAAA
1526205 A
1 A
1526206 AAGATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.21
Consensus pattern (21 bp):
ATAATTTGAACCAACAAAAAA
Found at i:1526206 original size:21 final size:21
Alignment explanation
Indices: 1526164--1526206 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1526154 AAAATTGGAT
* *
1526164 ATAATTTGAACCAATAAGAAA
1 ATAATTTGAACCAAAAAAAAA
1526185 ATAATTT-AACCAACAAAAAAA
1 ATAATTTGAACCAA-AAAAAAA
1526206 A
1 A
1526207 AGATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.63, C:0.12, G:0.05, T:0.21
Consensus pattern (21 bp):
ATAATTTGAACCAAAAAAAAA
Found at i:1527759 original size:19 final size:20
Alignment explanation
Indices: 1527732--1527771 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
1527722 TAGGATGGTA
1527732 TTTTATCTTT-AAAAATAAT
1 TTTTATCTTTCAAAAATAAT
* *
1527751 TTTTTTCTTTCAAAGATAAT
1 TTTTATCTTTCAAAAATAAT
1527771 T
1 T
1527772 ATTGATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTTATCTTTCAAAAATAAT
Found at i:1530832 original size:37 final size:38
Alignment explanation
Indices: 1530760--1530833 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 38
1530750 ATTATTATGG
* *
1530760 AGGGTTATAGTATGATGCCCATCATTGTATCATTGTAA
1 AGGGTTATAGTACGATGCCCATCATTGCATCATTGTAA
* * *
1530798 AGGGTTGTAGTACGTTGCCC-TCATTGCATTATTGTA
1 AGGGTTATAGTACGATGCCCATCATTGCATCATTGTA
1530834 TCAATCAAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
37 14 0.45
38 17 0.55
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (38 bp):
AGGGTTATAGTACGATGCCCATCATTGCATCATTGTAA
Found at i:1531071 original size:17 final size:18
Alignment explanation
Indices: 1531049--1531087 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1531039 CATTAATTCT
1531049 TTTTTTTA-ATA-AATCAG
1 TTTTTTTATATACAA-CAG
1531066 TTTTTTTATATACAACAG
1 TTTTTTTATATACAACAG
1531084 TTTT
1 TTTT
1531088 CATTTAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 10 0.50
19 2 0.10
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (18 bp):
TTTTTTTATATACAACAG
Found at i:1533409 original size:8 final size:8
Alignment explanation
Indices: 1533392--1533439 Score: 57
Period size: 8 Copynumber: 6.2 Consensus size: 8
1533382 ATTTGACATT
1533392 AATA-AAA
1 AATATAAA
1533399 AATATAAA
1 AATATAAA
*
1533407 AATAAAAA
1 AATATAAA
1533415 AATAT-AA
1 AATATAAA
1533422 AATA-AGAA
1 AATATA-AA
1533430 AATATAAA
1 AATATAAA
1533438 AA
1 AA
1533440 AATATATACA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
7 10 0.29
8 24 0.69
9 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (8 bp):
AATATAAA
Found at i:1533416 original size:16 final size:16
Alignment explanation
Indices: 1533395--1533439 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 16
1533385 TGACATTAAT
1533395 AAAAAATATAAAAATA
1 AAAAAATATAAAAATA
1533411 AAAAAATAT-AAAATA
1 AAAAAATATAAAAATA
*
1533426 AGAAAATATAAAAA
1 AAAAAATATAAAAA
1533440 AATATATACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAAAATATAAAAATA
Found at i:1533454 original size:15 final size:14
Alignment explanation
Indices: 1533392--1533454 Score: 58
Period size: 15 Copynumber: 4.5 Consensus size: 14
1533382 ATTTGACATT
*
1533392 AATAAAAAATATAAA
1 AATAAAAAA-ATATA
1533407 AATAAAAAAATATAA
1 AATAAAAAAATAT-A
*
1533422 AATAAGAAAATAT-
1 AATAAAAAAATATA
*
1533435 AA-AAAAATATATA
1 AATAAAAAAATATA
*
1533448 CATAAAA
1 AATAAAA
1533455 GTAGTGATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
12 8 0.20
13 3 0.08
14 7 0.17
15 22 0.55
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.21
Consensus pattern (14 bp):
AATAAAAAAATATA
Found at i:1533723 original size:13 final size:13
Alignment explanation
Indices: 1533634--1533730 Score: 67
Period size: 13 Copynumber: 7.2 Consensus size: 13
1533624 TGCATTGCCT
1533634 TGCATTTCATGCA
1 TGCATTTCATGCA
* *
1533647 TGC-TTTCTTTCA
1 TGCATTTCATGCA
1533659 TG--TTTCATGCCA
1 TGCATTTCATG-CA
1533671 TAAGTTCATTTCATGCA
1 T--G--CATTTCATGCA
*
1533688 TTGTATTTCATTGCA
1 -TGCATTTCA-TGCA
1533703 TTGC-TTTCATGCA
1 -TGCATTTCATGCA
1533716 TGCATTTCATGCA
1 TGCATTTCATGCA
1533729 TG
1 TG
1533731 AACATGTTGA
Statistics
Matches: 68, Mismatches: 6, Indels: 20
0.72 0.06 0.21
Matches are distributed among these distances:
11 5 0.07
12 15 0.22
13 18 0.26
14 12 0.18
15 7 0.10
16 1 0.01
17 2 0.03
18 8 0.12
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (13 bp):
TGCATTTCATGCA
Found at i:1533995 original size:21 final size:22
Alignment explanation
Indices: 1533948--1534001 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
1533938 CAACTGCTAT
1533948 AAAAAGAAAAAAAAGGCAAGTTCA
1 AAAAAGAAAAAAAAGGCAAG-T-A
1533972 AAAAAGAAAAAGAAAGG-AAG-A
1 AAAAAGAAAAA-AAAGGCAAGTA
*
1533993 AAACAGAAA
1 AAAAAGAAA
1534002 GCAATCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 9 0.32
24 14 0.50
25 5 0.18
ACGTcount: A:0.72, C:0.06, G:0.19, T:0.04
Consensus pattern (22 bp):
AAAAAGAAAAAAAAGGCAAGTA
Found at i:1542150 original size:49 final size:49
Alignment explanation
Indices: 1542083--1542717 Score: 511
Period size: 52 Copynumber: 12.9 Consensus size: 49
1542073 TTAAAAATGT
* * * *
1542083 CAATATGCTGATTCAAGGCCAGCAATATCGGACTTAAAGATGATGGTAC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGATGGTGC
* * *
1542132 CAATGTGCTAATTCAAGGCCAGTGACATTGGACTTAAGATATGAAGGATGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGAC-T----TA--AA-GATGAT---GGTGC
* *
1542192 CAATATGCTGATTCAAGGCCAACGATATTGGACTT-AA-A--A--GTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGATGGTGC
* * * *
1542235 CAATGTGCTGATTCAAGGCCAACGACATTGGGCTTGAAGATGA-GAAGAATGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGATG--G--TGC
* * * * * *
1542287 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTA--AA-GATGATGGTGC
* * * *
1542339 CAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGATGGTGC
* * **
1542388 TAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGATGGTGC
* *
1542437 CAATGTCCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGGCAAAT-GTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G---ATGGTGC
*
1542489 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG--G-T-GT--
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGATGGTGC
* * *
1542532 CAATGTGCTGATTCAAGGCTAGCGACATTAGACTT-AA-A--A--GTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGATGGTGC
* *
1542575 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGACAAGGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---ATGGTGC
* * ** * *
1542627 CAATATGCTAATTCAAGGCCAATGATATTAGACTT-AAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGATGGTGC
* *
1542675 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGA
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA
1542718 CAAAGGTACC
Statistics
Matches: 482, Mismatches: 62, Indels: 84
0.77 0.10 0.13
Matches are distributed among these distances:
41 2 0.00
42 2 0.00
43 99 0.21
44 4 0.01
45 4 0.01
47 1 0.00
48 35 0.07
49 124 0.26
50 7 0.01
51 5 0.01
52 148 0.31
53 1 0.00
54 4 0.01
55 4 0.01
56 3 0.01
57 6 0.01
59 1 0.00
60 32 0.07
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGATGGTGC
Found at i:1542211 original size:109 final size:104
Alignment explanation
Indices: 1542083--1542275 Score: 262
Period size: 109 Copynumber: 1.8 Consensus size: 104
1542073 TTAAAAATGT
*
1542083 CAATATGCTGATTCAAGGCCAGCAATATCGGACTTAAAGATGATGGTACCAATGTGCTAATTCAA
1 CAATATGCTGATTCAAGGCCAACAATATCGGACTTAAA-A-G-T-G--CCAATGTGCTAATTCAA
**
1542148 GGCCAGTGACATTGGACTT-AAGATATGAAGGATGATAAAGGTGC
60 GGCCAACGACATTGGACTTGAAGATATGAAGGATGATAAAGGTGC
* * *
1542192 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGCCAA
1 CAATATGCTGATTCAAGGCCAACAATATCGGACTTAAAAGTGCCAATGTGCTAATTCAAGGCCAA
*
1542257 CGACATTGGGCTTGAAGAT
66 CGACATTGGACTTGAAGAT
1542276 GAGAAGAATG
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
103 32 0.42
104 5 0.07
105 1 0.01
106 1 0.01
107 1 0.01
108 1 0.01
109 35 0.46
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (104 bp):
CAATATGCTGATTCAAGGCCAACAATATCGGACTTAAAAGTGCCAATGTGCTAATTCAAGGCCAA
CGACATTGGACTTGAAGATATGAAGGATGATAAAGGTGC
Found at i:1543506 original size:13 final size:13
Alignment explanation
Indices: 1543488--1543513 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1543478 TAATTTTTTG
1543488 TGTATCGATACAT
1 TGTATCGATACAT
1543501 TGTATCGATACAT
1 TGTATCGATACAT
1543514 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:1543597 original size:20 final size:20
Alignment explanation
Indices: 1543552--1543627 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
1543542 CTGCCAAGAA
***
1543552 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGAATC
1543573 ATGTATCGATACATTGCAA-C
1 ATGTATCGATACATTG-AATC
* *
1543593 ATGTATCGATACTTTGAATT
1 ATGTATCGATACATTGAATC
*
1543613 GTGTATCGATACATT
1 ATGTATCGATACATT
1543628 TAAGGGTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.04
20 30 0.65
21 14 0.30
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTGAATC
Found at i:1543968 original size:50 final size:50
Alignment explanation
Indices: 1543903--1544139 Score: 164
Period size: 50 Copynumber: 4.7 Consensus size: 50
1543893 ACAGTACCAA
*
1543903 TATGCTAATTCAAGGCCAGTGATATCGA-ACTTAAAGATGAAGGGTGTCAC
1 TATGCTAATTCAAGGCCAGCGATAT-GAGACTTAAAGATGAAGGGTGTCAC
* * *
1543953 TATGCTAATTTAAGGCCAGCGATATTAGACTTAAAGATGAAGGGTG-CTAA
1 TATGCTAATTCAAGGCCAGCGATATGAGACTTAAAGATGAAGGGTGTC-AC
* * ** * *
1544003 TATG-TCGATTCAAGGCCAGCGATATTG-GACTTAAAGGTGGTAAAAGTGCCAA
1 TATGCT-AATTCAAGGCCAGCGATA-TGAGACTTAAAGAT-G-AAGGGTGTCAC
* * * * * * * *
1544055 TATACTGATTCAATGCCAACGATATTG-GACTTAAAGGTGTTAAAGGTGCCAG
1 TATGCTAATTCAAGGCCAGCGATA-TGAGACTTAAAGATG--AAGGGTGTCAC
*
1544107 TATGCTGATTCAAGGCCAG-GATATTGA-ACTTAA
1 TATGCTAATTCAAGGCCAGCGATA-TGAGACTTAA
1544140 GAAAGAAAAA
Statistics
Matches: 159, Mismatches: 18, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
49 3 0.02
50 72 0.45
51 16 0.10
52 66 0.42
53 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (50 bp):
TATGCTAATTCAAGGCCAGCGATATGAGACTTAAAGATGAAGGGTGTCAC
Found at i:1544078 original size:52 final size:52
Alignment explanation
Indices: 1544009--1544139 Score: 183
Period size: 52 Copynumber: 2.5 Consensus size: 52
1543999 CTAATATGTC
*
1544009 GATTCAAGGCCAGCGATATTGGACTTAAAGGTGGTAAAAGTGCCAATATACT
1 GATTCAAGGCCAACGATATTGGACTTAAAGGTGGTAAAAGTGCCAATATACT
* * * * *
1544061 GATTCAATGCCAACGATATTGGACTTAAAGGTGTTAAAGGTGCCAGTATGCT
1 GATTCAAGGCCAACGATATTGGACTTAAAGGTGGTAAAAGTGCCAATATACT
* *
1544113 GATTCAAGGCC-AGGATATTGAACTTAA
1 GATTCAAGGCCAACGATATTGGACTTAA
1544140 GAAAGAAAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
51 14 0.20
52 56 0.80
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (52 bp):
GATTCAAGGCCAACGATATTGGACTTAAAGGTGGTAAAAGTGCCAATATACT
Found at i:1544166 original size:103 final size:102
Alignment explanation
Indices: 1543964--1544195 Score: 245
Period size: 103 Copynumber: 2.3 Consensus size: 102
1543954 ATGCTAATTT
* * * *
1543964 AAGGCCAGCGATATTAGACTTAAAGATGAAGGGTGCTAATATGTCGATTCAAGGCCAGCGATATT
1 AAGGCCAGCGATATTGGACTTAAAGGTGAAAGGTGCCAATATGTCGATTCAAGGCCAGCGATATT
* *** * *
1544029 GGACTTAAAGGTGGTAAAAGTGCCAATATACTGATTC
66 GAACTTAAAGAAAGAAAAAGTCCCAATATACTGATTC
* * *
1544066 AATGCCAACGATATTGGACTTAAAGGTGTTAAAGGTGCCAGTATG-CTGATTCAAGGCCAG-GAT
1 AAGGCCAGCGATATTGGACTTAAAGGTG--AAAGGTGCCAATATGTC-GATTCAAGGCCAGCGAT
* *
1544129 ATTGAACTT-AAGAAAGAAAAAGATCCCAATGTGCTGATTC
63 ATTGAACTTAAAGAAAGAAAAAG-TCCCAATATACTGATTC
* *
1544169 AAGGCCAGCGATAGTGGGCTTAGAAGG
1 AAGGCCAGCGATATTGGACTTA-AAGG
1544196 GTTGCCACCG
Statistics
Matches: 106, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
102 33 0.31
103 44 0.42
104 29 0.27
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.24
Consensus pattern (102 bp):
AAGGCCAGCGATATTGGACTTAAAGGTGAAAGGTGCCAATATGTCGATTCAAGGCCAGCGATATT
GAACTTAAAGAAAGAAAAAGTCCCAATATACTGATTC
Found at i:1544262 original size:27 final size:27
Alignment explanation
Indices: 1544227--1544282 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
1544217 CTTTAGAAAG
*
1544227 GGGTGCCACGGAGTTATAGACTTAAAA
1 GGGTGCCACAGAGTTATAGACTTAAAA
* *
1544254 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACAGAGTTATAGACTTAAAA
1544281 GG
1 GG
1544283 AAAATATGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.21
Consensus pattern (27 bp):
GGGTGCCACAGAGTTATAGACTTAAAA
Found at i:1544293 original size:59 final size:59
Alignment explanation
Indices: 1544230--1544359 Score: 170
Period size: 59 Copynumber: 2.2 Consensus size: 59
1544220 TAGAAAGGGG
* * ** *
1544230 TGCCACGGAGTTATAGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAATA
1 TGCCACGGAGTTATAGACTTAAAAGGGTGCCACAAAGTTGTGAACTTAAAAAAAAAAGA
* * * *
1544289 TGCCATGGAGTTGTGGGCTTAAAAGGGTGCCACAAAGTTGTGAACTTAAAAAAAAAAGA
1 TGCCACGGAGTTATAGACTTAAAAGGGTGCCACAAAGTTGTGAACTTAAAAAAAAAAGA
*
1544348 TGCCACTGAGTT
1 TGCCACGGAGTT
1544360 GTTGGCTTTG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (59 bp):
TGCCACGGAGTTATAGACTTAAAAGGGTGCCACAAAGTTGTGAACTTAAAAAAAAAAGA
Found at i:1544300 original size:32 final size:32
Alignment explanation
Indices: 1544250--1544723 Score: 360
Period size: 32 Copynumber: 15.0 Consensus size: 32
1544240 TTATAGACTT
*
1544250 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGG
1 AAAA-GGTGCCACGGAGTTGTGGACTTAAAAGG
** * *
1544283 AAAATATGCCATGGAGTTGTGGGCTTAAAA-G
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
** * **
1544314 ----GGTGCCACAAAGTTGTGAACTTAAAAAA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
1544342 AAAAGATGCCACTGAGTTGTTGG-CTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTG-TGGAC-TT-AAAAGG
* *
1544376 AAAAGGTGCCATGGAGTTGCGGACTT-AAA-G
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
1544406 ----GGTGCCACAGAGTTGTGGACTTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
1544434 AAAAGGTGCCATGGAGTTGTGGACTTAAAA-G
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
1544465 ----GGTACC-CTAGAGTTGCAGG-CTTAAAAGG
1 AAAAGGTGCCAC-GGAGTTG-TGGACTTAAAAGG
1544493 AAAGAGAGTGCCACAGG-GTTGTGGACTTAAAAGG
1 AAA-AG-GTGCCAC-GGAGTTGTGGACTTAAAAGG
* * *
1544527 AAAAGGGTGCCACGGAGTTATGGGCTTTGAAAAGA
1 AAAA-GGTGCCACGGAGTTGTGGAC-TT-AAAAGG
* * *
1544562 AAAAGGTGCCACAGAGTTGTAGACTTAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
1544594 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
1544626 AAAAAGTGCCATGGAGTTGTGGACCTT-AAAGA
1 AAAAGGTGCCACGGAGTTGTGGA-CTTAAAAGG
* *
1544658 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGG
* *
1544692 AAAAAGTGTCACGGAGTTGTGGACTTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1544724 GTTCCACTGA
Statistics
Matches: 353, Mismatches: 54, Indels: 69
0.74 0.11 0.14
Matches are distributed among these distances:
26 19 0.05
27 40 0.11
28 4 0.01
31 6 0.02
32 149 0.42
33 37 0.10
34 87 0.25
35 11 0.03
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (32 bp):
AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:1544394 original size:66 final size:64
Alignment explanation
Indices: 1544250--1544722 Score: 358
Period size: 59 Copynumber: 7.5 Consensus size: 64
1544240 TTATAGACTT
* ** * ** * *
1544250 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAATATGCCATGGAGTTGTGGGCTTAAAAG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGGAGTTGTTGGCTTAAAAG
*** * * * *
1544314 -----GGTGCCACAAAGTTGTGAACTTAAAAAAAAAAGATGCCACTGAGTTGTTGGCTTTGAAAA
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGGAGTTGTTGGC-TT-AAAA
1544374 G
64 G
* *
1544375 AAAAAGGTGCCATGGAGTTGCGGACTT-AAAG-----GGTGCCACAGAGTTG-TGGACTTAAAAG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGGAGTTGTTGG-CTTAAAAG
* * * **
1544433 GAAAAGGTGCCATGGAGTTGTGGACTTAAAAG-----GGTACC-CTAGAGTTGCAGGCTTAAAAG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGAAAAAGGTGCCAC-GGAGTTGTTGGCTTAAAA-
1544492 G
64 G
* * * * *
1544493 AAAGAGAGTGCCACAGG-GTTGTGGACTTAAAAGGAAAAGGGTGCCACGGAGTTATGGGCTTTGA
1 AAAAAG-GTGCCA-TGGAGTTGTGGACTTAAAA-GAAAAAGGTGCCACGGAGTTGTTGGC-TT-A
1544557 AAAG
61 AAAG
** *
1544561 AAAAAGGTGCCACAGAGTTGTAGACTTAAAAGAAAAAGGTGCCACGGAGTTG-TGGACTTAAAAG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGGAGTTGTTGG-CTTAAAAG
* *
1544625 AAAAAAGTGCCATGGAGTTGTGGACCTT-AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA
1 AAAAAGGTGCCATGGAGTTGTGGA-CTTAAAAGAAAAAGGTGCCACGGAGTTGTTGGC-TT-AAA
1544689 AG
63 AG
* * *
1544691 AAAAAAGTGTCACGGAGTTGTGGACTTAAAAG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAG
1544723 GGTTCCACTG
Statistics
Matches: 337, Mismatches: 42, Indels: 58
0.77 0.10 0.13
Matches are distributed among these distances:
58 31 0.09
59 72 0.21
60 23 0.07
61 26 0.08
62 3 0.01
64 50 0.15
65 17 0.05
66 69 0.20
67 33 0.10
68 9 0.03
69 4 0.01
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (64 bp):
AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGGAGTTGTTGGCTTAAAAG
Found at i:1544412 original size:26 final size:27
Alignment explanation
Indices: 1544375--1544492 Score: 96
Period size: 27 Copynumber: 4.2 Consensus size: 27
1544365 CTTTGAAAAG
* *
1544375 AAAAAGGTGCCATGGAGTTGCGGACTT
1 AAAAGGGTGCCATAGAGTTGCGGACTT
* *
1544402 -AAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCATAGAGTTGCGGACTT
* *
1544428 AAAAGGAAAAGGTGCCATGGAGTTGTGGACTT
1 AAAA-G----GGTGCCATAGAGTTGCGGACTT
* *
1544460 AAAAGGGTACCCTAGAGTTGCAGG-CTT
1 AAAAGGGTGCCATAGAGTTGC-GGACTT
1544487 AAAAGG
1 AAAAGG
1544493 AAAGAGAGTG
Statistics
Matches: 74, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
26 22 0.30
27 24 0.32
28 3 0.04
31 1 0.01
32 24 0.32
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCATAGAGTTGCGGACTT
Found at i:1544479 original size:59 final size:59
Alignment explanation
Indices: 1544370--1544526 Score: 196
Period size: 58 Copynumber: 2.6 Consensus size: 59
1544360 GTTGGCTTTG
* * * *
1544370 AAAAGAAAAAGGTGCCATGGAGTTGCGGACTT-AAAGGGTGCCACAGAGTTG-TGGACTT
1 AAAAGGAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGTACCACAGAGTTGCAGG-CTT
1544428 AAAAGGAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGTACC-CTAGAGTTGCAGGCTT
1 AAAAGGAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGTACCAC-AGAGTTGCAGGCTT
*
1544487 AAAAGGAAAGAGAGTGCCACAGG-GTTGTGGACTTAAAAGG
1 AAAAGGAAA-AG-GTGCCA-TGGAGTTGTGGACTTAAAAGG
1544527 AAAAGGGTGC
Statistics
Matches: 88, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
58 31 0.35
59 28 0.32
60 4 0.05
61 23 0.26
62 2 0.02
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (59 bp):
AAAAGGAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGTACCACAGAGTTGCAGGCTT
Found at i:1544525 original size:151 final size:153
Alignment explanation
Indices: 1544228--1544744 Score: 458
Period size: 151 Copynumber: 3.3 Consensus size: 153
1544218 TTTAGAAAGG
** **
1544228 GGTGCCACGGAGTTATAGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAATATGCC
1 GGTGCCACGGAGTTACGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCC
* * * *
1544293 ATGGAGTTGTGGGCTTAAAAGGGTGCCACAAAGTTGTGAACTTAAAAAAAAAAGATGCCACTGAG
66 ATGGAGTTGTGGACTTAAAAGGGTACCACAAAGTTGAGAACTTAAAAAAAAAAGATGCCACAGAG
1544358 TTGTTGGCTTTGAAAA-GAAAAA
131 TTGTTGGCTTTGAAAAGGAAAAA
* *
1544380 GGTGCCATGGAGTTGCGGACTT-AAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCC
1 GGTGCCACGGAGTTACGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCC
* * * *
1544444 ATGGAGTTGTGGACTTAAAAGGGTACC-CTAGAGTTGCAG-GCTTAAAAGGAAAGAGAGTGCCAC
66 ATGGAGTTGTGGACTTAAAAGGGTACCAC-AAAGTTG-AGAACTTAAAA-AAAAAAGA-TGCCAC
* *
1544507 AGGGTTG-TGGAC-TT-AAAAGGAAAAG
127 AGAGTTGTTGG-CTTTGAAAAGGAAAAA
* * * *
1544532 GGTGCCACGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTAGACTTAAAAGAAAA
1 GGTGCCACGGAGTTACGGAC-TT-AAAAG-----GGTGCCACAGAGTTGTGGACTTAAAAGGAAA
* * * *** * * *
1544597 AGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGTGCCATGGAGTTGTGGACCTT-AAAGAAAA
59 AGGTGCCATGGAGTTGTGGACTTAAAAG-----GGTACCACAAAGTTG-AGAACTTAAAAAAAAA
* * *
1544661 AGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAA
118 AGATGCCACAGAGTTGTTGGCTTTGAAAAGGAAAAA
* * ** * * *
1544696 AGTGTCACGGAGTTGTGGACTTAAAAGGGTTCCACTGAGTCGTGGACTT
1 GGTGCCACGGAGTTACGGACTTAAAAGGGTGCCACAGAGTTGTGGACTT
1544745 TGAGAAGAGA
Statistics
Matches: 297, Mismatches: 44, Indels: 43
0.77 0.11 0.11
Matches are distributed among these distances:
150 1 0.00
151 82 0.28
152 51 0.17
153 14 0.05
155 4 0.01
157 18 0.06
160 56 0.19
162 5 0.02
163 14 0.05
164 31 0.10
165 18 0.06
166 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.22
Consensus pattern (153 bp):
GGTGCCACGGAGTTACGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCC
ATGGAGTTGTGGACTTAAAAGGGTACCACAAAGTTGAGAACTTAAAAAAAAAAGATGCCACAGAG
TTGTTGGCTTTGAAAAGGAAAAA
Found at i:1544637 original size:192 final size:186
Alignment explanation
Indices: 1544315--1544655 Score: 468
Period size: 186 Copynumber: 1.8 Consensus size: 186
1544305 GCTTAAAAGG
* * *
1544315 GTGCCACAAAGTTGTGAACTTAAAAAAAAAAGATGCCACTGAGTTGTTGGCTTTGAAAAGAAAAA
1 GTGCCACAAAGTTGTGAACTTAAAAAAAAAAGATGCCACGGAGTTATGGGCTTTGAAAAGAAAAA
** * * *
1544380 GGTGCCATGGAGTTGCGGACTTAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCCA
66 GGTGCCACAGAGTTGCAGACTTAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAAAAAAGTGCCA
1544445 TGGAGTTGTGGA-CTTAAAAGGGTACCCTAGAGTTGCAGGCTTAAAAGGAAAGAGA
131 TGGAGTTGTGGACCTTAAAAGGGTACCCTAGAGTTGCAGGCTTAAAAGGAAAGAGA
** * * * *
1544500 GTGCCACAGGGTTGTGGACTTAAAAGGAAAAGGGTGCCACGGAGTTATGGGCTTTGAAAAGAAAA
1 GTGCCACAAAGTTGTGAACTTAAAA-AAAAAAGATGCCACGGAGTTATGGGCTTTGAAAAGAAAA
* *
1544565 AGGTGCCACAGAGTTGTAGACTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAA
65 AGGTGCCACAGAGTTGCAGACTT-AAAG-----GGTGCCACAGAGTTGTGGACTTAAAAGAAAAA
1544630 AGTGCCATGGAGTTGTGGACCTTAAA
124 AGTGCCATGGAGTTGTGGACCTTAAA
1544656 GAAAAAGGTG
Statistics
Matches: 132, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
185 22 0.17
186 52 0.39
187 4 0.03
192 48 0.36
193 6 0.05
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (186 bp):
GTGCCACAAAGTTGTGAACTTAAAAAAAAAAGATGCCACGGAGTTATGGGCTTTGAAAAGAAAAA
GGTGCCACAGAGTTGCAGACTTAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAAAAAAGTGCCA
TGGAGTTGTGGACCTTAAAAGGGTACCCTAGAGTTGCAGGCTTAAAAGGAAAGAGA
Found at i:1544803 original size:35 final size:34
Alignment explanation
Indices: 1544727--1545104 Score: 263
Period size: 30 Copynumber: 11.7 Consensus size: 34
1544717 TAAAAGGGTT
*
1544727 CCACTGAGTCGTGGAC-TTT-G-AG-AAGAGATG
1 CCACTGAGTCGTGGACTTTTGGAAGAAAAAGATG
*
1544757 CCACTGAGTCGTGGGCTTTTGGAAGAAAAAAGATG
1 CCACTGAGTCGTGGACTTTTGGAAG-AAAAAGATG
*
1544792 CCACTGGGTCGTGGAC--TTGG-AG-AAAAGATG
1 CCACTGAGTCGTGGACTTTTGGAAGAAAAAGATG
* *
1544822 CCACTAAGTTGTGGAC-TTT-GAAGAAAAAAGATG
1 CCACTGAGTCGTGGACTTTTGGAAG-AAAAAGATG
* * * *
1544855 CCGCTGAGTAGTGGACTTTT---AG-GAAAGGTG
1 CCACTGAGTCGTGGACTTTTGGAAGAAAAAGATG
* * *
1544885 CCAC-GAAGTTGTGGGC--TTGGAAGAAAATGATG
1 CCACTG-AGTCGTGGACTTTTGGAAGAAAAAGATG
* *
1544917 CCACTAAGTCATGGAC--TTGGAAGAAAAAGGATG
1 CCACTGAGTCGTGGACTTTTGGAAGAAAAA-GATG
* * *
1544950 CCACTGAGTAGTGGACTTTT---AGGAAATG-TG
1 CCACTGAGTCGTGGACTTTTGGAAGAAAAAGATG
*
1544980 CCAC-GAAGTCATGGACTTTTGGAAG----AGATG
1 CCACTG-AGTCGTGGACTTTTGGAAGAAAAAGATG
* * **
1545010 CCACTGAATCGTGGGCTTTTCAAAGAAAAAAGATG
1 CCACTGAGTCGTGGACTTTTGGAAG-AAAAAGATG
* * *
1545045 CCACTGAGTCATAGACTTTTAGAAGAAAACAGATG
1 CCACTGAGTCGTGGACTTTTGGAAGAAAA-AGATG
1545080 CCACTGAGTCGTGGACTTTTAGGAA
1 CCACTGAGTCGTGGACTTTT-GGAA
1545105 AGGTACCACA
Statistics
Matches: 271, Mismatches: 45, Indels: 58
0.72 0.12 0.16
Matches are distributed among these distances:
28 2 0.01
29 3 0.01
30 92 0.34
31 11 0.04
32 37 0.14
33 46 0.17
34 7 0.03
35 70 0.26
36 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (34 bp):
CCACTGAGTCGTGGACTTTTGGAAGAAAAAGATG
Found at i:1544803 original size:65 final size:65
Alignment explanation
Indices: 1544727--1545104 Score: 307
Period size: 63 Copynumber: 5.8 Consensus size: 65
1544717 TAAAAGGGTT
* * *
1544727 CCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGGCTTTTGGAAGAAAAAAGATG
1 CCACTGAGTCATGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTTGGAAGAAAAAAGATG
* * * * *
1544792 CCACTGGGTCGTGGACTTGGAGAAAAGATGCCACTAAGTTGTGGAC-TTT-GAAGAAAAAAGATG
1 CCACTGAGTCATGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTTGGAAGAAAAAAGATG
* * * * * * *
1544855 CCGCTGAGT-AGTGGACTTTTAGGAAAGGTGCCAC-GAAGTTGTGGGC--TTGGAAG-AAAATGA
1 CCACTGAGTCA-TGGACTTTGAGAAAAGATGCCACTG-AGTCGTGGACTTTTGGAAGAAAAAAGA
1544915 TG
64 TG
* * * * *
1544917 CCACTAAGTCATGGACTTGGAAGAAAAAGGATGCCACTGAGTAGTGGACTTTT---AG-GAAATG
1 CCACTGAGTCATGGACTTTG-AG-AAAA-GATGCCACTGAGTCGTGGACTTTTGGAAGAAAAAAG
1544978 -TG
63 ATG
* * * **
1544980 CCAC-GAAGTCATGGACTTTTG-GAAGAGATGCCACTGAATCGTGGGCTTTTCAAAGAAAAAAGA
1 CCACTG-AGTCATGGAC-TTTGAGAAAAGATGCCACTGAGTCGTGGACTTTTGGAAGAAAAAAGA
1545043 TG
64 TG
*
1545045 CCACTGAGTCATAGACTTTTAGAAGAAAACAGATGCCACTGAGTCGTGGACTTTTAGGAA
1 CCACTGAGTCATGGAC-TTT-G-AG-AAA-AGATGCCACTGAGTCGTGGACTTTT-GGAA
1545105 AGGTACCACA
Statistics
Matches: 250, Mismatches: 39, Indels: 42
0.76 0.12 0.13
Matches are distributed among these distances:
60 21 0.08
61 3 0.01
62 25 0.10
63 74 0.30
64 20 0.08
65 74 0.30
66 3 0.01
67 2 0.01
68 1 0.00
69 2 0.01
70 23 0.09
71 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (65 bp):
CCACTGAGTCATGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTTGGAAGAAAAAAGATG
Found at i:1544917 original size:95 final size:93
Alignment explanation
Indices: 1544802--1545066 Score: 302
Period size: 95 Copynumber: 2.8 Consensus size: 93
1544792 CCACTGGGTC
** * *
1544802 GTGGACTTGGAGAAAAGATGCCACTAAGTTGTGGACTTTGAAGAAAAAAGATGCCGCTGAGTAGT
1 GTGGACTTGGAGAAAAGATGCCACTAAGTCATGGACTTGGAAGAAAAAAGATGCCACTGAGTAGT
1544867 GGACTTTTAGGAAAGGTGCCACGAAGTT
66 GGACTTTTAGGAAAGGTGCCACGAAGTT
* *
1544895 GTGGGCTTGGAAGAAAATGATGCCACTAAGTCATGGACTTGGAAGAAAAAGGATGCCACTGAGTA
1 GTGGACTTGG-AGAAAA-GATGCCACTAAGTCATGGACTTGGAAGAAAAAAGATGCCACTGAGTA
* *
1544960 GTGGACTTTTAGGAAATGTGCCACGAAGTC
64 GTGGACTTTTAGGAAAGGTGCCACGAAGTT
* * * * * **
1544990 ATGGACTTTTG-GAAGAGATGCCACTGAA-TCGTGGGCTTTTCAAAGAAAAAAGATGCCACTGAG
1 GTGGAC-TTGGAGAAAAGATGCCACT-AAGTCATGGAC--TTGGAAGAAAAAAGATGCCACTGAG
*
1545053 TCA-TAGACTTTTAG
62 T-AGTGGACTTTTAG
1545067 AAGAAAACAG
Statistics
Matches: 147, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
93 24 0.16
94 12 0.08
95 107 0.73
96 4 0.03
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.24
Consensus pattern (93 bp):
GTGGACTTGGAGAAAAGATGCCACTAAGTCATGGACTTGGAAGAAAAAAGATGCCACTGAGTAGT
GGACTTTTAGGAAAGGTGCCACGAAGTT
Found at i:1546325 original size:22 final size:22
Alignment explanation
Indices: 1546300--1546349 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
1546290 TTGTTGTTCC
1546300 TTTTTTAATTTTTTCCTTTTT-T
1 TTTTTTAATTTTTT-CTTTTTAT
** *
1546322 TTTTTGCATTTTTTGTTTTTAT
1 TTTTTTAATTTTTTCTTTTTAT
1546344 TTTTTT
1 TTTTTT
1546350 GTGGTTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.08, C:0.06, G:0.04, T:0.82
Consensus pattern (22 bp):
TTTTTTAATTTTTTCTTTTTAT
Found at i:1546346 original size:24 final size:23
Alignment explanation
Indices: 1546307--1546371 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
1546297 TCCTTTTTTA
** *
1546307 ATTTTTTCCTTTTTTTTTTTG-C
1 ATTTTTTGTTTTTTTTTTTTGTG
1546329 ATTTTTTGTTTTTATTTTTTTGTG
1 ATTTTTTGTTTTT-TTTTTTTGTG
*
1546353 GTTTTTTGTTTTTTTTTTT
1 ATTTTTTGTTTTTTTTTTT
1546372 GCTTTTGACT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 11 0.30
23 14 0.38
24 12 0.32
ACGTcount: A:0.05, C:0.05, G:0.09, T:0.82
Consensus pattern (23 bp):
ATTTTTTGTTTTTTTTTTTTGTG
Found at i:1547871 original size:21 final size:21
Alignment explanation
Indices: 1547830--1547873 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1547820 CTCTTCTTTA
* *
1547830 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1547851 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1547872 TC
1 TC
1547874 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1551802 original size:15 final size:15
Alignment explanation
Indices: 1551782--1551812 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1551772 ATTTTGTTTG
*
1551782 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1551797 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1551812 G
1 G
1551813 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1555904 original size:13 final size:13
Alignment explanation
Indices: 1555886--1555911 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1555876 CAATTTTTTG
1555886 TGTATCGATACAT
1 TGTATCGATACAT
1555899 TGTATCGATACAT
1 TGTATCGATACAT
1555912 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:1555995 original size:20 final size:20
Alignment explanation
Indices: 1555950--1556025 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
1555940 CTGCCAAGAA
***
1555950 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGAATC
1555971 ATGTATCGATACATTGCAA-C
1 ATGTATCGATACATTG-AATC
* *
1555991 ATGTATCGATACTTTGAATT
1 ATGTATCGATACATTGAATC
*
1556011 GTGTATCGATACATT
1 ATGTATCGATACATT
1556026 TAAGGGTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.04
20 30 0.65
21 14 0.30
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTGAATC
Found at i:1556366 original size:50 final size:50
Alignment explanation
Indices: 1556301--1556537 Score: 164
Period size: 50 Copynumber: 4.7 Consensus size: 50
1556291 ACAGTACCAA
*
1556301 TATGCTAATTCAAGGCCAGTGATATCGA-ACTTAAAGATGAAGGGTGTCAC
1 TATGCTAATTCAAGGCCAGCGATAT-GAGACTTAAAGATGAAGGGTGTCAC
* * *
1556351 TATGCTAATTTAAGGCCAGCGATATTAGACTTAAAGATGAAGGGTG-CTAA
1 TATGCTAATTCAAGGCCAGCGATATGAGACTTAAAGATGAAGGGTGTC-AC
* * ** * *
1556401 TATG-TCGATTCAAGGCCAGCGATATTG-GACTTAAAGGTGGTAAAAGTGCCAA
1 TATGCT-AATTCAAGGCCAGCGATA-TGAGACTTAAAGAT-G-AAGGGTGTCAC
* * * * * * * *
1556453 TATACTGATTCAATGCCAACGATATTG-GACTTAAAGGTGTTAAAGGTGCCAG
1 TATGCTAATTCAAGGCCAGCGATA-TGAGACTTAAAGATG--AAGGGTGTCAC
*
1556505 TATGCTGATTCAAGGCCAG-GATATTGA-ACTTAA
1 TATGCTAATTCAAGGCCAGCGATA-TGAGACTTAA
1556538 GAAAGAAAAA
Statistics
Matches: 159, Mismatches: 18, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
49 3 0.02
50 72 0.45
51 16 0.10
52 66 0.42
53 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (50 bp):
TATGCTAATTCAAGGCCAGCGATATGAGACTTAAAGATGAAGGGTGTCAC
Found at i:1556476 original size:52 final size:52
Alignment explanation
Indices: 1556407--1556537 Score: 183
Period size: 52 Copynumber: 2.5 Consensus size: 52
1556397 CTAATATGTC
*
1556407 GATTCAAGGCCAGCGATATTGGACTTAAAGGTGGTAAAAGTGCCAATATACT
1 GATTCAAGGCCAACGATATTGGACTTAAAGGTGGTAAAAGTGCCAATATACT
* * * * *
1556459 GATTCAATGCCAACGATATTGGACTTAAAGGTGTTAAAGGTGCCAGTATGCT
1 GATTCAAGGCCAACGATATTGGACTTAAAGGTGGTAAAAGTGCCAATATACT
* *
1556511 GATTCAAGGCC-AGGATATTGAACTTAA
1 GATTCAAGGCCAACGATATTGGACTTAA
1556538 GAAAGAAAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
51 14 0.20
52 56 0.80
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (52 bp):
GATTCAAGGCCAACGATATTGGACTTAAAGGTGGTAAAAGTGCCAATATACT
Found at i:1556564 original size:103 final size:102
Alignment explanation
Indices: 1556362--1556593 Score: 245
Period size: 103 Copynumber: 2.3 Consensus size: 102
1556352 ATGCTAATTT
* * * *
1556362 AAGGCCAGCGATATTAGACTTAAAGATGAAGGGTGCTAATATGTCGATTCAAGGCCAGCGATATT
1 AAGGCCAGCGATATTGGACTTAAAGGTGAAAGGTGCCAATATGTCGATTCAAGGCCAGCGATATT
* *** * *
1556427 GGACTTAAAGGTGGTAAAAGTGCCAATATACTGATTC
66 GAACTTAAAGAAAGAAAAAGTCCCAATATACTGATTC
* * *
1556464 AATGCCAACGATATTGGACTTAAAGGTGTTAAAGGTGCCAGTATG-CTGATTCAAGGCCAG-GAT
1 AAGGCCAGCGATATTGGACTTAAAGGTG--AAAGGTGCCAATATGTC-GATTCAAGGCCAGCGAT
* *
1556527 ATTGAACTT-AAGAAAGAAAAAGATCCCAATGTGCTGATTC
63 ATTGAACTTAAAGAAAGAAAAAG-TCCCAATATACTGATTC
* *
1556567 AAGGCCAGCGATAGTGGGCTTAGAAGG
1 AAGGCCAGCGATATTGGACTTA-AAGG
1556594 GTTGCCACCG
Statistics
Matches: 106, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
102 33 0.31
103 44 0.42
104 29 0.27
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.24
Consensus pattern (102 bp):
AAGGCCAGCGATATTGGACTTAAAGGTGAAAGGTGCCAATATGTCGATTCAAGGCCAGCGATATT
GAACTTAAAGAAAGAAAAAGTCCCAATATACTGATTC
Found at i:1556691 original size:59 final size:59
Alignment explanation
Indices: 1556628--1556751 Score: 167
Period size: 59 Copynumber: 2.1 Consensus size: 59
1556618 TAGAAAGGGG
* * ** *
1556628 TGCCACGGAGTTATAGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAATA
1 TGCCACGGAGTTATAGACTTAAAAGGGTGCCACAAAGTTGTGAACTTAAAAAAAAAAGA
* * * *
1556687 TGCCATGGAGTTGTGGGCTTAAAAGGGTGCCACAAAGTTGTGAACTTAAAAAAAAAAGA
1 TGCCACGGAGTTATAGACTTAAAAGGGTGCCACAAAGTTGTGAACTTAAAAAAAAAAGA
1556746 TGCCAC
1 TGCCAC
1556752 TAAGTTGTTG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.22
Consensus pattern (59 bp):
TGCCACGGAGTTATAGACTTAAAAGGGTGCCACAAAGTTGTGAACTTAAAAAAAAAAGA
Found at i:1556698 original size:32 final size:32
Alignment explanation
Indices: 1556648--1557121 Score: 360
Period size: 32 Copynumber: 15.0 Consensus size: 32
1556638 TTATAGACTT
*
1556648 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGG
1 AAAA-GGTGCCACGGAGTTGTGGACTTAAAAGG
** * *
1556681 AAAATATGCCATGGAGTTGTGGGCTTAAAA-G
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
** * **
1556712 ----GGTGCCACAAAGTTGTGAACTTAAAAAA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* ** *
1556740 AAAAGATGCCACTAAGTTGTTGG-CTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTG-TGGAC-TT-AAAAGG
* *
1556774 AAAAGGTGCCATGGAGTTGCGGACTT-AAA-G
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
1556804 ----GGTGCCACAGAGTTGTGGACTTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
1556832 AAAAGGTGCCATGGAGTTGTGGACTTAAAA-G
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
1556863 ----GGTACC-CTAGAGTTGTAGG-CTTAAAAGG
1 AAAAGGTGCCAC-GGAGTTGT-GGACTTAAAAGG
1556891 AAAGAGAGTGCCACAGG-GTTGTGGACTTAAAAGG
1 AAA-AG-GTGCCAC-GGAGTTGTGGACTTAAAAGG
* * *
1556925 AAAAGGGTGCCACGGAGTTATGGGCTTTGAAAAGA
1 AAAA-GGTGCCACGGAGTTGTGGAC-TT-AAAAGG
* * *
1556960 AAAAGGTGCCACAGAGTTGTAGACTTAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
1556992 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
1557024 AAAAAGTGCCATGGAGTTGTGGACCTT-AAAGA
1 AAAAGGTGCCACGGAGTTGTGGA-CTTAAAAGG
* *
1557056 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGG
* *
1557090 AAAAAGTGTCACGGAGTTGTGGACTTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1557122 GTTCCACTGA
Statistics
Matches: 355, Mismatches: 52, Indels: 69
0.75 0.11 0.14
Matches are distributed among these distances:
26 19 0.05
27 41 0.12
28 4 0.01
31 6 0.02
32 150 0.42
33 37 0.10
34 87 0.25
35 11 0.03
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (32 bp):
AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:1556717 original size:27 final size:27
Alignment explanation
Indices: 1556625--1556890 Score: 108
Period size: 27 Copynumber: 9.1 Consensus size: 27
1556615 CTTTAGAAAG
* *
1556625 GGGTGCCACGGAGTTATAGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1556652 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
1556679 GGAAAATATGCCATGGAGTTGTGGGCTTAAAA
1 GG-----GTGCCACGGAGTTGTGGACTTAAAA
** *
1556711 GGGTGCCACAAAGTTGTGAACTTAAAAAAAAA
1 GGGTGCCACGGAGTTGTGGACTT-----AAAA
* * **
1556743 AGATGCCACTAAGTTGTTGG-CTTTGAAAA
1 GGGTGCCACGGAGTTG-TGGAC-TT-AAAA
* *
1556772 GAAAAAGGTGCCATGGAGTTGCGGACTT-AAA
1 G-----GGTGCCACGGAGTTGTGGACTTAAAA
*
1556803 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1556830 GGAAAAGGTGCCATGGAGTTGTGGACTTAAAA
1 -G----GGTGCCACGGAGTTGTGGACTTAAAA
* *
1556862 GGGTACC-CTAGAGTTGTAGG-CTTAAAA
1 GGGTGCCAC-GGAGTTGT-GGACTTAAAA
1556889 GG
1 GG
1556891 AAAGAGAGTG
Statistics
Matches: 181, Mismatches: 32, Indels: 52
0.68 0.12 0.20
Matches are distributed among these distances:
26 19 0.10
27 65 0.36
28 3 0.02
29 4 0.02
31 5 0.03
32 65 0.36
33 8 0.04
34 12 0.07
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:1556792 original size:66 final size:64
Alignment explanation
Indices: 1556648--1557120 Score: 324
Period size: 59 Copynumber: 7.5 Consensus size: 64
1556638 TTATAGACTT
* ** * ** * * *
1556648 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAATATGCCATGGAGTTGTGGGCTTAAAAG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGAAGTTGTTGGCTTAAAAG
*** * * * *
1556712 -----GGTGCCACAAAGTTGTGAACTTAAAAAAAAAAGATGCCACTAAGTTGTTGGCTTTGAAAA
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGAAGTTGTTGGC-TT-AAAA
1556772 G
64 G
*
1556773 AAAAAGGTGCCATGGAGTTGCGGACTT-AAAG-----GGTGCCAC-AGAGTTG-TGGACTTAAAA
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGA-AGTTGTTGG-CTTAAAA
1556830 G
64 G
* * * *
1556831 GAAAAGGTGCCATGGAGTTGTGGACTTAAAAG-----GGTACC-CTAGAGTTGTAGGCTTAAAAG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGA-AGTTGTTGGCTTAAAA-
1556890 G
64 G
* * * * * *
1556891 AAAGAGAGTGCCACAGG-GTTGTGGACTTAAAAGGAAAAGGGTGCCACGGAGTTATGGGCTTTGA
1 AAAAAG-GTGCCA-TGGAGTTGTGGACTTAAAA-GAAAAAGGTGCCACGAAGTTGTTGGC-TT-A
1556955 AAAG
61 AAAG
** * *
1556959 AAAAAGGTGCCACAGAGTTGTAGACTTAAAAGAAAAAGGTGCCACGGAGTTG-TGGACTTAAAAG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGAAGTTGTTGG-CTTAAAAG
* * *
1557023 AAAAAAGTGCCATGGAGTTGTGGACCTT-AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA
1 AAAAAGGTGCCATGGAGTTGTGGA-CTTAAAAGAAAAAGGTGCCACGAAGTTGTTGGC-TT-AAA
1557087 AG
63 AG
* * *
1557089 AAAAAAGTGTCACGGAGTTGTGGACTTAAAAG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAG
1557121 GGTTCCACTG
Statistics
Matches: 336, Mismatches: 42, Indels: 60
0.77 0.10 0.14
Matches are distributed among these distances:
58 31 0.09
59 72 0.21
60 22 0.07
61 26 0.08
62 3 0.01
64 50 0.15
65 17 0.05
66 69 0.21
67 33 0.10
68 9 0.03
69 4 0.01
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (64 bp):
AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGAAGTTGTTGGCTTAAAAG
Found at i:1556877 original size:59 final size:59
Alignment explanation
Indices: 1556754--1557133 Score: 230
Period size: 66 Copynumber: 6.1 Consensus size: 59
1556744 GATGCCACTA
* * * *
1556754 AGTTGTTGGCTTTGAAAAGAAAAAGGTGCCATGGAGTTGCGGACTT-AAAGGGTGCCACAG
1 AGTTGTAGGC-TT-AAAAGGAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGTACCACAG
1556814 AGTTGT-GGACTTAAAAGGAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGTACC-CTAG
1 AGTTGTAGG-CTTAAAAGGAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGTACCAC-AG
* *
1556873 AGTTGTAGGCTTAAAAGGAAAGAGAGTGCCACAGG-GTTGTGGACTTAAAAGGAAAAGGGTGCCA
1 AGTTGTAGGCTTAAAAGGAAA-AG-GTGCCA-TGGAGTTGTGGACTT------AAAAGGGTACCA
*
1556937 CGG
57 CAG
* * * ** * * *
1556940 AGTTATGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTAGACTTAAAAGAAAAAGGTGCCACG
1 AGTTGTAGGC-TT-AAAAGGAAAAGGTGCCATGGAGTTGTGGACTTAAAAG-----GGTACCACA
1557005 G
59 G
* * * * *
1557006 AGTTGT-GGACTTAAAAGAAAAAAGTGCCATGGAGTTGTGGACCTTAAAGAAAAAGGTGCCACGG
1 AGTTGTAGG-CTTAAAAGGAAAAGGTGCCATGGAGTTGTGGA-CTT----AAAAGGGTACCACAG
* * * * * * *
1557070 AGTTGTGGGCTTTGAAAAGAAAAAAGTGTCACGGAGTTGTGGACTTAAAAGGGTTCCACTG
1 AGTTGTAGGC-TT-AAAAGGAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGTACCACAG
1557131 AGT
1 AGT
1557134 CGTGGACTTT
Statistics
Matches: 266, Mismatches: 23, Indels: 61
0.76 0.07 0.17
Matches are distributed among these distances:
58 31 0.12
59 33 0.12
60 11 0.04
61 37 0.14
62 2 0.01
64 42 0.16
65 14 0.05
66 44 0.17
67 35 0.13
68 5 0.02
69 12 0.05
ACGTcount: A:0.34, C:0.12, G:0.32, T:0.22
Consensus pattern (59 bp):
AGTTGTAGGCTTAAAAGGAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGTACCACAG
Found at i:1556923 original size:151 final size:153
Alignment explanation
Indices: 1556626--1557142 Score: 460
Period size: 151 Copynumber: 3.3 Consensus size: 153
1556616 TTTAGAAAGG
** **
1556626 GGTGCCACGGAGTTATAGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAATATGCC
1 GGTGCCACGGAGTTACGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCC
* *
1556691 ATGGAGTTGTGGGCTTAAAAGGGTGCCACAAAGTTGTGAACTTAAAAAAAAAAGATGCCACTAAG
66 ATGGAGTTGTGGACTTAAAAGGGTACCACAAAGTTGTGAACTTAAAAAAAAAAGATGCCACTAAG
1556756 TTGTTGGCTTTGAAAA-GAAAAA
131 TTGTTGGCTTTGAAAAGGAAAAA
* *
1556778 GGTGCCATGGAGTTGCGGACTT-AAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCC
1 GGTGCCACGGAGTTACGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCC
* * * *
1556842 ATGGAGTTGTGGACTTAAAAGGGTACC-CTAGAGTTGT-AGGCTTAAAAGGAAAGAGAGTGCCAC
66 ATGGAGTTGTGGACTTAAAAGGGTACCAC-AAAGTTGTGA-ACTTAAAA-AAAAAAGA-TGCCAC
* *
1556905 -AGGGTTG-TGGAC-TT-AAAAGGAAAAG
127 TA-AGTTGTTGG-CTTTGAAAAGGAAAAA
* * * *
1556930 GGTGCCACGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTAGACTTAAAAGAAAA
1 GGTGCCACGGAGTTACGGAC-TT-AAAAG-----GGTGCCACAGAGTTGTGGACTTAAAAGGAAA
* * * *** * *
1556995 AGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGTGCCATGGAGTTGTGGACCTT-AAAGAAAA
59 AGGTGCCATGGAGTTGTGGACTTAAAAG-----GGTACCACAAAGTTGT-GAACTTAAAAAAAAA
* ** *
1557059 AGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAA
118 AGATGCCACTAAGTTGTTGGCTTTGAAAAGGAAAAA
* * ** * * *
1557094 AGTGTCACGGAGTTGTGGACTTAAAAGGGTTCCACTGAGTCGTGGACTT
1 GGTGCCACGGAGTTACGGACTTAAAAGGGTGCCACAGAGTTGTGGACTT
1557143 TGAGAAGAGA
Statistics
Matches: 298, Mismatches: 40, Indels: 49
0.77 0.10 0.13
Matches are distributed among these distances:
150 2 0.01
151 83 0.28
152 51 0.17
153 13 0.04
155 4 0.01
157 18 0.06
160 56 0.19
162 5 0.02
163 13 0.04
164 31 0.10
165 18 0.06
166 3 0.01
167 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.22
Consensus pattern (153 bp):
GGTGCCACGGAGTTACGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGGTGCC
ATGGAGTTGTGGACTTAAAAGGGTACCACAAAGTTGTGAACTTAAAAAAAAAAGATGCCACTAAG
TTGTTGGCTTTGAAAAGGAAAAA
Found at i:1557201 original size:35 final size:34
Alignment explanation
Indices: 1557125--1557502 Score: 263
Period size: 30 Copynumber: 11.7 Consensus size: 34
1557115 TAAAAGGGTT
*
1557125 CCACTGAGTCGTGGAC-TTT-G-AG-AAGAGATG
1 CCACTGAGTCGTGGACTTTTGGAAGAAAAAGATG
*
1557155 CCACTGAGTCGTGGGCTTTTGGAAGAAAAAAGATG
1 CCACTGAGTCGTGGACTTTTGGAAG-AAAAAGATG
*
1557190 CCACTGGGTCGTGGAC--TTGG-AG-AAAAGATG
1 CCACTGAGTCGTGGACTTTTGGAAGAAAAAGATG
* *
1557220 CCACTAAGTTGTGGAC-TTT-GAAGAAAAAAGATG
1 CCACTGAGTCGTGGACTTTTGGAAG-AAAAAGATG
* * * *
1557253 CCGCTGAGTAGTGGACTTTT---AG-GAAAGGTG
1 CCACTGAGTCGTGGACTTTTGGAAGAAAAAGATG
* * *
1557283 CCAC-GAAGTTGTGGGC--TTGGAAGAAAATGATG
1 CCACTG-AGTCGTGGACTTTTGGAAGAAAAAGATG
* *
1557315 CCACTAAGTCATGGAC--TTGGAAGAAAAAGGATG
1 CCACTGAGTCGTGGACTTTTGGAAGAAAAA-GATG
* * *
1557348 CCACTGAGTAGTGGACTTTT---AGGAAATG-TG
1 CCACTGAGTCGTGGACTTTTGGAAGAAAAAGATG
*
1557378 CCAC-GAAGTCATGGACTTTTGGAAG----AGATG
1 CCACTG-AGTCGTGGACTTTTGGAAGAAAAAGATG
* * **
1557408 CCACTGAATCGTGGGCTTTTCAAAGAAAAAAGATG
1 CCACTGAGTCGTGGACTTTTGGAAG-AAAAAGATG
* * *
1557443 CCACTGAGTCATAGACTTTTAGAAGAAAACAGATG
1 CCACTGAGTCGTGGACTTTTGGAAGAAAA-AGATG
1557478 CCACTGAGTCGTGGACTTTTAGGAA
1 CCACTGAGTCGTGGACTTTT-GGAA
1557503 AGGTACCACA
Statistics
Matches: 271, Mismatches: 45, Indels: 58
0.72 0.12 0.16
Matches are distributed among these distances:
28 2 0.01
29 3 0.01
30 92 0.34
31 11 0.04
32 37 0.14
33 46 0.17
34 7 0.03
35 70 0.26
36 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (34 bp):
CCACTGAGTCGTGGACTTTTGGAAGAAAAAGATG
Found at i:1557201 original size:65 final size:65
Alignment explanation
Indices: 1557125--1557502 Score: 307
Period size: 63 Copynumber: 5.8 Consensus size: 65
1557115 TAAAAGGGTT
* * *
1557125 CCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGGCTTTTGGAAGAAAAAAGATG
1 CCACTGAGTCATGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTTGGAAGAAAAAAGATG
* * * * *
1557190 CCACTGGGTCGTGGACTTGGAGAAAAGATGCCACTAAGTTGTGGAC-TTT-GAAGAAAAAAGATG
1 CCACTGAGTCATGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTTGGAAGAAAAAAGATG
* * * * * * *
1557253 CCGCTGAGT-AGTGGACTTTTAGGAAAGGTGCCAC-GAAGTTGTGGGC--TTGGAAG-AAAATGA
1 CCACTGAGTCA-TGGACTTTGAGAAAAGATGCCACTG-AGTCGTGGACTTTTGGAAGAAAAAAGA
1557313 TG
64 TG
* * * * *
1557315 CCACTAAGTCATGGACTTGGAAGAAAAAGGATGCCACTGAGTAGTGGACTTTT---AG-GAAATG
1 CCACTGAGTCATGGACTTTG-AG-AAAA-GATGCCACTGAGTCGTGGACTTTTGGAAGAAAAAAG
1557376 -TG
63 ATG
* * * **
1557378 CCAC-GAAGTCATGGACTTTTG-GAAGAGATGCCACTGAATCGTGGGCTTTTCAAAGAAAAAAGA
1 CCACTG-AGTCATGGAC-TTTGAGAAAAGATGCCACTGAGTCGTGGACTTTTGGAAGAAAAAAGA
1557441 TG
64 TG
*
1557443 CCACTGAGTCATAGACTTTTAGAAGAAAACAGATGCCACTGAGTCGTGGACTTTTAGGAA
1 CCACTGAGTCATGGAC-TTT-G-AG-AAA-AGATGCCACTGAGTCGTGGACTTTT-GGAA
1557503 AGGTACCACA
Statistics
Matches: 250, Mismatches: 39, Indels: 42
0.76 0.12 0.13
Matches are distributed among these distances:
60 21 0.08
61 3 0.01
62 25 0.10
63 74 0.30
64 20 0.08
65 74 0.30
66 3 0.01
67 2 0.01
68 1 0.00
69 2 0.01
70 23 0.09
71 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (65 bp):
CCACTGAGTCATGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTTGGAAGAAAAAAGATG
Found at i:1557315 original size:95 final size:93
Alignment explanation
Indices: 1557200--1557464 Score: 302
Period size: 95 Copynumber: 2.8 Consensus size: 93
1557190 CCACTGGGTC
** * *
1557200 GTGGACTTGGAGAAAAGATGCCACTAAGTTGTGGACTTTGAAGAAAAAAGATGCCGCTGAGTAGT
1 GTGGACTTGGAGAAAAGATGCCACTAAGTCATGGACTTGGAAGAAAAAAGATGCCACTGAGTAGT
1557265 GGACTTTTAGGAAAGGTGCCACGAAGTT
66 GGACTTTTAGGAAAGGTGCCACGAAGTT
* *
1557293 GTGGGCTTGGAAGAAAATGATGCCACTAAGTCATGGACTTGGAAGAAAAAGGATGCCACTGAGTA
1 GTGGACTTGG-AGAAAA-GATGCCACTAAGTCATGGACTTGGAAGAAAAAAGATGCCACTGAGTA
* *
1557358 GTGGACTTTTAGGAAATGTGCCACGAAGTC
64 GTGGACTTTTAGGAAAGGTGCCACGAAGTT
* * * * * **
1557388 ATGGACTTTTG-GAAGAGATGCCACTGAA-TCGTGGGCTTTTCAAAGAAAAAAGATGCCACTGAG
1 GTGGAC-TTGGAGAAAAGATGCCACT-AAGTCATGGAC--TTGGAAGAAAAAAGATGCCACTGAG
*
1557451 TCA-TAGACTTTTAG
62 T-AGTGGACTTTTAG
1557465 AAGAAAACAG
Statistics
Matches: 147, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
93 24 0.16
94 12 0.08
95 107 0.73
96 4 0.03
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.24
Consensus pattern (93 bp):
GTGGACTTGGAGAAAAGATGCCACTAAGTCATGGACTTGGAAGAAAAAAGATGCCACTGAGTAGT
GGACTTTTAGGAAAGGTGCCACGAAGTT
Found at i:1558722 original size:21 final size:22
Alignment explanation
Indices: 1558698--1558746 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
1558688 TTGTTGTTCC
1558698 TTTTTTAATTTTTTCCTTTT-T
1 TTTTTTAATTTTTTCCTTTTAT
** **
1558719 TTTTTGCATTTTTTGTTTTTAT
1 TTTTTTAATTTTTTCCTTTTAT
1558741 TTTTTT
1 TTTTTT
1558747 GTGGTTTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.08, C:0.06, G:0.04, T:0.82
Consensus pattern (22 bp):
TTTTTTAATTTTTTCCTTTTAT
Found at i:1558743 original size:23 final size:23
Alignment explanation
Indices: 1558714--1558767 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
1558704 AATTTTTTCC
1558714 TTTTTTTTTTG-CATTTTTTGTT
1 TTTTTTTTTTGTCATTTTTTGTT
**
1558736 TTTATTTTTTTGTGGTTTTTTGTT
1 TTT-TTTTTTTGTCATTTTTTGTT
1558760 TTTTTTTT
1 TTTTTTTT
1558768 GCTTTTGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 3 0.11
23 13 0.46
24 12 0.43
ACGTcount: A:0.04, C:0.02, G:0.11, T:0.83
Consensus pattern (23 bp):
TTTTTTTTTTGTCATTTTTTGTT
Found at i:1560771 original size:20 final size:20
Alignment explanation
Indices: 1560716--1560771 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
1560706 AAAATTCCCA
* *
1560716 AATGTATTGATACAATGATC
1 AATGTATCGATACATTGATC
*
1560736 AATGTATCGATGCATTGAAT-
1 AATGTATCGATACATTG-ATC
1560756 AATGTATCGATACATT
1 AATGTATCGATACATT
1560772 TCCTTGGCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:1562274 original size:7 final size:7
Alignment explanation
Indices: 1562253--1562285 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
1562243 TCTAAATAAG
1562253 AGAAACAA
1 AGAAA-AA
1562261 A-AAAAA
1 AGAAAAA
1562267 AGAAAAA
1 AGAAAAA
1562274 AGAAAAA
1 AGAAAAA
1562281 AGAAA
1 AGAAA
1562286 GATAGTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 3 0.12
7 20 0.83
8 1 0.04
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:1564123 original size:48 final size:48
Alignment explanation
Indices: 1564071--1564286 Score: 177
Period size: 48 Copynumber: 4.5 Consensus size: 48
1564061 TGTATTTAGT
* *
1564071 CAAACTCTTTTCTTCCCTTATTTGATTGAATTGGTGTTTGGGCCTGGC
1 CAAACTCTTTTCTTCCCTTGTTTGATTGAATTGGTGTTAGGGCCTGGC
* * * *
1564119 CAAACTCTTTTCTTCCCATGTTTGACTGTATTGGTGTTAGGGCCTGGT
1 CAAACTCTTTTCTTCCCTTGTTTGATTGAATTGGTGTTAGGGCCTGGC
*** * * *
1564167 CAAACTCAAATCATCCCTCGTTTGATT-ATATTGGTGTTAGGGCCTGGT
1 CAAACTCTTTTCTTCCCTTGTTTGATTGA-ATTGGTGTTAGGGCCTGGC
* ** * * * * * * *
1564215 CTAACTCAAATT-TTCCCTCGTTTGACTGTATTAGTATTAGGGCTTGGT
1 CAAACTC-TTTTCTTCCCTTGTTTGATTGAATTGGTGTTAGGGCCTGGC
1564263 CAAACTCTTTTTCATT-CCTTGTTT
1 CAAACTC-TTTTC-TTCCCTTGTTT
1564287 AACTAGATTG
Statistics
Matches: 136, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
48 124 0.91
49 10 0.07
50 2 0.01
ACGTcount: A:0.18, C:0.21, G:0.19, T:0.42
Consensus pattern (48 bp):
CAAACTCTTTTCTTCCCTTGTTTGATTGAATTGGTGTTAGGGCCTGGC
Found at i:1564238 original size:96 final size:96
Alignment explanation
Indices: 1564091--1564269 Score: 238
Period size: 96 Copynumber: 1.9 Consensus size: 96
1564081 TCTTCCCTTA
* ** * *
1564091 TTTGATTGAATTGGTGTTTGGGCCTGGCCAAACTCTTTTCTTCCCATGTTTGACTGTATTGGTGT
1 TTTGATTGAATTGGTGTTAGGGCCTGGCCAAACTCAATTCTTCCCATGTTTGACTGTATTAGTAT
1564156 TAGGGCCTGGTCAAACTCAAATCATCCCTCG
66 TAGGGCCTGGTCAAACTCAAATCATCCCTCG
* *
1564187 TTTGATT-ATATTGGTGTTAGGGCCTGGTCTAACTCAAATT-TTCCC-TCGTTTGACTGTATTAG
1 TTTGATTGA-ATTGGTGTTAGGGCCTGGCCAAACTC-AATTCTTCCCAT-GTTTGACTGTATTAG
*
1564249 TATTAGGGCTTGGTCAAACTC
63 TATTAGGGCCTGGTCAAACTC
1564270 TTTTTCATTC
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
95 2 0.03
96 68 0.94
97 2 0.03
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (96 bp):
TTTGATTGAATTGGTGTTAGGGCCTGGCCAAACTCAATTCTTCCCATGTTTGACTGTATTAGTAT
TAGGGCCTGGTCAAACTCAAATCATCCCTCG
Found at i:1564830 original size:20 final size:20
Alignment explanation
Indices: 1564807--1564861 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1564797 AAGCACCCAG
*
1564807 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTATCA
* *
1564827 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTATCA
1564847 ATGTATCGATACATT
1 ATGTATCGATACATT
1564862 CTGTCTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:1571320 original size:13 final size:13
Alignment explanation
Indices: 1571302--1571327 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1571292 CGTTTGTAAA
1571302 TGTATCGATACAT
1 TGTATCGATACAT
1571315 TGTATCGATACAT
1 TGTATCGATACAT
1571328 CGATCTTTGT
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:1572529 original size:20 final size:20
Alignment explanation
Indices: 1572504--1572555 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
1572494 TACAAGCCAA
** *
1572504 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTGG
1572524 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
1572543 TGTATCGATACAA
1 TGTATCGATACAA
1572556 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:1572561 original size:19 final size:18
Alignment explanation
Indices: 1572504--1572561 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 18
1572494 TACAAGCCAA
*
1572504 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA--TTTGG
*
1572524 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
1572543 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
1572562 CTACTGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
20 12 0.36
21 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:1573284 original size:21 final size:21
Alignment explanation
Indices: 1573243--1573286 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1573233 CTCCCCTTTA
* *
1573243 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1573264 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1573285 TC
1 TC
1573287 ATATAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1575064 original size:13 final size:13
Alignment explanation
Indices: 1575046--1575084 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1575036 ATAATCACCC
1575046 TGTATCGATACAA
1 TGTATCGATACAA
*
1575059 TGTATCAATACAA
1 TGTATCGATACAA
1575072 TGTATCGATACAA
1 TGTATCGATACAA
1575085 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1577183 original size:15 final size:15
Alignment explanation
Indices: 1577163--1577193 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1577153 ATTTCGTTTG
*
1577163 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1577178 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1577193 G
1 G
1577194 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1579026 original size:21 final size:21
Alignment explanation
Indices: 1578997--1579041 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1578987 AAGTTTTCAT
*
1578997 TTTTCTTAGCTAACTCA-TTA
1 TTTTCTTAGCCAACTCATTTA
*
1579017 TTTTCATTAGCCAACTTATTTA
1 TTTTC-TTAGCCAACTCATTTA
1579039 TTT
1 TTT
1579042 CATCATGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 10 0.48
22 6 0.29
ACGTcount: A:0.24, C:0.18, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTCATTTA
Found at i:1581281 original size:13 final size:13
Alignment explanation
Indices: 1581263--1581288 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1581253 CAATTTTTTG
1581263 TGTATCGATACAT
1 TGTATCGATACAT
1581276 TGTATCGATACAT
1 TGTATCGATACAT
1581289 ACTTGGTGTA
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:1581303 original size:32 final size:33
Alignment explanation
Indices: 1581243--1581306 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1581233 TACAAGCCAA
** *
1581243 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1581276 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1581307 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1583627 original size:51 final size:51
Alignment explanation
Indices: 1583572--1583755 Score: 235
Period size: 51 Copynumber: 3.6 Consensus size: 51
1583562 TAAGTTTCTC
*
1583572 AATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
1 AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
* * *
1583623 AATTTTTCACAATTGGGGATACTCCAACCCCAGTTTTATTT-TCAAAACACC
1 AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACT
* ** * * * *
1583674 AATTTTCCTTTAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAACACT
1 AATTTTTC-ACAATCGGGGATACTCCAACCCCGGTTTTATTT-CTAAAACACT
1583727 AATTTTTCACAATCGGGGATACTCCAACC
1 AATTTTTCACAATCGGGGATACTCCAACC
1583756 TCGTTAATCA
Statistics
Matches: 110, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
50 1 0.01
51 52 0.47
52 43 0.39
53 14 0.13
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (51 bp):
AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
Found at i:1583714 original size:52 final size:51
Alignment explanation
Indices: 1583572--1583755 Score: 219
Period size: 52 Copynumber: 3.6 Consensus size: 51
1583562 TAAGTTTCTC
* * *
1583572 AATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACACT
1 AATTTTTCACAATCGGGGATACTCCAA-CCCGATTTTATTTTCAAAAACACT
* * *
1583623 AATTTTTCACAATTGGGGATACTCCAACCCCAGTTTTATTTTC-AAAACACC
1 AATTTTTCACAATCGGGGATACTCCAACCCGA-TTTTATTTTCAAAAACACT
* ** * *
1583674 AATTTTCCTTTAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAACACT
1 AATTTTTC-ACAATCGGGGATACTCCAAC-CCGATTTTATTTTCAAAAACACT
1583727 AATTTTTCACAATCGGGGATACTCCAACC
1 AATTTTTCACAATCGGGGATACTCCAACC
1583756 TCGTTAATCA
Statistics
Matches: 111, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
50 3 0.03
51 45 0.41
52 46 0.41
53 17 0.15
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (51 bp):
AATTTTTCACAATCGGGGATACTCCAACCCGATTTTATTTTCAAAAACACT
Found at i:1583809 original size:28 final size:29
Alignment explanation
Indices: 1583741--1583810 Score: 92
Period size: 27 Copynumber: 2.5 Consensus size: 29
1583731 TTTCACAATC
*
1583741 GGGGATACTCCAACCTCGTTAATCATCGA
1 GGGGATACTCCAACCCCGTTAATCATCGA
**
1583770 --GGATACTCCAACCCCGTT-ATTTTCGA
1 GGGGATACTCCAACCCCGTTAATCATCGA
1583796 GGGGATACTCCAACC
1 GGGGATACTCCAACC
1583811 TCTGGTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 6 0.17
27 17 0.47
28 13 0.36
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (29 bp):
GGGGATACTCCAACCCCGTTAATCATCGA
Found at i:1583854 original size:107 final size:107
Alignment explanation
Indices: 1583690--1583893 Score: 261
Period size: 107 Copynumber: 1.9 Consensus size: 107
1583680 CCTTTAATCA
**
1583690 GGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTCACAATCGGGGATACTCCAAC
1 GGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTCACAATCAAGGATACTCCAAC
* *
1583755 CTCGTTAATCATCGA-GGATACTCCAACCCCGTTATTTTCGAG
66 CCCATTAATC-TCGAGGGATACTCCAACCCCGTTATTTTCGAG
* * * *
1583797 GGGATACTCCAACCTCTGGTTTTATTT-CTAAAACA-TCAATTTTTCATAATCAAGGATACTCCA
1 GGGATACTCCAA-CTCCGATTTTATTTCCAAAAACACT-AATTTTTCACAATCAAGGATACTCCA
* *
1583860 ACCCCATTATTCTCGAGGGGATACTCGAACCCCG
64 ACCCCATTAATCTCGA-GGGATACTCCAACCCCG
1583894 GTTTTATTTC
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
106 5 0.06
107 51 0.61
108 27 0.33
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (107 bp):
GGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTCACAATCAAGGATACTCCAAC
CCCATTAATCTCGAGGGATACTCCAACCCCGTTATTTTCGAG
Found at i:1583933 original size:79 final size:80
Alignment explanation
Indices: 1583765--1583940 Score: 255
Period size: 79 Copynumber: 2.2 Consensus size: 80
1583755 CTCGTTAATC
* * *
1583765 ATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCTGGTTTTATTTCTAAAA
1 ATCGAGGATACTCCAACCCCATTATTCTCGAGGGGATACTCCAACCTCCGGTTTTATTTCTAAAA
* * *
1583830 CATCAATTTTTCATA
66 CACCAATTCTCCATA
* *
1583845 ATCAAGGATACTCCAACCCCATTATTCTCGAGGGGATACTCGAACC-CCGGTTTTATTTCTAAAA
1 ATCGAGGATACTCCAACCCCATTATTCTCGAGGGGATACTCCAACCTCCGGTTTTATTTCTAAAA
1583909 CACCAATTCTCCATA
66 CACCAATTCTCCATA
* *
1583924 ATCGGGGATATTCCAAC
1 ATCGAGGATACTCCAAC
1583941 TCTGATTTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 43 0.51
80 42 0.49
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (80 bp):
ATCGAGGATACTCCAACCCCATTATTCTCGAGGGGATACTCCAACCTCCGGTTTTATTTCTAAAA
CACCAATTCTCCATA
Found at i:1583978 original size:51 final size:51
Alignment explanation
Indices: 1583895--1583991 Score: 122
Period size: 51 Copynumber: 1.9 Consensus size: 51
1583885 CGAACCCCGG
* * * *
1583895 TTTTATTTCTAAAACACCAATTCTCCATAATCGGGGATATTCCAACTCTGA
1 TTTTATTTCCAAAACACCAATTCTCCACAATCGAGGATACTCCAACTCTGA
* * * *
1583946 TTTTATTTCCAAAACACTAGTTTTTCACAATCGAGGATACTCCAAC
1 TTTTATTTCCAAAACACCAATTCTCCACAATCGAGGATACTCCAAC
1583992 CTCGTTATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (51 bp):
TTTTATTTCCAAAACACCAATTCTCCACAATCGAGGATACTCCAACTCTGA
Found at i:1584118 original size:79 final size:78
Alignment explanation
Indices: 1584009--1584228 Score: 244
Period size: 79 Copynumber: 2.8 Consensus size: 78
1583999 TTTCATCGGA
** * * *
1584009 GATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGAT
1 GATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAATCCC-GTTTTATTTCCAAAATATTGAT
* **
1584074 TTCTCATAATTGGG
65 TTCTCACAACCGGG
* * * * *
1584088 GATACTCCAACCTCGTTATTTCCAAAGGGATACTCCAATCCCAATTTTATTTCC-TAATCATCGA
1 GATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAATCCC-GTTTTATTTCCAAAAT-ATTGA
*
1584152 TTTTTCACAACCGGG
64 TTTCTCACAACCGGG
* * *
1584167 GATACTCGAACCCCGTTATTTTCAAGGGGATACTCCAATCCCGTTATTATCTCCAAAATATT
1 GATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAATCCCGTT-TTATTTCCAAAATATT
1584229 AAATTTCCCA
Statistics
Matches: 115, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
78 5 0.04
79 107 0.93
80 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (78 bp):
GATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAATCCCGTTTTATTTCCAAAATATTGATT
TCTCACAACCGGG
Found at i:1584140 original size:237 final size:240
Alignment explanation
Indices: 1583638--1584140 Score: 669
Period size: 237 Copynumber: 2.1 Consensus size: 240
1583628 TTCACAATTG
* *
1583638 GGGATACTCCAACCCCAGTTTTATTT-TCAAAACACCAATTTTCCTTTAATCAGGGATACTCCAA
1 GGGATACTCCAACCCCAGTTTTATTTCTCAAAACACCAATTCTCCTATAATCAGGGATACTCCAA
*
1583702 CTCCGATTTTATTTCCAAAAACACTAATTTTTCACAATCGGGGATACTCCAACCTCGTTAATCAT
66 CTCCGATTTTATTTCCAAAAACACTAATTTTTCACAATCGAGGATACTCCAACCTCGTTAATCAT
** * * * *
1583767 CGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCTGGTTTTATTTCTAAAACA
131 CGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCTCCGGCTTTATTTCCAAAACA
* * *
1583832 TCAATTTTTCATAATCAAGGATACTCCAACCCCATTATTCTCGAG
196 TCAATTTCTCATAATCAAGGATACTCCAACCCCATTATTCTCAAA
* * * *
1583877 GGGATACTCGAACCCCGGTTTTATTTCT-AAAACACCAATTCTCC-ATAATCGGGGATATTCCAA
1 GGGATACTCCAACCCCAGTTTTATTTCTCAAAACACCAATTCTCCTATAATCAGGGATACTCCAA
* * *
1583940 CTCTGATTTTATTTCC-AAAACACTAGTTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCA
66 CTCCGATTTTATTTCCAAAAACACTAATTTTTCACAATCGAGGATACTCCAACCTCGTTA-ATCA
1584004 TCG-GAGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACC-CCGGCTTTATTTCCAAAA
130 TCGAG-GATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCTCCGGCTTTATTTCCAAAA
* ** *** * *
1584067 TATTGATTTCTCATAATTGGGGATACTCCAACCTCGTTATT-TCCAAA
194 CATCAATTTCTCATAATCAAGGATACTCCAACCCCATTATTCT-CAAA
* *
1584114 GGGATACTCCAATCCCAATTTTATTTC
1 GGGATACTCCAACCCCAGTTTTATTTC
1584141 CTAATCATCG
Statistics
Matches: 229, Mismatches: 31, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
236 1 0.00
237 114 0.50
238 74 0.32
239 39 0.17
240 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (240 bp):
GGGATACTCCAACCCCAGTTTTATTTCTCAAAACACCAATTCTCCTATAATCAGGGATACTCCAA
CTCCGATTTTATTTCCAAAAACACTAATTTTTCACAATCGAGGATACTCCAACCTCGTTAATCAT
CGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCTCCGGCTTTATTTCCAAAACA
TCAATTTCTCATAATCAAGGATACTCCAACCCCATTATTCTCAAA
Found at i:1595068 original size:19 final size:18
Alignment explanation
Indices: 1595044--1595141 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
1595034 TAGCTTACAT
1595044 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1595063 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1595076 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1595095 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1595108 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
*
1595128 TGGATCGATACAAA
1 TGTATCGATACAAA
1595142 TCGTTGAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 26
0.71 0.01 0.28
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.37
20 12 0.18
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1595080 original size:32 final size:32
Alignment explanation
Indices: 1595039--1595139 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
1595029 GGCAGTAGCT
*
1595039 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
1595071 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
1595103 TACATTGTATCGATACAACACTTTATGGATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
1595136 TACA
1 TACA
1595140 AATCGTTGAA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 52 0.79
33 14 0.21
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.34
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:1595081 original size:13 final size:13
Alignment explanation
Indices: 1595063--1595119 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1595053 ACAAAACTTA
1595063 TGTATCGATACAT
1 TGTATCGATACAT
1595076 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
1595094 ATGTATCGATACAT
1 -TGTATCGATACAT
1595108 TGTATCGATACA
1 TGTATCGATACA
1595120 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1595979 original size:55 final size:52
Alignment explanation
Indices: 1595880--1596300 Score: 268
Period size: 43 Copynumber: 8.7 Consensus size: 52
1595870 GAAAAGTGAT
* * * * **
1595880 AAAGATGCCAATATGTTGATTCACA-GCCAACGATATTGGGCTTAAAGATGAGAAA
1 AAAGATGCCAATATGCTGATTCA-AGGCCAGCTACATTGAACTTAAAGATG-G--A
* *
1595935 AAAGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
1595987 AAAGTTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A--G-
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
1596034 ---G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---A
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * * * *
1596079 GAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTT-AA-A--G-
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
1596126 ---G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
1596172 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T--A
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
1596215 AAAG-TGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGA---A
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
1596263 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTG
1596301 GGCTTAGAAG
Statistics
Matches: 308, Mismatches: 34, Indels: 54
0.78 0.09 0.14
Matches are distributed among these distances:
43 103 0.33
44 10 0.03
45 2 0.01
46 1 0.00
47 1 0.00
48 10 0.03
49 97 0.31
50 1 0.00
51 2 0.01
52 39 0.13
54 2 0.01
55 40 0.13
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (52 bp):
AAAGATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:1596053 original size:43 final size:44
Alignment explanation
Indices: 1595992--1596311 Score: 376
Period size: 49 Copynumber: 7.0 Consensus size: 44
1595982 ATGGAAAAGT
1595992 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAGAAGG
* *
1596035 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----AGAAGG
* *
1596084 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTA-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAGAAGG
* *
1596127 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A-GAAGG
* *
1596176 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAAG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAGAAGG
* * *
1596219 TGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGAAGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----AGAAGG
*
1596268 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAGAAGG
1596312 GTTGCCACCG
Statistics
Matches: 236, Mismatches: 23, Indels: 35
0.80 0.08 0.12
Matches are distributed among these distances:
43 111 0.47
44 7 0.03
45 1 0.00
47 1 0.00
48 2 0.01
49 114 0.48
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (44 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAGAAGG
Found at i:1596124 original size:92 final size:92
Alignment explanation
Indices: 1595943--1596311 Score: 612
Period size: 92 Copynumber: 4.0 Consensus size: 92
1595933 AAAAAGATGT
* * *
1595943 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGTTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAATATGCTGATT
*
1596008 CAAGGCCAGCTATATTGGACTTAAAGGTGC
63 CAAGGCCAGCGATATTGGACTTAAAGGTGC
*
1596038 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTAATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1596103 GGCCAGCGATATTGGACTTAAAGGTGC
66 GGCCAGCGATATTGGACTTAAAGGTGC
*
1596130 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
*
1596195 GGCCAGCGATATTGGACTTAAAAGTGC
66 GGCCAGCGATATTGGACTTAAAGGTGC
*
1596222 CAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
* *
1596287 GGCCAGCTATATTGGGCTTAGAAGG
66 GGCCAGCGATATTGGACTTA-AAGG
1596312 GTTGCCACCG
Statistics
Matches: 260, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
92 218 0.84
93 3 0.01
95 39 0.15
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTAAAGGTGC
Found at i:1596385 original size:32 final size:32
Alignment explanation
Indices: 1596299--1596632 Score: 437
Period size: 32 Copynumber: 10.4 Consensus size: 32
1596289 CCAGCTATAT
*
1596299 TGGGC-TTAG-AAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAAAGGTTGCCACCGACTTGTG
** * *
1596329 TGGGCTTTAGAGAGTGGTTGCCACCAACTTGAG
1 TGGGCTTTAGA-AAAGGTTGCCACCGACTTGTG
* *
1596362 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAAAGGTTGCCACCGACTTGTG
1596394 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAA-AAGGTTGCCACCGACTTGTG
*
1596427 TGGGCTTT-GAAAAAGGTTGCCAGCGACTTGTG
1 TGGGCTTTAG-AAAAGGTTGCCACCGACTTGTG
1596459 TGGGCTTT-GAAAAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAG-AAAAGGTTGCCACCGACTTGTG
*
1596491 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAAAGGTTGCCACCGACTTGTG
*
1596523 TGGGCTTTAGAAAAAGGTTGCCACTGACTTGTG
1 TGGGCTTTAG-AAAAGGTTGCCACCGACTTGTG
*
1596556 TGGGCTTT-GAAAAAGGTTGCCA-CTACCTTGTG
1 TGGGCTTTAG-AAAAGGTTGCCACCGA-CTTGTG
* *
1596588 TGGGCTTTAGAAAGGGTTGCCACCGAATTGTG
1 TGGGCTTTAGAAAAGGTTGCCACCGACTTGTG
1596620 TGGGCTTTGAGAA
1 TGGGCTTT-AGAA
1596633 GGGTAAAAGA
Statistics
Matches: 272, Mismatches: 21, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
30 5 0.02
31 5 0.02
32 169 0.62
33 93 0.34
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.28
Consensus pattern (32 bp):
TGGGCTTTAGAAAAGGTTGCCACCGACTTGTG
Found at i:1596385 original size:65 final size:64
Alignment explanation
Indices: 1596299--1596634 Score: 450
Period size: 65 Copynumber: 5.2 Consensus size: 64
1596289 CCAGCTATAT
* * * *
1596299 TGGGC-TT-AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGTGGTTGCCACCAACTTGAG
1 TGGGCTTTGAGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGAAAGAGGTTGCCACCGACTTGTG
*
1596362 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AAGAAGGTTGCCACCGACTTGT
1 TGGGCTTT-GAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAG-AGGTTGCCACCGACTTGT
1596426 G
64 G
* * *
1596427 TGGGCTTTGAAAAAGGTTGCCAGCGACTTGTGTGGGCTTT-GAAAAAGGTTGCCACCGACTTGTG
1 TGGGCTTTG-AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAGAGGTTGCCACCGACTTGTG
* *
1596491 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACTGACTTGTG
1 TGGGCTTT-GAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAGAGGTTGCCACCGACTTGTG
* * *
1596556 TGGGCTTTGAAAAAGGTTGCCA-CTACCTTGTGTGGGCTTTAGAAAG-GGTTGCCACCGAATTGT
1 TGGGCTTTG-AGAAGGTTGCCACCGA-CTTGTGTGGGCTTTAGAAAGAGGTTGCCACCGACTTGT
1596619 G
64 G
1596620 TGGGCTTTGAGAAGG
1 TGGGCTTTGAGAAGG
1596635 GTAAAAGATG
Statistics
Matches: 245, Mismatches: 18, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
63 10 0.04
64 89 0.36
65 143 0.58
66 3 0.01
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.28
Consensus pattern (64 bp):
TGGGCTTTGAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAGAGGTTGCCACCGACTTGTG
Found at i:1596542 original size:129 final size:128
Alignment explanation
Indices: 1596311--1596634 Score: 490
Period size: 129 Copynumber: 2.5 Consensus size: 128
1596301 GGCTTAGAAG
* ** * * *
1596311 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAGTGGTTGCCACCAACTTGAGTGGGCTTTAGAGAG
1 GGTTGCCA-CGACTTGTGTGGGCTTT-GAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAA
*
1596376 GGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAA
64 GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAA
1596441 GGTTGCCAGCGACTTGTGTGGGCTTTGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAG
1 GGTTGCCA-CGACTTGTGTGGGCTTTGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAG
*
1596506 GTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACTGACTTGTGTGGGCTTTGAAAAA
65 GTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAA
* * *
1596570 GGTTGCCACTACCTTGTGTGGGCTTT-AGAAAGGGTTGCCACCGAATTGTGTGGGCTTT-GAGAA
1 GGTTGCCACGA-CTTGTGTGGGCTTTGA-AAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAA
1596633 GG
64 GG
1596635 GTAAAAGATG
Statistics
Matches: 180, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
128 10 0.06
129 145 0.81
130 25 0.14
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (128 bp):
GGTTGCCACGACTTGTGTGGGCTTTGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGG
TTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAA
Found at i:1596668 original size:97 final size:96
Alignment explanation
Indices: 1596299--1596666 Score: 304
Period size: 97 Copynumber: 3.8 Consensus size: 96
1596289 CCAGCTATAT
* * * *** * * ** *
1596299 TGGGC-TTAGA-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGTGGTTGCCACCAACTTGAG
1 TGGGCTTTAGAGAAGGTTGCCACCGAATTGTGTGGGCTTTAGAAAAAAGATGCCACTAAAGTGTG
* * *
1596362 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
66 TGGACTTTA-AAAAGGTTGCCACCGACTTGTG
* * * * **
1596394 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTT-GAAAAAGGTTGCCAGC-GACTTG
1 TGGGCTTTAG-AGAAGGTTGCCACCGAATTGTGTGGGCTTTAGAAAAAAGATGCCA-CTAAAGTG
*
1596457 TGTGGGCTTTGAAAAAGGTTGCCACCGACTTGTG
64 TGTGGACTTT-AAAAAGGTTGCCACCGACTTGTG
* * * * **
1596491 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACTGACTTGTG
1 TGGGCTTTAGAGAAGGTTGCCACCGAATTGTGTGGGCTTTAGAAAAAAGATGCCACTAAAGTGTG
* *
1596556 TGGGCTTTGAAAAAGGTTGCCA-CTACCTTGTG
66 TGGACTTT-AAAAAGGTTGCCACCGA-CTTGTG
1596588 TGGGCTTTAGA-AAGGGTTGCCACCGAATTGTGTGGGCTTTGAGAAGGGTAAAAGATGCCAC-AA
1 TGGGCTTTAGAGAA-GGTTGCCACCGAATTGTGTGGGCTTT-AGAA----AAAAGATGCCACTAA
1596651 AGT-TGTGGAC-TTAAAA
60 AGTGTGTGGACTTTAAAA
1596667 GGAACAAGGT
Statistics
Matches: 243, Mismatches: 16, Indels: 25
0.86 0.06 0.09
Matches are distributed among these distances:
95 5 0.02
96 39 0.16
97 142 0.58
98 37 0.15
99 2 0.01
100 6 0.02
101 2 0.01
102 10 0.04
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.28
Consensus pattern (96 bp):
TGGGCTTTAGAGAAGGTTGCCACCGAATTGTGTGGGCTTTAGAAAAAAGATGCCACTAAAGTGTG
TGGACTTTAAAAAGGTTGCCACCGACTTGTG
Found at i:1596710 original size:68 final size:68
Alignment explanation
Indices: 1596618--1597062 Score: 468
Period size: 68 Copynumber: 6.6 Consensus size: 68
1596608 CACCGAATTG
* * * ** * *
1596618 TGTGGGCTTTGAGAAGGGTAAAAGATGCCACAAAGTTGTGGACTTAAAAGGAACAAG-GTGCCAC
1 TGTGGGCTTT-A-AAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCAC
*
1596682 GAAGT
64 GGAGT
* * * * *
1596687 TGTGGACTTTAAAAGGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTGAA--AAGAAG-GTGCCAC
1 TGTGGGCTTTAAAA-GGAAAAAG-GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCAC
1596749 GGAGT
64 GGAGT
* * * * * *
1596754 CGTGGAC-TTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGGAAAAGAGTGCCAC
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGAC-TTAGAA-GGAAAAAGAGTGCCAC
*
1596818 GTAGT
64 GGAGT
* * *
1596823 TGTGGGCTTTAAGAAGG-----GTTGCCACCGACTTGTGGACTTAGAAGGAAAAAGAGTGCCACG
1 TGTGGGCTTTAA-AAGGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACG
*
1596883 GAAT
65 GAGT
*
1596887 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGG
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGG
1596952 AGT
66 AGT
* *
1596955 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAATAGTGCCACGG
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGG
1597020 AGT
66 AGT
*
1597023 TGTGGGCTTTGAAAA-G---AAGGTGCCACGGAGTCGTGGACTT
1 TGTGGGCTTT-AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
1597063 TAAGAAGGTA
Statistics
Matches: 322, Mismatches: 39, Indels: 34
0.82 0.10 0.09
Matches are distributed among these distances:
63 3 0.01
64 46 0.14
65 39 0.12
66 22 0.07
67 24 0.07
68 133 0.41
69 47 0.15
70 4 0.01
71 4 0.01
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (68 bp):
TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGG
AGT
Found at i:1596747 original size:100 final size:99
Alignment explanation
Indices: 1596651--1597062 Score: 494
Period size: 100 Copynumber: 4.1 Consensus size: 99
1596641 GATGCCACAA
*
1596651 AGTTGTGGACTTAAAAGGAACAAGGTGCCACGAAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCC
1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGAAGTTGTGGACTTTAAAA-GGAAAAAGAGTGCC
*
1596716 ATGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGG
65 ACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGG
* * ** *
1596751 AGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGGAAAAGAGTGCC
1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGAAGTTGTGGACTTTAAAA-GGAAAAAGAGTGCC
* *
1596816 ACGTAGTTGTGGGCTTT---AAGAAGGGTTGCCACCG
65 ACGGAGTTGTGGGCTTTGAAAAGAA-GG-TGCCACGG
* * * *
1596850 ACTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAA-TTGTGGGCTTTAAAAAGAAAAAG-GTGC
1 AGTTGTGGACTTAAAAGGAAAAAG-GTGCCAC-GAAGTTGTGGACTTTAAAAGGAAAAAGAGTGC
* * *
1596913 CACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGG
64 CACGGAGTTGTGGGCTTTGAA--AAGAAG-GTGCCACGG
* * * * *
1596952 AGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TTAGAAGGAAAAATAGTGCC
1 AGTTGTGGAC-TTAAAAGGAAAAAGGTGCCACGAAGTTGTGGACTTTAAAAGGAAAAAGAGTGCC
1597016 ACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGG
65 ACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGG
*
1597051 AGTCGTGGACTT
1 AGTTGTGGACTT
1597063 TAAGAAGGTA
Statistics
Matches: 264, Mismatches: 35, Indels: 28
0.81 0.11 0.09
Matches are distributed among these distances:
97 5 0.02
98 23 0.09
99 50 0.19
100 102 0.39
101 14 0.05
102 53 0.20
103 17 0.06
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (99 bp):
AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGAAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCA
CGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGG
Found at i:1596881 original size:34 final size:33
Alignment explanation
Indices: 1596637--1597062 Score: 382
Period size: 34 Copynumber: 12.8 Consensus size: 33
1596627 TGAGAAGGGT
* **
1596637 AAAAGATGCCACAAAGTTGTGGACTTAAAAGGA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
1596670 ACAAGGTGCCACGAAGTTGTGGACTTTAAAAGGGA
1 AAAAGGTGCCACGGAGTTGTGGAC-TTAAAA-GGA
* * **
1596705 AAAAGAGTGCCATGGAGTTGTGGGCTTTGAA--A
1 AAAAG-GTGCCACGGAGTTGTGGACTTAAAAGGA
* *
1596737 AGAAGGTGCCACGGAGTCGTGGACTTAAAAGGA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
1596770 ACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGG
1 AAAAGGTGCCACGGAGTTGTGGAC-TTAAAA-GGA
* * *
1596805 AAAAGAGTGCCACGTAGTTGTGGGCTT-TAA-G-
1 AAAAG-GTGCCACGGAGTTGTGGACTTAAAAGGA
* * * *
1596836 -AAGGGTTGCCACCGACTTGTGGACTTAGAAGGA
1 AAAAGG-TGCCACGGAGTTGTGGACTTAAAAGGA
* * *
1596869 AAAAGAGTGCCACGGAATTGTGGGCTTTAAAAAGA
1 AAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGA
*
1596904 AAAAGGTGCCACGGAGTTGTGGACTTAGAAGGA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
1596937 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
1 AAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGA
*
1596972 AAAAGGTGCCACGGAGTTGTGGACTTAGAAGGA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
* * **
1597005 AAAATAGTGCCACGGAGTTGTGGGCTTTGAA--A
1 AAAA-GGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
1597037 AGAAGGTGCCACGGAGTCGTGGACTT
1 AAAAGGTGCCACGGAGTTGTGGACTT
1597063 TAAGAAGGTA
Statistics
Matches: 322, Mismatches: 53, Indels: 38
0.78 0.13 0.09
Matches are distributed among these distances:
29 1 0.00
30 19 0.06
31 41 0.13
32 11 0.03
33 66 0.20
34 108 0.34
35 44 0.14
36 32 0.10
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (33 bp):
AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:1598030 original size:11 final size:11
Alignment explanation
Indices: 1598016--1598045 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1598006 TTTTTCCCCT
1598016 TTTTTTGTTTG
1 TTTTTTGTTTG
*
1598027 TTTTTTGTTTT
1 TTTTTTGTTTG
1598038 TTTTTTGT
1 TTTTTTGT
1598046 GAAGATTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (11 bp):
TTTTTTGTTTG
Found at i:1598386 original size:16 final size:15
Alignment explanation
Indices: 1598365--1598402 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
1598355 GCCTTTCCAC
1598365 TTTTTTTTTGTTGTT
1 TTTTTTTTTGTTGTT
*
1598380 TTGTTTTTTTTTTGTT
1 TT-TTTTTTTGTTGTT
1598396 TTTTTTT
1 TTTTTTT
1598403 ACTCTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (15 bp):
TTTTTTTTTGTTGTT
Found at i:1605377 original size:52 final size:52
Alignment explanation
Indices: 1605299--1605427 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
1605289 CGAAATATGA
1605299 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
* *
1605351 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
1605403 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1605428 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
Found at i:1605438 original size:52 final size:51
Alignment explanation
Indices: 1605299--1605447 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 51
1605289 CGAAATATGA
1605299 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGC
* *
1605351 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGC
*
1605403 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1605448 ATGTATTGAT
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
51 2 0.02
52 89 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTAGGC
Found at i:1605533 original size:32 final size:32
Alignment explanation
Indices: 1605497--1605564 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
1605487 GGCAGTAGCT
1605497 TACATTGTATCGATACAAAACTTATGTATCCA
1 TACATTGTATCGATACAAAACTTATGTATCCA
* *
1605529 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCCA
1605561 TACA
1 TACA
1605565 ACACTTTATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (32 bp):
TACATTGTATCGATACAAAACTTATGTATCCA
Found at i:1605575 original size:20 final size:19
Alignment explanation
Indices: 1605502--1605585 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
1605492 TAGCTTACAT
*
1605502 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
*
1605521 TGTATCCAT---ACA--T-
1 TGTATCGATACAACACTTA
1605534 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1605553 TGTATCGATACAACACTTTA
1 TGTATCGATACAACAC-TTA
1605573 TGTATCGATACAA
1 TGTATCGATACAA
1605586 ATCGTTGAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
13 8 0.15
14 1 0.02
16 5 0.09
18 1 0.02
19 24 0.44
20 16 0.29
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1606169 original size:19 final size:19
Alignment explanation
Indices: 1606145--1606209 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
1606135 TAGCCAAACT
1606145 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
1606164 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
1606177 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
1606198 TGTATCGATACA
1 TGTATCGATACA
1606210 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:1606181 original size:13 final size:13
Alignment explanation
Indices: 1606163--1606188 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1606153 TACACAAAAT
1606163 ATGTATCGATACA
1 ATGTATCGATACA
1606176 ATGTATCGATACA
1 ATGTATCGATACA
1606189 CAAAAAATAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1606186 original size:32 final size:33
Alignment explanation
Indices: 1606145--1606209 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
1606135 TAGCCAAACT
1606145 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
1606177 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
1606210 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:1609685 original size:15 final size:15
Alignment explanation
Indices: 1609665--1609695 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1609655 TAAAAATGTC
*
1609665 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1609680 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1609695 C
1 C
1609696 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Done.