Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 23 of 143
Found at i:6837545 original size:17 final size:17
Alignment explanation
Indices: 6837520--6837572 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
6837510 TTAATTTGTT
* * *
6837520 AAATTTTTATGAATTAA
1 AAATATTTATAAAATAA
6837537 AAATATTTATAAAATAA
1 AAATATTTATAAAATAA
6837554 AAATTATATTA-AAAATAA
1 AAA-TAT-TTATAAAATAA
6837572 A
1 A
6837573 TTATATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 17 0.55
18 11 0.35
19 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
AAATATTTATAAAATAA
Found at i:6837568 original size:18 final size:18
Alignment explanation
Indices: 6837534--6837585 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 18
6837524 TTTTATGAAT
6837534 TAAAAA-TAT-TTATAAAA
1 TAAAAATTATATTA-AAAA
6837551 TAAAAATTATATTAAAAA
1 TAAAAATTATATTAAAAA
6837569 T--AAATTATA-TAAAAA
1 TAAAAATTATATTAAAAA
6837584 TA
1 TA
6837586 TTCAATATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 7 0.22
16 8 0.25
17 6 0.19
18 8 0.25
19 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAAATTATATTAAAAA
Found at i:6841841 original size:16 final size:17
Alignment explanation
Indices: 6841820--6841852 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6841810 TAAAAATGTA
*
6841820 TAAAATTATTA-AATAT
1 TAAAATAATTATAATAT
6841836 TAAAATAATTATAATAT
1 TAAAATAATTATAATAT
6841853 AAATATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAATAATTATAATAT
Found at i:6843717 original size:25 final size:26
Alignment explanation
Indices: 6843689--6843741 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 26
6843679 GATAAATGAA
6843689 CAGGCATTGAGCCGGTGAATGT-TAG
1 CAGGCATTGAGCCGGTGAATGTGTAG
*
6843714 CAGGCTTTGAGCCGGTGAATGTGTAG
1 CAGGCATTGAGCCGGTGAATGTGTAG
6843740 CA
1 CA
6843742 AGTACTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.23, C:0.17, G:0.36, T:0.25
Consensus pattern (26 bp):
CAGGCATTGAGCCGGTGAATGTGTAG
Found at i:6846532 original size:79 final size:79
Alignment explanation
Indices: 6846401--6846555 Score: 283
Period size: 79 Copynumber: 2.0 Consensus size: 79
6846391 ACAATGGGGC
* *
6846401 AAGTTTTTAAGAGTAACACTAGGAAATCTCCCAATCCATTCTGTATTAGCCACGTCTTTGTCAAG
1 AAGTTTTTAAGAGTAACACTAGGAAATCTCCCAATCCATTCTATATTAGCCACGTCTCTGTCAAG
6846466 ACGTTCTCAAAAAT
66 ACGTTCTCAAAAAT
*
6846480 AAGTTTTTAAGAGTAACACTAGGAAATCTCCCAATCCATTTTATATTAGCCACGTCTCTGTCAAG
1 AAGTTTTTAAGAGTAACACTAGGAAATCTCCCAATCCATTCTATATTAGCCACGTCTCTGTCAAG
6846545 ACGTTCTCAAA
66 ACGTTCTCAAA
6846556 TATTATTTTC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 73 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.32
Consensus pattern (79 bp):
AAGTTTTTAAGAGTAACACTAGGAAATCTCCCAATCCATTCTATATTAGCCACGTCTCTGTCAAG
ACGTTCTCAAAAAT
Found at i:6852132 original size:24 final size:22
Alignment explanation
Indices: 6852105--6852157 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 22
6852095 ATAAATTTTT
*
6852105 TTTTAAAAATTATTTTTTTTCATA
1 TTTTAAAAATTATTTATTTT-A-A
*
6852129 TTTTTAAAATTATTTATTTTAA
1 TTTTAAAAATTATTTATTTTAA
6852151 TTTTAAA
1 TTTTAAA
6852158 GATTTCTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 7 0.27
23 1 0.04
24 18 0.69
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTAAAAATTATTTATTTTAA
Found at i:6855039 original size:45 final size:45
Alignment explanation
Indices: 6854975--6855066 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
6854965 TCAGAACATG
6854975 GTGTACAAGTTAGATATTGTAGATCCGTTAAAGATCAAGAGTTTT
1 GTGTACAAGTTAGATATTGTAGATCCGTTAAAGATCAAGAGTTTT
**
6855020 GTGTACAAGTTAGATATTGTAGATTTGTTAAAGATCAAGAGTTTT
1 GTGTACAAGTTAGATATTGTAGATCCGTTAAAGATCAAGAGTTTT
6855065 GT
1 GT
6855067 TTTGGATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.38
Consensus pattern (45 bp):
GTGTACAAGTTAGATATTGTAGATCCGTTAAAGATCAAGAGTTTT
Found at i:6857165 original size:4 final size:4
Alignment explanation
Indices: 6857156--6857202 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
6857146 TCTTGTTATT
6857156 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
6857203 TAAGTCATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:6867942 original size:5 final size:5
Alignment explanation
Indices: 6867934--6867971 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
6867924 TTAAATTAAA
6867934 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT
6867972 CTTGCTAGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:6878265 original size:10 final size:9
Alignment explanation
Indices: 6878250--6878308 Score: 57
Period size: 10 Copynumber: 6.2 Consensus size: 9
6878240 TTCTTTAGAT
6878250 AATTATTAAA
1 AATTA-TAAA
6878260 AATTAT-AA
1 AATTATAAA
*
6878268 AATTATGGAA
1 AATTAT-AAA
*
6878278 AATTATTAAT
1 AATTA-TAAA
6878288 AATTATAAGA
1 AATTATAA-A
6878298 AATTATAAA
1 AATTATAAA
6878307 AA
1 AA
6878309 AAACCTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
8 8 0.19
9 7 0.17
10 26 0.62
11 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (9 bp):
AATTATAAA
Found at i:6879431 original size:23 final size:22
Alignment explanation
Indices: 6879401--6879445 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
6879391 GAACGATATT
6879401 TTTTTATT-TTAATATATTTTTAA
1 TTTTTATTGTT-ATAT-TTTTTAA
6879424 TTTTTATTGTTATATTTTTTAA
1 TTTTTATTGTTATATTTTTTAA
6879446 AAATATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.33
23 12 0.57
24 2 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTTATTGTTATATTTTTTAA
Found at i:6881094 original size:22 final size:22
Alignment explanation
Indices: 6881069--6881123 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
6881059 TATTTTCGTC
6881069 AAAATATATATTATAT-AAAAGA
1 AAAATATAT-TTATATAAAAAGA
*
6881091 AAAATCTATTTATATAAAAAG-
1 AAAATATATTTATATAAAAAGA
*
6881112 AAAATGTATTTA
1 AAAATATATTTA
6881124 AAAGTTCACC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (22 bp):
AAAATATATTTATATAAAAAGA
Found at i:6881302 original size:14 final size:14
Alignment explanation
Indices: 6881277--6881328 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
6881267 ATTTTAAAAA
6881277 TTTAATAAATTTAAT
1 TTTAAT-AATTTAAT
6881292 TTTCAAT-ATTTACCTAT
1 TTT-AATAATTTA---AT
6881309 TTTAATAATTTAAT
1 TTTAATAATTTAAT
6881323 TTTAAT
1 TTTAAT
6881329 CTTAAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
14 13 0.41
15 3 0.09
16 6 0.19
17 10 0.31
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTAATAATTTAAT
Found at i:6883520 original size:21 final size:21
Alignment explanation
Indices: 6883490--6883534 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6883480 TAATTTACAA
*
6883490 TTTTAGTTAT-TTTATAATATT
1 TTTTAATTATATTTATAA-ATT
*
6883511 TTTTAATTATATTTTTAAATT
1 TTTTAATTATATTTATAAATT
6883532 TTT
1 TTT
6883535 AAAATTAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTAATTATATTTATAAATT
Found at i:6886865 original size:22 final size:21
Alignment explanation
Indices: 6886814--6886865 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
6886804 TTGTATGGGT
* * *
6886814 TTAGCACTTTTGTGCTTTTTG
1 TTAGCACTTCTGTGCTATCTG
*
6886835 TTCAACACTTCTGTGCTATCTG
1 TT-AGCACTTCTGTGCTATCTG
6886857 CTTAGCACT
1 -TTAGCACT
6886866 ACGGTGCTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.08
22 20 0.83
23 2 0.08
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (21 bp):
TTAGCACTTCTGTGCTATCTG
Found at i:6891726 original size:36 final size:33
Alignment explanation
Indices: 6891668--6891737 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 33
6891658 GCTTTCTTTT
* *
6891668 TTGCTACTATTTTGTTGTTATTTCGTTATTATA
1 TTGCTACTATTTTGTTATTATTTCGATATTATA
*
6891701 TTGCTACTATCTTATTGTTATTATTTGGATATTATA
1 TTGCTACTA--TT-TTGTTATTATTTCGATATTATA
6891737 T
1 T
6891738 AACTCTTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 9 0.29
35 2 0.06
36 20 0.65
ACGTcount: A:0.21, C:0.09, G:0.11, T:0.59
Consensus pattern (33 bp):
TTGCTACTATTTTGTTATTATTTCGATATTATA
Found at i:6902542 original size:2 final size:2
Alignment explanation
Indices: 6902535--6902571 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
6902525 ATAATTATCA
6902535 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6902572 TAACGAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6905835 original size:13 final size:14
Alignment explanation
Indices: 6905807--6905848 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
6905797 AATTCCTACA
6905807 TTCTTCAATTTAA-T
1 TTCTT-AATTTAATT
*
6905821 TTCTTAATTTTATT
1 TTCTTAATTTAATT
6905835 TTCTATAATTTAAT
1 TTCT-TAATTTAAT
6905849 GCTTAAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 6 0.25
14 10 0.42
15 8 0.33
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (14 bp):
TTCTTAATTTAATT
Found at i:6906103 original size:37 final size:37
Alignment explanation
Indices: 6906061--6906135 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
6906051 CTATACTTTT
*
6906061 TAGATTAGATTTTTTCTATTAATTTTATTTTCAACAA
1 TAGATTAGATTTTTTCTATTAATTTTAGTTTCAACAA
*
6906098 TAGATTAGATTTTTTCTATTCATTTTAGTTTCAACAA
1 TAGATTAGATTTTTTCTATTAATTTTAGTTTCAACAA
6906135 T
1 T
6906136 CTAATGCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (37 bp):
TAGATTAGATTTTTTCTATTAATTTTAGTTTCAACAA
Found at i:6906577 original size:20 final size:20
Alignment explanation
Indices: 6906560--6906598 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
6906550 AATCATAATC
*
6906560 TATTTTTGAAAATTATAAAAA
1 TATTTTTAAAAATTAT-AAAA
6906581 TATTTTTAAAAATTATAA
1 TATTTTTAAAAATTATAA
6906599 GCATGCGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (20 bp):
TATTTTTAAAAATTATAAAA
Found at i:6911042 original size:72 final size:72
Alignment explanation
Indices: 6910955--6911175 Score: 325
Period size: 72 Copynumber: 3.1 Consensus size: 72
6910945 AAACAATTAA
* * * *
6910955 TTACACAGGATGGACACACGGGCGTGTACCAGACCGTGTGGACATTCTATCTATGAAATTAGAAA
1 TTACACGGGCTGGACACACGGGCGTGTACCAGACCGTGTGGACATTCTGTTTATGAAATTAGAAA
*
6911020 CAGTAAG
66 CAGTGAG
* *
6911027 TTACACGGGCTGGACACACGGGTGTGTACCAAACCGTGTGGACATTCTGTTTATGAAATTAGAAA
1 TTACACGGGCTGGACACACGGGCGTGTACCAGACCGTGTGGACATTCTGTTTATGAAATTAGAAA
6911092 CAGTGAG
66 CAGTGAG
* * * * *
6911099 TTATACGGGCTGGACACACGGGCGGGTGCCAGACCGTTTGGGCATTCTGTTTATGAAATTAGAAA
1 TTACACGGGCTGGACACACGGGCGTGTACCAGACCGTGTGGACATTCTGTTTATGAAATTAGAAA
*
6911164 CAATGAG
66 CAGTGAG
6911171 TTACA
1 TTACA
6911176 TGGGTGTGGG
Statistics
Matches: 133, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 133 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (72 bp):
TTACACGGGCTGGACACACGGGCGTGTACCAGACCGTGTGGACATTCTGTTTATGAAATTAGAAA
CAGTGAG
Found at i:6911328 original size:39 final size:39
Alignment explanation
Indices: 6911274--6911409 Score: 191
Period size: 39 Copynumber: 3.5 Consensus size: 39
6911264 CATCTTTTTG
*
6911274 GAAACACTACGATACATTACTGAACTGACAGTGACACTA
1 GAAACACTACGATACATTACTGAACTGGCAGTGACACTA
* *
6911313 GAAACACTATGATACATTACTGCACTGGCAGTGACACTA
1 GAAACACTACGATACATTACTGAACTGGCAGTGACACTA
* ** * *
6911352 AAAACACTGTGATACATTACTGAACCGGCAGTGACACTG
1 GAAACACTACGATACATTACTGAACTGGCAGTGACACTA
*
6911391 GAAACACTACAATACATTA
1 GAAACACTACGATACATTA
6911410 TTTTTATAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.21
Consensus pattern (39 bp):
GAAACACTACGATACATTACTGAACTGGCAGTGACACTA
Found at i:6916219 original size:16 final size:17
Alignment explanation
Indices: 6916192--6916227 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
6916182 TTAAAATTGG
*
6916192 ATTGAGAAAATTATTTA
1 ATTGAGAAAATTAATTA
6916209 ATTGA-AAAATTAATTA
1 ATTGAGAAAATTAATTA
6916225 ATT
1 ATT
6916228 TAACAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (17 bp):
ATTGAGAAAATTAATTA
Found at i:6918151 original size:21 final size:20
Alignment explanation
Indices: 6918117--6918156 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
6918107 ATTTTTATGA
*
6918117 ATAAAATAATAGTAAATAAC
1 ATAAAATAAAAGTAAATAAC
6918137 ATAAACATAAAAGTAAATAA
1 ATAAA-ATAAAAGTAAATAA
6918157 TTTATAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (20 bp):
ATAAAATAAAAGTAAATAAC
Found at i:6923371 original size:14 final size:14
Alignment explanation
Indices: 6923338--6923384 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
6923328 AGCTTCAACT
6923338 TAATAAATGA--TA
1 TAATAAATGACGTA
*
6923350 TAAAAAATGACGTA
1 TAATAAATGACGTA
6923364 TAATAAATGACGTA
1 TAATAAATGACGTA
6923378 TAATAAA
1 TAATAAA
6923385 CCAAGCTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
12 9 0.29
14 22 0.71
ACGTcount: A:0.57, C:0.04, G:0.11, T:0.28
Consensus pattern (14 bp):
TAATAAATGACGTA
Found at i:6927015 original size:39 final size:39
Alignment explanation
Indices: 6926972--6927185 Score: 142
Period size: 39 Copynumber: 5.5 Consensus size: 39
6926962 TCACTATTGC
*
6926972 TTCAGTATAACATTGCGGTGTTTACAGTCTCACCACCAG
1 TTCAGTATAACATTGCAGTGTTTACAGTCTCACCACCAG
* * * *
6927011 TTCAGTATAGCATTGTAGTGTTTACAGTGTCACTACCAG
1 TTCAGTATAACATTGCAGTGTTTACAGTCTCACCACCAG
* * * * * ** * *
6927050 TTCGGTATATCATTGCAGTGTTTATAGTGTTACTGCTAA
1 TTCAGTATAACATTGCAGTGTTTACAGTCTCACCACCAG
* * * ** *
6927089 TTC-GATATATCATTGCAGTGTTTACAGTGTTACTGCCAA
1 TTCAG-TATAACATTGCAGTGTTTACAGTCTCACCACCAG
** * * * * *
6927128 TTTGGTATATCATTGCAGTGTTTACAATGTCACTACCGG
1 TTCAGTATAACATTGCAGTGTTTACAGTCTCACCACCAG
** *
6927167 TTGGGTATATCATTGCAGT
1 TTCAGTATAACATTGCAGT
6927186 ACAGTCTTTC
Statistics
Matches: 151, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
38 1 0.01
39 149 0.99
40 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (39 bp):
TTCAGTATAACATTGCAGTGTTTACAGTCTCACCACCAG
Found at i:6927176 original size:78 final size:78
Alignment explanation
Indices: 6926949--6927185 Score: 240
Period size: 78 Copynumber: 3.0 Consensus size: 78
6926939 ATAGCCTAAT
* **** * * * * *
6926949 AGTGTTCACAGTGTCACTATTGCTTCAGTATAACATTGCGGTGTTTACAGTCTCACCACCAGTTC
1 AGTGTTTACAGTGTCACTACCAATTCGGTATATCATTGCAGTGTTTACAGTGTCACTACCAGTTC
* * *
6927014 AGTATAGCATTGT
66 GGTATATCATTGC
* * * * * *
6927027 AGTGTTTACAGTGTCACTACCAGTTCGGTATATCATTGCAGTGTTTATAGTGTTACTGCTAATTC
1 AGTGTTTACAGTGTCACTACCAATTCGGTATATCATTGCAGTGTTTACAGTGTCACTACCAGTTC
*
6927092 GATATATCATTGC
66 GGTATATCATTGC
* * * * * *
6927105 AGTGTTTACAGTGTTACTGCCAATTTGGTATATCATTGCAGTGTTTACAATGTCACTACCGGTTG
1 AGTGTTTACAGTGTCACTACCAATTCGGTATATCATTGCAGTGTTTACAGTGTCACTACCAGTTC
6927170 GGTATATCATTGC
66 GGTATATCATTGC
6927183 AGT
1 AGT
6927186 ACAGTCTTTC
Statistics
Matches: 127, Mismatches: 32, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
78 127 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (78 bp):
AGTGTTTACAGTGTCACTACCAATTCGGTATATCATTGCAGTGTTTACAGTGTCACTACCAGTTC
GGTATATCATTGC
Found at i:6927575 original size:128 final size:128
Alignment explanation
Indices: 6927438--6927703 Score: 356
Period size: 128 Copynumber: 2.1 Consensus size: 128
6927428 CTCAAGTCAA
* * *
6927438 TATGCACACACGGTATGAGGCACACTCGT-GGCCCCAGTCC-GTGTATCCCCTGTACAGTATTGC
1 TATGTACACACGGTATGAGGCACACCCGTAGG-CCCAG-CCTATGTATCCCCTGTACAGTATTGC
* * * * * *
6927501 TCAAAATAGTATGTATGCATGGCTCGACACACGTCCGTGTGCCCAGCCCGTGTGATACAAAATAG
64 TCAAAACAATATGTACGCACGGCTCGACACACGCCCGTGTGCCCAGCCCATGTGATACAAAATAG
* * * * *
6927566 TATGTACACATGGTCTGGGGCACGCCCGTAGGCCCAGCCTATGTATCCCTTGTACAGTATTGCTC
1 TATGTACACACGGTATGAGGCACACCCGTAGGCCCAGCCTATGTATCCCCTGTACAGTATTGCTC
* *
6927631 AAAACAATGTGTACGCACGGCTCGACACACGCCCGTGTGCCCAGCCCATGTGGTACAAAATAG
66 AAAACAATATGTACGCACGGCTCGACACACGCCCGTGTGCCCAGCCCATGTGATACAAAATAG
6927694 TATGTACACA
1 TATGTACACA
6927704 TGGTCTAGCA
Statistics
Matches: 120, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
127 2 0.02
128 116 0.97
129 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (128 bp):
TATGTACACACGGTATGAGGCACACCCGTAGGCCCAGCCTATGTATCCCCTGTACAGTATTGCTC
AAAACAATATGTACGCACGGCTCGACACACGCCCGTGTGCCCAGCCCATGTGATACAAAATAG
Found at i:6927704 original size:128 final size:128
Alignment explanation
Indices: 6927479--6927709 Score: 381
Period size: 128 Copynumber: 1.8 Consensus size: 128
6927469 CCCCAGTCCG
* * * * *
6927479 TGTATCCCCTGTACAGTATTGCTCAAAATAGTATGTATGCATGGCTCGACACACGTCCGTGTGCC
1 TGTATCCCCTGTACAGTATTGCTCAAAACAATATGTACGCACGGCTCGACACACGCCCGTGTGCC
*
6927544 CAGCCCGTGTGATACAAAATAGTATGTACACATGGTCTGGGGCACGCCCGTAGGCCCAGCCTA
66 CAGCCCATGTGATACAAAATAGTATGTACACATGGTCTGGGGCACGCCCGTAGGCCCAGCCTA
* *
6927607 TGTATCCCTTGTACAGTATTGCTCAAAACAATGTGTACGCACGGCTCGACACACGCCCGTGTGCC
1 TGTATCCCCTGTACAGTATTGCTCAAAACAATATGTACGCACGGCTCGACACACGCCCGTGTGCC
*
6927672 CAGCCCATGTGGTACAAAATAGTATGTACACATGGTCT
66 CAGCCCATGTGATACAAAATAGTATGTACACATGGTCT
6927710 AGCACACGGT
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
128 94 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (128 bp):
TGTATCCCCTGTACAGTATTGCTCAAAACAATATGTACGCACGGCTCGACACACGCCCGTGTGCC
CAGCCCATGTGATACAAAATAGTATGTACACATGGTCTGGGGCACGCCCGTAGGCCCAGCCTA
Found at i:6935125 original size:28 final size:28
Alignment explanation
Indices: 6935093--6935153 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
6935083 AGTATATTGC
*
6935093 AATTTATCAACAAATGTATAATATAATA
1 AATTTATCAACAAATGTACAATATAATA
*
6935121 AATTTATCAACAAATGTACAATATGATA
1 AATTTATCAACAAATGTACAATATAATA
6935149 AATTT
1 AATTT
6935154 TCAGTACAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (28 bp):
AATTTATCAACAAATGTACAATATAATA
Found at i:6935328 original size:2 final size:2
Alignment explanation
Indices: 6935323--6935360 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6935313 AAGTCGAATC
6935323 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6935361 TTAACGTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6940901 original size:22 final size:24
Alignment explanation
Indices: 6940876--6940923 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
6940866 ATAATCCTGT
6940876 AAAACAC-ACAAA-AATAAAAAAA
1 AAAACACAACAAAGAATAAAAAAA
*
6940898 AAAAGACAACAAAGTAATAAAAAAA
1 AAAACACAACAAAG-AATAAAAAAA
6940923 A
1 A
6940924 TGTCTTGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 5 0.23
25 11 0.50
ACGTcount: A:0.79, C:0.10, G:0.04, T:0.06
Consensus pattern (24 bp):
AAAACACAACAAAGAATAAAAAAA
Found at i:6941176 original size:27 final size:27
Alignment explanation
Indices: 6941114--6941182 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
6941104 AAAATAAATA
* * *
6941114 AAAATAAAAGAGTAAATAAGTATAAAT
1 AAAATAAAATAATAAATAAGTATAAAC
*
6941141 AAAAT-AAATAATCAATAAAGTA-AAAC
1 AAAATAAAATAATAAAT-AAGTATAAAC
*
6941167 AAAATAAAATAGTAAA
1 AAAATAAAATAATAAA
6941183 AAACGAAGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
26 16 0.47
27 18 0.53
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (27 bp):
AAAATAAAATAATAAATAAGTATAAAC
Found at i:6944805 original size:17 final size:16
Alignment explanation
Indices: 6944757--6944805 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
6944747 AGAGTATTAA
*
6944757 AAACATTATAAAAATAT
1 AAACATTA-AAATATAT
* *
6944774 AAACATCAAACTATACT
1 AAACATTAAAATATA-T
6944791 AAACATTAAAATATA
1 AAACATTAAAATATA
6944806 AGAATTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 5 0.19
17 21 0.81
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (16 bp):
AAACATTAAAATATAT
Found at i:6944865 original size:13 final size:13
Alignment explanation
Indices: 6944836--6944868 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
6944826 AGCATAACAG
*
6944836 AAAAAGTAAAGCT
1 AAAAATTAAAGCT
6944849 -AAAATTAAAGCT
1 AAAAATTAAAGCT
6944861 AAAAATTA
1 AAAAATTA
6944869 TTTTAGCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.64, C:0.06, G:0.09, T:0.21
Consensus pattern (13 bp):
AAAAATTAAAGCT
Found at i:6947932 original size:21 final size:22
Alignment explanation
Indices: 6947894--6947935 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
6947884 AATAGTGTAG
*
6947894 ATTTCTACCGATATAAGTGACA
1 ATTTCTACCGATACAAGTGACA
*
6947916 ATTT-TACGGATACAAGTGAC
1 ATTTCTACCGATACAAGTGAC
6947936 TCTTCTACCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (22 bp):
ATTTCTACCGATACAAGTGACA
Found at i:6949912 original size:40 final size:40
Alignment explanation
Indices: 6949849--6950066 Score: 235
Period size: 40 Copynumber: 5.4 Consensus size: 40
6949839 AGTTTAGTAA
*
6949849 TGTTTACACTGTCA-TGGCTAATTCAGTAATAATATTGCAG
1 TGTTTACAGTGTCACT-GCTAATTCAGTAATAATATTGCAG
* * * *
6949889 TGTTTACAATGTCACTG-TCAATTCAATAGTAATATCGCAG
1 TGTTTACAGTGTCACTGCT-AATTCAGTAATAATATTGCAG
* * * * *
6949929 TGTTTACAATGTCACTGCTAGTTCAATGATAGTATTGCAG
1 TGTTTACAGTGTCACTGCTAATTCAGTAATAATATTGCAG
*
6949969 TGTTTACAGTGTCACTGCTAATTCAGTAATAGTATTGCAG
1 TGTTTACAGTGTCACTGCTAATTCAGTAATAATATTGCAG
* * *
6950009 CGTTTACAGTGTCACTGCCAATT-AGTAATAATAATATTACAG
1 TGTTTACAGTGTCACTGCTAATTCAG---TAATAATATTGCAG
*
6950051 TGTTTACAGTTTCACT
1 TGTTTACAGTGTCACT
6950067 ATCAATTCGG
Statistics
Matches: 153, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
39 3 0.02
40 122 0.80
41 2 0.01
42 26 0.17
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (40 bp):
TGTTTACAGTGTCACTGCTAATTCAGTAATAATATTGCAG
Found at i:6952169 original size:18 final size:18
Alignment explanation
Indices: 6952089--6952170 Score: 51
Period size: 18 Copynumber: 4.4 Consensus size: 18
6952079 CAATTAATTA
6952089 AAAAATATTTTTTATATTTTT
1 AAAAAT-TTTTTTA-A-TTTT
* *
6952110 AATAA--TTTTAAATTTT
1 AAAAATTTTTTTAATTTT
**
6952126 AAAATGATTTTAATAATTTT
1 AAAA--ATTTTTTTAATTTT
**
6952146 TTAAATTTTTTTAATTTT
1 AAAAATTTTTTTAATTTT
6952164 AAAAATT
1 AAAAATT
6952171 AATTAATTGT
Statistics
Matches: 45, Mismatches: 12, Indels: 11
0.66 0.18 0.16
Matches are distributed among these distances:
16 7 0.16
17 1 0.02
18 23 0.51
20 10 0.22
21 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (18 bp):
AAAAATTTTTTTAATTTT
Found at i:6955296 original size:21 final size:21
Alignment explanation
Indices: 6955245--6955296 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
6955235 TAGAGGTAAT
*
6955245 ACTTGTATCAATAGAAGAGTC
1 ACTTGTATCGATAGAAGAGTC
* *
6955266 ACTTTTATCGATAGAACTA-TC
1 ACTTGTATCGATAGAA-GAGTC
6955287 ACTTGTATCG
1 ACTTGTATCG
6955297 GTAATAGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (21 bp):
ACTTGTATCGATAGAAGAGTC
Found at i:6955899 original size:114 final size:114
Alignment explanation
Indices: 6955763--6955986 Score: 430
Period size: 114 Copynumber: 2.0 Consensus size: 114
6955753 CCGCTCATGA
6955763 TTTTGCATTCTTGCAATTTAATTATTTGTAGTTTTGCTCAAAGCAATATTTGAAATCAAGTATTC
1 TTTTGCATTCTTGCAATTTAATTATTTGTAGTTTTGCTCAAAGCAATATTTGAAATCAAGTATTC
6955828 TTTTTATTCATGTAGGTTAACTTTTAGCTAAAACTAAACTAGATTATGT
66 TTTTTATTCATGTAGGTTAACTTTTAGCTAAAACTAAACTAGATTATGT
*
6955877 TTTTGCATTCTTGCAATTTAATTATTTGTAGTTTTGCTCAAAGCAATGTTTGAAATCAAGTATTC
1 TTTTGCATTCTTGCAATTTAATTATTTGTAGTTTTGCTCAAAGCAATATTTGAAATCAAGTATTC
*
6955942 TTTTTATTCATGTAGGTTAACTTTTAGCTAAAACTACACTAGATT
66 TTTTTATTCATGTAGGTTAACTTTTAGCTAAAACTAAACTAGATT
6955987 TCAAGTATTT
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 108 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (114 bp):
TTTTGCATTCTTGCAATTTAATTATTTGTAGTTTTGCTCAAAGCAATATTTGAAATCAAGTATTC
TTTTTATTCATGTAGGTTAACTTTTAGCTAAAACTAAACTAGATTATGT
Found at i:6956475 original size:23 final size:23
Alignment explanation
Indices: 6956449--6956494 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
6956439 AACTGTGTAT
6956449 ATTTTTTACCAACTGGAAACTCG
1 ATTTTTTACCAACTGGAAACTCG
*
6956472 ATTTTTTACCAACTGGATACTCG
1 ATTTTTTACCAACTGGAAACTCG
6956495 CATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (23 bp):
ATTTTTTACCAACTGGAAACTCG
Found at i:6956786 original size:13 final size:14
Alignment explanation
Indices: 6956768--6956807 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
6956758 CTTTAATTTT
6956768 ATTTTAATAATA-A
1 ATTTTAATAATATA
6956781 ATTTTAA-AATATA
1 ATTTTAATAATATA
6956794 ATTTTAAATAATAT
1 ATTTT-AATAATAT
6956808 TTTTTTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.17
13 13 0.54
14 2 0.08
15 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:6956802 original size:12 final size:12
Alignment explanation
Indices: 6956768--6956810 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
6956758 CTTTAATTTT
6956768 ATTTTAATAATAA
1 ATTTTAA-AATAA
6956781 ATTTTAAAATATA
1 ATTTTAAAATA-A
6956794 ATTTT-AAATAA
1 ATTTTAAAATAA
6956805 TATTTT
1 -ATTTT
6956811 TTTTACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.04
12 14 0.50
13 13 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
ATTTTAAAATAA
Found at i:6957307 original size:32 final size:33
Alignment explanation
Indices: 6957268--6957338 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
6957258 ATTTTTATGG
*
6957268 AATATTTT-CAAAAAATCTAT-CAAACAATTGAA
1 AATATTTTAC-AAAAATCTATCCAAACAATAGAA
* * *
6957300 AATATTTTACACAAATTTATCCAAACACTAGAA
1 AATATTTTACAAAAATCTATCCAAACAATAGAA
6957333 AATATT
1 AATATT
6957339 AGCTTTTCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 16 0.48
33 17 0.52
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.32
Consensus pattern (33 bp):
AATATTTTACAAAAATCTATCCAAACAATAGAA
Found at i:6960066 original size:18 final size:18
Alignment explanation
Indices: 6960045--6960079 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6960035 AGAAATGGAA
*
6960045 AGGGAAGAAGAGGGAAGG
1 AGGGAAAAAGAGGGAAGG
6960063 AGGGAAAAAGAGGGAAG
1 AGGGAAAAAGAGGGAAG
6960080 CTAAAAGGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (18 bp):
AGGGAAAAAGAGGGAAGG
Found at i:6960646 original size:17 final size:18
Alignment explanation
Indices: 6960615--6960648 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6960605 GTCATATAAT
*
6960615 AAATTATTAATATAATTA
1 AAATAATTAATATAATTA
6960633 AAATAATTAA-ATAATT
1 AAATAATTAATATAATT
6960649 TATTATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATAATTAATATAATTA
Found at i:6962476 original size:6 final size:7
Alignment explanation
Indices: 6962431--6962485 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
6962421 CGTACATCAT
*
6962431 AACCTCA
1 AACCTTA
6962438 AACCTTA
1 AACCTTA
*
6962445 AACCTCAA
1 AACCT-TA
* *
6962453 AATCTTG
1 AACCTTA
6962460 AACCTTA
1 AACCTTA
6962467 AACC-TA
1 AACCTTA
6962473 AACCTTA
1 AACCTTA
6962480 AACCTT
1 AACCTT
6962486 GAACTCAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
6 6 0.15
7 28 0.72
8 5 0.13
ACGTcount: A:0.42, C:0.31, G:0.02, T:0.25
Consensus pattern (7 bp):
AACCTTA
Found at i:6962478 original size:13 final size:13
Alignment explanation
Indices: 6962460--6962484 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6962450 CAAAATCTTG
6962460 AACCTTAAACCTA
1 AACCTTAAACCTA
6962473 AACCTTAAACCT
1 AACCTTAAACCT
6962485 TGAACTCAAA
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:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (13 bp):
AACCTTAAACCTA
Found at i:6962500 original size:20 final size:20
Alignment explanation
Indices: 6962437--6962501 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
6962427 TCATAACCTC
6962437 AAACCTTAAACCTCAAAATCTT
1 AAACCTTAAA-CTCAAAAT-TT
* **
6962459 GAACCTTAAAC-CTAAACCTT
1 AAACCTTAAACTC-AAAATTT
*
6962479 AAACCTTGAACTCAAAATTT
1 AAACCTTAAACTCAAAATTT
6962499 AAA
1 AAA
6962502 TTTGAAACCT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 20 0.59
21 5 0.15
22 9 0.26
ACGTcount: A:0.46, C:0.25, G:0.03, T:0.26
Consensus pattern (20 bp):
AAACCTTAAACTCAAAATTT
Found at i:6962672 original size:17 final size:18
Alignment explanation
Indices: 6962646--6962679 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6962636 TTGTTTACAA
6962646 TTTAAAAAA-TTAATTAT
1 TTTAAAAAATTTAATTAT
*
6962663 TTTAAGAAATTTAATTA
1 TTTAAAAAATTTAATTA
6962680 AAGTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TTTAAAAAATTTAATTAT
Found at i:6962678 original size:18 final size:17
Alignment explanation
Indices: 6962646--6962679 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6962636 TTGTTTACAA
6962646 TTTAAAAAATTAATTAT
1 TTTAAAAAATTAATTAT
*
6962663 TTTAAGAAATTTAATTA
1 TTTAA-AAAATTAATTA
6962680 AAGTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TTTAAAAAATTAATTAT
Found at i:6971614 original size:18 final size:17
Alignment explanation
Indices: 6971591--6971639 Score: 68
Period size: 16 Copynumber: 3.0 Consensus size: 17
6971581 TTTTCAATTG
6971591 TAATTAATTTAAAATTTT
1 TAATTAA-TTAAAATTTT
6971609 TAATTAATT-AAATTTT
1 TAATTAATTAAAATTTT
6971625 T--TTAATTAAAATTTT
1 TAATTAATTAAAATTTT
6971640 ATTCTCATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.20
15 7 0.23
16 8 0.27
17 2 0.07
18 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TAATTAATTAAAATTTT
Found at i:6974141 original size:17 final size:16
Alignment explanation
Indices: 6974119--6974154 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
6974109 ACATAACAAC
6974119 TATGAAAATTTTGGACA
1 TATGAAAATTTTGG-CA
*
6974136 TATGAATATTTTGGCA
1 TATGAAAATTTTGGCA
6974152 TAT
1 TAT
6974155 TCTCTGAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.42
Consensus pattern (16 bp):
TATGAAAATTTTGGCA
Found at i:6976810 original size:25 final size:23
Alignment explanation
Indices: 6976767--6976812 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
6976757 CCAACTAGAG
6976767 AATTATTGTTTAGATTTAATTCA
1 AATTATTGTTTAGATTTAATTCA
*
6976790 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TGTTTAG-ATTTAATT
6976813 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (23 bp):
AATTATTGTTTAGATTTAATTCA
Found at i:6980734 original size:9 final size:10
Alignment explanation
Indices: 6980720--6980766 Score: 60
Period size: 11 Copynumber: 4.6 Consensus size: 10
6980710 TATTTTTTCT
6980720 AAAAAAA-TG
1 AAAAAAATTG
*
6980729 AAAAAAATTCA
1 AAAAAAATT-G
6980740 AAAAAAAGTTG
1 AAAAAAA-TTG
6980751 AAAAAAATTG
1 AAAAAAATTG
6980761 AAAAAA
1 AAAAAA
6980767 TCAAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 7 0.21
10 10 0.30
11 14 0.42
12 2 0.06
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.15
Consensus pattern (10 bp):
AAAAAAATTG
Found at i:6980752 original size:22 final size:20
Alignment explanation
Indices: 6980720--6980766 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
6980710 TATTTTTTCT
6980720 AAAAAAATGAAAAAAATTCA
1 AAAAAAATGAAAAAAATTCA
*
6980740 AAAAAAAGTTGAAAAAAATTGA
1 AAAAAAA--TGAAAAAAATTCA
6980762 AAAAA
1 AAAAA
6980767 TCAAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.29
22 17 0.71
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.15
Consensus pattern (20 bp):
AAAAAAATGAAAAAAATTCA
Found at i:6980795 original size:6 final size:6
Alignment explanation
Indices: 6980784--6980888 Score: 86
Period size: 6 Copynumber: 17.3 Consensus size: 6
6980774 AATTAGTACA
* * * * *
6980784 TTTATT TTTATT TTCATT TTCATT TTCATT TTCATT TTCATT TTTCATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT-ATT
* * * * * *
6980833 TTTCATT TTTAGT TTTAGT TTTAGT TTTAGT TTTA-T TTTATT TTGAAT
1 TTT-ATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
6980881 TTTATT TT
1 TTTATT TT
6980889 ATTATGCACT
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
5 5 0.06
6 72 0.80
7 13 0.14
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.71
Consensus pattern (6 bp):
TTTATT
Found at i:6982953 original size:25 final size:23
Alignment explanation
Indices: 6982910--6982955 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
6982900 CCAACTAAGG
6982910 AATTATTATTTAGATTTAATTCT
1 AATTATTATTTAGATTTAATTCT
*
6982933 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TATTTAG-ATTTAATT
6982956 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (23 bp):
AATTATTATTTAGATTTAATTCT
Found at i:6984205 original size:15 final size:15
Alignment explanation
Indices: 6984170--6984199 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6984160 ATTTTTTAAT
*
6984170 AAATTAAATAAAATA
1 AAATTTAATAAAATA
6984185 AAATTTAATAAAATA
1 AAATTTAATAAAATA
6984200 TCATTTCATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATTTAATAAAATA
Found at i:6986043 original size:17 final size:17
Alignment explanation
Indices: 6986023--6986057 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
6986013 TCGAAATTTA
*
6986023 ACTTTCTCTTGGGAGTT
1 ACTTTCCCTTGGGAGTT
6986040 ACTTTCCCTTGGGAGTT
1 ACTTTCCCTTGGGAGTT
6986057 A
1 A
6986058 ATTTTTCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.20, G:0.23, T:0.43
Consensus pattern (17 bp):
ACTTTCCCTTGGGAGTT
Found at i:6987893 original size:93 final size:92
Alignment explanation
Indices: 6987693--6987896 Score: 297
Period size: 92 Copynumber: 2.2 Consensus size: 92
6987683 ACATACCAAT
* *
6987693 TTTGCCTTTTGTTTTTCTTATTTTATCTTTAATTTTTGATAAAAAAAATTGGTTTCCAAAAATCT
1 TTTGCCTTTTGTTTTTCTTATTCTATCTTTAATTTTTGATAAAAAAAACTGGTTTCCAAAAATCT
*
6987758 TTCTGACCTTCTCCACACCCCGTCACA
66 TTCTGACCTTCTCCACACCCCGACACA
* * * *
6987785 TTTGCCTTTTGTTTTTCTTATTCTATCTTTAATTTTTTATAGAAGAAAACTGGTTTTCAAAAATG
1 TTTGCCTTTTGTTTTTCTTATTCTATCTTTAATTTTTGATA-AAAAAAACTGGTTTCCAAAAATC
6987850 TTTCTGACCTTCTCCAC-CCCC-ACACA
65 TTTCTGACCTTCTCCACACCCCGACACA
* *
6987876 TTTGTCTTTTGGTTTT-TTATT
1 TTTGCCTTTTGTTTTTCTTATT
6987897 TTATTCTTCC
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
90 5 0.05
91 18 0.18
92 43 0.42
93 36 0.35
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.49
Consensus pattern (92 bp):
TTTGCCTTTTGTTTTTCTTATTCTATCTTTAATTTTTGATAAAAAAAACTGGTTTCCAAAAATCT
TTCTGACCTTCTCCACACCCCGACACA
Found at i:6990625 original size:43 final size:43
Alignment explanation
Indices: 6990481--6990625 Score: 184
Period size: 43 Copynumber: 3.4 Consensus size: 43
6990471 AGTCATAAGT
* * * * * *
6990481 TCTTCCATTTACA-ATAATTTTATGCTCTTACCGAGACATAAG
1 TCTTCCATTTATATATAATCTCATGCTCATCCCGAGACATGAG
* *
6990523 TTCTTCCATTTATACATAATCTCATACTCATCCCGAGACATGAG
1 -TCTTCCATTTATATATAATCTCATGCTCATCCCGAGACATGAG
*
6990567 TCTTTCATTTATATATAATCTCATGCTCATCCCGAGACATGAG
1 TCTTCCATTTATATATAATCTCATGCTCATCCCGAGACATGAG
*
6990610 TCTTCCATTTTTATAT
1 TCTTCCATTTATATAT
6990626 CAAGTCTTTA
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 66 0.74
44 23 0.26
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.39
Consensus pattern (43 bp):
TCTTCCATTTATATATAATCTCATGCTCATCCCGAGACATGAG
Found at i:6994047 original size:20 final size:21
Alignment explanation
Indices: 6994024--6994063 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
6994014 TTTCTCCATT
*
6994024 ATTAA-TCTCTTCTTTTAAGA
1 ATTAAGTCTCTTATTTTAAGA
6994044 ATTAATGTCTCTTATTTTAA
1 ATTAA-GTCTCTTATTTTAA
6994064 TCTCCAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (21 bp):
ATTAAGTCTCTTATTTTAAGA
Found at i:7004160 original size:15 final size:16
Alignment explanation
Indices: 7004132--7004164 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7004122 AAAACACTAA
*
7004132 AAAAACCCCGAAAAAG
1 AAAAACCCCAAAAAAG
7004148 AAAAA-CCCAAAAAAG
1 AAAAACCCCAAAAAAG
7004163 AA
1 AA
7004165 GAGAACTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.70, C:0.21, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAACCCCAAAAAAG
Found at i:7009758 original size:29 final size:29
Alignment explanation
Indices: 7009726--7009792 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
7009716 TCTTTAGTCC
7009726 GTTTTTAAATTTAATTAGGAAAATAATTT
1 GTTTTTAAATTTAATTAGGAAAATAATTT
* *
7009755 GTTTTTAAATTTAATTAGGGAAATAGTTT
1 GTTTTTAAATTTAATTAGGAAAATAATTT
*
7009784 ATTTTTAAA
1 GTTTTTAAA
7009793 AAAAGTGTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (29 bp):
GTTTTTAAATTTAATTAGGAAAATAATTT
Found at i:7011142 original size:13 final size:13
Alignment explanation
Indices: 7011124--7011179 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
7011114 GCCTTTTCTT
7011124 TTTTATTATTTAA
1 TTTTATTATTTAA
7011137 TTTTATTA-TTATA
1 TTTTATTATTTA-A
* **
7011150 TTTTATAATAAAA
1 TTTTATTATTTAA
* *
7011163 TATTAATATTTAA
1 TTTTATTATTTAA
7011176 TTTT
1 TTTT
7011180 TAAACTTTAA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
12 3 0.09
13 28 0.88
14 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTATTATTTAA
Found at i:7012364 original size:23 final size:24
Alignment explanation
Indices: 7012322--7012367 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
7012312 AAATAAACAT
* *
7012322 AAATATATATATATTTAAAATAAA
1 AAATATATAAATATTAAAAATAAA
7012346 AAATAT-TAAATATTAAAAATAA
1 AAATATATAAATATTAAAAATAA
7012368 TTTTTTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AAATATATAAATATTAAAAATAAA
Found at i:7013136 original size:23 final size:23
Alignment explanation
Indices: 7013097--7013144 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
7013087 TTTATTTTTA
* *
7013097 TAATTCTCCTTTCATTTTTATTT
1 TAATTCTCCTTTAATTTTGATTT
7013120 TAATT-TCCTTCTAATTTTGATTT
1 TAATTCTCCTT-TAATTTTGATTT
7013143 TA
1 TA
7013145 TTTTTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.21, C:0.15, G:0.02, T:0.62
Consensus pattern (23 bp):
TAATTCTCCTTTAATTTTGATTT
Found at i:7015468 original size:22 final size:22
Alignment explanation
Indices: 7015440--7015490 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
7015430 GGTTCATTCC
*
7015440 AATTTCAAGTGTTATGTTATAT
1 AATTTCAAGTGTTATGTAATAT
7015462 AATTTCAAGTGTTATGTAATAT
1 AATTTCAAGTGTTATGTAATAT
7015484 AATTTCA
1 AATTTCA
7015491 CTAAATATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (22 bp):
AATTTCAAGTGTTATGTAATAT
Found at i:7018868 original size:18 final size:20
Alignment explanation
Indices: 7018845--7018885 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
7018835 AATATTTTTA
*
7018845 AAATTTTAAA-TT-AAAAAT
1 AAATTTAAAATTTAAAAAAT
7018863 AAATTTAAAATTTAAAAAAT
1 AAATTTAAAATTTAAAAAAT
7018883 AAA
1 AAA
7018886 AAATAAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 2 0.10
20 9 0.45
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAATTTAAAATTTAAAAAAT
Found at i:7018886 original size:25 final size:26
Alignment explanation
Indices: 7018825--7018890 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 26
7018815 TGACTCCACC
*
7018825 AAAATAAAATAATATTTTTAAAATTTT
1 AAAATAAAATAATA-TTTTAAAATTTA
*
7018852 AAATTAAAAATAA-A-TTTAAAATTTAA
1 AAAAT-AAAATAATATTTTAAAATTT-A
7018878 AAAATAAAA-AATA
1 AAAATAAAATAATA
7018891 AACAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
24 2 0.06
25 15 0.45
26 4 0.12
27 5 0.15
28 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
AAAATAAAATAATATTTTAAAATTTA
Found at i:7018986 original size:20 final size:18
Alignment explanation
Indices: 7018947--7018982 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7018937 CCACCAAAAA
7018947 TAAAATATATATTTAAAT
1 TAAAATATATATTTAAAT
*
7018965 TAAACTATATATTTAAAT
1 TAAAATATATATTTAAAT
7018983 ATTATATAAT
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:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAATATATATTTAAAT
Found at i:7019015 original size:13 final size:13
Alignment explanation
Indices: 7018997--7019023 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7018987 TATAATAAAT
7018997 AAAAAATCATTTA
1 AAAAAATCATTTA
7019010 AAAAAATCATTTA
1 AAAAAATCATTTA
7019023 A
1 A
7019024 TTAAAGTGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAAAATCATTTA
Found at i:7019089 original size:94 final size:94
Alignment explanation
Indices: 7018991--7019260 Score: 391
Period size: 94 Copynumber: 2.9 Consensus size: 94
7018981 ATATTATATA
* *
7018991 ATAAATAAAAAATCATTTAAAAAAATCATTTAATTAAAGTGGTGGGGCCATTTAATATGGCACCA
1 ATAAATAATAAATCATTTAAAAAAATCATTTAATTAAAGTGGTGGCGCCATTTAATATGGCACCA
*
7019056 CCAAAAAAATTTTAATTTATTTTAAAAAT
66 CCAAAAAAATTTAAATTTATTTTAAAAAT
* * * *
7019085 ATAAATAATAAATTATTT-AAAAAATAATTTTAATTAAAGTGGTGGTGCCATTTAATATGGCATC
1 ATAAATAATAAATCATTTAAAAAAATCA-TTTAATTAAAGTGGTGGCGCCATTTAATATGGCACC
*
7019149 ACAAAAAAAATTTAAATTTATTTTAAAAAT
65 ACCAAAAAAATTTAAATTTATTTTAAAAAT
** * * * *
7019179 ATAAATAATAAATCGCTTAAAAAATTCATTTAATTAAAATGGTGACGCCATTTAATATGGCACTA
1 ATAAATAATAAATCATTTAAAAAAATCATTTAATTAAAGTGGTGGCGCCATTTAATATGGCACCA
7019244 CC-AAAAAATTTAAATTT
66 CCAAAAAAATTTAAATTT
7019261 TCAAAAATAA
Statistics
Matches: 156, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
93 23 0.15
94 126 0.81
95 7 0.04
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (94 bp):
ATAAATAATAAATCATTTAAAAAAATCATTTAATTAAAGTGGTGGCGCCATTTAATATGGCACCA
CCAAAAAAATTTAAATTTATTTTAAAAAT
Found at i:7019090 original size:25 final size:23
Alignment explanation
Indices: 7019058--7019119 Score: 65
Period size: 25 Copynumber: 2.7 Consensus size: 23
7019048 TGGCACCACC
7019058 AAAA-AAATTTTAATTTATTTTAA
1 AAAATAAATTTTAATTTA-TTTAA
** *
7019081 AAATATAAATAATAAATTATTTAA
1 AAA-ATAAATTTTAATTTATTTAA
7019105 AAAAT-AATTTTAATT
1 AAAATAAATTTTAATT
7019120 AAAGTGGTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
22 7 0.23
23 5 0.16
24 9 0.29
25 10 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AAAATAAATTTTAATTTATTTAA
Found at i:7019558 original size:28 final size:29
Alignment explanation
Indices: 7019511--7019567 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
7019501 CTATAGATTT
* * *
7019511 TAAATTATTTTCGTATTTAA-TAAAAAAA
1 TAAATTATTTACATAATTAATTAAAAAAA
7019539 TAAATTATTTACATAATTAATTAAAAAAA
1 TAAATTATTTACATAATTAATTAAAAAAA
7019568 AGGTTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (29 bp):
TAAATTATTTACATAATTAATTAAAAAAA
Found at i:7021280 original size:26 final size:25
Alignment explanation
Indices: 7021251--7021324 Score: 62
Period size: 26 Copynumber: 2.9 Consensus size: 25
7021241 AATTTGATTC
7021251 TAATCTTAAAAATTCAAAAAAAATTA
1 TAATCTTAAAAATTCAAAAAAAA-TA
* *
7021277 TAAT-TATAAAATTTTCAAAATAAATA
1 TAATCT-TAAAA-ATTCAAAAAAAATA
* * *
7021303 GAA-CATAAAAATCCAAAAAAAA
1 TAATCTTAAAAATTCAAAAAAAA
7021325 GAAATGGAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
24 9 0.24
25 6 0.16
26 13 0.34
27 10 0.26
ACGTcount: A:0.64, C:0.08, G:0.01, T:0.27
Consensus pattern (25 bp):
TAATCTTAAAAATTCAAAAAAAATA
Found at i:7023437 original size:23 final size:23
Alignment explanation
Indices: 7023411--7023486 Score: 57
Period size: 22 Copynumber: 3.2 Consensus size: 23
7023401 ATTTGAAAAT
*
7023411 TTTTAAAATATATATTTATATTA
1 TTTTAAAATATATATTTATATAA
* *
7023434 TTTT-TAATTTAATATTTA-ATAA
1 TTTTAAAATAT-ATATTTATATAA
* *
7023456 TTTTATAAATAGTTTATTTATTAAAA
1 TTTTA-AAATA-TATATTTA-TATAA
7023482 TTTTA
1 TTTTA
7023487 TATCTAGTCA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
22 11 0.28
23 11 0.28
24 9 0.22
25 1 0.03
26 8 0.20
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (23 bp):
TTTTAAAATATATATTTATATAA
Found at i:7027090 original size:20 final size:21
Alignment explanation
Indices: 7027067--7027106 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7027057 ACATATTTAA
7027067 ATTTTATA-ATAATTATTTTT
1 ATTTTATATATAATTATTTTT
*
7027087 ATTTTATATTTAATTATTTT
1 ATTTTATATATAATTATTTT
7027107 AAAACATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTTTATATATAATTATTTTT
Found at i:7029281 original size:22 final size:22
Alignment explanation
Indices: 7029255--7029299 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
7029245 TTTAGTGTCC
7029255 TTATT-TT-TATTTTTGAAGAATT
1 TTATTCTTATATTTTT-AA-AATT
7029277 TTATTCTTATATTTTTAAAATT
1 TTATTCTTATATTTTTAAAATT
7029299 T
1 T
7029300 AAAAATTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 10 0.48
23 4 0.19
24 7 0.33
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (22 bp):
TTATTCTTATATTTTTAAAATT
Found at i:7030787 original size:14 final size:15
Alignment explanation
Indices: 7030758--7030791 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
7030748 AAGAAATAAT
*
7030758 ATATTATAATTTTTA
1 ATATTATAATTATTA
7030773 ATATTA-AATTATTA
1 ATATTATAATTATTA
7030787 ATATT
1 ATATT
7030792 TTAACATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATATTATAATTATTA
Found at i:7032424 original size:21 final size:20
Alignment explanation
Indices: 7032384--7032426 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
7032374 AAAAAGAGAG
*
7032384 AAAATCCAAACAAATTTAGA
1 AAAATCCAAACAAATATAGA
7032404 AAAATCTCAAA-AATATATAGA
1 AAAATC-CAAACAA-ATATAGA
7032425 AA
1 AA
7032427 GTTGTATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.63, C:0.12, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAATCCAAACAAATATAGA
Found at i:7032553 original size:18 final size:19
Alignment explanation
Indices: 7032513--7032556 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
7032503 ACAAAAAAAT
*
7032513 AAAAAAATAAAAAAATTTC
1 AAAAAAATAAAAAAATTGC
* *
7032532 AAAAAAAT-ATAAAATTGG
1 AAAAAAATAAAAAAATTGC
7032550 AAAAAAA
1 AAAAAAA
7032557 ATGGAAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (19 bp):
AAAAAAATAAAAAAATTGC
Found at i:7032840 original size:122 final size:121
Alignment explanation
Indices: 7032603--7032827 Score: 285
Period size: 122 Copynumber: 1.9 Consensus size: 121
7032593 AACTTTGCCC
* *
7032603 ATAGTGTAATATATTCTTAAAGATTTTGAATCTAATAATCAAATTTAAAGTTTGCCATATAAAAT
1 ATAGTGTAATATAGTCTTAAAGATTTTGAATCTAATAATCAAATTTAAAATTTGCCATATAAAAT
* **** *
7032668 AAAGAAAAAAGAACAACCAAAATAAAACTTTTTTTTTTAATTTTATATATTCATTCA
66 AAAGAAAAAAAAACAACCAAAAT-AAACTTTTTTAAAAAAGTTTATATATTCATTCA
* **
7032725 ATAGTGTAATAT-GTCATTAAAGATTTTTAATCTAATAATTGAATTTAAAATTT-CCATATAAAA
1 ATAGTGTAATATAGTC-TTAAAGATTTTGAATCTAATAATCAAATTTAAAATTTGCCATATAAAA
* *
7032788 TAAAGAAAAAGAAAACAATCAAAAT-CACTTTTTTAAAAAA
65 TAAAGAAAAA-AAAACAACCAAAATAAACTTTTTTAAAAAA
7032828 AAAGTTTTAT
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
120 10 0.11
121 22 0.25
122 57 0.64
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.36
Consensus pattern (121 bp):
ATAGTGTAATATAGTCTTAAAGATTTTGAATCTAATAATCAAATTTAAAATTTGCCATATAAAAT
AAAGAAAAAAAAACAACCAAAATAAACTTTTTTAAAAAAGTTTATATATTCATTCA
Found at i:7040360 original size:35 final size:35
Alignment explanation
Indices: 7040321--7040413 Score: 116
Period size: 35 Copynumber: 2.7 Consensus size: 35
7040311 CATTGTAATT
* * *
7040321 AACGCTAATTATTTTACTGTTTTTCTTTTCTG-TTC
1 AACGCTAATTAATTTACT-ATTTTCTTTTATGCTTC
7040356 AACGCTAATTAATTTACTATTTTCTTTTATGCTTC
1 AACGCTAATTAATTTACTATTTTCTTTTATGCTTC
* * *
7040391 AACCCTACTTGATTTACTATTTT
1 AACGCTAATTAATTTACTATTTT
7040414 GCCCTTCGCA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
34 11 0.22
35 40 0.78
ACGTcount: A:0.23, C:0.18, G:0.06, T:0.53
Consensus pattern (35 bp):
AACGCTAATTAATTTACTATTTTCTTTTATGCTTC
Found at i:7058073 original size:37 final size:37
Alignment explanation
Indices: 7058032--7058106 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
7058022 TTGGTTGGTC
*
7058032 TCGAGACAAGGTTCCTTTAAAACATTTTTAACTTCGA
1 TCGAGACAAGATTCCTTTAAAACATTTTTAACTTCGA
*
7058069 TCGAGACAAGATTCCTTTAAAACATTTTTAGCTTCGA
1 TCGAGACAAGATTCCTTTAAAACATTTTTAACTTCGA
7058106 T
1 T
7058107 GTTGGTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (37 bp):
TCGAGACAAGATTCCTTTAAAACATTTTTAACTTCGA
Found at i:7064780 original size:22 final size:22
Alignment explanation
Indices: 7064745--7064812 Score: 120
Period size: 22 Copynumber: 3.1 Consensus size: 22
7064735 AATCTTCGAT
7064745 TTTCTCTTTG-CCCTTTAACTA
1 TTTCTCTTTGACCCTTTAACTA
7064766 TTTCTCTTTGACCCTTTAACTA
1 TTTCTCTTTGACCCTTTAACTA
*
7064788 TTTCTCTTTGAACCTTTAACTA
1 TTTCTCTTTGACCCTTTAACTA
7064810 TTT
1 TTT
7064813 ATCCGACATT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
21 10 0.22
22 35 0.78
ACGTcount: A:0.18, C:0.25, G:0.04, T:0.53
Consensus pattern (22 bp):
TTTCTCTTTGACCCTTTAACTA
Found at i:7064966 original size:29 final size:30
Alignment explanation
Indices: 7064897--7064968 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 30
7064887 AAAAATTATT
*
7064897 AATTAAAGATTATTTTATTATTTTTTGATAA
1 AATTAATGATTATTTTATTATTTTTT-ATAA
* *
7064928 TATTAGTGATTATTTTATTATTTTTT-TAA
1 AATTAATGATTATTTTATTATTTTTTATAA
7064957 AATTAATGATTA
1 AATTAATGATTA
7064969 AAATAAAACC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 13 0.36
31 23 0.64
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (30 bp):
AATTAATGATTATTTTATTATTTTTTATAA
Found at i:7071747 original size:21 final size:23
Alignment explanation
Indices: 7071723--7071765 Score: 63
Period size: 21 Copynumber: 1.9 Consensus size: 23
7071713 AACGTTAACA
7071723 ATTAAAAA-AAA-GTAATTCATC
1 ATTAAAAAGAAACGTAATTCATC
7071744 ATTAAAAAGAAACCGTAATTCA
1 ATTAAAAAGAAA-CGTAATTCA
7071766 AACAGAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 3 0.16
24 8 0.42
ACGTcount: A:0.56, C:0.12, G:0.07, T:0.26
Consensus pattern (23 bp):
ATTAAAAAGAAACGTAATTCATC
Found at i:7073426 original size:16 final size:16
Alignment explanation
Indices: 7073405--7073451 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
7073395 TTTACTCTAA
*
7073405 TTTAATAATTTTTACT
1 TTTAATAATTTTTAAT
*
7073421 TTTAATATTTTTTAAT
1 TTTAATAATTTTTAAT
7073437 TTTAA-AA-TTTTAAT
1 TTTAATAATTTTTAAT
7073451 T
1 T
7073452 CTACTCAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 8 0.29
15 1 0.04
16 19 0.68
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTAATAATTTTTAAT
Found at i:7074036 original size:31 final size:31
Alignment explanation
Indices: 7073976--7074038 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
7073966 ATTATGCACG
* *
7073976 TGAAACTTTAATTGTGGTTTAAATGTATACA
1 TGAAACTTTAATTGTGATTTAAATATATACA
*
7074007 TGAAACTTTAATTTTGATTT-AATCATATACA
1 TGAAACTTTAATTGTGATTTAAAT-ATATACA
7074038 T
1 T
7074039 TTAAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (31 bp):
TGAAACTTTAATTGTGATTTAAATATATACA
Found at i:7074360 original size:85 final size:86
Alignment explanation
Indices: 7074251--7074428 Score: 270
Period size: 85 Copynumber: 2.1 Consensus size: 86
7074241 TCCCAAAAGT
*
7074251 ATAAA-ATCTAAAAATATTAAATTGGAAAACCATGGTTCAATTCACAACTTAAACATAATACAAA
1 ATAAATATCTAAAAATATTAAATTGGAAAACCATGATTCAATTCACAACTTAAACATAATACAAA
7074315 TTAATA-AAAAAAATTATTTA
66 TTAATAGAAAAAAATTATTTA
* * *
7074335 ATAAATATCTAAAAATATTAAATTGGAGAATCATGATTCAATTCACAACTTAAGCATAATACAAA
1 ATAAATATCTAAAAATATTAAATTGGAAAACCATGATTCAATTCACAACTTAAACATAATACAAA
****
7074400 TTAATAGAAATTTTTTATTTA
66 TTAATAGAAAAAAATTATTTA
7074421 ATAAATAT
1 ATAAATAT
7074429 AATTATTACC
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
84 5 0.06
85 61 0.73
86 18 0.21
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (86 bp):
ATAAATATCTAAAAATATTAAATTGGAAAACCATGATTCAATTCACAACTTAAACATAATACAAA
TTAATAGAAAAAAATTATTTA
Found at i:7078469 original size:30 final size:29
Alignment explanation
Indices: 7078435--7078531 Score: 77
Period size: 31 Copynumber: 3.2 Consensus size: 29
7078425 TGATTTGTGG
*
7078435 AAATTGAATCAAATCAAAATTCCATATATA
1 AAATTGAATAAAATCAAAATT-CATATATA
* * *
7078465 AAATTGGATAAAATCAAAGTTCATGTATA
1 AAATTGAATAAAATCAAAATTCATATATA
* * ** *
7078494 ACATTGCACATTAAATCAATGTTCATGTATA
1 AAATTG-A-ATAAAATCAAAATTCATATATA
*
7078525 AATTTGA
1 AAATTGA
7078532 TATTTACCAC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
29 12 0.22
30 19 0.35
31 24 0.44
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.33
Consensus pattern (29 bp):
AAATTGAATAAAATCAAAATTCATATATA
Found at i:7090802 original size:21 final size:21
Alignment explanation
Indices: 7090778--7090831 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
7090768 CTTGTGTCAG
*
7090778 TTCTATCGATACAAGT-ATAAC
1 TTCTACCGATACAAGTCAT-AC
*
7090799 TTCTACCGATACAAGTCATGC
1 TTCTACCGATACAAGTCATAC
7090820 TTCTACCGATAC
1 TTCTACCGATAC
7090832 TAAAAACTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.31
Consensus pattern (21 bp):
TTCTACCGATACAAGTCATAC
Found at i:7093277 original size:28 final size:29
Alignment explanation
Indices: 7093184--7093294 Score: 152
Period size: 29 Copynumber: 3.9 Consensus size: 29
7093174 GAGTCTTTCA
* * * *
7093184 AAAGAAACTTATACTTGATGGGTCATCCG
1 AAAGAAACTTAGACCTAATGGGTCATTCG
*
7093213 AAAGAAACTTAGACCTGATGGGTCATTCG
1 AAAGAAACTTAGACCTAATGGGTCATTCG
* *
7093242 AAAAAAACTTAGACCTAAT-GGTCATTTG
1 AAAGAAACTTAGACCTAATGGGTCATTCG
7093270 AAAGAAACTTAGACCTAATGGGTCA
1 AAAGAAACTTAGACCTAATGGGTCA
7093295 ATACAAAAGT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
28 26 0.35
29 48 0.65
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (29 bp):
AAAGAAACTTAGACCTAATGGGTCATTCG
Found at i:7095639 original size:19 final size:19
Alignment explanation
Indices: 7095617--7095672 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
7095607 TAAAAATTCA
7095617 AAAAAAATCTTTAAAAAA-T
1 AAAAAAAT-TTTAAAAAAGT
*
7095636 AAAAAAATATTAAAAAAGT
1 AAAAAAATTTTAAAAAAGT
*
7095655 ATAAAAATTATTAAAAAA
1 AAAAAAATT-TTAAAAAA
7095673 ATATTTTCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.25
19 16 0.50
20 8 0.25
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAAAAATTTTAAAAAAGT
Found at i:7095649 original size:11 final size:11
Alignment explanation
Indices: 7095635--7095677 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
7095625 CTTTAAAAAA
7095635 TAAAAAAATAT
1 TAAAAAAATAT
*
7095646 TAAAAAAGTA-
1 TAAAAAAATAT
*
7095656 T-AAAAATTAT
1 TAAAAAAATAT
7095666 TAAAAAAATAT
1 TAAAAAAATAT
7095677 T
1 T
7095678 TTCTTAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
11 18 0.67
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (11 bp):
TAAAAAAATAT
Found at i:7095652 original size:20 final size:20
Alignment explanation
Indices: 7095600--7095676 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 20
7095590 AATTATTTTT
* *
7095600 AAAATATT-AAAAATTCAAAA
1 AAAATATTAAAAAAAT-ATAA
* *
7095620 AAAATCTTTAAAAAATA-AA
1 AAAATATTAAAAAAATATAA
*
7095639 AAAATATTAAAAAAGTATAA
1 AAAATATTAAAAAAATATAA
*
7095659 AAATTATTAAAAAAATAT
1 AAAATATTAAAAAAATAT
7095677 TTTCTTAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 16 0.33
20 26 0.54
21 6 0.12
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (20 bp):
AAAATATTAAAAAAATATAA
Found at i:7095661 original size:39 final size:39
Alignment explanation
Indices: 7095600--7095675 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
7095590 AATTATTTTT
* * *
7095600 AAAATATTAAAAATTCAAAAAAAATCTTTAAAAAATAAA
1 AAAATATTAAAAAGTCAAAAAAAATATTAAAAAAATAAA
* *
7095639 AAAATATTAAAAAAGT-ATAAAAATTATTAAAAAAATA
1 AAAATATT-AAAAAGTCAAAAAAAATATTAAAAAAATA
7095676 TTTTCTTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 25 0.81
40 6 0.19
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.26
Consensus pattern (39 bp):
AAAATATTAAAAAGTCAAAAAAAATATTAAAAAAATAAA
Found at i:7098454 original size:14 final size:14
Alignment explanation
Indices: 7098437--7098470 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7098427 AGTTATATCC
7098437 AAATAATAACAATA
1 AAATAATAACAATA
*
7098451 AAATACTAACAATA
1 AAATAATAACAATA
*
7098465 TAATAA
1 AAATAA
7098471 CGAATTGGTA
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:0.68, C:0.09, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAATAACAATA
Found at i:7099809 original size:24 final size:24
Alignment explanation
Indices: 7099782--7099827 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
7099772 TTGGAGGTGA
* *
7099782 AGTAGAGGAAGAAATTGCAACTGG
1 AGTAGAAGAAGAAACTGCAACTGG
*
7099806 AGTAGAAGAAGAAGCTGCAACT
1 AGTAGAAGAAGAAACTGCAACT
7099828 AGATTTGACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.30, T:0.15
Consensus pattern (24 bp):
AGTAGAAGAAGAAACTGCAACTGG
Found at i:7103476 original size:24 final size:24
Alignment explanation
Indices: 7103439--7103487 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
7103429 TATCGGAAAT
7103439 ATCATAAGTAGTATCGGTAGTTCTG
1 ATCATAAGTAGTATCGGTAG-TCTG
7103464 ATCAT-AGTAGTATCGGTAGTCTG
1 ATCATAAGTAGTATCGGTAGTCTG
7103487 A
1 A
7103488 GTTCTTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 5 0.21
24 14 0.58
25 5 0.21
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (24 bp):
ATCATAAGTAGTATCGGTAGTCTG
Found at i:7105244 original size:21 final size:21
Alignment explanation
Indices: 7105220--7105274 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
7105210 TAGTGCAGAT
*
7105220 TTCTATCGATACAAGTGATAG
1 TTCTATCGATACAAGTGACAG
*
7105241 TTCTA-CTGAAACAAGTGACAG
1 TTCTATC-GATACAAGTGACAG
7105262 TTCTATCGATACA
1 TTCTATCGATACA
7105275 TGTCTTACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (21 bp):
TTCTATCGATACAAGTGACAG
Found at i:7106002 original size:40 final size:41
Alignment explanation
Indices: 7105920--7106017 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 41
7105910 AATAAAGTCG
*
7105920 TAAAACTTCCTTTTTAATCAATCTTAAACTTCACAGGTTCA
1 TAAATCTTCCTTTTTAATCAATCTTAAACTTCACAGGTTCA
** * *
7105961 TATGTCTTCCTTTTTAA-CAATCTTATAC-TCTACCGAG-TCA
1 TAAATCTTCCTTTTTAATCAATCTTAAACTTC-ACAG-GTTCA
*
7106001 TAAATCTTCTTTTTTAA
1 TAAATCTTCCTTTTTAA
7106018 ACATATTCTC
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
39 2 0.04
40 30 0.64
41 15 0.32
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (41 bp):
TAAATCTTCCTTTTTAATCAATCTTAAACTTCACAGGTTCA
Found at i:7107720 original size:42 final size:42
Alignment explanation
Indices: 7107659--7107756 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
7107649 GTCATTAGTT
*
7107659 TTCCTTTAATCATATTCTCATTCTCATCCCGAGACATAAGTC
1 TTCCTTTAATCATAATCTCATTCTCATCCCGAGACATAAGTC
** *
7107701 TTCCTTTAATCATAATCTCATTCTCATCTTGAGACATGAGTC
1 TTCCTTTAATCATAATCTCATTCTCATCCCGAGACATAAGTC
7107743 TTCCTTTAATCATA
1 TTCCTTTAATCATA
7107757 TTTTAATGAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.27, C:0.26, G:0.07, T:0.41
Consensus pattern (42 bp):
TTCCTTTAATCATAATCTCATTCTCATCCCGAGACATAAGTC
Found at i:7111300 original size:23 final size:22
Alignment explanation
Indices: 7111270--7111421 Score: 133
Period size: 23 Copynumber: 6.5 Consensus size: 22
7111260 ACACTAGCGC
*
7111270 GCTCTCTGTTTAGCACGTCTCGT
1 GCTCTCTGTTTAGCACGTGT-GT
7111293 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCAC-GTGTGT
* *
7111318 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCAC-GTGTGT
* * *
7111341 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGTTTAGCAC-GTGTGT
*
7111364 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCAC-GTGTGT
* *
7111387 GCTCTCTGTTGCTCAGCACTTATGT
1 GCTCTCTGTT--T-AGCACGTGTGT
7111412 GCTCTCTGTT
1 GCTCTCTGTT
7111422 AGTACTTTGG
Statistics
Matches: 112, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
23 71 0.63
24 1 0.01
25 32 0.29
26 8 0.07
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.43
Consensus pattern (22 bp):
GCTCTCTGTTTAGCACGTGTGT
Found at i:7111370 original size:46 final size:47
Alignment explanation
Indices: 7111271--7111395 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 47
7111261 CACTAGCGCG
* * *
7111271 CTCTCTGTTTAGCAC-GTCTCGTGCTCTCTGTTATTAGCACTGTGTGTG
1 CTCTCTGATTAGCACTGTGT-GTGCTCTCTG-TATTAGCACTGTGTGTA
* * *
7111319 CTCTCTGATTAGCACTTTGTGTGCTCTCTG-ATTAGTACTTTGTGTA
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTGTATTAGCACTGTGTGTA
*
7111365 CTCTCTGTTTAGCACTGTGTGTGCTCTCTGT
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTGT
7111396 TGCTCAGCAC
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 41 0.61
48 24 0.36
49 2 0.03
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.44
Consensus pattern (47 bp):
CTCTCTGATTAGCACTGTGTGTGCTCTCTGTATTAGCACTGTGTGTA
Found at i:7111435 original size:69 final size:71
Alignment explanation
Indices: 7111294--7111439 Score: 212
Period size: 69 Copynumber: 2.1 Consensus size: 71
7111284 ACGTCTCGTG
*
7111294 CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGTACTT
1 CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCTGATTAGTACTT
7111359 TGTGTA
66 TGTGTA
*
7111365 CTCTCTG-T-TTAGCACTGTGTGTGCTCTCTGTTGCTCAGCAC-TTATGTGCTCTCTG-TTAGTA
1 CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGAT--T-AGCACTTTATGTGCTCTCTGATTAGTA
7111426 CTTTG-GTA
63 CTTTGTGTA
7111434 CTCTCT
1 CTCTCT
7111440 ATTTGTTCCG
Statistics
Matches: 70, Mismatches: 2, Indels: 8
0.88 0.03 0.10
Matches are distributed among these distances:
69 32 0.46
70 12 0.17
71 21 0.30
72 5 0.07
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.45
Consensus pattern (71 bp):
CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCTGATTAGTACTT
TGTGTA
Found at i:7111438 original size:46 final size:44
Alignment explanation
Indices: 7111291--7111439 Score: 140
Period size: 46 Copynumber: 3.2 Consensus size: 44
7111281 AGCACGTCTC
7111291 GTGCTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTG--ATTAGCACT-T-TGTGCTCTCTGATTAGCACTTTGT
* * *
7111339 GTGCTCTCTGATTAGTACTTTGTGTACTCTCTGTTTAGCACTGTGT
1 GTGCTCTCTGATTAGCACTTTGTG--CTCTCTGATTAGCACTTTGT
* *
7111385 GTGCTCTCTGTTGCTCAGCACTTATGTGCTCTCTG-TTAGTACTTTG-
1 GTGCTCTCTGAT--T-AGCACTT-TGTGCTCTCTGATTAGCACTTTGT
*
7111431 GTACTCTCT
1 GTGCTCTCT
7111440 ATTTGTTCCG
Statistics
Matches: 87, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
44 4 0.05
45 1 0.01
46 45 0.52
47 9 0.10
48 18 0.21
49 6 0.07
50 4 0.05
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.44
Consensus pattern (44 bp):
GTGCTCTCTGATTAGCACTTTGTGCTCTCTGATTAGCACTTTGT
Found at i:7118669 original size:25 final size:23
Alignment explanation
Indices: 7118632--7118735 Score: 138
Period size: 23 Copynumber: 4.4 Consensus size: 23
7118622 ACACTAGCGC
*
7118632 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGTTTAGCACTGTGT-GT
7118655 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCACTGTGTGT
* *
7118680 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
*
7118703 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
7118726 GCTCTCTGTT
1 GCTCTCTGTT
7118736 GCCCAGCACT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
23 50 0.70
24 1 0.01
25 17 0.24
26 3 0.04
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.43
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Found at i:7118767 original size:21 final size:20
Alignment explanation
Indices: 7118632--7118781 Score: 93
Period size: 23 Copynumber: 6.5 Consensus size: 20
7118622 ACACTAGCGC
*
7118632 GCTCTCTGTTTAGCACGTCTCGT
1 GCTCTCTG-TTAGCAC-T-TTGT
7118655 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG---TTAGCACT-T-TGT
7118680 GCTCTCTGATTAGCACTTTGT
1 GCTCTCTG-TTAGCACTTTGT
7118701 GTACTCTCTGTTTAGCACTGTGTGT
1 G--CTCTCTG-TTAGCACT-T-TGT
7118726 GCTCTCTGTTGCCCAGCACTTATGT
1 GCTCTCTGTT----AGCACTT-TGT
*
7118751 GCTCTCTGTTAGTACTTTGAT
1 GCTCTCTGTTAGCACTTTG-T
*
7118772 ACTCTCTGTT
1 GCTCTCTGTT
7118782 TGTTCCGCAT
Statistics
Matches: 108, Mismatches: 7, Indels: 26
0.77 0.05 0.18
Matches are distributed among these distances:
20 2 0.02
21 20 0.19
22 3 0.03
23 39 0.36
24 3 0.03
25 35 0.32
26 6 0.06
ACGTcount: A:0.12, C:0.25, G:0.21, T:0.43
Consensus pattern (20 bp):
GCTCTCTGTTAGCACTTTGT
Found at i:7123633 original size:15 final size:16
Alignment explanation
Indices: 7123612--7123680 Score: 61
Period size: 18 Copynumber: 4.1 Consensus size: 16
7123602 AAATATGATT
7123612 TTAATTAAA-AATTAAA
1 TTAATTAAAGAA-TAAA
7123628 -TAATTAAAGAATAAA
1 TTAATTAAAGAATAAA
7123643 TTAATTTAAAGGAATAAA
1 TTAA-TTAAA-GAATAAA
* *
7123661 TGAAATTCAAGTAATAAA
1 T-TAATTAAAG-AATAAA
7123679 TT
1 TT
7123681 TAAAAGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
15 12 0.27
16 5 0.11
17 6 0.14
18 19 0.43
19 2 0.05
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.33
Consensus pattern (16 bp):
TTAATTAAAGAATAAA
Found at i:7123692 original size:33 final size:31
Alignment explanation
Indices: 7123645--7123707 Score: 90
Period size: 33 Copynumber: 2.0 Consensus size: 31
7123635 AGAATAAATT
*
7123645 AATTTAAAGGAATAAATGAAATTCAAGTAATA
1 AATTTAAAGGAATAAATGAAA-TCAAATAATA
*
7123677 AATTTAAAAGTAATAAATGAAATCAAATAAT
1 AATTT-AAAGGAATAAATGAAATCAAATAAT
7123708 TTAAAGGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.29
Consensus pattern (31 bp):
AATTTAAAGGAATAAATGAAATCAAATAATA
Found at i:7123708 original size:28 final size:31
Alignment explanation
Indices: 7123644--7123717 Score: 86
Period size: 33 Copynumber: 2.5 Consensus size: 31
7123634 AAGAATAAAT
7123644 TAATTT-AAAGGAATAAATGAAATTCAAGTAA
1 TAATTTAAAAGGAATAAATGAAATTCAAG-AA
*
7123675 TAAATTTAAAAGTAATAAATGAAA-TC-A-AA
1 T-AATTTAAAAGGAATAAATGAAATTCAAGAA
7123704 TAATTT-AAAGGAAT
1 TAATTTAAAAGGAAT
7123718 TCATTTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 7 0.18
28 5 0.13
29 3 0.08
31 2 0.05
32 7 0.18
33 15 0.38
ACGTcount: A:0.57, C:0.03, G:0.11, T:0.30
Consensus pattern (31 bp):
TAATTTAAAAGGAATAAATGAAATTCAAGAA
Found at i:7123835 original size:15 final size:16
Alignment explanation
Indices: 7123816--7123852 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
7123806 AAATATGATT
7123816 TTAATTAAA-AATTAAA
1 TTAATTAAATAA-TAAA
7123832 -TAATTAAATAATAAA
1 TTAATTAAATAATAAA
7123847 TTAATT
1 TTAATT
7123853 TAAAGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAATTAAATAATAAA
Found at i:7123935 original size:31 final size:31
Alignment explanation
Indices: 7123893--7123967 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
7123883 TTTAAAAGTA
7123893 ATAAATGAAATTAAATGACTTTAATTAAAGG
1 ATAAATGAAATTAAATGACTTTAATTAAAGG
* *
7123924 ATAAATTAAATTAAATGATTTTAATTAAAGG
1 ATAAATGAAATTAAATGACTTTAATTAAAGG
7123955 ATAAATGAAATTA
1 ATAAATGAAATTA
7123968 TAGTAATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.53, C:0.01, G:0.11, T:0.35
Consensus pattern (31 bp):
ATAAATGAAATTAAATGACTTTAATTAAAGG
Found at i:7123937 original size:17 final size:17
Alignment explanation
Indices: 7123915--7123967 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
7123905 AAATGACTTT
7123915 AATTAAAGGATAAATTA
1 AATTAAAGGATAAATTA
* *
7123932 AATTAAATGAT---TTT
1 AATTAAAGGATAAATTA
*
7123946 AATTAAAGGATAAATGA
1 AATTAAAGGATAAATTA
7123963 AATTA
1 AATTA
7123968 TAGTAATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
14 12 0.43
17 16 0.57
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (17 bp):
AATTAAAGGATAAATTA
Found at i:7131496 original size:2 final size:2
Alignment explanation
Indices: 7131489--7131526 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7131479 GTGTCCCATA
7131489 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7131527 TATTTTCGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7132651 original size:19 final size:21
Alignment explanation
Indices: 7132597--7132680 Score: 65
Period size: 20 Copynumber: 4.1 Consensus size: 21
7132587 TGTTGCTATT
* *
7132597 TTGCTATTA-TTTGTTGTTTG
1 TTGCTATCATTTTGTTGTTTA
7132617 TTGCTAT--TTTACTGTTG-TT-
1 TTGCTATCATTT--TGTTGTTTA
7132636 TTGCTATCATTTTGTTGTTGTA
1 TTGCTATCATTTTGTTGTT-TA
7132658 TTGCTA-CTATTTTGTTG-TTA
1 TTGCTATC-ATTTTGTTGTTTA
7132678 TTG
1 TTG
7132681 TTTGAATATT
Statistics
Matches: 55, Mismatches: 0, Indels: 18
0.75 0.00 0.25
Matches are distributed among these distances:
19 14 0.25
20 15 0.27
21 11 0.20
22 15 0.27
ACGTcount: A:0.12, C:0.08, G:0.18, T:0.62
Consensus pattern (21 bp):
TTGCTATCATTTTGTTGTTTA
Found at i:7132669 original size:22 final size:21
Alignment explanation
Indices: 7132607--7132676 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
7132597 TTGCTATTAT
* * *
7132607 TTGTTGTTTGTTGCTATTTTA
1 TTGTTGTTTGCTACTATTTTG
*
7132628 CTGTTGTTTTGCTA-TCATTTTG
1 TTGTTG-TTTGCTACT-ATTTTG
7132650 TTGTTGTATTGCTACTATTTTG
1 TTGTTGT-TTGCTACTATTTTG
7132672 TTGTT
1 TTGTT
7132677 ATTGTTTGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
21 7 0.17
22 32 0.80
23 1 0.03
ACGTcount: A:0.10, C:0.09, G:0.19, T:0.63
Consensus pattern (21 bp):
TTGTTGTTTGCTACTATTTTG
Done.