Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 99 of 316
Found at i:30691901 original size:82 final size:79
Alignment explanation
Indices: 30691783--30691936 Score: 211
Period size: 82 Copynumber: 1.9 Consensus size: 79
30691773 TGCTATATAA
* *
30691783 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGT-AAA-TCGCA
30691848 CACTTAGTGCCGCATGG
64 CAC-TAGTGCCGCATGG
* * **
30691865 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTAAATCGCAC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTAAATCGCAC
30691929 ACTAGTGC
65 ACTAGTGC
30691937 TGTACAATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
79 6 0.09
80 8 0.12
81 4 0.06
82 47 0.72
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (79 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTAAATCGCACA
CTAGTGCCGCATGG
Found at i:30705621 original size:10 final size:10
Alignment explanation
Indices: 30705606--30705667 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
30705596 TTTGAACTGT
*
30705606 TACCAATTCG
1 TACCAATTCA
*
30705616 TACCAAATACCA
1 TACC-AAT-TCA
*
30705628 TACCATTTCA
1 TACCAATTCA
30705638 TACCAATTCCA
1 TACCAATT-CA
* *
30705649 TACCATTTCG
1 TACCAATTCA
30705659 TACCAATTC
1 TACCAATTC
30705668 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:30705651 original size:21 final size:21
Alignment explanation
Indices: 30705606--30705668 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
30705596 TTTGAACTGT
* *
30705606 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
30705628 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
30705649 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
30705669 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:30706018 original size:11 final size:12
Alignment explanation
Indices: 30705984--30706015 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
30705974 AAGGAGTTCA
30705984 AAAAAAAAATTG
1 AAAAAAAAATTG
30705996 AAAAAAAAATTG
1 AAAAAAAAATTG
30706008 AAAAAAAA
1 AAAAAAAA
30706016 TTGCATACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.12
Consensus pattern (12 bp):
AAAAAAAAATTG
Found at i:30706815 original size:15 final size:15
Alignment explanation
Indices: 30706783--30706816 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
30706773 GTTCAACGAA
*
30706783 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
30706798 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
30706813 GAGG
1 GAGG
30706817 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:30710480 original size:10 final size:10
Alignment explanation
Indices: 30710465--30710526 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
30710455 TTTGAACCGT
*
30710465 TACCAATTCG
1 TACCAATTCA
*
30710475 TACCAAATACCA
1 TACC-AAT-TCA
*
30710487 TACCATTTCA
1 TACCAATTCA
30710497 TACCAATTCCA
1 TACCAATT-CA
* *
30710508 TACCATTTCG
1 TACCAATTCA
30710518 TACCAATTC
1 TACCAATTC
30710527 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:30710510 original size:21 final size:21
Alignment explanation
Indices: 30710465--30710527 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
30710455 TTTGAACCGT
* *
30710465 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
30710487 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
30710508 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
30710528 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:30711663 original size:15 final size:15
Alignment explanation
Indices: 30711631--30711664 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
30711621 GTTCAACGAA
*
30711631 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
30711646 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
30711661 GAGG
1 GAGG
30711665 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:30715220 original size:10 final size:10
Alignment explanation
Indices: 30715204--30715261 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
30715194 CAACTCCGAC
30715204 CAGCTCAATT
1 CAGCTCAATT
* *
30715214 GAGCTCATTT
1 CAGCTCAATT
30715224 CAGCTCAA-T
1 CAGCTCAATT
30715233 CGAGCTCAATT
1 C-AGCTCAATT
*
30715244 TAGCTACAATT
1 CAGCT-CAATT
30715255 CAGCTCA
1 CAGCTCA
30715262 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:30715227 original size:20 final size:20
Alignment explanation
Indices: 30715204--30715264 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
30715194 CAACTCCGAC
30715204 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
30715224 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
30715245 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
30715265 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:30716635 original size:12 final size:12
Alignment explanation
Indices: 30716618--30716643 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30716608 CAAAAAATCG
30716618 AAATTCAAAAAA
1 AAATTCAAAAAA
30716630 AAATTCAAAAAA
1 AAATTCAAAAAA
30716642 AA
1 AA
30716644 GTGAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATTCAAAAAA
Found at i:30716664 original size:14 final size:14
Alignment explanation
Indices: 30716647--30716696 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
30716637 AAAAAAAGTG
30716647 AAAAAAATCGAGCA
1 AAAAAAATCGAGCA
** *
30716661 AAAAAAA-AAAGAA
1 AAAAAAATCGAGCA
30716674 AAAAAAAGT-GAGCA
1 AAAAAAA-TCGAGCA
30716688 AAAAAAATC
1 AAAAAAATC
30716697 AAGTTAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 11 0.39
14 17 0.61
ACGTcount: A:0.74, C:0.08, G:0.12, T:0.06
Consensus pattern (14 bp):
AAAAAAATCGAGCA
Found at i:30716666 original size:27 final size:27
Alignment explanation
Indices: 30716636--30716714 Score: 88
Period size: 27 Copynumber: 2.8 Consensus size: 27
30716626 AAAAAAATTC
*
30716636 AAAAAAAAGTGAAAAAAA-TCGAGCAAA
1 AAAAAAAAGTAAAAAAAAGT-GAGCAAA
*
30716663 AAAAAAAAGAAAAAAAAAGTGAGCAAA
1 AAAAAAAAGTAAAAAAAAGTGAGCAAA
*
30716690 AAAAATCAAGTTAAAAAAAAAGTGA
1 AAAAA-AAAG-T-AAAAAAAAGTGA
30716715 AAAGTCTTGC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
27 28 0.64
28 4 0.09
30 12 0.27
ACGTcount: A:0.72, C:0.05, G:0.14, T:0.09
Consensus pattern (27 bp):
AAAAAAAAGTAAAAAAAAGTGAGCAAA
Found at i:30717609 original size:18 final size:18
Alignment explanation
Indices: 30717588--30717622 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
30717578 AGAAAAGAAA
30717588 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
30717606 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
30717623 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:30719708 original size:10 final size:10
Alignment explanation
Indices: 30719692--30719749 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
30719682 CAACTCCGAC
30719692 CAGCTCAATT
1 CAGCTCAATT
* *
30719702 GAGCTCATTT
1 CAGCTCAATT
30719712 CAGCTCAA-T
1 CAGCTCAATT
30719721 CGAGCTCAATT
1 C-AGCTCAATT
*
30719732 TAGCTACAATT
1 CAGCT-CAATT
30719743 CAGCTCA
1 CAGCTCA
30719750 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:30719715 original size:20 final size:20
Alignment explanation
Indices: 30719692--30719752 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
30719682 CAACTCCGAC
30719692 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
30719712 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
30719733 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
30719753 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:30722927 original size:22 final size:23
Alignment explanation
Indices: 30722879--30722927 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
30722869 TATTGGTATG
30722879 ATTAATGTGTCCTAATAAGTCGT
1 ATTAATGTGTCCTAATAAGTCGT
* *
30722902 -TTAATGTGTCTTAATAGGT-GT
1 ATTAATGTGTCCTAATAAGTCGT
30722923 ATTAA
1 ATTAA
30722928 AGAAGCTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (23 bp):
ATTAATGTGTCCTAATAAGTCGT
Found at i:30723785 original size:24 final size:24
Alignment explanation
Indices: 30723759--30723804 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
30723749 TTTTTGTAAA
30723759 AAAAATTCAAAA-AAAAGAAAAAG
1 AAAAATTCAAAAGAAAAGAAAAAG
* *
30723782 AAAATTTGAAAAGAAAAGAAAAA
1 AAAAATTCAAAAGAAAAGAAAAA
30723805 AATTGTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.76, C:0.02, G:0.11, T:0.11
Consensus pattern (24 bp):
AAAAATTCAAAAGAAAAGAAAAAG
Found at i:30732345 original size:11 final size:10
Alignment explanation
Indices: 30732329--30732358 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
30732319 TTCGTAACGA
30732329 AAAAAAAAGTC
1 AAAAAAAA-TC
30732340 AAAAAAAATC
1 AAAAAAAATC
30732350 AAAAAAAAT
1 AAAAAAAAT
30732359 TTGAGTTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (10 bp):
AAAAAAAATC
Found at i:30733570 original size:6 final size:6
Alignment explanation
Indices: 30733538--30733645 Score: 58
Period size: 6 Copynumber: 17.7 Consensus size: 6
30733528 AAAGAAATTG
* * ** *
30733538 AAAG-A AAACAA AAAGAA AACGAA AAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
* ** * * *
30733585 AAAGAA ATCA-AA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA A-AAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
*
30733636 AAAGAC AAAG
1 AAAGAA AAAG
30733646 TGAAAAAAGA
Statistics
Matches: 74, Mismatches: 23, Indels: 11
0.69 0.21 0.10
Matches are distributed among these distances:
5 4 0.05
6 58 0.78
7 8 0.11
8 4 0.05
ACGTcount: A:0.71, C:0.05, G:0.18, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:30733599 original size:18 final size:18
Alignment explanation
Indices: 30733542--30733600 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
30733532 AAATTGAAAG
* *
30733542 AAAACAAAAAGAAAACGA
1 AAAAGAAAAAGAAATCGA
* *
30733560 AAAAGAAAAAGAAATTGC
1 AAAAGAAAAAGAAATCGA
*
30733578 AAAAGAAAAAGAAATCAA
1 AAAAGAAAAAGAAATCGA
30733596 AAAAG
1 AAAAG
30733601 TGAGAGAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.75, C:0.07, G:0.14, T:0.05
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCGA
Found at i:30733625 original size:14 final size:14
Alignment explanation
Indices: 30733607--30733656 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
30733597 AAAGTGAGAG
30733607 AAAAAGAAAA-TGA
1 AAAAAGAAAAGTGA
*
30733620 AGAAAAGAAAATTG-
1 A-AAAAGAAAAGTGA
30733634 AAAAAGACAAAGTGA
1 AAAAAGA-AAAGTGA
30733649 AAAAAGAA
1 AAAAAGAA
30733657 TTTGAAAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
13 7 0.22
14 16 0.50
15 9 0.28
ACGTcount: A:0.72, C:0.02, G:0.18, T:0.08
Consensus pattern (14 bp):
AAAAAGAAAAGTGA
Found at i:30733636 original size:27 final size:27
Alignment explanation
Indices: 30733606--30733667 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
30733596 AAAAGTGAGA
30733606 GAAAAAGA-AAA-TGAAGAAAAGAAAATT
1 GAAAAAGACAAAGTGAA-AAAAG-AAATT
*
30733633 GAAAAAGACAAAGTGAAAAAAGAATTT
1 GAAAAAGACAAAGTGAAAAAAGAAATT
30733660 GAAAAAGA
1 GAAAAAGA
30733668 GTTTGAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 20 0.62
28 8 0.25
29 4 0.12
ACGTcount: A:0.68, C:0.02, G:0.19, T:0.11
Consensus pattern (27 bp):
GAAAAAGACAAAGTGAAAAAAGAAATT
Found at i:30733680 original size:12 final size:12
Alignment explanation
Indices: 30733649--30733680 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
30733639 GACAAAGTGA
*
30733649 AAAAAGAATTTG
1 AAAAAGAGTTTG
30733661 AAAAAGAGTTTG
1 AAAAAGAGTTTG
30733673 AAAAAGAG
1 AAAAAGAG
30733681 AAGAGTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.19
Consensus pattern (12 bp):
AAAAAGAGTTTG
Found at i:30738270 original size:17 final size:16
Alignment explanation
Indices: 30738231--30738273 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
30738221 TTTTTGGATT
30738231 TCTTTTTCTTTTTCAA
1 TCTTTTTCTTTTTCAA
**
30738247 TCTTTTTTCTTTCTTTGA
1 TC-TTTTTCTTT-TTCAA
30738265 TCTTTTTCT
1 TCTTTTTCT
30738274 CGCTCGCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 16 0.70
18 5 0.22
ACGTcount: A:0.07, C:0.19, G:0.02, T:0.72
Consensus pattern (16 bp):
TCTTTTTCTTTTTCAA
Found at i:30739270 original size:14 final size:14
Alignment explanation
Indices: 30739231--30739271 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
30739221 TAAACCGTAT
30739231 GATTTTTTTTTTT-
1 GATTTTTTTTTTTC
*
30739244 -TTTTTTTTTTTTC
1 GATTTTTTTTTTTC
30739257 GATTTTTTTTTTTC
1 GATTTTTTTTTTTC
30739271 G
1 G
30739272 TTATTTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.46
14 13 0.54
ACGTcount: A:0.05, C:0.05, G:0.07, T:0.83
Consensus pattern (14 bp):
GATTTTTTTTTTTC
Found at i:30739278 original size:22 final size:22
Alignment explanation
Indices: 30739237--30739278 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
30739227 GTATGATTTT
** *
30739237 TTTTTTTTTTTTTTTTTTTCGA
1 TTTTTTTTTTTCGTTATTTCGA
30739259 TTTTTTTTTTTCGTTATTTC
1 TTTTTTTTTTTCGTTATTTC
30739279 AAATTGAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.05, C:0.07, G:0.05, T:0.83
Consensus pattern (22 bp):
TTTTTTTTTTTCGTTATTTCGA
Found at i:30756951 original size:39 final size:40
Alignment explanation
Indices: 30756906--30757077 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
30756896 GCTCCTCGTT
* * * *
30756906 CAAATGCCTTCGGGACATAGCCCAGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
30756946 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
30756985 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
30757025 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
30757065 CAAATGCCTTCGG
1 CAAATGCCTTCGG
30757078 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.29
40 80 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:30757006 original size:40 final size:39
Alignment explanation
Indices: 30756908--30757130 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
30756898 TCCTCGTTCA
* * * * *
30756908 AATGCCTTCGGGACATAGCCCAGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
30756947 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
30756986 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
30757026 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
30757066 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
30757107 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
30757131 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:30757090 original size:80 final size:79
Alignment explanation
Indices: 30756906--30757130 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 79
30756896 GCTCCTCGTT
* * * * * *
30756906 CAAATGCCTTCGGGACATAGCCCAGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
30756970 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
30756985 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
30757050 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
30757065 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
30757129 GA
63 GA
30757131 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 38 0.31
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:30757139 original size:41 final size:41
Alignment explanation
Indices: 30757062--30757139 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
30757052 TTTGTATCTC
* * *
30757062 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
30757103 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
30757140 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:30760086 original size:24 final size:24
Alignment explanation
Indices: 30760059--30760217 Score: 115
Period size: 24 Copynumber: 6.5 Consensus size: 24
30760049 ATCGATTTCA
*
30760059 CACACATAATGCTATTCAAATCCG
1 CACACATAGTGCTATTCAAATCCG
* * * ** *
30760083 CACACTTAGTGCCATGCTCACCCG
1 CACACATAGTGCTATTCAAATCCG
** *
30760107 CACACATAGTGCCT-TAGAAATCCA
1 CACACATAGTG-CTATTCAAATCCG
* * *
30760131 CACACTCGTATTGAC-ATTCAAATCAG
1 CACA--CATAGTG-CTATTCAAATCCG
*
30760157 CACACATAGTGCTATTCAATTCCG
1 CACACATAGTGCTATTCAAATCCG
*
30760181 CACACATAGTGCCATTCAAAATCCG
1 CACACATAGTGCTATTC-AAATCCG
*
30760206 CACACTTAGTGC
1 CACACATAGTGC
30760218 CAATGTCATT
Statistics
Matches: 100, Mismatches: 29, Indels: 11
0.71 0.21 0.08
Matches are distributed among these distances:
23 1 0.01
24 65 0.65
25 18 0.18
26 16 0.16
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (24 bp):
CACACATAGTGCTATTCAAATCCG
Found at i:30765382 original size:30 final size:30
Alignment explanation
Indices: 30765337--30765393 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
30765327 ATTTAATATG
*
30765337 AACTTTGGCAAAATTACATTTTTGCCCTTA
1 AACTTTGGCAAAATTACACTTTTGCCCTTA
* *
30765367 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGCAAAATTACACTTTTGCCC
30765394 CTAGGCTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCTTA
Found at i:30768744 original size:27 final size:27
Alignment explanation
Indices: 30768714--30768891 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30768704 ATATTGAGTC
* * * *
30768714 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30768741 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30768768 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30768796 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30768823 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30768850 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30768877 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30768892 GTACAATTAA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30768853 original size:82 final size:81
Alignment explanation
Indices: 30768735--30768890 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30768725 TGCTATATAA
* *
30768735 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30768800 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30768817 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30768881 CACTTAGTGC
65 CACTTAGTGC
30768891 TGTACAATTA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30776816 original size:27 final size:27
Alignment explanation
Indices: 30776786--30776963 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30776776 ATATTGAGTC
* * * *
30776786 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30776813 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30776840 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30776868 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30776895 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30776922 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30776949 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30776964 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30776925 original size:82 final size:81
Alignment explanation
Indices: 30776807--30776962 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30776797 TGCTATATAA
* *
30776807 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30776872 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30776889 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30776953 CACTTAGTGC
65 CACTTAGTGC
30776963 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30793049 original size:18 final size:16
Alignment explanation
Indices: 30793017--30793055 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
30793007 TTAGTAAATA
30793017 AATAATAAAATGTTAT
1 AATAATAAAATGTTAT
*
30793033 TATAATAATATATGTTAT
1 AATAATAA-A-ATGTTAT
30793051 AATAA
1 AATAA
30793056 AATTAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
AATAATAAAATGTTAT
Found at i:30793989 original size:43 final size:42
Alignment explanation
Indices: 30793942--30794097 Score: 111
Period size: 43 Copynumber: 3.6 Consensus size: 42
30793932 GTGTTCTCAT
*
30793942 GTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTTCGA
1 GTAAGACCACGTCTAGGACGTTGGCATCAATATGTGATTT-GA
* * ** *
30793985 GTAAGACCATGTCTAGGACATCAGCATCGTAAT-TGTGATTTGT
1 GTAAGACCACGTCTAGGACGTTGGCATC--AATATGTGATTTGA
* * * * **
30794028 GTAAGATCC-TGTCTAGGACAG-TGGCATCGACATGTGGTTAAA
1 GTAAGA-CCACGTCTAGGAC-GTTGGCATCAATATGTGATTTGA
* *
30794070 TGTAAGACCACGTCTGGGATGTTGGCAT
1 -GTAAGACCACGTCTAGGACGTTGGCAT
30794098 TGTACGATAT
Statistics
Matches: 87, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
41 1 0.01
42 9 0.10
43 64 0.74
44 10 0.11
45 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (42 bp):
GTAAGACCACGTCTAGGACGTTGGCATCAATATGTGATTTGA
Found at i:30796621 original size:22 final size:22
Alignment explanation
Indices: 30796593--30796634 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
30796583 TGAGCTTTAG
30796593 TGTAACACCCCTAACCCGTATA
1 TGTAACACCCCTAACCCGTATA
*
30796615 TGTAACACCCCTATCCCGTA
1 TGTAACACCCCTAACCCGTA
30796635 ACTGACATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.38, G:0.10, T:0.24
Consensus pattern (22 bp):
TGTAACACCCCTAACCCGTATA
Found at i:30797842 original size:42 final size:41
Alignment explanation
Indices: 30797784--30797988 Score: 184
Period size: 43 Copynumber: 4.9 Consensus size: 41
30797774 GTAATTCAAT
** *
30797784 ATCGATGCCTCTGTCCCAGACAGGGTCTTACACGAAA-TCA
1 ATCGATGCCGATGTCCCAGACATGGTCTTACACGAAACTCA
* *
30797824 GATACGATGTCGATGTCCCAGACATGGTCTTATACGTAAATCTCA
1 -AT-CGATGCCGATGTCCCAGACATGGTCTTACACG-AAA-CTCA
* *
30797869 ATCGACGCCTG-TGTCCTAGAC-TCGGTCTTACACGAAA-TCA
1 ATCGATGCC-GATGTCCCAGACAT-GGTCTTACACGAAACTCA
* * *
30797909 GATACGATGTCGATGTCCCAGACATGGTCTTATATGTAAATCTCA
1 -AT-CGATGCCGATGTCCCAGACATGGTCTTACACG-AAA-CTCA
* *
30797954 ATCGAGGCCTATGTCCCAGACATGGTCTTACACGA
1 ATCGATGCCGATGTCCCAGACATGGTCTTACACGA
30797989 TGACTCAGAC
Statistics
Matches: 132, Mismatches: 19, Indels: 25
0.75 0.11 0.14
Matches are distributed among these distances:
40 3 0.02
41 5 0.04
42 55 0.42
43 58 0.44
44 5 0.04
45 6 0.05
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (41 bp):
ATCGATGCCGATGTCCCAGACATGGTCTTACACGAAACTCA
Found at i:30797896 original size:85 final size:84
Alignment explanation
Indices: 30797784--30797988 Score: 320
Period size: 85 Copynumber: 2.4 Consensus size: 84
30797774 GTAATTCAAT
* * *
30797784 ATCGATGCCTCTGTCCCAGACAGGGTCTTACACGAAATCAGATACGATGTCGATGTCCCAGACAT
1 ATCGACGCCTATGTCCCAGAC-TGGTCTTACACGAAATCAGATACGATGTCGATGTCCCAGACAT
30797849 GGTCTTATACGTAAATCTCA
65 GGTCTTATACGTAAATCTCA
* *
30797869 ATCGACGCCTGTGTCCTAGACTCGGTCTTACACGAAATCAGATACGATGTCGATGTCCCAGACAT
1 ATCGACGCCTATGTCCCAGACT-GGTCTTACACGAAATCAGATACGATGTCGATGTCCCAGACAT
*
30797934 GGTCTTATATGTAAATCTCA
65 GGTCTTATACGTAAATCTCA
*
30797954 ATCGAGGCCTATGTCCCAGACATGGTCTTACACGA
1 ATCGACGCCTATGTCCCAGAC-TGGTCTTACACGA
30797989 TGACTCAGAC
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
85 109 0.99
86 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (84 bp):
ATCGACGCCTATGTCCCAGACTGGTCTTACACGAAATCAGATACGATGTCGATGTCCCAGACATG
GTCTTATACGTAAATCTCA
Found at i:30805761 original size:34 final size:34
Alignment explanation
Indices: 30805717--30805817 Score: 105
Period size: 34 Copynumber: 3.0 Consensus size: 34
30805707 TGCATTTCTA
*
30805717 ATACTA-TACTGAAATGGGCTAAGGCCCACATTG
1 ATACTATTACTGAAATGGGCTAAGGCCCACACTG
* * * *
30805750 ATACTGTTACTGTATTGGGCTAAGGCCCGCACTG
1 ATACTATTACTGAAATGGGCTAAGGCCCACACTG
* * * * *
30805784 ATATTATGACTGATATGGGCTTAGGCCCAGACTG
1 ATACTATTACTGAAATGGGCTAAGGCCCACACTG
30805818 TTCAACACTG
Statistics
Matches: 53, Mismatches: 14, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
33 5 0.09
34 48 0.91
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (34 bp):
ATACTATTACTGAAATGGGCTAAGGCCCACACTG
Found at i:30810631 original size:42 final size:43
Alignment explanation
Indices: 30810531--30810693 Score: 172
Period size: 43 Copynumber: 3.8 Consensus size: 43
30810521 ATCCCGTACA
* * ***
30810531 ATGCCAACGTCCTAGACGTGGTCTTACA-TGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACAAAAATCAAATA-CG
*
30810574 ATGCCATTGTCCCAGACAG-GGTCTTACA-AAAAATCAAATACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACAAAAATCAAATACG
* **
30810616 ATGTCAATGTCCCAGACGTGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAATGTCCCAGACGTGGTCTTACACAAAAATCA-AA-TACG
*
30810660 ATGCCAACGTCCCAGACGTGGTCTTACACAAAAA
1 ATGCCAATGTCCCAGACGTGGTCTTACACAAAAA
30810694 AATATCGGAT
Statistics
Matches: 101, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 26 0.26
43 38 0.38
44 35 0.35
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACAAAAATCAAATACG
Found at i:30830795 original size:14 final size:15
Alignment explanation
Indices: 30830773--30830802 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
30830763 GAATATCAAA
30830773 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
30830788 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
30830802 A
1 A
30830803 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:30842894 original size:5 final size:5
Alignment explanation
Indices: 30842884--30842926 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
30842874 TAATAACAAC
30842884 ATAAA ATAAA A-AAA ATAAAA ATAAA GATAAA ATAAA ATTAAA A
1 ATAAA ATAAA ATAAA AT-AAA ATAAA -ATAAA ATAAA A-TAAA A
30842927 ATCATCATCG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
4 4 0.12
5 15 0.44
6 15 0.44
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:30842915 original size:12 final size:11
Alignment explanation
Indices: 30842884--30842928 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
30842874 TAATAACAAC
30842884 ATAAAAT-AAA
1 ATAAAATAAAA
30842894 A-AAAATAAAA
1 ATAAAATAAAA
30842904 ATAAAGAT-AAA
1 ATAAA-ATAAAA
30842915 ATAAAATTAAAA
1 ATAAAA-TAAAA
30842927 AT
1 AT
30842929 CATCATCGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 5 0.17
10 6 0.20
11 12 0.40
12 7 0.23
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:30848916 original size:47 final size:47
Alignment explanation
Indices: 30848858--30849114 Score: 397
Period size: 47 Copynumber: 5.5 Consensus size: 47
30848848 ATTCAGCCAA
*
30848858 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
30848905 GAAAGTGTATATATGTGATAAGGTCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
30848952 GAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
30848999 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * * *
30849046 GAAAGTGTATTTATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
30849093 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
30849115 TCCCGAAGGG
Statistics
Matches: 192, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 192 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:30849288 original size:37 final size:37
Alignment explanation
Indices: 30849232--30849310 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
30849222 CCGAGCTCTA
* * * *
30849232 AAGACCCGCTGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGAGT
*
30849269 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
30849306 AAGAC
1 AAGAC
30849311 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 35 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:30859133 original size:46 final size:46
Alignment explanation
Indices: 30859063--30859323 Score: 195
Period size: 46 Copynumber: 5.6 Consensus size: 46
30859053 GCCCATAAGC
* * *
30859063 GAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCACAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCACAAGT
* * * * * **
30859109 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TTACATC-TCT
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-TTCGCATCCA-CAAGT
* * *
30859155 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 -GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCACAAGT
* * * * * * * ***
30859202 GAACTCGGAATCAACTCAACGAGCTCAGATGCCTAG-TTACATCTCTT
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-TTCGCATCCA-CAAGT
* * * * *
30859249 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCACAAGT
*
30859295 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
30859324 TGCCCAAATA
Statistics
Matches: 159, Mismatches: 48, Indels: 16
0.71 0.22 0.07
Matches are distributed among these distances:
46 92 0.58
47 67 0.42
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCACAAGT
Found at i:30859173 original size:47 final size:46
Alignment explanation
Indices: 30859108--30859268 Score: 184
Period size: 47 Copynumber: 3.5 Consensus size: 46
30859098 CATCCACAAG
30859108 TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
* * * ***
30859154 TCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCATAAG
1 T-GAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACATCTC
* *
30859201 TGAACTCGGAATCAACTCAACGAGCTCAGATGCCTAGTTACATCTC
1 TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
30859247 TTGAACTCGGACTCAACTCAAC
1 -TGAACTCGGACTCAACTCAAC
30859269 AAGTTCAGAC
Statistics
Matches: 92, Mismatches: 15, Indels: 15
0.75 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 30 0.33
47 52 0.57
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
Found at i:30859191 original size:93 final size:93
Alignment explanation
Indices: 30859062--30859327 Score: 424
Period size: 93 Copynumber: 2.9 Consensus size: 93
30859052 CGCCCATAAG
* * * * * *
30859062 CGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCACAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30859127 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
30859155 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
30859220 ACGAGCTCAGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * *
30859248 TGAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
30859313 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
30859328 CAAATATCCT
Statistics
Matches: 159, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 159 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:30860791 original size:47 final size:47
Alignment explanation
Indices: 30860737--30860832 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
30860727 TGCTTATGTG
30860737 ATTGATTCAAAAATGTCAGAAAAGAAAGTTGAATAAGTGCCTGTTGT
1 ATTGATTCAAAAATGTCAGAAAAGAAAGTTGAATAAGTGCCTGTTGT
30860784 ATTGATTCAAAAATGTCAGAAAAGAAAGTTGAATAAGTGCCTGTTGT
1 ATTGATTCAAAAATGTCAGAAAAGAAAGTTGAATAAGTGCCTGTTGT
30860831 AT
1 AT
30860833 GTGAGTTCCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (47 bp):
ATTGATTCAAAAATGTCAGAAAAGAAAGTTGAATAAGTGCCTGTTGT
Found at i:30864763 original size:8 final size:8
Alignment explanation
Indices: 30864745--30864800 Score: 103
Period size: 8 Copynumber: 6.9 Consensus size: 8
30864735 AATGATTTTA
30864745 TTTGTATTT
1 TTTG-ATTT
30864754 TTTGATTT
1 TTTGATTT
30864762 TTTGATTT
1 TTTGATTT
30864770 TTTGATTT
1 TTTGATTT
30864778 TTTGATTT
1 TTTGATTT
30864786 TTTGATTT
1 TTTGATTT
30864794 TTTGATT
1 TTTGATT
30864801 CTATGTAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
8 43 0.91
9 4 0.09
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.75
Consensus pattern (8 bp):
TTTGATTT
Found at i:30867358 original size:15 final size:15
Alignment explanation
Indices: 30867335--30867369 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
30867325 CGTTTCCGGG
*
30867335 GAACTGAAATATTAT
1 GAACAGAAATATTAT
30867350 GAACAGAAATATTAT
1 GAACAGAAATATTAT
30867365 GAACA
1 GAACA
30867370 CTAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (15 bp):
GAACAGAAATATTAT
Found at i:30868365 original size:13 final size:13
Alignment explanation
Indices: 30868347--30868372 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30868337 AAGAAATCGA
30868347 ACACGGGCGTGTC
1 ACACGGGCGTGTC
30868360 ACACGGGCGTGTC
1 ACACGGGCGTGTC
30868373 CTTGCCGAGC
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:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:30871208 original size:22 final size:22
Alignment explanation
Indices: 30871183--30871227 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
30871173 TCACTGAGAC
30871183 TCAAT-TCAAACTTAAGACTTTT
1 TCAATATCAAACTTAA-ACTTTT
* *
30871205 TCAATATCGACCTTAAACTTTT
1 TCAATATCAAACTTAAACTTTT
30871227 T
1 T
30871228 ATTATGGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.42
Consensus pattern (22 bp):
TCAATATCAAACTTAAACTTTT
Found at i:30872537 original size:47 final size:46
Alignment explanation
Indices: 30872468--30872737 Score: 271
Period size: 47 Copynumber: 5.8 Consensus size: 46
30872458 GGTAAGGTGC
30872468 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTCAAGT
* * *
30872515 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTC-AAGT
* * * * *
30872563 CGATGCATGTCCTAGACATGTCTCACACTGGCTTA-CATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCATCATCTC-AAGT
* *
30872609 CGATGCATATCCCAGACATGTCTTACACTAGCTC-TCATCTCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAA-GT
* * ***
30872655 CGATGCCATGTCCCAGACATGATCTTACATTGGCTC-TCATAATGTGGT
1 CGATG-CATGTCCCAGACATG-TCTTACACTGGCTCATCAT-CTCAAGT
*
30872703 CGATGCATGTCCCAGACATGTCTTACACTAGCTCA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCA
30872738 CAAACAAATG
Statistics
Matches: 190, Mismatches: 24, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
45 1 0.01
46 76 0.40
47 82 0.43
48 30 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAAGT
Found at i:30872731 original size:140 final size:141
Alignment explanation
Indices: 30872466--30872731 Score: 378
Period size: 140 Copynumber: 1.9 Consensus size: 141
30872456 TGGGTAAGGT
* *
30872466 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAG
1 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAG
* * *
30872531 ACATGGTCTTACACTGACTATCATCTCGTAGCCGATGCATGTCCTAGACATGTCTCACACTGGCT
66 ACATGATCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTCACACTGGCT
30872596 TACATCTCGAG
131 TACATCTCGAG
30872607 GCCGATG-CATATCCCAGACAT-GTCTTACACTAGCTC-TCATCTCAATGTCGATGCCATGTCCC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA-GTCGATGCCATGTCCC
* * * * * *
30872669 AGACATGATCTTACATTGGCTCTCATAAT-GTGGTCGATGCATGTCCCAGACATGTCTTACACT
64 AGACATGATCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTCACACT
30872732 AGCTCACAAA
Statistics
Matches: 111, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
138 1 0.01
139 21 0.19
140 81 0.73
141 8 0.07
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (141 bp):
GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAG
ACATGATCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTCACACTGGCT
TACATCTCGAG
Found at i:30877033 original size:31 final size:32
Alignment explanation
Indices: 30876977--30877037 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
30876967 AGAAGTCACC
* *
30876977 AGATATAGATATTGTGGCTAGGCCACCAGAAT
1 AGATATAGATATTGTGGCAAAGCCACCAGAAT
*
30877009 AGATATATATA-TGTGGCAAAGCCACCAGA
1 AGATATAGATATTGTGGCAAAGCCACCAGA
30877038 TTGCAGCGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (32 bp):
AGATATAGATATTGTGGCAAAGCCACCAGAAT
Found at i:30877101 original size:27 final size:26
Alignment explanation
Indices: 30877053--30877104 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
30877043 GCGAGGCTGC
*
30877053 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
30877079 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
30877105 TTGCAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:30880632 original size:14 final size:13
Alignment explanation
Indices: 30880612--30880643 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
30880602 AATATTTGAC
30880612 TTGTTCTTAATTA
1 TTGTTCTTAATTA
30880625 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
30880639 TTGTT
1 TTGTT
30880644 TTGATATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:30886898 original size:46 final size:46
Alignment explanation
Indices: 30886845--30887020 Score: 157
Period size: 46 Copynumber: 3.8 Consensus size: 46
30886835 TATTTGGGCA
* *
30886845 TCCGAACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30886891 TCCGAACTCGTTGACTTGAGTCCGAG-T-AC--AAGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* * *
30886936 CATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAA-C
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
30886983 ACCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30887021 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 13, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
42 4 0.04
43 5 0.05
44 2 0.02
45 4 0.04
46 56 0.53
47 23 0.22
48 1 0.01
49 2 0.02
50 4 0.04
51 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30886958 original size:93 final size:93
Alignment explanation
Indices: 30886841--30887010 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
30886831 AGGATATTTG
**
30886841 GGCATCCGAACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGA
1 GGCATCCGAACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAA-CACCTGAACTCGTTGA
30886905 CTTGAGTCCGAGTACAAGAGATGTAACTA
65 CTTGAGTCCGAGTACAAGAGATGTAACTA
* * * *
30886934 GGCATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACACCTGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACACCTGAACTCGTTGAC
30886999 TTGAGTCCGAGT
66 TTGAGTCCGAGT
30887011 TCACTTATGG
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACACCTGAACTCGTTGAC
TTGAGTCCGAGTACAAGAGATGTAACTA
Found at i:30894814 original size:44 final size:43
Alignment explanation
Indices: 30894743--30894833 Score: 112
Period size: 44 Copynumber: 2.1 Consensus size: 43
30894733 GCAACCATAT
* *
30894743 ATCGATGCCACTGTCCCAGATAGGGTCTTACACGTAAATCACAA
1 ATCGATGCCAATGTCCCAGATAGGGTCTTACAC-AAAATCACAA
* * *
30894787 ATCGATGCCAATGTCCTAGA-CGTGGTCTTACACAAAATCACAT
1 ATCGATGCCAATGTCCCAGATAG-GGTCTTACACAAAATCACAA
30894830 ATCG
1 ATCG
30894834 GAATCCTATG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 13 0.32
44 28 0.68
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
ATCGATGCCAATGTCCCAGATAGGGTCTTACACAAAATCACAA
Found at i:30897015 original size:50 final size:48
Alignment explanation
Indices: 30896933--30897040 Score: 130
Period size: 50 Copynumber: 2.2 Consensus size: 48
30896923 CTAGAGGCCT
30896933 AGCCTCTTTTAATAACTAGGGCAAAGCCC-TTTTGATAAACTGGGGCAAA
1 AGCC-CTTTTAATAACTAGGGCAAAGCCCTTTTTGATAAACTGGGGC-AA
* * *
30896982 AGCCCTTTTAATAAAC-AGAGGCAAAAGCTCTTTTTGGTAAACTGGGGCAT
1 AGCCCTTTTAAT-AACTAG-GGC-AAAGCCCTTTTTGATAAACTGGGGCAA
30897032 AGCCCTTTT
1 AGCCCTTTT
30897041 TGCACTTCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
48 10 0.19
49 10 0.19
50 16 0.31
51 16 0.31
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTAGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
Found at i:30897030 original size:26 final size:25
Alignment explanation
Indices: 30896933--30897040 Score: 105
Period size: 25 Copynumber: 4.4 Consensus size: 25
30896923 CTAGAGGCCT
* *
30896933 AGCCTCTTTTAAT-AACTAGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
30896957 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* * *
30896982 AGCCCTTTTAATAAACAGAGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* * *
30897007 AGCTCTTTTTGGTAAACTGGGGC-AT
1 AGC-CCTTTTGATAAACTGGGGCAAA
30897032 AGCCCTTTT
1 AGCCCTTTT
30897041 TGCACTTCCT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
23 7 0.10
24 17 0.25
25 31 0.45
26 14 0.20
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:30904663 original size:31 final size:31
Alignment explanation
Indices: 30904628--30904691 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
30904618 CCTTTTCATA
* *
30904628 TTTCATATTTCATAACATTGGGCCGAAGCCT
1 TTTCATATTGCATAACACTGGGCCGAAGCCT
**
30904659 TTTCATATTGCATATTACTGGGCCGAAGCCT
1 TTTCATATTGCATAACACTGGGCCGAAGCCT
30904690 TT
1 TT
30904692 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (31 bp):
TTTCATATTGCATAACACTGGGCCGAAGCCT
Found at i:30905003 original size:26 final size:25
Alignment explanation
Indices: 30904900--30905008 Score: 134
Period size: 25 Copynumber: 4.4 Consensus size: 25
30904890 TTGGAGGCCT
*
30904900 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
30904924 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
30904949 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* *
30904974 AGCCCTTTTTCGGTAAACTGGGGC-AT
1 AGCCC-TTTT-GATAAACTGGGGCAAA
30905000 AGCCCTTTT
1 AGCCCTTTT
30905009 TGCACTTCCT
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
23 7 0.09
24 13 0.17
25 35 0.46
26 10 0.13
27 11 0.14
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:30905079 original size:20 final size:20
Alignment explanation
Indices: 30905056--30905121 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
30905046 TTATGAATAC
30905056 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
30905076 ATCATGT-CATATCATACAT
1 ATCATGTGCATATCATACAT
30905095 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
30905115 ATCATGT
1 ATCATGT
30905122 ATATCAAATC
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.43
20 23 0.52
21 2 0.05
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:30905085 original size:5 final size:5
Alignment explanation
Indices: 30905064--30905119 Score: 64
Period size: 5 Copynumber: 11.6 Consensus size: 5
30905054 ACATCATGTG
* *
30905064 CATAT CATA- CATAT CATGT CATAT CATA- CATAT CATGT GCATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT -CATAT CATAT
30905113 CA-AT CAT
1 CATAT CAT
30905120 GTATATCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
4 12 0.28
5 27 0.63
6 4 0.09
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (5 bp):
CATAT
Found at i:30905127 original size:9 final size:10
Alignment explanation
Indices: 30905056--30905127 Score: 71
Period size: 9 Copynumber: 7.4 Consensus size: 10
30905046 TTATGAATAC
30905056 ATCATGTGCAT
1 ATCATGT-CAT
*
30905067 ATCAT-ACAT
1 ATCATGTCAT
30905076 ATCATGTCAT
1 ATCATGTCAT
*
30905086 ATCAT-ACAT
1 ATCATGTCAT
30905095 ATCATGTGCAT
1 ATCATGT-CAT
*
30905106 ATCATATCA-
1 ATCATGTCAT
30905115 ATCATGT-AT
1 ATCATGTCAT
30905124 ATCA
1 ATCA
30905128 AATCCCATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
8 1 0.02
9 26 0.51
10 10 0.20
11 14 0.27
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (10 bp):
ATCATGTCAT
Found at i:30907238 original size:43 final size:42
Alignment explanation
Indices: 30907082--30907239 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 42
30907072 TATGTGTTAT
*
30907082 CGTGTAAGACCACGTCTGGGACATTGGCATCGAT-TTGTGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATC-ATATT-TGA-TTA
* * ** * *
30907126 CGTGTAAGATCATGTCTGGGAC-TTGATATCATATATGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTA
* *
30907167 TGTGTAAGACC-CTGTCTGGGATAG-TGGCATCAATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGA-CGTTGGCATC-ATATTTGATTA
* *
30907210 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
30907240 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
41 19 0.21
42 11 0.12
43 38 0.43
44 21 0.24
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTA
Found at i:30917755 original size:12 final size:12
Alignment explanation
Indices: 30917738--30917765 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
30917728 CGTGTTATGG
30917738 CACACGACCTAC
1 CACACGACCTAC
30917750 CACACGACCTAC
1 CACACGACCTAC
30917762 CACA
1 CACA
30917766 ATCGATTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.50, G:0.07, T:0.07
Consensus pattern (12 bp):
CACACGACCTAC
Found at i:30925237 original size:28 final size:29
Alignment explanation
Indices: 30925173--30925238 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
30925163 CTTTCATTTA
* * *
30925173 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAAATTAACCCCTCAATTGACACT
* *
30925202 TTTCTCAAATTAATCCCT-AATTGACATT
1 TTTCTCAAATTAACCCCTCAATTGACACT
*
30925230 TTTGTCAAA
1 TTTCTCAAA
30925239 AATCACTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (29 bp):
TTTCTCAAATTAACCCCTCAATTGACACT
Found at i:30936112 original size:6 final size:6
Alignment explanation
Indices: 30936098--30936134 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
30936088 AATAAAACTG
*
30936098 AAATGA AAATAA AAATAA AAATAA AAATAA AAGATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AA-ATAA
30936135 GAGGATTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 25 0.86
7 4 0.14
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:30941089 original size:36 final size:36
Alignment explanation
Indices: 30941042--30941113 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
30941032 TCTCCTGAGT
*
30941042 ACAAAACATGAAATAACCGGATTAAGAGAACCAAAA
1 ACAAAACATGAAATAACCGGATTAAAAGAACCAAAA
*
30941078 ACAAAACATGAAATAACCGGATTAAAAGTACCAAAA
1 ACAAAACATGAAATAACCGGATTAAAAGAACCAAAA
30941114 TCCACAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.58, C:0.17, G:0.12, T:0.12
Consensus pattern (36 bp):
ACAAAACATGAAATAACCGGATTAAAAGAACCAAAA
Found at i:30946591 original size:28 final size:29
Alignment explanation
Indices: 30946559--30946613 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
30946549 ACAGGCGACC
*
30946559 ACACGGGAGTGT-CTAGGCTGTGTGAAGG
1 ACACGGGAGTGTACTAGGCCGTGTGAAGG
* *
30946587 ACACGGGCGTGTACTTGGCCGTGTGAA
1 ACACGGGAGTGTACTAGGCCGTGTGAA
30946614 AACCCCTGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.20, C:0.18, G:0.40, T:0.22
Consensus pattern (29 bp):
ACACGGGAGTGTACTAGGCCGTGTGAAGG
Found at i:30950181 original size:47 final size:47
Alignment explanation
Indices: 30950112--30950201 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 47
30950102 AGGTACAATG
* *
30950112 TCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCACGTTAAA
1 TCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGTTAAA
30950159 TCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGT
1 TCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGT
30950202 ATCTGTTCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (47 bp):
TCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGTTAAA
Found at i:30950319 original size:46 final size:46
Alignment explanation
Indices: 30950256--30950427 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
30950246 ATCATATAGT
* * *
30950256 CGATGCATGTCCTAGACATGTCTTACACTAGCT-TACATCTTAAGGC
1 CGATACATGTCCCAGACATGTCTTACACTAGCTCT-CATATTAAGGC
* * * *
30950302 CGATACATATCCCAGACACGTCTTACACTAGCTCTCGTATTAATGC
1 CGATACATGTCCCAGACATGTCTTACACTAGCTCTCATATTAAGGC
* * * **
30950348 CGATGACATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGC
1 CGAT-ACATGTCCCAGACAT-GTCTTACACTAGCTCTCATATTAAGGC
*
30950396 CGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATACATGTCCCAGACATGTCTTACACTAGC
30950428 ACACAAATAT
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
46 52 0.50
47 28 0.27
48 24 0.23
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (46 bp):
CGATACATGTCCCAGACATGTCTTACACTAGCTCTCATATTAAGGC
Found at i:30950373 original size:94 final size:92
Alignment explanation
Indices: 30950256--30950427 Score: 220
Period size: 94 Copynumber: 1.8 Consensus size: 92
30950246 ATCATATAGT
* **
30950256 CGATGCATGTCCTAGACATGTCTTACACTAGCT-TACATCTTAAGGCCGATACATATCCCAGACA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATAATAAGGCCGATACATATCCCAGACA
30950320 CGTCTTACACTAGCTCTCGTATTAATGC
65 CGTCTTACACTAGCTCTCGTATTAATGC
* * ** * *
30950348 CGATGACATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCCCAGAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATAAGGCCGATACATATCCCAGAC
*
30950413 ATGTCTTACACTAGC
64 ACGTCTTACACTAGC
30950428 ACACAAATAT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
92 5 0.07
93 13 0.19
94 48 0.72
95 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATAAGGCCGATACATATCCCAGACAC
GTCTTACACTAGCTCTCGTATTAATGC
Found at i:30956645 original size:33 final size:33
Alignment explanation
Indices: 30956603--30956669 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
30956593 GCCTCAAATG
30956603 TCCATTTGAAACCATTCAAGACCAATTCGGGTC
1 TCCATTTGAAACCATTCAAGACCAATTCGGGTC
30956636 TCCATTTGAAACCATTCAAGACCAATTCGGGTC
1 TCCATTTGAAACCATTCAAGACCAATTCGGGTC
30956669 T
1 T
30956670 TTAACCAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (33 bp):
TCCATTTGAAACCATTCAAGACCAATTCGGGTC
Found at i:30964488 original size:13 final size:13
Alignment explanation
Indices: 30964470--30964496 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30964460 TTCTTTTTAT
30964470 AAATATTGATATC
1 AAATATTGATATC
30964483 AAATATTGATATC
1 AAATATTGATATC
30964496 A
1 A
30964497 CTCTATACAA
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:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (13 bp):
AAATATTGATATC
Found at i:30970634 original size:21 final size:21
Alignment explanation
Indices: 30970596--30970645 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
30970586 GAGAACTAAT
*
30970596 TTTTATTATATAACATTTTCA
1 TTTTATTATATAACATTTTAA
*
30970617 TTTT-TTATATAATGATTTTAA
1 TTTTATTATATAA-CATTTTAA
30970638 TTTATATT
1 TTT-TATT
30970646 TTTTTATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 8 0.33
21 13 0.54
22 1 0.04
23 2 0.08
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTATTATATAACATTTTAA
Found at i:30970838 original size:25 final size:25
Alignment explanation
Indices: 30970810--30970863 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
30970800 CTTATATCAA
30970810 ATATTT-TAATTATTATTTTCA-TATT
1 ATATTTATAATTA-TATTTT-ATTATT
*
30970835 ATATTTATATTTATATTTTATTATT
1 ATATTTATAATTATATTTTATTATT
30970860 ATAT
1 ATAT
30970864 CGAAAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 1 0.04
25 20 0.77
26 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
ATATTTATAATTATATTTTATTATT
Found at i:30980209 original size:28 final size:28
Alignment explanation
Indices: 30980165--30980434 Score: 183
Period size: 28 Copynumber: 9.6 Consensus size: 28
30980155 GACCATATAA
30980165 ATGGCACTTAGTGTGCGAAGTATCGAGG
1 ATGGCACTTAGTGTGCGAAGTATCGAGG
* * *
30980193 ATGGCACTTAGTCTGCGATA-CATTC-AGA
1 ATGGCACTTAGTGTGCGA-AGTA-TCGAGG
* *
30980221 ATGGCACTTAGTATGCGAAGTATTG-GG
1 ATGGCACTTAGTGTGCGAAGTATCGAGG
*
30980248 AATGGAACTTAGTGTGCGAAGTATCGAGG
1 -ATGGCACTTAGTGTGCGAAGTATCGAGG
* * **
30980277 ATGGCACTTGGTGTGCGATA-CATTC-AAA
1 ATGGCACTTAGTGTGCGA-AGTA-TCGAGG
* * * * *
30980305 ATGGTATTTAGTGTGCAAAGTATTGAGA
1 ATGGCACTTAGTGTGCGAAGTATCGAGG
* * * *
30980333 ATGACATTTAATGTGTGAAGTATCGAGG
1 ATGGCACTTAGTGTGCGAAGTATCGAGG
* * ** * **
30980361 ATGACACTTAGTGTACGAAACATCTAAA
1 ATGGCACTTAGTGTGCGAAGTATCGAGG
* *
30980389 ATGGCACTTAGTGTACGAGGTATCG-GG
1 ATGGCACTTAGTGTGCGAAGTATCGAGG
*
30980416 TATGGCACCTAGTGTGCGA
1 -ATGGCACTTAGTGTGCGA
30980435 GACATTGAAT
Statistics
Matches: 184, Mismatches: 47, Indels: 22
0.73 0.19 0.09
Matches are distributed among these distances:
27 5 0.03
28 171 0.93
29 8 0.04
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAGTATCGAGG
Found at i:30980308 original size:84 final size:84
Alignment explanation
Indices: 30980164--30980434 Score: 321
Period size: 84 Copynumber: 3.2 Consensus size: 84
30980154 CGACCATATA
* * *
30980164 AATGGCACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTCTGCGATACATTCAGAATGGCACT
1 AATGGAACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGATACATTCAAAATGGCACT
*
30980229 TAGTATGCGAAGTATTGGG
66 TAGTGTGCGAAGTATTGGG
* * *
30980248 AATGGAACTTAGTGTGCGAAGTATCGAGGATGGCACTTGGTGTGCGATACATTCAAAATGGTATT
1 AATGGAACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGATACATTCAAAATGGCACT
* *
30980313 TAGTGTGCAAAGTATTGAG
66 TAGTGTGCGAAGTATTGGG
* * * * * *
30980332 AAT-GACATTTAATGTGTGAAGTATCGAGGATGACACTTAGTGTACGAAACA-TCTAAAATGGCA
1 AATGGA-ACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGATACATTC-AAAATGGCA
* * *
30980395 CTTAGTGTACGAGGTATCGGG
64 CTTAGTGTGCGAAGTATTGGG
* * *
30980416 TATGGCACCTAGTGTGCGA
1 AATGGAACTTAGTGTGCGA
30980435 GACATTGAAT
Statistics
Matches: 155, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
83 4 0.03
84 150 0.97
85 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.28
Consensus pattern (84 bp):
AATGGAACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGATACATTCAAAATGGCACT
TAGTGTGCGAAGTATTGGG
Found at i:30980524 original size:32 final size:32
Alignment explanation
Indices: 30980487--30980548 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
30980477 TGAGATTGGC
*
30980487 ACAAGATGGTACAGGTATGTATGAAAATTCGT
1 ACAAGATGGTACAGGTATGTACGAAAATTCGT
30980519 ACAAGATGGTACAGGTATGTACGAAAATTC
1 ACAAGATGGTACAGGTATGTACGAAAATTC
30980549 AATTGAGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (32 bp):
ACAAGATGGTACAGGTATGTACGAAAATTCGT
Found at i:30983633 original size:25 final size:25
Alignment explanation
Indices: 30983573--30983672 Score: 80
Period size: 24 Copynumber: 4.1 Consensus size: 25
30983563 TTCCAAGCCA
*
30983573 AATAACAGAAAGCTCATGTGAGCTT
1 AATAACAGGAAGCTCATGTGAGCTT
* * *
30983598 -GTAACGGGAAGCTTAT-TCGAGCTT
1 AATAACAGGAAGCTCATGT-GAGCTT
**
30983622 AATAACAGGAAGCTCATAAGAGCTT
1 AATAACAGGAAGCTCATGTGAGCTT
* * * *
30983647 AA-ATCAGAAAACTCATGCGAGCTT
1 AATAACAGGAAGCTCATGTGAGCTT
30983671 AA
1 AA
30983673 CGGGTGTAAC
Statistics
Matches: 59, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
23 1 0.02
24 37 0.63
25 21 0.36
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (25 bp):
AATAACAGGAAGCTCATGTGAGCTT
Found at i:30984343 original size:29 final size:29
Alignment explanation
Indices: 30984304--30984360 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
30984294 CAGGGGACAC
*
30984304 ACAGCCGTGTACTTGACTATGTGTCACAG
1 ACAGCCATGTACTTGACTATGTGTCACAG
*
30984333 ACAGCCATGTACTTGACTGTGTGTCACA
1 ACAGCCATGTACTTGACTATGTGTCACA
30984361 CATGGCTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (29 bp):
ACAGCCATGTACTTGACTATGTGTCACAG
Found at i:30985537 original size:18 final size:18
Alignment explanation
Indices: 30985514--30985571 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
30985504 AGCCCATTTG
30985514 AGTAACAGTAATCAGTGC
1 AGTAACAGTAATCAGTGC
* *
30985532 AGTAACCA-TGATCAATGC
1 AGTAA-CAGTAATCAGTGC
*
30985550 AGTAATAGTAATCAGTGC
1 AGTAACAGTAATCAGTGC
30985568 AGTA
1 AGTA
30985572 TGCAAGCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 1 0.03
18 30 0.91
19 2 0.06
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.24
Consensus pattern (18 bp):
AGTAACAGTAATCAGTGC
Found at i:30985859 original size:23 final size:23
Alignment explanation
Indices: 30985833--30985879 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
30985823 CCATGCAATA
30985833 CAACATA-ATATTATACATGG-ATG
1 CAACATACATA-TA-ACATGGCATG
30985856 CAACATACATATAACATGGCATG
1 CAACATACATATAACATGGCATG
30985879 C
1 C
30985880 TCAAATATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 13 0.59
24 3 0.14
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.26
Consensus pattern (23 bp):
CAACATACATATAACATGGCATG
Found at i:30985963 original size:27 final size:27
Alignment explanation
Indices: 30985941--30986003 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
30985931 GCGTATTACA
* *
30985941 GTCATTTTAGCCTATAGGGGTATTTCG
1 GTCATTTTACCCAATAGGGGTATTTCG
* *
30985968 GTCATTCTACCCAATGGGGGTATTTCG
1 GTCATTTTACCCAATAGGGGTATTTCG
30985995 GTCATTTTA
1 GTCATTTTA
30986004 TCATATAAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCAATAGGGGTATTTCG
Found at i:30987949 original size:12 final size:13
Alignment explanation
Indices: 30987932--30987963 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
30987922 ATAGCACATT
30987932 TCAAAAC-ATGCA
1 TCAAAACTATGCA
30987944 TCAAAACTATGCA
1 TCAAAACTATGCA
30987957 -CAAAACT
1 TCAAAACT
30987964 TACCATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:30988557 original size:44 final size:42
Alignment explanation
Indices: 30988421--30988567 Score: 129
Period size: 42 Copynumber: 3.4 Consensus size: 42
30988411 CAATGCCGAC
* * * *
30988421 GTCCTAGACGTGGTCTTACATGT-AATTCAGTATCGATGCCTCT
1 GTCCCAGACATGGTCTTACATGTAAATTCA-AATCGATGCC-GT
* * * * *
30988464 GTCCCAGACAGGGTCTTATACG-AAA-ACAGATACGATGCCGAT
1 GTCCCAGACATGGTCTTACATGTAAATTCAAAT-CGATGCCG-T
30988506 GTCCCAGACATGGTCTTACATGTAAATTTCAAATCGATGCCAGT
1 GTCCCAGACATGGTCTTACATGTAAA-TTCAAATCGATGCC-GT
*
30988550 GTCCCAGACACGGTCTTA
1 GTCCCAGACATGGTCTTA
30988568 TACGATAATT
Statistics
Matches: 83, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
41 2 0.02
42 29 0.35
43 22 0.27
44 25 0.30
45 5 0.06
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACATGTAAATTCAAATCGATGCCGT
Found at i:30988565 original size:86 final size:85
Alignment explanation
Indices: 30988413--30988572 Score: 232
Period size: 86 Copynumber: 1.9 Consensus size: 85
30988403 GACAAGTACA
* * * * *
30988413 ATGCCGACGTCCTAGACGTGGTCTTACATGTAATTCAGTATCGATGCCTCTGTCCCAGACAGGGT
1 ATGCCGACGTCCCAGACATGGTCTTACATGTAATTCAGAATCGATGCCACTGTCCCAGACACGGT
30988478 CTTATACGAAAACAGATACG
66 CTTATACGAAAACAGATACG
* *
30988498 ATGCCGATGTCCCAGACATGGTCTTACATGTAAATTTCA-AATCGATGCCAGTGTCCCAGACACG
1 ATGCCGACGTCCCAGACATGGTCTTACATGT-AA-TTCAGAATCGATGCCACTGTCCCAGACACG
30988562 GTCTTATACGA
64 GTCTTATACGA
30988573 TAATTTAGAT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
85 28 0.42
86 34 0.52
87 4 0.06
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (85 bp):
ATGCCGACGTCCCAGACATGGTCTTACATGTAATTCAGAATCGATGCCACTGTCCCAGACACGGT
CTTATACGAAAACAGATACG
Found at i:30988578 original size:44 final size:43
Alignment explanation
Indices: 30988452--30988578 Score: 118
Period size: 44 Copynumber: 2.9 Consensus size: 43
30988442 GTAATTCAGT
* * * *
30988452 ATCGATGCCTCTGTCCCAGACAGGGTCTTATACGA-AA--ACAG
1 ATCGATGCC-GTGTCCCAGACACGGTCTTATACGATAATTTCAA
* * *
30988493 ATACGATGCCGATGTCCCAGACATGGTCTTACATG-TAAATTTCAA
1 AT-CGATGCCG-TGTCCCAGACACGGTCTTATACGAT-AATTTCAA
30988538 ATCGATGCCAGTGTCCCAGACACGGTCTTATACGATAATTT
1 ATCGATGCC-GTGTCCCAGACACGGTCTTATACGATAATTT
30988579 AGATGAATAC
Statistics
Matches: 69, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
41 2 0.03
42 27 0.39
43 2 0.03
44 32 0.46
45 6 0.09
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (43 bp):
ATCGATGCCGTGTCCCAGACACGGTCTTATACGATAATTTCAA
Found at i:30994623 original size:44 final size:44
Alignment explanation
Indices: 30994417--30994671 Score: 282
Period size: 44 Copynumber: 5.6 Consensus size: 44
30994407 TATGTGAGCC
* **
30994417 AGTGTAAGACATGTCTGGGACATGCATCGG-TCACATTATGAAATGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-A-A-GA-GATGTGCT
* * * *
30994464 AGTGTAAGACATGTTTAGGACATGCATTGGCATTAAGACGA-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGC--TAAGA-GATGTGCT
* * *
30994510 AGTGTAAGACATGTCTGGGACATGCATCGACCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-GCTAAGAGATGT--GCT
30994556 AGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGATGTGCT
* * *
30994600 AGTGTAAGACATGTCTAGAACATGCATCGGCTAAGAGTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGATGTGCT
30994644 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
30994672 AGCACGGATA
Statistics
Matches: 178, Mismatches: 22, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
43 2 0.01
44 72 0.40
45 3 0.02
46 67 0.38
47 31 0.17
48 1 0.01
49 1 0.01
50 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGATGTGCT
Found at i:30994669 original size:134 final size:138
Alignment explanation
Indices: 30994408--30994671 Score: 378
Period size: 139 Copynumber: 1.9 Consensus size: 138
30994398 CATTGCTATT
* *
30994408 ATGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGTCACATTATGAAATGCTAGTGTAAGA
1 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGTCACATGATGAAATGCTAGTGTAAGA
* * *
30994473 CATGTTTAGGACATGCATTGGCATTAAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATC
66 CATGTCTAGAACATGCATCGGCA-TAAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATC
30994538 GACCTCGAG
130 GACCTCGAG
**
30994547 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTA-A-GA-GATGTGCTAGTGTAAG
1 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGTC-ACATGATGAAATGCTAGTGTAAG
* *
30994608 ACATGTCTAGAACATGCATCGGC-TAAGA-GTTGTGCTAGTGTAAGACATGTCTGGGACATGCAT
65 ACATGTCTAGAACATGCATCGGCATAAGACG-AGAGCTAGTGTAAGACATGTCTGGGACATGCAT
30994671 C
129 C
30994672 AGCACGGATA
Statistics
Matches: 114, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
133 1 0.01
134 37 0.32
136 34 0.30
137 1 0.01
138 2 0.02
139 39 0.34
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (138 bp):
ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGTCACATGATGAAATGCTAGTGTAAGA
CATGTCTAGAACATGCATCGGCATAAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCG
ACCTCGAG
Found at i:30994685 original size:88 final size:89
Alignment explanation
Indices: 30994464--30994674 Score: 248
Period size: 90 Copynumber: 2.3 Consensus size: 89
30994454 ATGAAATGCT
* * ** * *
30994464 AGTGTAAGACATGTTTAGGACATGCATTGGCATTAAGACGA-GAGCTAGTGTAAGACATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGC--TAAGA-GATGTGCTAGTGTAAGACATGTCTAG
* *
30994528 GACATGCATCGACCTCGAGATGTAAGCC
63 AACATGCATCGACCTAGAGATGT-AGCC
*
30994556 AGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGATGTGCTAGTGTAAGACATGTCTAGAAC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTAAGAGATGTGCTAGTGTAAGACATGTCTAGAAC
* * *
30994621 ATGCATCG-GCTAAGAGTTGT-GCT
66 ATGCATCGACCT-AGAGATGTAGCC
30994644 AGTGTAAGACATGTCTGGGACATGCATCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
30994675 ACGGATATGT
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
88 32 0.30
89 4 0.04
90 42 0.40
92 28 0.26
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (89 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTAAGAGATGTGCTAGTGTAAGACATGTCTAGAAC
ATGCATCGACCTAGAGATGTAGCC
Found at i:30994697 original size:136 final size:139
Alignment explanation
Indices: 30994408--30994701 Score: 381
Period size: 136 Copynumber: 2.1 Consensus size: 139
30994398 CATTGCTATT
*
30994408 ATGT-GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGTCACATTATGAAATGCTAGTGTAAG
1 ATGTAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGTCACATGATGAAATGCTAGTGTAAG
* * *
30994472 ACATGTTTAGGACATGCATTGGCATTAAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCAT
66 ACATGTCTAGAACATGCATCGGCA-TAAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCAT
*
30994537 CGACCTCGAG
130 CGACCACGAG
**
30994547 ATGTA-AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTA-A-GA-GATGTGCTAGTGTAA
1 ATGTAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGTC-ACATGATGAAATGCTAGTGTAA
* *
30994607 GACATGTCTAGAACATGCATCGGC-TAAGA-GTTGTGCTAGTGTAAGACATGTCTGGGACATGCA
65 GACATGTCTAGAACATGCATCGGCATAAGACG-AGAGCTAGTGTAAGACATGTCTGGGACATGCA
* *
30994670 TC-AGCACGGAT
129 TCGACCAC-GAG
30994681 ATGTGAGAGCCAGTGTAAGAC
1 ATGT-AGAGCCAGTGTAAGAC
30994702 CATATCTAGG
Statistics
Matches: 138, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
133 4 0.03
134 43 0.31
135 1 0.01
136 48 0.35
137 1 0.01
138 2 0.01
139 39 0.28
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (139 bp):
ATGTAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGTCACATGATGAAATGCTAGTGTAAG
ACATGTCTAGAACATGCATCGGCATAAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATC
GACCACGAG
Found at i:31002832 original size:16 final size:16
Alignment explanation
Indices: 31002813--31002844 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31002803 AATTATTTTA
31002813 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
31002829 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
31002845 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:31003200 original size:50 final size:50
Alignment explanation
Indices: 31003025--31003365 Score: 312
Period size: 50 Copynumber: 6.8 Consensus size: 50
31003015 ACCGAAGCTC
*
31003025 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* ** * * * * ** *
31003075 TCTAGTACATGTAGTAGCCTGCACTTAGTATTGCACACGTGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAA
* * *
31003127 -CGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * *
31003176 TTTGGTACACGTAGTAGCCTGCACTTAGTACTACTCACAT--GACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTA--CACATGCGACCTATCAA
* ** * * ** *
31003226 TCTGATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAA
* * * *
31003278 -CAGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
*
31003327 TCTGGTACACATAGTAGTCTGCACTTAGTACTACACATG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATG
31003366 TGACTCACAA
Statistics
Matches: 225, Mismatches: 56, Indels: 20
0.75 0.19 0.07
Matches are distributed among these distances:
48 4 0.02
49 6 0.03
50 138 0.61
51 68 0.30
52 9 0.04
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
Found at i:31003284 original size:101 final size:100
Alignment explanation
Indices: 31003135--31003368 Score: 240
Period size: 101 Copynumber: 2.3 Consensus size: 100
31003125 AACGGGTACG
* * ** * ** * *
31003135 CATAGTAGCCTGCACTTAGTACTACACATGAGA-CCTA-TCAATTTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAA-CAGGTACACATAGTAGCCTAC
* * *
31003198 ACTTAGTACTACTCACAT-GACTTAACCATCTGATACA
65 ACATAGTACTA--CACATCGACCTAACAATCTGATACA
** *
31003235 TGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACAGGTACGCATAGTAGCCTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACAGGTACACATAGTAGCCTACA
* *
31003300 CATAGTACTACACATGCGACCTATCAATCTGGTACA
66 CATAGTACTACACAT-CGACCTAACAATCTGATACA
* *
31003336 CATAGTAGTCTGCACTTAGTACTACACATGTGA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA
31003369 CTCACAAAGG
Statistics
Matches: 109, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
99 5 0.05
100 29 0.27
101 72 0.66
102 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (100 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACAGGTACACATAGTAGCCTACA
CATAGTACTACACATCGACCTAACAATCTGATACA
Found at i:31003370 original size:151 final size:151
Alignment explanation
Indices: 31003025--31003370 Score: 514
Period size: 151 Copynumber: 2.3 Consensus size: 151
31003015 ACCGAAGCTC
* * * *
31003025 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACATGTAGT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACTTAACAATCTAGTACATGTAGT
* * * * * *
31003090 AGCCTGCACTTAGTATTGCACACGTGATCGAAGTTAACGGGTACGCATAGTAGCCTGCACTTAGT
66 AGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACAGGTACGCATAGTAGCCTACACATAGT
31003155 ACTACACATGAGACCTATCAA
131 ACTACACATGAGACCTATCAA
* * * ** *
31003176 TTTGGTACACGTAGTAGCCTGCACTTAGTACTACTCACATGACTTAACCATCT-GATACATGTAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACTTAACAATCTAG-TACATGTAG
31003240 TAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACAGGTACGCATAGTAGCCTACACATAG
65 TAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACAGGTACGCATAGTAGCCTACACATAG
*
31003305 TACTACACATGCGACCTATCAA
130 TACTACACATGAGACCTATCAA
*
31003327 TCTGGTACACATAGTAGTCTGCACTTAGTACTACACATGTGACT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACT
31003371 CACAAAGGAT
Statistics
Matches: 171, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
150 1 0.01
151 170 0.99
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (151 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACTTAACAATCTAGTACATGTAGT
AGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACAGGTACGCATAGTAGCCTACACATAGT
ACTACACATGAGACCTATCAA
Found at i:31020292 original size:79 final size:80
Alignment explanation
Indices: 31020155--31020426 Score: 327
Period size: 80 Copynumber: 3.4 Consensus size: 80
31020145 TTGAATGATG
* * * * *
31020155 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
* *
31020219 TGTACGAGATACTAAT
65 TGTGCGAGTTACTAAT
*
31020235 TCCGAGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
*
31020299 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAT
* * * ** *
31020314 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAATCCGGGTTAAG-TGCCAAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATT
31020378 TGTGCGAGTTACT-AT
65 TGTGCGAGTTACTAAT
* * *
31020393 AACCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
31020427 AGCTATATCC
Statistics
Matches: 165, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
79 64 0.39
80 101 0.61
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAT
Found at i:31020426 original size:120 final size:118
Alignment explanation
Indices: 31020208--31020452 Score: 280
Period size: 120 Copynumber: 2.1 Consensus size: 118
31020198 GGACTAAGAT
* * *
31020208 CCGAAGGCATTTGTACGAGATACTAATTCCGAGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
1 CCGAAGGCAATTGTACGAGATACTAAATCCGAGCTAAGCCCAAAGGCATTTGTACGAGTTACTAA
** *
31020273 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 ATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATC
* * * * * *
31020327 CCGAAGGCAATTGTGCGAGTTACTAAATCCGGGTTAAGTGCCAAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCAATTGTACGAGATACTAAATCCGAGCTAAG-CCCAAAGGCATTTGTACGAGTTACTA
* * * *
31020392 TAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
65 -AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
31020446 CCGAAGG
1 CCGAAGG
31020453 TACGTGATTT
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
119 49 0.46
120 55 0.52
121 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (118 bp):
CCGAAGGCAATTGTACGAGATACTAAATCCGAGCTAAGCCCAAAGGCATTTGTACGAGTTACTAA
ATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
Found at i:31020433 original size:40 final size:40
Alignment explanation
Indices: 31020155--31020426 Score: 293
Period size: 40 Copynumber: 6.8 Consensus size: 40
31020145 TTGAATGATG
* * * * *
31020155 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAA
* * *
31020195 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
*
31020235 TCCGAGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
* *
31020274 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
* * *
31020314 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
* * * *
31020354 TCCGGGTTAAGTGCCAAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTA-AA
* *
31020395 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
31020427 AGCTATATCC
Statistics
Matches: 198, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
39 35 0.18
40 154 0.78
41 9 0.05
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
Found at i:31022395 original size:46 final size:46
Alignment explanation
Indices: 31022338--31022510 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
31022328 TGGTTGAGCA
* *
31022338 TCCGAATTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
* * * * * *
31022384 TCTGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAA--A--CG
* *
31022431 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
* *
31022477 CCCGAGCTCGTTGAGTTGAGT-TCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCT-GAGTTCACTTA
31022511 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 58 0.58
47 27 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
Found at i:31022494 original size:93 final size:93
Alignment explanation
Indices: 31022335--31022505 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
31022325 GGATGGTTGA
* * * * *
31022335 GCATCCGAATTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
31022400 TGAG-TCTGAGTTCGTGAAATGTAACTAG
66 TGAGTTC-GAGTTCGTGAAATGTAACTAG
* *
31022428 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
31022493 TGAGTTCGAGTTC
66 TGAGTTCGAGTTC
31022506 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 68 0.97
94 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTTCGAGTTCGTGAAATGTAACTAG
Found at i:31022772 original size:19 final size:20
Alignment explanation
Indices: 31022735--31022772 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
31022725 ATAAGGTGGT
31022735 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
31022755 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
31022773 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:31025346 original size:48 final size:48
Alignment explanation
Indices: 31025294--31025455 Score: 207
Period size: 48 Copynumber: 3.4 Consensus size: 48
31025284 CATCCCAAAT
* * **
31025294 ATGGTCTTATATGGGACCATTTATCGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGAC
* * *
31025342 ATGGTATTACATGGGATCACATAACGATGCCAATGCCATGTCCCAAAC
1 ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGAC
** * *
31025390 ATGGTCTTACATGGGATCACATATCGATGCTGATGCCATATCCCAGAT
1 ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGAC
* *
31025438 ATGGTCTTATAAGGGATC
1 ATGGTCTTACATGGGATC
31025456 TCATCAACCC
Statistics
Matches: 98, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 98 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (48 bp):
ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGAC
Found at i:31039668 original size:22 final size:22
Alignment explanation
Indices: 31039633--31039695 Score: 108
Period size: 22 Copynumber: 2.8 Consensus size: 22
31039623 AATCCTACCC
*
31039633 ATCCATCCTCTACACTCCACTGT
1 ATCCAGCC-CTACACTCCACTGT
31039656 ATCCAGCCCTACACTCCACTGT
1 ATCCAGCCCTACACTCCACTGT
31039678 ATCCAGCCCTACACTCCA
1 ATCCAGCCCTACACTCCA
31039696 TGTGGGGATA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
22 32 0.82
23 7 0.18
ACGTcount: A:0.24, C:0.46, G:0.06, T:0.24
Consensus pattern (22 bp):
ATCCAGCCCTACACTCCACTGT
Found at i:31049202 original size:12 final size:12
Alignment explanation
Indices: 31049185--31049213 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
31049175 GAGTTGATTT
31049185 AGATGATTTTCA
1 AGATGATTTTCA
31049197 AGATGATTTTCA
1 AGATGATTTTCA
31049209 A-ATGA
1 AGATGA
31049214 AGCTTATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (12 bp):
AGATGATTTTCA
Found at i:31050804 original size:56 final size:56
Alignment explanation
Indices: 31050718--31050850 Score: 212
Period size: 56 Copynumber: 2.4 Consensus size: 56
31050708 ATGGCATCGC
* **
31050718 TATATGTGTGCGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTTTGA
1 TATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCGA
* *
31050774 TATATGTATGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCCGA
1 TATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCGA
*
31050830 TATATGTGTGTGAGTAAGACC
1 TATATGTGTGCGAGTAAGACC
31050851 CTGTTTGGGA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 70 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (56 bp):
TATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCGA
Found at i:31050868 original size:56 final size:55
Alignment explanation
Indices: 31050718--31050879 Score: 184
Period size: 56 Copynumber: 2.9 Consensus size: 55
31050708 ATGGCATCGC
* * **
31050718 TATATGTGTGCGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTTTGA
1 TATATGTGTGCGAGTAAGACCCTGTTTAACA-GTTGGCATCGATATGTGATTCCGA
* *
31050774 TATATGTATGCGAGTAAGACCAC-GTTTAATATGTTGGCATCGATATGTGATTCCGA
1 TATATGTGTGCGAGTAAGACC-CTGTTTAACA-GTTGGCATCGATATGTGATTCCGA
* * *
31050830 TATATGTGTGTGAGTAAGACCCTGTTTGGGACAG-TGGCATCAATATGTGA
1 TATATGTGTGCGAGTAAGACCCTGTTT--AACAGTTGGCATCGATATGTGA
31050880 AAACATGTAA
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
55 1 0.01
56 88 0.96
57 1 0.01
58 2 0.02
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (55 bp):
TATATGTGTGCGAGTAAGACCCTGTTTAACAGTTGGCATCGATATGTGATTCCGA
Found at i:31055753 original size:7 final size:7
Alignment explanation
Indices: 31055738--31055768 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
31055728 ACCTCATTTG
31055738 ATCCCTC
1 ATCCCTC
*
31055745 ATCCATC
1 ATCCCTC
31055752 ATCCCTC
1 ATCCCTC
31055759 ATCCCTC
1 ATCCCTC
31055766 ATC
1 ATC
31055769 TTCCATCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.19, C:0.52, G:0.00, T:0.29
Consensus pattern (7 bp):
ATCCCTC
Found at i:31056707 original size:7 final size:7
Alignment explanation
Indices: 31056695--31056719 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31056685 TTCATTCATC
31056695 AATTACT
1 AATTACT
31056702 AATTACT
1 AATTACT
31056709 AATTACT
1 AATTACT
31056716 AATT
1 AATT
31056720 CATCAACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTACT
Found at i:31065620 original size:17 final size:19
Alignment explanation
Indices: 31065584--31065621 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
31065574 CCTAAACTCG
31065584 TTAAGTATACAAAGAGGTT
1 TTAAGTATACAAAGAGGTT
*
31065603 TTAA-TATA-AAATAGGTT
1 TTAAGTATACAAAGAGGTT
31065620 TT
1 TT
31065622 CAACTAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
18 4 0.22
19 4 0.22
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (19 bp):
TTAAGTATACAAAGAGGTT
Found at i:31066506 original size:56 final size:56
Alignment explanation
Indices: 31066413--31066641 Score: 273
Period size: 56 Copynumber: 4.1 Consensus size: 56
31066403 CATGACATAG
* * * * *
31066413 GATTCCAATATGTGATGTGTGAGTAAGACCATGTTTAATACGTTGCCATCGATATGT
1 GATTCCGATATATG-TGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGT
* *
31066470 GATTCCGATATATGTGTGCAAGTAAGACCACATTTAATACGTTGGCATCGATATGT
1 GATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGT
* *
31066526 GATTCCGGTATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATTGATATGT
1 GATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGT
** * * * **
31066582 GATTTTGATTTATGTGTTCGAGTAAGACC-CTGTCTAGGACAG-TGGCATCGATATGT
1 GATTCCGATATATGTGTGCGAGTAAGACCAC-GTTTAATAC-GTTGGCATCGATATGT
31066638 GATT
1 GATT
31066642 ACATGTAAGA
Statistics
Matches: 150, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
55 1 0.01
56 136 0.91
57 13 0.09
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.34
Consensus pattern (56 bp):
GATTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGT
Done.