Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold209
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: 153494
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:11876 original size:12 final size:11
Alignment explanation
Indices: 11848--11876 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
11838 AAGCTTTTTG
11848 GATTTTTAAAT
1 GATTTTTAAAT
11859 GATTTTTAAAT
1 GATTTTTAAAT
11870 GATTTTT
1 GATTTTT
11877 CAATACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (11 bp):
GATTTTTAAAT
Found at i:12442 original size:21 final size:22
Alignment explanation
Indices: 12397--12449 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
12387 TGGACATGTT
12397 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
12419 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
12441 AAAAA-GCAT
1 AAAAATGCAT
12450 AGTCAAAGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.17
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:13408 original size:20 final size:20
Alignment explanation
Indices: 13361--13435 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
13351 AAAAAGACAT
*
13361 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
13380 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
13401 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
13421 AATGTATCGATACAT
1 AATGTATCGATACAT
13436 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:13429 original size:40 final size:39
Alignment explanation
Indices: 13358--13435 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
13348 GGTAAAAAGA
* *
13358 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
13397 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
13436 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:16181 original size:27 final size:27
Alignment explanation
Indices: 16149--16233 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
16139 CTAATCGCCA
*
16149 CATGACCGCCCAGGTCTGGTTGCCAAG
1 CATGACCGCCCAGGTCTGGTCGCCAAG
* *
16176 CATGACCACCCAGGTCTGGTCACCAAG
1 CATGACCGCCCAGGTCTGGTCGCCAAG
*
16203 CATGACCGCCCAGGTCTAGTCGCCAAG
1 CATGACCGCCCAGGTCTGGTCGCCAAG
16230 CATG
1 CATG
16234 GTCGTCATCA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.22, C:0.35, G:0.26, T:0.16
Consensus pattern (27 bp):
CATGACCGCCCAGGTCTGGTCGCCAAG
Found at i:20148 original size:1 final size:1
Alignment explanation
Indices: 20142--20166 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
20132 GACAGAAATG
20142 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
20167 GCAGCAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:23871 original size:20 final size:20
Alignment explanation
Indices: 23846--23896 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
23836 TAGTTTCATA
**
23846 TATCGATACAATTTAAGGTG
1 TATCGATACAATTTAACATG
*
23866 TATCGATACTA-TTAACATG
1 TATCGATACAATTTAACATG
23885 TATCGATACAAT
1 TATCGATACAAT
23897 GTATTGATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (20 bp):
TATCGATACAATTTAACATG
Found at i:30780 original size:841 final size:841
Alignment explanation
Indices: 29156--30837 Score: 2794
Period size: 841 Copynumber: 2.0 Consensus size: 841
29146 TAGCCTTTTT
* *
29156 TTTTATAAAGCTTGTATGGAGTTTTCTTTAAAATTGATCTAATCATAACTCGGTTTACAATATAA
1 TTTTATAAAGCTTATATGGAGTTTTCTTTAAAATTGACCTAATCATAACTCGGTTTACAATATAA
*
29221 CAAGCGGTATTAATAGCTTTTGCCTAAAAATATATTGGTAAATTATTTTCACAAAGCATAGTCCT
66 CAAGCGGTATTAATAGCTTCTGCCTAAAAATATATTGGTAAATTATTTTCACAAAGCATAGTCCT
** *
29286 AGCCATTTATTCCAAAGTGTGATTTTTCCTTTCAACAACTCCATTTTATTGAGGAGTTCTAGGAC
131 AGCCATTTATTCCAAAGTCCGATTTTTCCTTTCAACAACTCCATTTTATTGAGAAGTTCTAGGAC
* * *
29351 CTGTGAAGTTATTGCTAGTATCATTTTCATTACAAAAATTATCAAAACCAAGATTTTTAAATTTT
196 CTATGAAGTTATTGCTAATATCATTTTCATTACAAAAATTATCAAAACCAAGATTTTCAAATTTT
* * *
29416 TTACCATGGTCAGTTCTAATACTAGATAAAGAGTAACCTTTTTCATTTTGAATAATTTTACAAAA
261 TTACCATGGTCACTTCTAATACTAGATAAAGAGTAACCTTTTTCATTTTAAACAATTTTACAAAA
* * * *
29481 TGTGATGAATTTTTCTAAAGCTTTATCCTTGGTGCTTAAGAATAGAACCCAAGTATATCTTGAAT
326 TGTGATGAATTTTTCTAAAGCTTCATACTTGGTGCTTAAGAACAAAACCCAAGTATATCTTGAAT
* *
29546 AATCATCTACAATTACAAATCCATATCGTTTACCACCTAGATTTTGCATTCTAGTCAGACCAAAT
391 AATCATCTACAATTACAAATCCATATCGTTTACCACCTAGACTTTGCATTCTAGTCAGACCAAAC
29611 AAATCAATATGAACTAATTGCAAAGTTCTAGTGGTTGTGACAATATTTAAAGGCTTAAAAGAAGT
456 AAATCAATATGAACTAATTGCAAAGTTCTAGTGGTTGTGACAATATTTAAAGGCTTAAAAGAAGT
*
29676 TCTTCTATGTTTGCCTTTAATGCATGCATCACACACCTTGTCACATTCAAACTTAACCTTAGGCA
521 TCTTCTATGTTTGCCTTTAATGCATGCATCACACACCTTATCACATTCAAACTTAACCTTAGGCA
29741 ATCCAACAACAAGGTTTTTCCTAGACAATTTCAAAAATAAGCTCATACTTGCATGTCCTAACCTA
586 ATCCAACAACAAGGTTTTTCCTAGACAATTTCAAAAATAAGCTCATACTTGCATGTCCTAACCTA
*
29806 CGATGCCATAGCTAAGGTATGTCATTGTTATTCGCAACAAAACATACATTTTGGGAACTTAGAAC
651 CGATGCCATAGCCAAGGTATGTCATTGTTATTCGCAACAAAACATACATTTTGGGAACTTAGAAC
* **
29871 ATCTAAATGTACAACATAAATGTTCCCTTTTCTTTGGCCGAGAAAAATTGTTTAATTAGTGCTAG
716 ATCTAAATGTACAACATAAATGTTCCCTTCTCTACGGCCGAGAAAAATTGTTTAATTAGTGCTAG
*
29936 TATCAATTACGTGATAATTTTGTGATTCAAATACAGCTTTCATACCCTTGTCACATAATTG
781 TATCAATTACGTGATAATTTTGTGATTCAAATACAACTTTCATACCCTTGTCACATAATTG
* * * *
29997 TTTTATAAAG-TTCATATTGAGTTTTCTTTAAAATTGGCCTAATCATAGCTTGGTTTACAATATA
1 TTTTATAAAGCTT-ATATGGAGTTTTCTTTAAAATTGACCTAATCATAACTCGGTTTACAATATA
* * * *
30061 ACAAGCTGTATTCATAGCTTCTGCTTAAAAATATCTTGGTAAATTATTTTCACAAAGCATAGTCC
65 ACAAGCGGTATTAATAGCTTCTGCCTAAAAATATATTGGTAAATTATTTTCACAAAGCATAGTCC
* * * * *
30126 TAGCCATTTCTTTCAAAGTCCGATTTTTTCTTTCAATAACTCCATTTTGTTGAGAAGTTCTAGGA
130 TAGCCATTTATTCCAAAGTCCGATTTTTCCTTTCAACAACTCCATTTTATTGAGAAGTTCTAGGA
*
30191 CCTATGAAGTTATTGCTAATATCATTTTCATTACCAAAATTATCAAAACCAAGATTTTCAAATTT
195 CCTATGAAGTTATTGCTAATATCATTTTCATTACAAAAATTATCAAAACCAAGATTTTCAAATTT
*
30256 TTTACCATGGTCACTTCTTATACTAGATAAAGAGTAACCTTTTTC-TTTTAAAACAATTTTACAA
260 TTTACCATGGTCACTTCTAATACTAGATAAAGAGTAACCTTTTTCATTTT-AAACAATTTTACAA
*
30320 AATGTGATGAATTTTTCTAAAGCTTCATACTTGGTGCTTAAGAACAAAACCTAAGTATATCTTGA
324 AATGTGATGAATTTTTCTAAAGCTTCATACTTGGTGCTTAAGAACAAAACCCAAGTATATCTTGA
* *
30385 ATAATCAT-TCACAATTACAAATCCATATCTTTTACCACCTAGACTTTGCATTCTAGTCGGACCA
389 ATAATCATCT-ACAATTACAAATCCATATCGTTTACCACCTAGACTTTGCATTCTAGTCAGACCA
* *
30449 AACAAATCAATATGAACTAATTGTAAAGTTTTAGTGGTTGTGACAATATTTAAAGGCTTAAAAGA
453 AACAAATCAATATGAACTAATTGCAAAGTTCTAGTGGTTGTGACAATATTTAAAGGCTTAAAAGA
*
30514 AGTTCTTCTATGTTTGCCTTTAATGCATGCATCACACACCTTATCACATTCAAACTTAAGCTTAG
518 AGTTCTTCTATGTTTGCCTTTAATGCATGCATCACACACCTTATCACATTCAAACTTAACCTTAG
* * * *
30579 GCAATCCAACAACAAGGTTTTTCCTAGACCATTTCGAAAATATGCTCATACTTGCATGTCTTAAC
583 GCAATCCAACAACAAGGTTTTTCCTAGACAATTTCAAAAATAAGCTCATACTTGCATGTCCTAAC
* *
30644 CTACGATGCTATAGCCAAGGTATGTCATTGTTGTTCGCAACAAAACATACATTTTGGGAACTTAG
648 CTACGATGCCATAGCCAAGGTATGTCATTGTTATTCGCAACAAAACATACATTTTGGGAACTTAG
* ** * *
30709 AACATTTAAATGTACAACATAAATGTTCCCTTCTCTACGTTCGAGAAAAATTGTTTTATTAGTGT
713 AACATCTAAATGTACAACATAAATGTTCCCTTCTCTACGGCCGAGAAAAATTGTTTAATTAGTGC
**
30774 TAGTATCAATTACGTGATAATTTTGTGATTCAAATGTAACTTTCATACCCTTGTCACATAATTG
778 TAGTATCAATTACGTGATAATTTTGTGATTCAAATACAACTTTCATACCCTTGTCACATAATTG
30838 GCTAATGCTT
Statistics
Matches: 780, Mismatches: 58, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
840 7 0.01
841 773 0.99
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (841 bp):
TTTTATAAAGCTTATATGGAGTTTTCTTTAAAATTGACCTAATCATAACTCGGTTTACAATATAA
CAAGCGGTATTAATAGCTTCTGCCTAAAAATATATTGGTAAATTATTTTCACAAAGCATAGTCCT
AGCCATTTATTCCAAAGTCCGATTTTTCCTTTCAACAACTCCATTTTATTGAGAAGTTCTAGGAC
CTATGAAGTTATTGCTAATATCATTTTCATTACAAAAATTATCAAAACCAAGATTTTCAAATTTT
TTACCATGGTCACTTCTAATACTAGATAAAGAGTAACCTTTTTCATTTTAAACAATTTTACAAAA
TGTGATGAATTTTTCTAAAGCTTCATACTTGGTGCTTAAGAACAAAACCCAAGTATATCTTGAAT
AATCATCTACAATTACAAATCCATATCGTTTACCACCTAGACTTTGCATTCTAGTCAGACCAAAC
AAATCAATATGAACTAATTGCAAAGTTCTAGTGGTTGTGACAATATTTAAAGGCTTAAAAGAAGT
TCTTCTATGTTTGCCTTTAATGCATGCATCACACACCTTATCACATTCAAACTTAACCTTAGGCA
ATCCAACAACAAGGTTTTTCCTAGACAATTTCAAAAATAAGCTCATACTTGCATGTCCTAACCTA
CGATGCCATAGCCAAGGTATGTCATTGTTATTCGCAACAAAACATACATTTTGGGAACTTAGAAC
ATCTAAATGTACAACATAAATGTTCCCTTCTCTACGGCCGAGAAAAATTGTTTAATTAGTGCTAG
TATCAATTACGTGATAATTTTGTGATTCAAATACAACTTTCATACCCTTGTCACATAATTG
Found at i:33324 original size:13 final size:13
Alignment explanation
Indices: 33306--33330 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33296 TATTATGAGC
33306 ATGTATCGATACA
1 ATGTATCGATACA
33319 ATGTATCGATAC
1 ATGTATCGATAC
33331 TAAGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:33766 original size:7 final size:7
Alignment explanation
Indices: 33754--33826 Score: 62
Period size: 7 Copynumber: 10.9 Consensus size: 7
33744 GAAAGAGAGA
33754 AAAAAAG
1 AAAAAAG
33761 AAAAAAG
1 AAAAAAG
*
33768 -AACAAG
1 AAAAAAG
*
33774 GAAAAAG
1 AAAAAAG
33781 -AAAAAG
1 AAAAAAG
**
33787 AAAATGG
1 AAAAAAG
33794 AAAAAAG
1 AAAAAAG
33801 -AAAAAG
1 AAAAAAG
**
33807 AAAGGAG
1 AAAAAAG
*
33814 AAAAATG
1 AAAAAAG
33821 AAAAAA
1 AAAAAA
33827 AATTATGTGA
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
6 17 0.33
7 34 0.67
ACGTcount: A:0.77, C:0.01, G:0.19, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:33767 original size:19 final size:20
Alignment explanation
Indices: 33729--33768 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
33719 TTCCTAATAG
*
33729 GAGAGAAAAAGAAAGGAAAGA
1 GAGAAAAAAAGAAA-GAAAGA
33750 GAGAAAAAAAGAAA-AAAGA
1 GAGAAAAAAAGAAAGAAAGA
33769 ACAAGGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
21 13 0.72
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (20 bp):
GAGAAAAAAAGAAAGAAAGA
Found at i:33817 original size:19 final size:19
Alignment explanation
Indices: 33731--33825 Score: 79
Period size: 20 Copynumber: 4.7 Consensus size: 19
33721 CCTAATAGGA
*
33731 GAGAAAAAG-AAAGGAAAG
1 GAGAAAAAGAAAAAGAAAG
*
33749 AGAGAAAAAAAGAAAAAAGAACAA
1 -GAG--AAAAAG-AAAAAGAA-AG
33773 G-GAAAAAGAAAAAGAAAATG
1 GAGAAAAAGAAAAAG-AAA-G
33793 GA-AAAAAGAAAAAGAAAG
1 GAGAAAAAGAAAAAGAAAG
33811 GAGAAAAATGAAAAA
1 GAGAAAAA-GAAAAA
33826 AAATTATGTG
Statistics
Matches: 63, Mismatches: 3, Indels: 19
0.74 0.04 0.22
Matches are distributed among these distances:
18 3 0.05
19 18 0.29
20 27 0.43
21 6 0.10
22 1 0.02
23 7 0.11
24 1 0.02
ACGTcount: A:0.74, C:0.01, G:0.23, T:0.02
Consensus pattern (19 bp):
GAGAAAAAGAAAAAGAAAG
Found at i:34388 original size:22 final size:20
Alignment explanation
Indices: 34351--34390 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
34341 TCTACTAGAA
34351 AATTTATATTTTTATAATGT
1 AATTTATATTTTTATAATGT
34371 AATTATATATATTTTATAAT
1 AATT-TATAT-TTTTATAAT
34391 AATAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
AATTTATATTTTTATAATGT
Found at i:34396 original size:23 final size:22
Alignment explanation
Indices: 34351--34407 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 22
34341 TCTACTAGAA
*
34351 AATT-TATAT-TTTTATAATGT
1 AATTATATATATTTTATAATAT
34371 AATTATATATATTTTATAATAAT
1 AATTATATATATTTTATAAT-AT
34394 AA-TA-ATA-ATTTTAT
1 AATTATATATATTTTAT
34408 TTTTTTAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 11 0.33
21 8 0.24
22 11 0.33
23 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
AATTATATATATTTTATAATAT
Found at i:35194 original size:20 final size:20
Alignment explanation
Indices: 35153--35203 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
35143 TTAAAAATAA
*
35153 AAAATTAA-AAA-ATACTTT
1 AAAATTAATAAATATAATTT
35171 -AAATTAATAAATATAATTT
1 AAAATTAATAAATATAATTT
*
35190 AAAATTAATTAATA
1 AAAATTAATAAATA
35204 AAAATAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 7 0.25
18 3 0.11
19 6 0.21
20 12 0.43
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATTAATAAATATAATTT
Found at i:35217 original size:24 final size:24
Alignment explanation
Indices: 35172--35217 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
35162 AAATACTTTA
* **
35172 AATTAATAAATATAATTTAAAATT
1 AATTAATAAAAATAATAAAAAATT
35196 AATTAATAAAAATAATAAAAAA
1 AATTAATAAAAATAATAAAAAA
35218 ATTTAAAAAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
AATTAATAAAAATAATAAAAAATT
Found at i:38851 original size:13 final size:13
Alignment explanation
Indices: 38833--38858 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38823 ATAATCACCC
38833 TGTATCGATACAA
1 TGTATCGATACAA
38846 TGTATCGATACAA
1 TGTATCGATACAA
38859 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:42791 original size:21 final size:21
Alignment explanation
Indices: 42762--42806 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
42752 AAGTTTTTAT
*
42762 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
42782 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
42804 TTT
1 TTT
42807 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:45032 original size:13 final size:13
Alignment explanation
Indices: 45014--45039 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45004 CAATTTTTTA
45014 TGTATCGATACAT
1 TGTATCGATACAT
45027 TGTATCGATACAT
1 TGTATCGATACAT
45040 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:48486 original size:13 final size:13
Alignment explanation
Indices: 48468--48493 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48458 CAATTTTTTG
48468 TGTATCGATACAT
1 TGTATCGATACAT
48481 TGTATCGATACAT
1 TGTATCGATACAT
48494 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:53286 original size:155 final size:154
Alignment explanation
Indices: 53008--53329 Score: 389
Period size: 155 Copynumber: 2.1 Consensus size: 154
52998 TTTTAATAAT
* * * * * * * *
53008 TTTTTTAGTCTTTTAAGGTCATCAGATGCTTTTAAGATGAAGGTAGTCTATAAGAGTATTTTGGT
1 TTTTTGAGTCATTTAAGGCCATCAGATGCTTTCAAGATGAAGGTAATCTACAAAAGCATTTTGGT
* ** * * * *
53073 AATTTCTTTAAAATTGAGTGCGATATAGTCACTATGAATCTTTTATACCAAAGATGTGCATTTAG
66 AATTTCCTTAAAATCAAGTCCGATATAGTCACTAGGAATCATTTATACCAAAGATGTGCATTGAG
53138 GATAGGTTCACCCTTCTA-GATTA
131 GATAGGTTCACCCTTCTATGATTA
* * *
53161 TTTTTGAGTCATTTAAGGCCACTGAGATGCTTTCAAGATGATGGTAATCTCCAAAAGCATTTTGG
1 TTTTTGAGTCATTTAAGGCCA-TCAGATGCTTTCAAGATGAAGGTAATCTACAAAAGCATTTTGG
* * * *
53226 TAATTTCCCTTAAAATCAAGTCCGATATAGTCA-TCGGGATACATTTATGCCAAAGTTGTGCATT
65 TAATTT-CCTTAAAATCAAGTCCGATATAGTCACTAGGAAT-CATTTATACCAAAGATGTGCATT
*
53290 GAGGATGGGTTCACCCTTCTATGATTA
128 GAGGATAGGTTCACCCTTCTATGATTA
53317 TTTTTGAGT-ATTT
1 TTTTTGAGTCATTT
53330 TAGAGTTACC
Statistics
Matches: 142, Mismatches: 23, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
153 18 0.13
154 45 0.32
155 65 0.46
156 14 0.10
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (154 bp):
TTTTTGAGTCATTTAAGGCCATCAGATGCTTTCAAGATGAAGGTAATCTACAAAAGCATTTTGGT
AATTTCCTTAAAATCAAGTCCGATATAGTCACTAGGAATCATTTATACCAAAGATGTGCATTGAG
GATAGGTTCACCCTTCTATGATTA
Found at i:53534 original size:155 final size:155
Alignment explanation
Indices: 53375--53695 Score: 371
Period size: 155 Copynumber: 2.1 Consensus size: 155
53365 CCCTAAAAGT
* * * *
53375 ATTTTGGTAATTTTGCATTAGAACCATGTCTTGTGTGATTACTGGATAC-TTCTATGTCGAAGGT
1 ATTTTGGTAATTTTGCATTAGAACCAAGTCCTATGTGATTACTAGATACTTTC-ATGTCGAAGGT
* * * * *
53439 ACACACCAAGGATAGGTTCATTATTTTATACTGTTTTTC-AGTCTTTTAAGGTTACT-AAGATAT
65 ACACACCAAGGATAGGTTCATTATTGTAGACT-ATTTTCAAGTCCTTTAAGGTTACTGAA-ATAC
*
53502 TTTTATAT-TAGAGATATATCCTAAGGGC
128 TTTCATATCTA-AGATATATCCTAAGGGC
* * *
53530 ATTTTGATAATTTTGTATTAGAACCAAGTCCTATGTTATTACTAGATACTTTCATGTCGAAGGTA
1 ATTTTGGTAATTTTGCATTAGAACCAAGTCCTATGTGATTACTAGATACTTTCATGTCGAAGGTA
** * * * * * *
53595 CACATTAGGGGTATGTTCGTTATTGTAGACTATTTTCAAGTCCTTTAGGGTTATTGAAATACTTT
66 CACACCAAGGATAGGTTCATTATTGTAGACTATTTTCAAGTCCTTTAAGGTTACTGAAATACTTT
* *
53660 CATGTCTAAGGTATATCCTAAGGGC
131 CATATCTAAGATATATCCTAAGGGC
53685 ATTTTGGTAAT
1 ATTTTGGTAAT
53696 ACTTTCAAGC
Statistics
Matches: 138, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
154 5 0.04
155 126 0.91
156 7 0.05
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (155 bp):
ATTTTGGTAATTTTGCATTAGAACCAAGTCCTATGTGATTACTAGATACTTTCATGTCGAAGGTA
CACACCAAGGATAGGTTCATTATTGTAGACTATTTTCAAGTCCTTTAAGGTTACTGAAATACTTT
CATATCTAAGATATATCCTAAGGGC
Found at i:54891 original size:58 final size:57
Alignment explanation
Indices: 54797--54914 Score: 173
Period size: 58 Copynumber: 2.1 Consensus size: 57
54787 AATGTATTCC
* * *
54797 TTTGTTTAAAATAATTGATGAGGTGACTTATCTATACTGAAAGCACACCCATGGACTA
1 TTTGTTTAAAATAATTGATGAGGTAACTTATATATACTGAAAGAACA-CCATGGACTA
* * *
54855 TTTGTTTAAAATAATTGATGAGGTAACTTCTATATACTGGAAGAACATCATGGACTA
1 TTTGTTTAAAATAATTGATGAGGTAACTTATATATACTGAAAGAACACCATGGACTA
54912 TTT
1 TTT
54915 TAATTTGGTG
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
57 12 0.22
58 42 0.78
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.36
Consensus pattern (57 bp):
TTTGTTTAAAATAATTGATGAGGTAACTTATATATACTGAAAGAACACCATGGACTA
Found at i:55790 original size:17 final size:16
Alignment explanation
Indices: 55761--55815 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 16
55751 TGAAAAAACC
55761 TTCTTTTTGTTTTATTT
1 TTCTTTTT-TTTTATTT
*
55778 TTC--TCTTTTT-TTT
1 TTCTTTTTTTTTATTT
*
55791 TTCTTTTTCTTTATTT
1 TTCTTTTTTTTTATTT
55807 TTCTCTTTT
1 TTCT-TTTT
55816 AGTTTTCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 6 0.19
14 4 0.13
15 7 0.23
16 7 0.23
17 7 0.23
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.82
Consensus pattern (16 bp):
TTCTTTTTTTTTATTT
Found at i:55804 original size:29 final size:30
Alignment explanation
Indices: 55761--55825 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 30
55751 TGAAAAAACC
* **
55761 TTCTTTTTGTTTTATTTTTCTCTTTTTTTT
1 TTCTTTTTGCTTTATTTTTCTCTTTTAGTT
55791 TTCTTTTT-CTTTATTTTTCTCTTTTAGTT
1 TTCTTTTTGCTTTATTTTTCTCTTTTAGTT
55820 TTCTTT
1 TTCTTT
55826 AGCTAAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 24 0.75
30 8 0.25
ACGTcount: A:0.05, C:0.12, G:0.03, T:0.80
Consensus pattern (30 bp):
TTCTTTTTGCTTTATTTTTCTCTTTTAGTT
Found at i:55808 original size:19 final size:19
Alignment explanation
Indices: 55762--55800 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
55752 GAAAAAACCT
*
55762 TCTTTTTGTTTTATTTTTC
1 TCTTTTTTTTTTATTTTTC
*
55781 TCTTTTTTTTTTCTTTTTC
1 TCTTTTTTTTTTATTTTTC
55800 T
1 T
55801 TTATTTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.82
Consensus pattern (19 bp):
TCTTTTTTTTTTATTTTTC
Found at i:55813 original size:18 final size:19
Alignment explanation
Indices: 55775--55815 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
55765 TTTTGTTTTA
* *
55775 TTTTTCTCTTTTTTTTTTC
1 TTTTTCTCTTATTTTTCTC
55794 TTTTTCT-TTATTTTTCTC
1 TTTTTCTCTTATTTTTCTC
55812 TTTT
1 TTTT
55816 AGTTTTCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTCTCTTATTTTTCTC
Found at i:59736 original size:20 final size:20
Alignment explanation
Indices: 59711--59757 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
59701 CAGATATATC
59711 GATACATGTATAAATGTATT
1 GATACATGTATAAATGTATT
* * *
59731 GATACATTTTTCAATGTATT
1 GATACATGTATAAATGTATT
59751 GATACAT
1 GATACAT
59758 TATGTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.43
Consensus pattern (20 bp):
GATACATGTATAAATGTATT
Found at i:59787 original size:72 final size:70
Alignment explanation
Indices: 59674--59809 Score: 182
Period size: 72 Copynumber: 1.9 Consensus size: 70
59664 TGAATAGTAC
* * *
59674 ATGTATCGATACATTCTGTTTTTTACCCAGATATATCGATACATGTATAAATGTATTGATACATT
1 ATGTATCGATACATTATGTTTTTTACACAGATATATCGATACATGTATAAATGTATCGATACATT
59739 TTTCA
66 TTTCA
* * * * *
59744 ATGTATTGATACATTATGTTTTTTTTACACAGATTTATCGATACATTTTTCAATGTATCGATACA
1 ATGTATCGATACATTATG--TTTTTTACACAGATATATCGATACATGTATAAATGTATCGATACA
59809 T
64 T
59810 CTAGTTAATT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
70 16 0.29
72 40 0.71
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (70 bp):
ATGTATCGATACATTATGTTTTTTACACAGATATATCGATACATGTATAAATGTATCGATACATT
TTTCA
Found at i:61066 original size:16 final size:16
Alignment explanation
Indices: 61040--61072 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61030 GCAATCCTTT
61040 TTTTTTCTTATTTATTA
1 TTTTTTCTTATTT-TTA
61057 TTTTTT-TTATTTTTA
1 TTTTTTCTTATTTTTA
61072 T
1 T
61073 GATTTTACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 6 0.38
17 6 0.38
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTCTTATTTTTA
Found at i:61071 original size:18 final size:19
Alignment explanation
Indices: 61038--61078 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
61028 TGGCAATCCT
* *
61038 TTTTTTTTCTTATTTATTA
1 TTTTTTTTATTATTTATGA
61057 TTTTTTTTATT-TTTATGA
1 TTTTTTTTATTATTTATGA
61075 TTTT
1 TTTT
61079 ACTTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTTTTTTATTATTTATGA
Found at i:63362 original size:28 final size:28
Alignment explanation
Indices: 63331--64191 Score: 804
Period size: 28 Copynumber: 30.5 Consensus size: 28
63321 AGTGGCGCCC
*
63331 TTTCAAAGCCTACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * * *
63359 TTTCCAAGTCCACAAGTGAGCGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
63387 TTTCAAAGCCCATAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
63415 TTTCAGA-CCCACCAGTCAGTGGCATCTT
1 TTTCAAAGCCCACAAGTCAGTGGCATC-T
* * *
63443 TTTCAAAGCTCATGAA-TCAGTGGCA-CGC
1 TTTCAAAGCCCA-CAAGTCAGTGGCATC-T
63471 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
63499 TTTCCAAGCCCACAAGTGAATGGCATCTT
1 TTTCAAAGCCCACAAGTCAGTGGCATC-T
* *
63528 TTTC-AAGCCCAAAAGTTAGTGGCA-CAT
1 TTTCAAAGCCCACAAGTCAGTGGCATC-T
* * *
63555 TTTCATAGCCCACAAGTTAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
63583 TTTCATAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
63611 TTTCAAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
63639 TTTCAAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
63667 TTTCCAAGCCCACAAGTCTGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
63695 TTTCCAAGCCCACAAGTCAGTGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
63723 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
63751 TTTCAGAGCCCACCAGTTAGTGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCAT-CT
* * *
63780 TTTCAAAGCCCACGAA-T-AGTGACACCC
1 TTTCAAAGCCCAC-AAGTCAGTGGCATCT
*
63807 TTTCAAAGCCCACAAGTCAATGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
63835 TTTCCAAGTCCACAAGTTAGTGGCATCTT
1 TTTCAAAGCCCACAAGTCAGTGGCATC-T
* *
63864 TTTC-AAGCCCACAATTCAGTAGCA-CTT
1 TTTCAAAGCCCACAAGTCAGTGGCATC-T
* * *
63891 TTTCATAGCCCATAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * * *
63919 TTTCATAGCCCACAAATTAGTAGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
63947 TTTCGAAGCCCACAATTCAATGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
63975 CTTCAAAGCCCATAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * ** * *
64003 CTCCAAAGCCCATGAGTCAATGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
64031 TTTCGAAGCCTACACAAGTCGGTGGCATTAT
1 TTTCAAAGCC--CACAAGTCAGTGGCA-TCT
*
64062 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
64090 TTTCAAAGACCATAAGTTAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
** * *
64118 TTTCAAAGCCCATGAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
64146 TTCCAAAGCCCACACAAGTTAGTGGCAACCT
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ATCT
*
64177 TCTCTAAAGCCCACA
1 TTTC-AAAGCCCACA
64192 CAAGTTAGTG
Statistics
Matches: 684, Mismatches: 127, Indels: 42
0.80 0.15 0.05
Matches are distributed among these distances:
26 2 0.00
27 47 0.07
28 531 0.78
29 55 0.08
30 29 0.04
31 16 0.02
32 4 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCT
Found at i:64988 original size:20 final size:20
Alignment explanation
Indices: 64963--65128 Score: 116
Period size: 20 Copynumber: 7.8 Consensus size: 20
64953 TTTTACCTGG
*
64963 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
64983 ATGTATCAATACGTGTATGA
1 ATGTATCGATACATTTTTCA
65003 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
*
65023 ATGTATTGATACATTCTGTCTTTTTACCCA
1 ATGTATCGATACA-------TTTTT---CA
65053 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* * *
65074 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
65094 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
* *
65114 AAGTATTGATACATT
1 ATGTATCGATACATT
65129 CTGTCTTTTT
Statistics
Matches: 113, Mismatches: 22, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
20 87 0.77
21 2 0.02
24 5 0.04
27 5 0.04
30 2 0.02
31 12 0.11
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:65079 original size:51 final size:51
Alignment explanation
Indices: 65003--65170 Score: 214
Period size: 51 Copynumber: 3.5 Consensus size: 51
64993 ACGTGTATGA
65003 ATGTATCGATACATTTTTCAATGTATTGATACATTCTGTCTTTTTACCCAG
1 ATGTATCGATACATTTTTCAATGTATTGATACATTCTGTCTTTTTACCCAG
* **
65054 ATGTATCGATACATTTTTCAATGTATCGATACA---TG------TA-TGA-
1 ATGTATCGATACATTTTTCAATGTATTGATACATTCTGTCTTTTTACCCAG
* *
65094 ATGTATCGATACATTCTTCAAAGTATTGATACATTCTGTCTTTTTACCCAG
1 ATGTATCGATACATTTTTCAATGTATTGATACATTCTGTCTTTTTACCCAG
65145 ATGTATCGATACATTTTTCAATGTAT
1 ATGTATCGATACATTTTTCAATGTAT
65171 CAATACACGT
Statistics
Matches: 96, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
40 30 0.31
41 1 0.01
42 2 0.02
43 2 0.02
48 2 0.02
49 2 0.02
50 1 0.01
51 56 0.58
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (51 bp):
ATGTATCGATACATTTTTCAATGTATTGATACATTCTGTCTTTTTACCCAG
Found at i:65107 original size:91 final size:91
Alignment explanation
Indices: 64952--65202 Score: 430
Period size: 91 Copynumber: 2.8 Consensus size: 91
64942 AAAAGTCACA
** * *
64952 TTTTTACCTGGATGTATTGATACATTTTTCAATGTATCAATACGTGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACATGTATGAATGTATCGATACAT
* *
65017 TTTTCAATGTATTGATACATTCTGTC
66 TCTTCAAAGTATTGATACATTCTGTC
*
65043 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACATGTATGAATGTATCGATACAT
65108 TCTTCAAAGTATTGATACATTCTGTC
66 TCTTCAAAGTATTGATACATTCTGTC
*
65134 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACACGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACATGTATGAATGTATCGATACAT
65199 TCTT
66 TCTT
65203 TTTTTTCCCA
Statistics
Matches: 151, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 151 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (91 bp):
TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACATGTATGAATGTATCGATACAT
TCTTCAAAGTATTGATACATTCTGTC
Found at i:65149 original size:71 final size:69
Alignment explanation
Indices: 65074--65248 Score: 203
Period size: 71 Copynumber: 2.5 Consensus size: 69
65064 ACATTTTTCA
* *
65074 ATGTATCGATACATGTATGAATGTATCGATACATTC-T-TCAAAGTATTGATACATTCTGTCTTT
1 ATGTATCGATACAT-TATCAATGTATCGATACA-TCGTATCAAAGTATCGATACATTCT-T-TTT
65137 TTACCCAG
62 TTACCCAG
* * * * *
65145 ATGTATCGATACATTTTTCAATGTATCAATACA-CGTATGAATGTATCGATACATTCTTTTTTTT
1 ATGTATCGATACA-TTATCAATGTATCGATACATCGTATCAAAGTATCGATACATTCTTTTTTTA
65209 CCCAG
65 CCCAG
*
65214 ATGTATCGATACATTATTCAATGTATCGACACATC
1 ATGTATCGATACATTA-TCAATGTATCGATACATC
65249 TAGTTAAAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
68 2 0.02
69 38 0.43
70 3 0.03
71 45 0.51
72 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (69 bp):
ATGTATCGATACATTATCAATGTATCGATACATCGTATCAAAGTATCGATACATTCTTTTTTTAC
CCAG
Found at i:65170 original size:20 final size:20
Alignment explanation
Indices: 65145--65199 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
65135 TTTTACCCAG
*
65145 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTATCA
* ** *
65165 ATGTATCAATACACGTATGA
1 ATGTATCGATACATTTATCA
65185 ATGTATCGATACATT
1 ATGTATCGATACATT
65200 CTTTTTTTTC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:73794 original size:27 final size:26
Alignment explanation
Indices: 73755--74409 Score: 673
Period size: 27 Copynumber: 24.2 Consensus size: 26
73745 CAACCTTTTT
*
73755 CTTTTAAGTCCACAACTCCATGGCACA
1 CTTTTAAGTCCACAACTCCGTGGCA-A
* *
73782 CTTTTAAGCCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-A
* * *
73809 CTTTTAAGTCCACAGCTCTGCGGCAA
1 CTTTTAAGTCCACAACTCCGTGGCAA
* *
73835 CCTTTTAAGTCTACAACTCCATGGCAA
1 -CTTTTAAGTCCACAACTCCGTGGCAA
*
73862 CCTTTTAAGTCCACAACTCTGTGGCAA
1 -CTTTTAAGTCCACAACTCCGTGGCAA
* *
73889 CCTTTAAGTCCACAGCTCCGT-GCAA
1 CTTTTAAGTCCACAACTCCGTGGCAA
*
73914 CCTTTTAAGTCCACAACTCTGTGGCAA
1 -CTTTTAAGTCCACAACTCCGTGGCAA
*
73941 CCTTTTAAGTCCACAACTCCATGGCAA
1 -CTTTTAAGTCCACAACTCCGTGGCAA
* *
73968 CCTTTTAAGTTCACAACTCCGTGGCATC
1 -CTTTTAAGTCCACAACTCCGTGGCA-A
* *
73996 CTTTATAAGTCCACAGCTCTGTGGCAA
1 CTTT-TAAGTCCACAACTCCGTGGCAA
** *
74023 CCTTTTAAAACCACAACTTCGTGGCAAA
1 -CTTTTAAGTCCACAACTCCGTGGC-AA
*
74051 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCA-A
* *
74078 CTTTTAAGTCCACAGCTCCGTGACAA
1 CTTTTAAGTCCACAACTCCGTGGCAA
* *
74104 CCTTTTAAGTCCACAACTCCATAGCAAA
1 -CTTTTAAGTCCACAACTCCGTGGC-AA
* *
74132 CTTTTAAGTCCACAACTTCGTGGCAT
1 CTTTTAAGTCCACAACTCCGTGGCAA
* *
74158 CTTTTTAAAGTCCACAACTCCATGGCATC
1 C-TTTT-AAGTCCACAACTCCGTGGCA-A
* * *
74187 CTTTTTAAGTCCACAGCTCTGTGGAAA
1 C-TTTTAAGTCCACAACTCCGTGGCAA
74214 CCTTTTAAGTCCACAACTCCGTGGCAA
1 -CTTTTAAGTCCACAACTCCGTGGCAA
*
74241 CCTTTTAAATCCACAACTCCGTGGCAA
1 -CTTTTAAGTCCACAACTCCGTGGCAA
*
74268 CCTTTTAAGTCCACAACTCCGTGGCACC
1 -CTTTTAAGTCCACAACTCCGTGGCA-A
* *
74296 CTTTTAAGTCCACAACTCCATGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCA-A
*
74323 CTTTTAAAGTCCACAACTCCGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCA-A
* *
74351 CTTTTAAAGTCCATAACTCCGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCA-A
* * * *
74379 CTTTTAAGTCCATAAGTCAGTGGCAC
1 CTTTTAAGTCCACAACTCCGTGGCAA
74405 CTTTT
1 CTTTT
74410 CAGAAGCCCA
Statistics
Matches: 541, Mismatches: 71, Indels: 33
0.84 0.11 0.05
Matches are distributed among these distances:
25 4 0.01
26 45 0.08
27 372 0.69
28 114 0.21
29 6 0.01
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (26 bp):
CTTTTAAGTCCACAACTCCGTGGCAA
Found at i:73840 original size:54 final size:54
Alignment explanation
Indices: 73755--74409 Score: 832
Period size: 54 Copynumber: 12.1 Consensus size: 54
73745 CAACCTTTTT
* * *
73755 CTTTTAAGTCCACAACTCCATGGC-ACACTTTTAAGCCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCAAC-CTTTTAAGTCCACAACTCCGTGGCAAC
* * * * *
73809 CTTTTAAGTCCACAGCTCTGCGGCAACCTTTTAAGTCTACAACTCCATGGCAAC
1 CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAAC
* *
73863 CTTTTAAGTCCACAACTCTGTGGCAACC-TTTAAGTCCACAGCTCCGT-GCAAC
1 CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAAC
* *
73915 CTTTTAAGTCCACAACTCTGTGGCAACCTTTTAAGTCCACAACTCCATGGCAAC
1 CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAAC
* * * *
73969 CTTTTAAGTTCACAACTCCGTGGCATCCTTTATAAGTCCACAGCTCTGTGGCAAC
1 CTTTTAAGTCCACAACTCCGTGGCAACCTTT-TAAGTCCACAACTCCGTGGCAAC
** * * *
74024 CTTTTAAAACCACAACTTCGTGGCAAACTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAAC
* * * * *
74078 CTTTTAAGTCCACAGCTCCGTGACAACCTTTTAAGTCCACAACTCCATAGCAAA
1 CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAAC
* * * * *
74132 CTTTTAAGTCCACAACTTCGTGGCATCTTTTTAAAGTCCACAACTCCATGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCAACCTTTT-AAGTCCACAACTCCGTGGCAAC
* * *
74187 CTTTTTAAGTCCACAGCTCTGTGGAAACCTTTTAAGTCCACAACTCCGTGGCAAC
1 C-TTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAAC
* *
74242 CTTTTAAATCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAAC
* * *
74296 CTTTTAAGTCCACAACTCCATGGCATCCTTTTAAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCAACCTTTT-AAGTCCACAACTCCGTGGCAAC
* * * * *
74351 CTTTTAAAGTCCATAACTCCGTGGCATCCTTTTAAGTCCATAAGTCAGTGGC-AC
1 CTTTT-AAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAAC
74405 CTTTT
1 CTTTT
74410 CAGAAGCCCA
Statistics
Matches: 522, Mismatches: 71, Indels: 16
0.86 0.12 0.03
Matches are distributed among these distances:
52 33 0.06
53 33 0.06
54 276 0.53
55 130 0.25
56 50 0.10
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAAC
Found at i:73868 original size:81 final size:81
Alignment explanation
Indices: 73755--74409 Score: 841
Period size: 81 Copynumber: 8.1 Consensus size: 81
73745 CAACCTTTTT
* * *
73755 CTTTTAAGTCCACAACTCCATGGC-ACACTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCAAC-CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTC
* * * *
73819 CACAGCTCTGCGGCAAC
65 CACAACTCCGTGGCATC
* * *
73836 CTTTTAAGTCTACAACTCCATGGCAACCTTTTAAGTCCACAACTCTGTGGCAACC-TTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCC
* *
73900 ACAGCTCCGT-GCAAC
66 ACAACTCCGTGGCATC
* * *
73915 CTTTTAAGTCCACAACTCTGTGGCAACCTTTTAAGTCCACAACTCCATGGCAACCTTTTAAGTTC
1 CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCC
73980 ACAACTCCGTGGCATC
66 ACAACTCCGTGGCATC
* * ** * *
73996 CTTTATAAGTCCACAGCTCTGTGGCAACCTTTTAAAACCACAACTTCGTGGCAAACTTTTAAGTC
1 CTTT-TAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTC
74061 CACAACTCCGTGGCATC
65 CACAACTCCGTGGCATC
* * * * *
74078 CTTTTAAGTCCACAGCTCCGTGACAACCTTTTAAGTCCACAACTCCATAGCAAACTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCC
*
74143 ACAACTTCGTGGCATC
66 ACAACTCCGTGGCATC
* * * * * *
74159 TTTTTAAAGTCCACAACTCCATGGCATCCTTTTTAAGTCCACAGCTCTGTGGAAACCTTTTAAGT
1 CTTTT-AAGTCCACAACTCCGTGGCAACC-TTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGT
*
74224 CCACAACTCCGTGGCAAC
64 CCACAACTCCGTGGCATC
* *
74242 CTTTTAAATCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCC
*
74307 ACAACTCCATGGCATC
66 ACAACTCCGTGGCATC
* * *
74323 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCATAACTCCGTGGCATCCTTTTAAGT
1 CTTTT-AAGTCCACAACTCCGTGGCAACCTTTT-AAGTCCACAACTCCGTGGCAACCTTTTAAGT
* * *
74388 CCATAAGTCAGTGGCA-C
64 CCACAACTCCGTGGCATC
74405 CTTTT
1 CTTTT
74410 CAGAAGCCCA
Statistics
Matches: 506, Mismatches: 60, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
79 55 0.11
80 34 0.07
81 181 0.36
82 146 0.29
83 90 0.18
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCC
ACAACTCCGTGGCATC
Found at i:74432 original size:56 final size:56
Alignment explanation
Indices: 73782--75323 Score: 860
Period size: 56 Copynumber: 27.8 Consensus size: 56
73772 CCATGGCACA
* * * * * * *
73782 CTTTTAAGCCCACAACTCCGTGGCACCCTTTT--AAGTCCAC-AGCTCTGCGGCAAC
1 CTTTTAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAG-TCAGTGGCATC
* * * * * * * *
73836 CTTTTAAGTCTACAACTCCA-TGGCAACCTTTT--AAGTCCACAACTCTGTGGCAAC
1 CTTTTAAGCCCACAAGT-CAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATC
* * * * * * *
73890 C-TTTAAGTCCAC-AGCTCCGT-GCAACCTTTT--AAGTCCACAACTCTGTGGCAAC
1 CTTTTAAGCCCACAAG-TCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATC
* * * ** * *
73942 CTTTTAAGTCCACAACTCCA-TGGCAACCTTTT--AAGTTCACAACTCCGTGGCATC
1 CTTTTAAGCCCACAAGT-CAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATC
* * * * * **
73996 CTTTATAAGTCCAC-AGCTCTGTGGCAACCTTTT-AAA-ACCACAACTTC-GTGGCAAA
1 CTTT-TAAGCCCACAAG-TCAGTGGCATCCTTTTCAAAGCCCACAA-GTCAGTGGCATC
* * * * * * *
74051 CTTTTAAGTCCACAACTCCGTGGCATCCTTTT--AAGTCCAC-AGCTCCGTGACAAC
1 CTTTTAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAG-TCAGTGGCATC
* * * ** * *
74105 CTTTTAAGTCCACAACTCCA-TAGCAAACTTTT--AAGTCCACAACTTC-GTGGCATC
1 CTTTTAAGCCCACAAGT-CAGTGGCATCCTTTTCAAAGCCCACAA-GTCAGTGGCATC
* * * * * * * *
74159 TTTTTAAAGTCCACAACTCCA-TGGCATCCTTTT-TAAGTCCAC-AGCTCTGTGGAAAC
1 CTTTT-AAGCCCACAAGT-CAGTGGCATCCTTTTCAAAGCCCACAAG-TCAGTGGCATC
* * * * * * * *
74215 CTTTTAAGTCCACAACTCCGTGGCAACCTTTT-AAA-TCCACAACTCCGTGGCAAC
1 CTTTTAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATC
* * * * * *
74269 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT--AAGTCCACAACTCCA-TGGCATC
1 CTTTTAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGT-CAGTGGCATC
* * * * * * *
74323 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAAGTCCATAACTCCGTGGCATC
1 CTTTT-AAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATC
* * *
74379 CTTTTAAGTCCATAAGTCAGTGGCA-CCTTTTCAGAAGCCCACAAGTCATTGGCATC
1 CTTTTAAGCCCACAAGTCAGTGGCATCCTTTTCA-AAGCCCACAAGTCAGTGGCATC
* * * *
74435 CTTTCAAAGCCCACAAGCCAGTGGCATCCTTTTCAAAGCCCA-AGAATCAGTGGCACC
1 CTTT-TAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACA-AGTCAGTGGCATC
*
74492 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTC-AAGCCCACAAGTCAGTGGCATC
1 CTTT-TAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATC
* * * *
74548 ATTTCTAAGCCTACAAGTTAGTGGCATCC-TTTCAAAGACCAC-A--CAGTGGCATC
1 CTTT-TAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATC
* * * * *
74601 CTTTCATAGCCCACTATTTAGTGGCATCCTTTTCAAAGCCCACGAA-TCAGTGGCACC
1 CTTTTA-AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCAC-AAGTCAGTGGCATC
* * * * * * *
74658 CTTTCAAAGTCCATAAGTTAGTGGAAT-ATTTTCCAAGCCCACAAGTCAGTGGCAT-
1 CTTT-TAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATC
* * * *
74713 CTTTTCCAAACCCACAAGTCAGTGGCA-CTTTTTCATAGCACACAAGTCAGTGGCA-C
1 CTTTT--AAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATC
* * * *
74769 CTTTTGATAGCCCACAAGTCAGTAGTATAC-TTTCAAAGCCTACAAGTCAGTGGCATC
1 CTTTT-A-AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATC
** * * * * *
74826 TCTTCAAAACCCACAAGTCAATGGCAT-CTTTTCCAAGCCCACATGTCAGTGGCACC
1 -CTTTTAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATC
* * * * *
74882 CTTTCATAGCCCACAAGTCAGTGGCATCC-TTTCAAAGACCATGAA-TCAGTGACACC
1 CTTTTA-AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCA-CAAGTCAGTGGCATC
* * * * * *
74938 CTTTCAAAGCCCACGAGTCAGTGGCAT-TTTTTCCAAGCCCATAAGTCAATGGCAT-
1 CTTT-TAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATC
* * *
74993 ATTTTCCAAGCCCACAATTCAGTGGCA-CCTTTTCATAGCCCACAAGTCAGTGGCATC
1 CTTTT--AAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATC
* * *
75050 CTTTTAAAGCCCACAAGTCAGTGGCAT-CTCTTCAAAGCCCATAAGTTAGTGGCATC
1 CTTTT-AAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATC
* * ** * * * *
75106 CGTCTAAAGCCCATGAGTCAATGGCATCCTTTT-GAAGCCCACACAAGTTAGTGGCATT
1 C-TTTTAAGCCCACAAGTCAGTGGCATCCTTTTCAAAG-CC-CACAAGTCAGTGGCATC
* * * * *
75164 ATTTTCAAAGCCCATAAGTCAGTGGCATCC-TTTCAAAGACCATAAGTTAGTGGCA-C
1 CTTTT--AAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATC
* * * *
75220 CTTTTCAAAGCCAACGAGTCAGTGGCA-CTTTTTCAAAGCCCACGAGTCAGTGGCATC
1 CTTTT--AAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATC
* ** * *
75277 CTTCTAAAGCCCATACAAGTTGGTGGCAACCTTCTCTAAAGCCCACA
1 CTT-TTAAGCCC--ACAAGTCAGTGGCATCCTTTTC-AAAGCCCACA
75324 CAAGTTGGTG
Statistics
Matches: 1217, Mismatches: 192, Indels: 152
0.78 0.12 0.10
Matches are distributed among these distances:
52 36 0.03
53 64 0.05
54 243 0.20
55 166 0.14
56 494 0.41
57 133 0.11
58 43 0.04
59 29 0.02
60 9 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (56 bp):
CTTTTAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATC
Found at i:74459 original size:28 final size:28
Alignment explanation
Indices: 74224--75323 Score: 869
Period size: 28 Copynumber: 39.2 Consensus size: 28
74214 CCTTTTAAGT
* * * * *
74224 CCACAACTCCGTGGCAACCTTTTAAA-T
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * * *
74251 CCACAACTCCGTGGCAACCTTT-TAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * * *
74278 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
74305 CCACAACTCCA-TGGCATCCTTTTAAAGT
1 CCACAAGT-CAGTGGCATCCTTTCAAAGC
* * * *
74333 CCACAACTCCGTGGCATCCTTTTAAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * * *
74361 CCATAACTCCGTGGCATCCTTT-TAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
74388 CCATAAGTCAGTGGCA-CCTTTTCAGAAGC
1 CCACAAGTCAGTGGCATCC-TTTCA-AAGC
*
74417 CCACAAGTCATTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
74445 CCACAAGCCAGTGGCATCCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
* *
74474 CCA-AGAATCAGTGGCACCCTTTCAAAGC
1 CCACA-AGTCAGTGGCATCCTTTCAAAGC
74502 CCACAAGTCAGTGGCATCCTTTTC-AAGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
* *
74530 CCACAAGTCAGTGGCATCATTTCTAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
74558 CTACAAGTTAGTGGCATCCTTTCAAAGA
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
74586 CCAC-A--CAGTGGCATCCTTTCATAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
74611 CCACTATTTAGTGGCATCCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
* *
74640 CCACGAA-TCAGTGGCACCCTTTCAAAGT
1 CCAC-AAGTCAGTGGCATCCTTTCAAAGC
* * * ** *
74668 CCATAAGTTAGTGGAATATTTTCCAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
74696 CCACAAGTCAGTGGCATCTTTTCCAAA-C
1 CCACAAGTCAGTGGCATCCTTT-CAAAGC
* *
74724 CCACAAGTCAGTGGCA-CTTTTTCATAGC
1 CCACAAGTCAGTGGCATC-CTTTCAAAGC
* * *
74752 ACACAAGTCAGTGGCA-CCTTTTGATAGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
* * *
74780 CCACAAGTCAGTAGTATACTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
74808 CTACAAGTCAGTGGCAT-CTCTTCAAAAC
1 CCACAAGTCAGTGGCATCCT-TTCAAAGC
* * *
74836 CCACAAGTCAATGGCATCTTTTCCAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
74864 CCACATGTCAGTGGCACCCTTTCATAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
74892 CCACAAGTCAGTGGCATCCTTTCAAAGA
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
74920 CCATGAA-TCAGTGACACCCTTTCAAAGC
1 CCA-CAAGTCAGTGGCATCCTTTCAAAGC
* ** *
74948 CCACGAGTCAGTGGCATTTTTTCCAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * ** *
74976 CCATAAGTCAATGGCATATTTTCCAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
75004 CCACAATTCAGTGGCA-CCTTTTCATAGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
*
75032 CCACAAGTCAGTGGCATCCTTTTAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
75060 CCACAAGTCAGTGGCAT-CTCTTCAAAGC
1 CCACAAGTCAGTGGCATCCT-TTCAAAGC
* * *
75088 CCATAAGTTAGTGGCATCC-GTCTAAAGC
1 CCACAAGTCAGTGGCATCCTTTC-AAAGC
** * **
75116 CCATGAGTCAATGGCATCCTTTTGAAGCC
1 CCACAAGTCAGTGGCATCCTTTCAAAG-C
* **
75145 CACACAAGTTAGTGGCATTATTTTCAAAGC
1 C-CACAAGTCAGTGGCA-TCCTTTCAAAGC
* *
75175 CCATAAGTCAGTGGCATCCTTTCAAAGA
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
75203 CCATAAGTTAGTGGCA-CCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
* * *
75231 CAACGAGTCAGTGGCA-CTTTTTCAAAGC
1 CCACAAGTCAGTGGCATC-CTTTCAAAGC
*
75259 CCACGAGTCAGTGGCATCC-TTCTAAAGC
1 CCACAAGTCAGTGGCATCCTTTC-AAAGC
** *
75287 CCATACAAGTTGGTGGCAACCTTCTCTAAAGC
1 CC--ACAAGTCAGTGGCATCCTT-TC-AAAGC
75319 CCACA
1 CCACA
75324 CAAGTTGGTG
Statistics
Matches: 888, Mismatches: 140, Indels: 87
0.80 0.13 0.08
Matches are distributed among these distances:
25 21 0.02
26 5 0.01
27 112 0.13
28 601 0.68
29 99 0.11
30 32 0.04
31 8 0.01
32 10 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (28 bp):
CCACAAGTCAGTGGCATCCTTTCAAAGC
Found at i:75320 original size:32 final size:31
Alignment explanation
Indices: 75276--75351 Score: 118
Period size: 32 Copynumber: 2.5 Consensus size: 31
75266 TCAGTGGCAT
*
75276 CCTTCTAAAGCCCATACAAGTTGGTGGCAAC
1 CCTTCTAAAGCCCACACAAGTTGGTGGCAAC
*
75307 CTTCTCTAAAGCCCACACAAGTTGGTGGCAAC
1 CCT-TCTAAAGCCCACACAAGTTGGTGGCAAC
75339 CCTTCTAAA-CCCA
1 CCTTCTAAAGCCCA
75352 ATGTCGTTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
30 4 0.10
31 8 0.20
32 29 0.71
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.22
Consensus pattern (31 bp):
CCTTCTAAAGCCCACACAAGTTGGTGGCAAC
Found at i:76121 original size:20 final size:20
Alignment explanation
Indices: 76096--76161 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
76086 TTTTACCTGG
*
76096 ATGTATCGATACATTTTTCA
1 ATGTATCAATACATTTTTCA
* * * *
76116 ATGTATCAATGCATGTATGA
1 ATGTATCAATACATTTTTCA
** *
76136 ACATATCAATACATTCTTCA
1 ATGTATCAATACATTTTTCA
76156 ATGTAT
1 ATGTAT
76162 TGATACATTC
Statistics
Matches: 32, Mismatches: 14, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCAATACATTTTTCA
Found at i:76230 original size:16 final size:16
Alignment explanation
Indices: 76206--76236 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
76196 CACATTTTTC
76206 AATGCATCGATACATG
1 AATGCATCGATACATG
*
76222 AATGTATCGATACAT
1 AATGCATCGATACAT
76237 TCTTCAATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (16 bp):
AATGCATCGATACATG
Found at i:76258 original size:20 final size:20
Alignment explanation
Indices: 76189--76259 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
76179 TTACCCAGAC
* *
76189 GTATCGACACATTTTTCAAT
1 GTATCGATACATTCTTCAAT
* *
76209 GCATCGATACA----TGAAT
1 GTATCGATACATTCTTCAAT
76225 GTATCGATACATTCTTCAAT
1 GTATCGATACATTCTTCAAT
76245 GTATCGATACATTCT
1 GTATCGATACATTCT
76260 GTCTTTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
16 14 0.33
20 28 0.67
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.37
Consensus pattern (20 bp):
GTATCGATACATTCTTCAAT
Found at i:76304 original size:87 final size:88
Alignment explanation
Indices: 76085--76307 Score: 270
Period size: 87 Copynumber: 2.5 Consensus size: 88
76075 AAAAGTCACA
* * *
76085 TTTTTACCTGGATGTATCGATACATTTTTCAATGTATCAATGCATGTATGAACATATCAATACAT
1 TTTTTACCT-GATGTATCGATACATTTTTCAATGTATCGATACATGAATG---ATATCAATACAT
*
76150 TCTTCAATGTATTGATACATTCTGTC-
62 TCTTCAATGTATCGATACATTCTGTCT
* * * * *
76176 TTTTTACCCAGACGTATCGACACATTTTTCAATGCATCGATACATGAATG-TATCGATACATTCT
1 TTTTTA-CCTGATGTATCGATACATTTTTCAATGTATCGATACATGAATGATATCAATACATTCT
76240 TCAATGTATCGATACATTCTGTCT
65 TCAATGTATCGATACATTCTGTCT
* * **
76264 TTTTTTCCTGATGTATCGATACATTATTCAATGTGGCGATACAT
1 TTTTTACCTGATGTATCGATACATTTTTCAATGTATCGATACAT
76308 CTAGTTAAAA
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
87 66 0.58
88 5 0.04
91 40 0.35
92 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.40
Consensus pattern (88 bp):
TTTTTACCTGATGTATCGATACATTTTTCAATGTATCGATACATGAATGATATCAATACATTCTT
CAATGTATCGATACATTCTGTCT
Found at i:78146 original size:10 final size:10
Alignment explanation
Indices: 78131--78164 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
78121 CCACTAGGAA
78131 AAAGATTTTT
1 AAAGATTTTT
78141 AAAGATTTTT
1 AAAGATTTTT
*
78151 GAAATATTTTT
1 -AAAGATTTTT
78162 AAA
1 AAA
78165 TCGATCTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (10 bp):
AAAGATTTTT
Found at i:82142 original size:13 final size:13
Alignment explanation
Indices: 82124--82153 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
82114 GGTAAAACTC
*
82124 ACATTGTATCGAT
1 ACATTGGATCGAT
82137 ACATTGGATCGAT
1 ACATTGGATCGAT
82150 ACAT
1 ACAT
82154 GAAGGATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
ACATTGGATCGAT
Found at i:82167 original size:20 final size:20
Alignment explanation
Indices: 82139--82193 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
82129 GTATCGATAC
* *
82139 ATTGGATCGATACATGAAGG
1 ATTGTATCGATACATGAAGA
**
82159 ATTGTATCGATACATGGTGA
1 ATTGTATCGATACATGAAGA
*
82179 AATGTATCGATACAT
1 ATTGTATCGATACAT
82194 TGAGCCTAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.31
Consensus pattern (20 bp):
ATTGTATCGATACATGAAGA
Found at i:83787 original size:3 final size:3
Alignment explanation
Indices: 83772--83806 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
83762 AACCATCAAA
*
83772 GAT GAT GAG GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
83807 AGTTGACTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.00, G:0.37, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:89088 original size:47 final size:47
Alignment explanation
Indices: 89021--89163 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
89011 TGTTAAAAAT
* *
89021 TCTAGAAATTCCTAGAATGTATCGATACATTGAGTAAT-GTATCGATACA
1 TCTAGAAA-ACCTAG-ATGTATCGATACAATGA-TAATAGTATCGATACA
**
89070 TCTAGAAAACCTAGATGTATCGATACAATGATCTTAGTATCGATACA
1 TCTAGAAAACCTAGATGTATCGATACAATGATAATAGTATCGATACA
**
89117 TCTAGAAAACCTAGATGTATCGATACAATGATCTTAGTATCGATACA
1 TCTAGAAAACCTAGATGTATCGATACAATGATAATAGTATCGATACA
89164 CTGTATCGAT
Statistics
Matches: 89, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
46 2 0.02
47 74 0.83
48 5 0.06
49 8 0.09
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (47 bp):
TCTAGAAAACCTAGATGTATCGATACAATGATAATAGTATCGATACA
Found at i:89095 original size:27 final size:27
Alignment explanation
Indices: 89057--89143 Score: 98
Period size: 27 Copynumber: 3.5 Consensus size: 27
89047 ACATTGAGTA
89057 ATGTATCGATACATCTAGAAAACCTAG
1 ATGTATCGATACATCTAGAAAACCTAG
* * *
89084 ATGTATCGATACA-AT-G---ATCT-T
1 ATGTATCGATACATCTAGAAAACCTAG
89105 A-GTATCGATACATCTAGAAAACCTAG
1 ATGTATCGATACATCTAGAAAACCTAG
89131 ATGTATCGATACA
1 ATGTATCGATACA
89144 ATGATCTTAG
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
20 11 0.23
21 2 0.04
22 4 0.09
25 4 0.09
26 2 0.04
27 24 0.51
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (27 bp):
ATGTATCGATACATCTAGAAAACCTAG
Found at i:89111 original size:20 final size:20
Alignment explanation
Indices: 89086--89163 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
89076 AAACCTAGAT
89086 GTATCGATACAATGATCTTA
1 GTATCGATACAATGATCTTA
* * *
89106 GTATCGATACATCTAGAAAACCTAGA
1 GTATCGATACA-AT-G---ATCT-TA
89132 TGTATCGATACAATGATCTTA
1 -GTATCGATACAATGATCTTA
89153 GTATCGATACA
1 GTATCGATACA
89164 CTGTATCGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
20 22 0.49
21 2 0.04
22 4 0.09
25 4 0.09
26 2 0.04
27 11 0.24
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (20 bp):
GTATCGATACAATGATCTTA
Found at i:89171 original size:13 final size:13
Alignment explanation
Indices: 89153--89226 Score: 112
Period size: 13 Copynumber: 5.7 Consensus size: 13
89143 AATGATCTTA
*
89153 GTATCGATACACT
1 GTATCGATACATT
89166 GTATCGATACATT
1 GTATCGATACATT
*
89179 GTATCGATACACT
1 GTATCGATACATT
89192 GTATCGATACATT
1 GTATCGATACATT
* *
89205 GTATCAATGCATT
1 GTATCGATACATT
89218 GTATCGATA
1 GTATCGATA
89227 AAAAGGCACT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 54 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:92891 original size:79 final size:76
Alignment explanation
Indices: 92764--93022 Score: 209
Period size: 79 Copynumber: 3.3 Consensus size: 76
92754 TGGGGATAAC
* * * * *
92764 AACAGGGCTGGAGTATCCCAGATTATGGAAAATCGGTGTTCT-GAAAATAAAATTAGGGTTGGAA
1 AACAGGGTTGGAGTATCCCCGATTGTGG-AAATCAGTGTT-TAG-AAATAAAA-TAGGGTTGGAG
92828 TATCCCCTCGAAAAT
62 TATCCCCTCGAAAAT
* * **
92843 AACAGGGTTGGAGTATCCCCGATTGTGGAAAGTCAGTGCTTTAGAAATAAAGCTGGGGTCAGAGT
1 AACAGGGTTGGAGTATCCCCGATTGTGGAAA-TCAGTG-TTTAGAAATAAA-ATAGGGTTGGAGT
* *
92908 ATCCACACG-AAAT
63 ATCCCCTCGAAAAT
** * * * * * **
92921 AATGGGGTTAGAATATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAACCGGAGTTGGAGT
1 AACAGGGTTGGAGTATCCCCGATTGTG-GAAATCAGT-GTTTAGAAATAAAATAGG-GTTGGAGT
92986 ATCCCCTC-AGAAAT
63 ATCCCCTCGA-AAAT
*
93000 AACGGGGTTGGAGTATCCCCGAT
1 AACAGGGTTGGAGTATCCCCGAT
93023 GAAATAATAG
Statistics
Matches: 143, Mismatches: 28, Indels: 18
0.76 0.15 0.10
Matches are distributed among these distances:
77 2 0.01
78 57 0.40
79 81 0.57
80 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (76 bp):
AACAGGGTTGGAGTATCCCCGATTGTGGAAATCAGTGTTTAGAAATAAAATAGGGTTGGAGTATC
CCCTCGAAAAT
Found at i:92964 original size:78 final size:79
Alignment explanation
Indices: 92839--93022 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 79
92829 ATCCCCTCGA
* * * * * *
92839 AAATAACAGGGTTGGAGTATCCCCGATTGTGGAAAGTCAGTGCTTTAGAAATAAAGCTGGGGTCA
1 AAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAGTCAATACTTTAGAAATAAAACCGGAGTCA
92904 GAGTATCCACAC-G
66 GAGTATCCACACAG
* * * * * *
92917 AAATAATGGGGTTAGAATATCCCCGATTGTGAGAAA-TCAATATTTTAGGAATAAAACCGGAGTT
1 AAATAACGGGGTTGGAGTATCCCCGATTGTG-GAAAGTCAATACTTTAGAAATAAAACCGGAGTC
* * *
92981 GGAGTATCCCCTCAG
65 AGAGTATCCACACAG
92996 AAATAACGGGGTTGGAGTATCCCCGAT
1 AAATAACGGGGTTGGAGTATCCCCGAT
93023 GAAATAATAG
Statistics
Matches: 86, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
78 57 0.66
79 29 0.34
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.24
Consensus pattern (79 bp):
AAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAGTCAATACTTTAGAAATAAAACCGGAGTCA
GAGTATCCACACAG
Found at i:93048 original size:28 final size:28
Alignment explanation
Indices: 92978--93050 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
92968 TAAAACCGGA
* *
92978 GTTGGAGTATCCCCTCA-GAAATAACGGG
1 GTTGGAGTATCCCC-GATGAAATAACAGG
*
93006 GTTGGAGTATCCCCGATGAAATAATAGG
1 GTTGGAGTATCCCCGATGAAATAACAGG
93034 GTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCGAT
93051 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (28 bp):
GTTGGAGTATCCCCGATGAAATAACAGG
Found at i:93101 original size:51 final size:51
Alignment explanation
Indices: 93034--93149 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 51
93024 AAATAATAGG
* * * *
93034 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACCAGA
* * * *
93085 GTTGGAGTATCTCCGATTATGGAAAATTAGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACCAGA
93136 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
93150 TCGAAAATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACCAGA
Found at i:95606 original size:20 final size:20
Alignment explanation
Indices: 95581--95665 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
95571 TTAAACCCAG
95581 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
*
95601 AATGTATCGATACATCTAGGTAAAACCC
1 AATGTATCGATACA---A--T-GAA--C
95629 AGAATGTATCGATACAATGAAC
1 --AATGTATCGATACAATGAAC
95651 AATGTATCGATACAA
1 AATGTATCGATACAA
95666 ATTGTGAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 20
0.71 0.03 0.27
Matches are distributed among these distances:
20 29 0.55
22 1 0.02
23 1 0.02
24 2 0.04
25 2 0.04
26 2 0.04
27 1 0.02
28 1 0.02
30 14 0.26
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:95612 original size:49 final size:50
Alignment explanation
Indices: 95554--95664 Score: 206
Period size: 50 Copynumber: 2.2 Consensus size: 50
95544 CATTGCAAAT
*
95554 TGTATCGATACATCT-GGTTAAACCCAGAATGTATCGATACAATGAACAA
1 TGTATCGATACATCTAGGTAAAACCCAGAATGTATCGATACAATGAACAA
95603 TGTATCGATACATCTAGGTAAAACCCAGAATGTATCGATACAATGAACAA
1 TGTATCGATACATCTAGGTAAAACCCAGAATGTATCGATACAATGAACAA
95653 TGTATCGATACA
1 TGTATCGATACA
95665 AATTGTGAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
49 15 0.25
50 45 0.75
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (50 bp):
TGTATCGATACATCTAGGTAAAACCCAGAATGTATCGATACAATGAACAA
Found at i:96357 original size:42 final size:42
Alignment explanation
Indices: 96298--96610 Score: 182
Period size: 45 Copynumber: 7.1 Consensus size: 42
96288 CCTATTTTTC
* * * *
96298 GAGGACAAAGGAAAAAAGGAAAACGAAATTCGTCTTGCTCTTT
1 GAGGACAAAAGAAAAAAGGAAAA-GAAATGCATCCTGCTCTTT
*
96341 GAGGACAAAAG-AAAAAGGAAAATAAAGTGCATCCTGCTCTTT
1 GAGGACAAAAGAAAAAAGGAAAAGAAA-TGCATCCTGCTCTTT
* * *
96383 GAGGATAAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTT
1 GAGGACAAAA--GAAAA-AAGGAAAAGAAATGCATCCTGCTCTTT
* * * * * *
96428 GAGGACAAAAGAGAAAAGAAAGAAATAAAGTACGTCCTAC-CTTTT
1 GAGGACAAAAGAAAAAAG-GA-AAAGAAA-TGCATCCTGCTC-TTT
* * * * ** * *
96473 GAGGAAAAAAGAGGAAAAGAAGGGAATGGAATGTGTCCTACCCTTT
1 GAGG-ACAAA-A-GAAAA-AAGGAAAAGAAATGCATCCTGCTCTTT
* ** *
96519 GAGGAC-AAGGGGAAAAGGAAAATAAAGTGCATCCTGCTCTTT
1 GAGGACAAAAGAAAAAAGGAAAAGAAA-TGCATCCTGCTCTTT
* * * *
96561 GAGGACAAAAAGGAAATGAAGGAAATGAAGTGCATCCTGCCCTTT
1 GAGGAC-AAAA-GAAA-AAAGGAAAAGAAATGCATCCTGCTCTTT
96606 GAGGA
1 GAGGA
96611 TTAAGAGGTG
Statistics
Matches: 204, Mismatches: 47, Indels: 36
0.71 0.16 0.13
Matches are distributed among these distances:
41 11 0.05
42 55 0.27
43 15 0.07
44 10 0.05
45 63 0.31
46 37 0.18
47 6 0.03
48 4 0.02
49 3 0.01
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.19
Consensus pattern (42 bp):
GAGGACAAAAGAAAAAAGGAAAAGAAATGCATCCTGCTCTTT
Found at i:96424 original size:87 final size:87
Alignment explanation
Indices: 96337--96610 Score: 340
Period size: 87 Copynumber: 3.1 Consensus size: 87
96327 TCGTCTTGCT
*
96337 CTTTGAGGACAAAAGAAAAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGATAAAAGGGAAAAGA
1 CTTTGAGGACAAAAGAAAAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGAAAAAAGGGAAAAGA
*
96402 AGGAAATGAAGTGCATCCTGCT
66 AGGAAATGAAGTGCATCCTGCC
* * * *
96424 CTTTGAGGACAAAAGAGAAAAGAAAGAAATAAAGTACGTCCTAC-CTTTTGAGGAAAAAAGAGGA
1 CTTTGAGGACAAAAGA-AAAAG-GA-AAATAAAGTGCATCCTGCTC-TTTGAGGAAAAAAG-GGA
* *
96488 AAAGAAGGGAATGGAATGTG--TCCTACC
61 AAAGAAGGAAAT-GAA-GTGCATCCTGCC
** * *
96515 CTTTGAGGACAAGGGGAAAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAA-GGAAATG
1 CTTTGAGGACAAAAGAAAAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGA-AAAAAGGGAAAAG
96579 AAGGAAATGAAGTGCATCCTGCC
65 AAGGAAATGAAGTGCATCCTGCC
96602 CTTTGAGGA
1 CTTTGAGGA
96611 TTAAGAGGTG
Statistics
Matches: 158, Mismatches: 18, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
85 3 0.02
86 3 0.02
87 44 0.28
88 28 0.18
89 9 0.06
90 33 0.21
91 32 0.20
92 3 0.02
93 3 0.02
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.19
Consensus pattern (87 bp):
CTTTGAGGACAAAAGAAAAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGAAAAAAGGGAAAAGA
AGGAAATGAAGTGCATCCTGCC
Found at i:96427 original size:45 final size:45
Alignment explanation
Indices: 96333--96610 Score: 279
Period size: 45 Copynumber: 6.3 Consensus size: 45
96323 AAATTCGTCT
96333 TGCTCTTTGAGGACAAAA--G-AAA-AAGGAAAATAAAGTGCATCC
1 TGCTCTTTGAGGACAAAAGGGAAAAGAAGG-AAATAAAGTGCATCC
* *
96375 TGCTCTTTGAGGATAAAAGGGAAAAGAAGGAAATGAAGTGCATCC
1 TGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATAAAGTGCATCC
* * * *
96420 TGCTCTTTGAGGACAAAAGAGAAAAGAAAGAAATAAAGTACGTCC
1 TGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATAAAGTGCATCC
* * * *
96465 TAC-CTTTTGAGGAAAAAAGAGGAAAAGAAGGGAATGGAATGTG--TCC
1 TGCTC-TTTGAGGACAAAAG-GGAAAAGAAGGAAAT--AAAGTGCATCC
* * * *
96511 TACCCTTTGAGGAC-AAGGGGAAAAG--GAAAATAAAGTGCATCC
1 TGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATAAAGTGCATCC
* * *
96553 TGCTCTTTGAGGACAAAAAGGAAATGAAGGAAATGAAGTGCATCC
1 TGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATAAAGTGCATCC
*
96598 TGCCCTTTGAGGA
1 TGCTCTTTGAGGA
96611 TTAAGAGGTG
Statistics
Matches: 194, Mismatches: 28, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
40 5 0.03
42 36 0.19
43 8 0.04
44 9 0.05
45 101 0.52
46 30 0.15
47 1 0.01
48 4 0.02
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.19
Consensus pattern (45 bp):
TGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATAAAGTGCATCC
Found at i:96702 original size:45 final size:45
Alignment explanation
Indices: 96648--96983 Score: 276
Period size: 45 Copynumber: 7.5 Consensus size: 45
96638 CTTCGAAGGA
*
96648 GAAG-GTGTCCTGTTCTTTGAGGATAAAAGGGAAAAGAAGGAAAT
1 GAAGTGTGTCCTGCTCTTTGAGGATAAAAGGGAAAAGAAGGAAAT
* * *
96692 GAAGTGTGTCCTGCTCTTTGAGGAAAAAAAGAGAAAAGAAGGGAAT
1 GAAGTGTGTCCTGCTCTTTGAGG-ATAAAAGGGAAAAGAAGGAAAT
* * *
96738 GGAA-CGTGTCCTGCTCTTTGAGG--ACAATGGAAAA-AAGGAAAAT
1 -GAAGTGTGTCCTGCTCTTTGAGGATAAAAGGGAAAAGAAGG-AAAT
* ** * * *
96781 AAAGTGCATCCTGTTCTTTGAGGGA-AAAAGGAAAAAGAAAGAAAT
1 GAAGTGTGTCCTGCTCTTTGA-GGATAAAAGGGAAAAGAAGGAAAT
* * * * *
96826 GAAGTGGGTCTTGCTCTTTGAGGACAAAAGGGGCAAAGAAGGGAAT
1 GAAGTGTGTCCTGCTCTTTGAGGATAAAA-GGGAAAAGAAGGAAAT
* * * ** *
96872 GGAA-TGTGTCGTGCTCTTTAACGATAAGGGGGAAAAG--GAAAAT
1 -GAAGTGTGTCCTGCTCTTTGAGGATAAAAGGGAAAAGAAGGAAAT
* * *
96915 AAAGTGCGTCCTGCTCTTTGAGGATAAAAGGGAAAAGAAAGAAAT
1 GAAGTGTGTCCTGCTCTTTGAGGATAAAAGGGAAAAGAAGGAAAT
* * * *
96960 GTAGTGCGTCCTCCCCTTTGAGGA
1 GAAGTGTGTCCTGCTCTTTGAGGA
96984 CTAAGAGGTG
Statistics
Matches: 228, Mismatches: 50, Indels: 27
0.75 0.16 0.09
Matches are distributed among these distances:
42 8 0.04
43 55 0.24
44 9 0.04
45 80 0.35
46 70 0.31
47 6 0.03
ACGTcount: A:0.37, C:0.11, G:0.30, T:0.21
Consensus pattern (45 bp):
GAAGTGTGTCCTGCTCTTTGAGGATAAAAGGGAAAAGAAGGAAAT
Found at i:96738 original size:238 final size:239
Alignment explanation
Indices: 96417--96849 Score: 622
Period size: 238 Copynumber: 1.8 Consensus size: 239
96407 ATGAAGTGCA
96417 TCCTGCTCTTTGAGGACAAAAGAGAAAAGAAAGAAATAAAGTACGTCCTACCTTTTGAGGAAAAA
1 TCCTGCTCTTTGAGGACAAAAGAGAAAAGAAAGAAATAAAGTACGTCCTACCTTTTGAGGAAAAA
* **
96482 AGAGGAAAAGAAGGGAATGGAATGTGTCCTACCCTTTGAGGACAA-GGGGAAAAGGAAAATAAAG
66 AGAGGAAAAGAAGGGAATGGAACGTGTCCTACCCTTTGAGGACAATGGAAAAAAGGAAAATAAAG
* *
96546 TGCATCCTGCTCTTTGAGGACAAAAAGG-AAATGAAGGAAATGAAGTGCATCCTGCCCTTTGAGG
131 TGCATCCTGCTCTTTGAGG-CAAAAAGGAAAAAGAAAGAAATGAAGTGCATCCTGCCCTTTGAGG
96610 ATTAAGAGGTGCCACTAACTTGTGTGGGCTTCGAAGGAGAAGGTG
195 ATTAAGAGGTGCCACTAACTTGTGTGGGCTTCGAAGGAGAAGGTG
* * * * * ** *
96655 TCCTGTTCTTTGAGGATAAAAGGGAAAAGAAGGAAATGAAGTGTGTCCT-GCTCTTTGAGGAAAA
1 TCCTGCTCTTTGAGGACAAAAGAGAAAAGAAAGAAATAAAGTACGTCCTACCT-TTTGAGGAAAA
* *
96719 AA-AGAGAAAAGAAGGGAATGGAACGTGTCCTGCTCTTTGAGGACAATGGAAAAAAGGAAAATAA
65 AAGAG-GAAAAGAAGGGAATGGAACGTGTCCTACCCTTTGAGGACAATGGAAAAAAGGAAAATAA
* * ** * *
96783 AGTGCATCCTGTTCTTTGAGGGAAAAAGGAAAAAGAAAGAAATGAAGTGGGTCTTGCTCTTTGAG
129 AGTGCATCCTGCTCTTTGAGGCAAAAAGGAAAAAGAAAGAAATGAAGTGCATCCTGCCCTTTGAG
96848 GA
194 GA
96850 CAAAAGGGGC
Statistics
Matches: 170, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
237 4 0.02
238 100 0.59
239 66 0.39
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.21
Consensus pattern (239 bp):
TCCTGCTCTTTGAGGACAAAAGAGAAAAGAAAGAAATAAAGTACGTCCTACCTTTTGAGGAAAAA
AGAGGAAAAGAAGGGAATGGAACGTGTCCTACCCTTTGAGGACAATGGAAAAAAGGAAAATAAAG
TGCATCCTGCTCTTTGAGGCAAAAAGGAAAAAGAAAGAAATGAAGTGCATCCTGCCCTTTGAGGA
TTAAGAGGTGCCACTAACTTGTGTGGGCTTCGAAGGAGAAGGTG
Found at i:96747 original size:46 final size:44
Alignment explanation
Indices: 96652--96983 Score: 201
Period size: 46 Copynumber: 7.4 Consensus size: 44
96642 GAAGGAGAAG
* * *
96652 GTGTCCTGTTCTTTGAGGATAAAAGGGAAAAGAAGGAAATGAAGT
1 GTGTCCTGCTCTTTGAGGAAAAAAGAGAAAAGAAGGAAATGAA-T
* *
96697 GTGTCCTGCTCTTTGAGGAAAAAAAGAGAAAAGAAGGGAATGGAAC
1 GTGTCCTGCTCTTTGAGG-AAAAAAGAGAAAAGAAGGAAAT-GAAT
* * *
96743 GTGTCCTGCTCTTTGAGG-ACAATG-GAAAA-AAGGAAAAT-AAA
1 GTGTCCTGCTCTTTGAGGAAAAAAGAGAAAAGAAGG-AAATGAAT
* * *
96784 GTGCATCCTGTTCTTTGAGGGAAAAAG-GAAAAAGAAAGAAATGAAGT
1 GTG--TCCTGCTCTTTGAGGAAAAAAGAG-AAAAGAAGGAAATGAA-T
* * * * * *
96831 GGGTCTTGCTCTTTGAGGACAAAAGGGGCAAAGAAGGGAATGGAAT
1 GTGTCCTGCTCTTTGAGGA-AAAAAGAGAAAAGAAGGAAAT-GAAT
* * * * ** * * *
96877 GTGTCGTGCTCTTTAACGATAAGGGGGAAAAG--GAAAATAAAGT
1 GTGTCCTGCTCTTTGAGGAAAAAAGAGAAAAGAAGGAAATGAA-T
* * * * *
96920 GCGTCCTGCTCTTTGAGGATAAAAGGGAAAAGAAAGAAATGTAGT
1 GTGTCCTGCTCTTTGAGGAAAAAAGAGAAAAGAAGGAAATG-AAT
* * *
96965 GCGTCCTCCCCTTTGAGGA
1 GTGTCCTGCTCTTTGAGGA
96984 CTAAGAGGTG
Statistics
Matches: 226, Mismatches: 44, Indels: 34
0.74 0.14 0.11
Matches are distributed among these distances:
41 5 0.02
42 6 0.03
43 53 0.23
44 9 0.04
45 70 0.31
46 74 0.33
47 9 0.04
ACGTcount: A:0.37, C:0.11, G:0.30, T:0.22
Consensus pattern (44 bp):
GTGTCCTGCTCTTTGAGGAAAAAAGAGAAAAGAAGGAAATGAAT
Found at i:96846 original size:88 final size:89
Alignment explanation
Indices: 96652--96852 Score: 221
Period size: 89 Copynumber: 2.2 Consensus size: 89
96642 GAAGGAGAAG
* * * * **
96652 GTGTCCTGTTCTTTGAGGATAAAAGGGAAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGAA
1 GTGTCCTGCTCTTTGAGG--ACAATGGAAAAGAAGGAAATAAAGTGCATCCTGCTCTTTGAGGAA
* *
96717 AAAAAGAGAAAAGAAGGGAATGGAAC
64 AAAAAGAGAAAAGAAAGAAATGGAAC
* *
96743 GTGTCCTGCTCTTTGAGGACAATGGAAAA-AAGGAAAATAAAGTGCATCCTGTTCTTTGAGGGAA
1 GTGTCCTGCTCTTTGAGGACAATGGAAAAGAAGG-AAATAAAGTGCATCCTGCTCTTTGAGGAAA
*
96807 AAAGGA-AAAAGAAAGAAAT-GAA-
65 AAAAGAGAAAAGAAAGAAATGGAAC
*
96829 GTGGGTCTTGCTCTTTGAGGACAA
1 GT--GTCCTGCTCTTTGAGGACAA
96853 AAGGGGCAAA
Statistics
Matches: 95, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
86 2 0.02
87 3 0.03
88 34 0.36
89 39 0.41
91 17 0.18
ACGTcount: A:0.38, C:0.10, G:0.29, T:0.22
Consensus pattern (89 bp):
GTGTCCTGCTCTTTGAGGACAATGGAAAAGAAGGAAATAAAGTGCATCCTGCTCTTTGAGGAAAA
AAAGAGAAAAGAAAGAAATGGAAC
Found at i:96984 original size:134 final size:134
Alignment explanation
Indices: 96654--96984 Score: 448
Period size: 134 Copynumber: 2.5 Consensus size: 134
96644 AGGAGAAGGT
* * *
96654 GTCCTGTTCTTTGAGGATAAAAGGGAAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGAAAA
1 GTCCTGTTCTTTGAGGATAAAAGGGAAAAGAAAGAAATGAAGTGCGTCCTGCTCTTTGAGGACAA
* * *
96719 AAAGAGAAAAGAAGGGAATGGAACGTGTCCTGCTCTTTGAGGACAATGGAAAAAAGGAAAATAAA
66 AAAGAGAAAAGAAGGGAATGGAACGTGTCCTGCTCTTTAACGACAAGGGAAAAAAGGAAAATAAA
96784 GTGC
131 GTGC
* * * *
96788 ATCCTGTTCTTTGAGGGA-AAAAGGAAAAAGAAAGAAATGAAGTGGGTCTTGCTCTTTGAGGACA
1 GTCCTGTTCTTTGA-GGATAAAAGGGAAAAGAAAGAAATGAAGTGCGTCCTGCTCTTTGAGGACA
* * * * * * **
96852 AAAGGGGCAAAGAAGGGAATGGAATGTGTCGTGCTCTTTAACGATAAGGGGGAAAAGGAAAATAA
65 AAAAGAGAAAAGAAGGGAATGGAACGTGTCCTGCTCTTTAACGACAAGGGAAAAAAGGAAAATAA
96917 AGTGC
130 AGTGC
* * * *
96922 GTCCTGCTCTTTGAGGATAAAAGGGAAAAGAAAGAAATGTAGTGCGTCCTCCCCTTTGAGGAC
1 GTCCTGTTCTTTGAGGATAAAAGGGAAAAGAAAGAAATGAAGTGCGTCCTGCTCTTTGAGGAC
96985 TAAGAGGTGC
Statistics
Matches: 170, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
133 3 0.02
134 164 0.96
135 3 0.02
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (134 bp):
GTCCTGTTCTTTGAGGATAAAAGGGAAAAGAAAGAAATGAAGTGCGTCCTGCTCTTTGAGGACAA
AAAGAGAAAAGAAGGGAATGGAACGTGTCCTGCTCTTTAACGACAAGGGAAAAAAGGAAAATAAA
GTGC
Found at i:97301 original size:183 final size:184
Alignment explanation
Indices: 96975--98797 Score: 2482
Period size: 183 Copynumber: 9.9 Consensus size: 184
96965 GCGTCCTCCC
* * * * * * *
96975 CTTTGAGGACTAAGAGGTGCCACCAACTTATATGGGCTTTTAAA-GAGAAGGCGTCCTACTCTTT
1 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTT
* *
97039 GAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAAGAAAAGGCGTCCTACTCTCTGAG
66 GAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTACTCTTTGAG
* * * * *
97103 GACTAAAGGGTGCCACCAACTCATGTTGGCCTTGAAAAGAAAAAGATGTCCTACT
130 GACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGATGTCCTGCT
* * * *
97158 TTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-CAAGGAGAAGGCGTCCTGCTCTTT
1 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTT
*
97222 GAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCATCCTACTCTTTGAG
66 GAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTACTCTTTGAG
* *
97286 GGCTAAAACGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGATGTCCTGCT
130 GACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGATGTCCTGCT
97341 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTT
1 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTT
* * * * *
97406 GAGGACTAAAGGTGCCACCAACTTGTATGGG-TTTGAAAAGAAAAAGGCATCCTGCTTTTTGAGG
66 GAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTACTCTTTGAGG
* *
97470 ACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
131 ACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGATGTCCTGCT
97524 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTT
1 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTT
* *
97589 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGTGTCCTGCTCTTTGAG
66 GAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTACTCTTTGAG
* * * *
97653 GACT-AAAGGTGCCACCAACTCATGTGGGCTTTGAAGAGAAAAAGTTGTCTTGCT
130 GACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGATGTCCTGCT
* * * * *
97707 TTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAGTGTCCTACTCTT
1 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGTGTCCTGCTCTT
* * *
97772 TGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGTGTCCTGCTCTTTGA
65 TGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTACTCTTTGA
* *
97836 GGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGTT
129 GGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGATGTCCTGCT
* * * * *
97891 CTTTGAAGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-GAAGGAAAAGGTGTTCTACTCTTT
1 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTT
* * * *
97955 GAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGACATCCTACTTTTTGAT
66 GAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTACTCTTTGAG
* *
98019 GAGT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
130 GACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGATGTCCTGCT
* * *
98073 CTTTGAGGGCT-AAAGAGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCT
1 CTTTGAGGACTAAAAG-GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGTGTCCTGCTCT
* * * * *
98137 TTGAGGACTAAAGGTGCCACCAACTTGTGTGAG-TTTGAAAAGAAAAAGGCATCCTGCTTTTTGA
64 TTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTACTCTTTGA
* *
98201 GGACTAAAGGGTGCCACCAACTCGTGTGAGCTTTGAAAAGAAAAA-AGTGTCCTGCT
129 GGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGA-TGTCCTGCT
*
98257 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AAAAAGGTGTCCTGCTCTTT
1 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTT
* * * ** *
98321 GAGGACTAAAGGTGCCACCAACTTATGTGGGCTTTGAAGAGAAAAAGTTGTCCTACTTTTTGAGG
66 GAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTACTCTTTGAGG
* *
98386 ACTAAAAGGTGCCAGCAACTCGTGTGGGCTTTGAAAAGAAAAA-AGTGTCCTACT
131 ACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGA-TGTCCTGCT
* *
98440 CTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCTTGCTCTTT
1 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTT
* * * * *
98505 GAGGACTAAATGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTACTCTTTGAAG
66 GAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTACTCTTTGAGG
* * * *
98570 ACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGTATCCTGCT
131 ACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGATGTCCTGCT
* * * *
98623 CTTTGAGGACT-AAAGGTGCCACTAACTGGTGTGGGCTTTGAAAA-GAAAATGGCGTCCTACTCT
1 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAA-GGTGTCCTGCTCT
* * * ** * *
98686 TTAAGGACTAAAGGGTACCAGCAACTCATGTGGGCTTTGAAAA-GAAAAGGGTGTCCTGCTCTTT
64 TTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAA-GGCGTCCTACTCTTT
* * *
98750 AAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGGAAAGAAAAAG
127 GAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
98798 GATGCCACCG
Statistics
Matches: 1487, Mismatches: 131, Indels: 42
0.90 0.08 0.03
Matches are distributed among these distances:
181 4 0.00
182 247 0.17
183 685 0.46
184 535 0.36
185 16 0.01
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (184 bp):
CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTT
GAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGGCGTCCTACTCTTTGAGG
ACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGATGTCCTGCT
Found at i:97515 original size:122 final size:124
Alignment explanation
Indices: 96975--98798 Score: 2394
Period size: 122 Copynumber: 14.9 Consensus size: 124
96965 GCGTCCTCCC
* * * * * *
96975 CTTTGAGGACT-AAGAGGTGCCACCAACTTATATGGGCTTT-TAAAG-AGAAGGCGTCCTACTCT
1 CTTTGAGGACTAAAG-GGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCT
* * * *
97037 TTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG-AAAAGGCGTCCTACT
65 TTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
* ** * * * * *
97096 CTCTGAGGACTAAAGGGTGCCACCAACTCATGTTGGCCTTGAAAAGAAAAAGATGTCCTACTTTT
1 CTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTT
* * * *
97161 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT--CAAGGAGAAGGCGTCCTGCT
66 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
* ** *
97218 CTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCATCCTACTCT
1 CTTTGAGGACTA-AAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCT
* * * *
97281 TTGAGGGCTAAAACGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGATGTCCTGCT
65 TTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
* *
97341 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGTGTCCTGCTCTT
1 CTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTT
* **
97405 TGAGGACT-AAAGGTGCCACCAACTTGTATGGG-TTTGAAAAGAAAAAGGCATCCTGCT
66 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
* *
97462 TTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTT
1 CTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTT
*
97527 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGTGTCCTGCT
66 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
* *
97585 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGTGTCCTGCTCTT
1 CTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTT
** * * *
97649 TGAGGACT-AAAGGTGCCACCAACTCATGTGGGCTTTGAAGAGAAAAAGTTGTCTTGCT
66 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
* * * * *
97707 TTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAGTGTCCTACTCTT
1 CTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTT
* *
97772 TGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGTGTCCTGCT
66 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
* *
97830 CTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGTTCTT
1 CTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTT
* * * * *
97894 TGAAGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG--AAGGAAAAGGTGTTCTACT
66 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
* *** * *
97951 CTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGACATCCTACTTT
1 CTTTGAGGACTA-AAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCT
* * *
98014 TTGATGAGT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
65 TTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
* * *
98073 CTTTGAGGGCTAAAGAGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTT
1 CTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTT
* **
98138 TGAGGACT-AAAGGTGCCACCAACTTGTGTGAG-TTTGAAAAGAAAAAGGCATCCTGCT
66 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
* * * *
98195 TTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGAGCTTTGAAAAGAAAAAAGTGTCCTGCTCTT
1 CTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTT
98260 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAA-AAAAAGGTGTCCTGCT
66 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
* * * * *
98317 CTTTGAGGACTAAA-GGTGCCACCAACTTATGTGGGCTTTGAAGAGAAAAAGTTGTCCTACTTTT
1 CTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTT
* * * *
98381 TGAGGACTAAAAGGTGCCAGCAACTCGTGTGGGCTTTGAAAAGAAAAAAGTGTCCTACT
66 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
* * * *
98440 CTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGTGTCTTGCTCTT
1 CTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTT
* * *
98504 TGAGGACT-AAATGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTACT
66 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
* * * *
98562 CTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGTATCCTGCTCTT
1 CTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTT
* * * * *
98626 TGAGGACT-AAAGGTGCCACTAACTGGTGTGGGCTTTGAAAAGAAAATGGCGTCCTACT
66 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
* * * ** *
98684 CTTTAAGGACTAAAGGGTACCAGCAACTCATGTGGGCTTTGAAAAGAAAAGGGTGTCCTGCTCTT
1 CTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTT
* ** *
98749 TAAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGGAAAGAAAAAGG
66 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG
98799 ATGCCACCGA
Statistics
Matches: 1511, Mismatches: 165, Indels: 51
0.87 0.10 0.03
Matches are distributed among these distances:
120 27 0.02
121 303 0.20
122 667 0.44
123 422 0.28
124 92 0.06
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (124 bp):
CTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTT
TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
Found at i:100967 original size:19 final size:20
Alignment explanation
Indices: 100922--100974 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
100912 ATTTCAACGA
100922 TTTGTATCGATACATAAAAT
1 TTTGTATCGATACATAAAAT
* *
100942 ATTGTATCGATACAT-AAGT
1 TTTGTATCGATACATAAAAT
100961 TTTGTATCGATACA
1 TTTGTATCGATACA
100975 ATTTAAGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (20 bp):
TTTGTATCGATACATAAAAT
Found at i:101079 original size:52 final size:52
Alignment explanation
Indices: 101008--101165 Score: 219
Period size: 52 Copynumber: 3.0 Consensus size: 52
100998 TATCGATACA
* *** *
101008 TTACTCAAATGTATCGATACACTGAT-CTTTGTATCGATACATGCAAGCAAAT
1 TTACCCAAATGTATCGATACACT-ATAAAATGTATCGATACATGCAGGCAAAT
* *
101060 TTACCCAGATGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAAT
1 TTACCCAAATGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAAT
* *
101112 TTGCCCAAATGTATCGATACACTATAAAATGTATCAATACATGCAGGCAAAT
1 TTACCCAAATGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAAT
101164 TT
1 TT
101166 TCATATTTCG
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 2 0.02
52 92 0.98
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.30
Consensus pattern (52 bp):
TTACCCAAATGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAAT
Found at i:109753 original size:8 final size:8
Alignment explanation
Indices: 109740--109770 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
109730 ATTTGATTAA
109740 ATTTTGTG
1 ATTTTGTG
109748 ATTTTGTG
1 ATTTTGTG
109756 ATTTTGTG
1 ATTTTGTG
109764 ATGTTTG
1 AT-TTTG
109771 ATGTTGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (8 bp):
ATTTTGTG
Found at i:110458 original size:21 final size:21
Alignment explanation
Indices: 110414--110455 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
110404 TCTCTAGGCA
*
110414 GCACTCACCAGGTCGCGACCG
1 GCACTCACCAGGTCGCAACCG
110435 GCACTC-CCAGGTCGCAACCG
1 GCACTCACCAGGTCGCAACCG
110455 G
1 G
110456 GCAGCCCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.19, C:0.43, G:0.29, T:0.10
Consensus pattern (21 bp):
GCACTCACCAGGTCGCAACCG
Found at i:111850 original size:14 final size:14
Alignment explanation
Indices: 111831--111872 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
111821 AATTGCTTTT
111831 TTAAGAGGGAGAAA
1 TTAAGAGGGAGAAA
111845 TTAAGAGGGAGAAA
1 TTAAGAGGGAGAAA
*
111859 TTAAGGGGGAGAAA
1 TTAAGAGGGAGAAA
111873 GAAACTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.38, T:0.14
Consensus pattern (14 bp):
TTAAGAGGGAGAAA
Found at i:112507 original size:13 final size:13
Alignment explanation
Indices: 112489--112513 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112479 ATAATGCACA
112489 GTATCGATACATT
1 GTATCGATACATT
112502 GTATCGATACAT
1 GTATCGATACAT
112514 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:112636 original size:32 final size:33
Alignment explanation
Indices: 112595--112658 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
112585 CTTAACTGTT
* *
112595 TGTATCGATACA-CACAAGATTTATCGATACAA
1 TGTATCGATACATCACAAAATATATCGATACAA
*
112627 TGTATCGATACATCTCAAAATATATCGATACA
1 TGTATCGATACATCACAAAATATATCGATACA
112659 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (33 bp):
TGTATCGATACATCACAAAATATATCGATACAA
Found at i:113852 original size:14 final size:14
Alignment explanation
Indices: 113833--113860 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
113823 TAGAAAGTCT
113833 ATACTTGATTTCTA
1 ATACTTGATTTCTA
113847 ATACTTGATTTCTA
1 ATACTTGATTTCTA
113861 TTTCTAGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (14 bp):
ATACTTGATTTCTA
Found at i:113967 original size:33 final size:33
Alignment explanation
Indices: 113925--113987 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
113915 CTTCATCAAC
113925 ATTAATACTTTTAGGACAATCACTTTGAAAAAT
1 ATTAATACTTTTAGGACAATCACTTTGAAAAAT
*
113958 ATTAATACTTTTAGGACAGTCACTTTGAAA
1 ATTAATACTTTTAGGACAATCACTTTGAAA
113988 GGTCAAACCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.37
Consensus pattern (33 bp):
ATTAATACTTTTAGGACAATCACTTTGAAAAAT
Found at i:114269 original size:95 final size:95
Alignment explanation
Indices: 114162--114356 Score: 381
Period size: 95 Copynumber: 2.1 Consensus size: 95
114152 CATATTCAAG
114162 TATAATTAATTACCTACAATTGGCTCTTAAGATGCAAATTTTGATCAAACAAGATACTAAAACAT
1 TATAATTAATTACCTACAATTGGCTCTTAAGATGCAAATTTTGATCAAACAAGATACTAAAACAT
114227 TCAGTAACAACAAAATGTAACAAAGACCAT
66 TCAGTAACAACAAAATGTAACAAAGACCAT
114257 TATAATTAATTACCTACAATTGGCTCTTAAGATGCAAATTTTGATCAAACAAGATACTAAAACAT
1 TATAATTAATTACCTACAATTGGCTCTTAAGATGCAAATTTTGATCAAACAAGATACTAAAACAT
114322 TCAGTAACAACAAAATGTAACAAAGACCAT
66 TCAGTAACAACAAAATGTAACAAAGACCAT
*
114352 AATAA
1 TATAA
114357 AAAAAGTATT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 99 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.27
Consensus pattern (95 bp):
TATAATTAATTACCTACAATTGGCTCTTAAGATGCAAATTTTGATCAAACAAGATACTAAAACAT
TCAGTAACAACAAAATGTAACAAAGACCAT
Found at i:115041 original size:67 final size:67
Alignment explanation
Indices: 114915--115043 Score: 152
Period size: 67 Copynumber: 1.9 Consensus size: 67
114905 TTGACAATCT
* * * * * * * *
114915 ATGCATTAGTTTTATCAACTTCTTTAATATTAAAAGGAATCTGATTCCTTTCAAGAATCTATGCA
1 ATGCAGTAGTCTTATCAAATTCTATAATATAAAAAGAAATCTGATTCCATTCAAAAATCTATGCA
114980 TC
66 TC
* *
114982 ATGCAGTAGTCTTATCAAATTCTATCATATAAAAAGAAATTTGATTCCCATT-AAAAATCTAT
1 ATGCAGTAGTCTTATCAAATTCTATAATATAAAAAGAAATCTGATT-CCATTCAAAAATCTAT
115044 ATATTAATCA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (67 bp):
ATGCAGTAGTCTTATCAAATTCTATAATATAAAAAGAAATCTGATTCCATTCAAAAATCTATGCA
TC
Found at i:115336 original size:39 final size:40
Alignment explanation
Indices: 115233--115376 Score: 123
Period size: 39 Copynumber: 3.6 Consensus size: 40
115223 ATTCCAAAAT
* ** * *
115233 AAAATCTATGCATTAGTCTTATCTTT-CGAATTTTAATAAA
1 AAAATCAATGCATTAGTAATATCTTTAAG-ATTCTAATAAA
* * * ** *
115273 AAACT-AATGTATTAATAGCATCTTTCAGATTCTAAT-AA
1 AAAATCAATGCATTAGTAATATCTTTAAGATTCTAATAAA
* * *
115311 ATAATCTATGCATTAGTAATGTCTTTAAGATTCTAATAAA
1 AAAATCAATGCATTAGTAATATCTTTAAGATTCTAATAAA
*
115351 AAAATCAATGCATTAGTCATATCTTT
1 AAAATCAATGCATTAGTAATATCTTT
115377 TAAATTTCAA
Statistics
Matches: 79, Mismatches: 22, Indels: 6
0.74 0.21 0.06
Matches are distributed among these distances:
38 5 0.06
39 45 0.57
40 29 0.37
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (40 bp):
AAAATCAATGCATTAGTAATATCTTTAAGATTCTAATAAA
Found at i:116887 original size:20 final size:20
Alignment explanation
Indices: 116862--116931 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
116852 GTTATTGATT
116862 AAAATATGGATAATTTTTTA
1 AAAATATGGATAATTTTTTA
*
116882 AAAATATTGAT--TTTTAATTAAGA
1 AAAATATGGATAATTTT--TT---A
*
116905 AAAATATGGATAATTTTTTT
1 AAAATATGGATAATTTTTTA
116925 AAAATAT
1 AAAATAT
116932 TGATTTTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
18 4 0.10
20 19 0.47
23 13 0.32
25 4 0.10
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (20 bp):
AAAATATGGATAATTTTTTA
Found at i:116908 original size:23 final size:23
Alignment explanation
Indices: 116881--116950 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
116871 ATAATTTTTT
116881 AAAAATATTGATTTTTAATTAAG
1 AAAAATATTGATTTTTAATTAAG
*
116904 AAAAATATGGATAATTTT--TT---
1 AAAAATATTGAT--TTTTAATTAAG
*
116924 TAAAATATTGATTTTTAATTAAG
1 AAAAATATTGATTTTTAATTAAG
116947 AAAA
1 AAAA
116951 GTAATAAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
18 4 0.11
20 12 0.33
23 16 0.44
25 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (23 bp):
AAAAATATTGATTTTTAATTAAG
Found at i:116911 original size:43 final size:43
Alignment explanation
Indices: 116862--116950 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
116852 GTTATTGATT
116862 AAAATATGGATAATTTTTTAAAAATATTGATTTTTAATTAAGA
1 AAAATATGGATAATTTTTTAAAAATATTGATTTTTAATTAAGA
*
116905 AAAATATGGATAATTTTTTTAAAATATTGATTTTTAATTAAGA
1 AAAATATGGATAATTTTTTAAAAATATTGATTTTTAATTAAGA
116948 AAA
1 AAA
116951 GTAATAAAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (43 bp):
AAAATATGGATAATTTTTTAAAAATATTGATTTTTAATTAAGA
Found at i:117014 original size:22 final size:22
Alignment explanation
Indices: 116984--117049 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
116974 TACAAAATAT
*
116984 ATATATTTTATTTTATATTTTA
1 ATATTTTTTATTTTATATTTTA
* *
117006 ATATTTTTTAATTTTTTA-ATTA
1 ATATTTTTT-ATTTTATATTTTA
117028 A-ATTTATATTATTTTA-ATTTTA
1 ATATTT-T-TTATTTTATATTTTA
117050 TCATATTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
21 5 0.14
22 21 0.60
23 9 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
ATATTTTTTATTTTATATTTTA
Found at i:117020 original size:28 final size:28
Alignment explanation
Indices: 116988--117067 Score: 78
Period size: 28 Copynumber: 2.8 Consensus size: 28
116978 AAATATATAT
*
116988 ATTTTATT-TTATATTTTAATATT-TTTTA
1 ATTTTATTATTA-AATTT-ATATTATTTTA
117016 ATTTT-TTAATTAAATTTATATTATTTTA
1 ATTTTATT-ATTAAATTTATATTATTTTA
117044 ATTTTATCATATTAAATTTA-ATTA
1 ATTTTAT--TATTAAATTTATATTA
117068 AAATGACTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
27 7 0.16
28 19 0.42
29 8 0.18
30 10 0.22
31 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (28 bp):
ATTTTATTATTAAATTTATATTATTTTA
Found at i:117058 original size:30 final size:28
Alignment explanation
Indices: 117006--117067 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
116996 TTATATTTTA
*
117006 ATATT-TTTTAATTTTTTAATTAAATTT
1 ATATTATTTTAATTTTTCAATTAAATTT
117033 ATATTATTTTAATTTTATCATATTAAATTT
1 ATATTATTTTAATTTT-TCA-ATTAAATTT
117063 A-ATTA
1 ATATTA
117068 AAATGACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 5 0.16
28 10 0.32
29 6 0.19
30 10 0.32
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (28 bp):
ATATTATTTTAATTTTTCAATTAAATTT
Found at i:121796 original size:91 final size:93
Alignment explanation
Indices: 121701--121893 Score: 259
Period size: 91 Copynumber: 2.1 Consensus size: 93
121691 TGAATCTATT
* * * * *
121701 GATACATGCTTGCAATGTATCGATACATTTCTCATTGTATTGATACA-TTCTAAG-TTTTAATC-
1 GATACATGCTGGCAATATATCGATACATTTCTCATTGAATCGATACACTT-TAAGTTTTTAACCT
121763 AAATGTATCGATACATTCTTCAA-AGTATC
65 AAATGTATCGATACATTCTTCAATA-TATC
* ** *
121792 GATACATGCTGGCAATATATTGATACATTTCTCATTGAATCGATACACTTTGGGTTTTTGACCTA
1 GATACATGCTGGCAATATATCGATACATTTCTCATTGAATCGATACACTTTAAGTTTTTAACCTA
121857 AATGTATCGATACATTCTTCAATATATC
66 AATGTATCGATACATTCTTCAATATATC
121885 GATACATGC
1 GATACATGC
121894 AGGTTATTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
91 44 0.49
92 8 0.09
93 36 0.40
94 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (93 bp):
GATACATGCTGGCAATATATCGATACATTTCTCATTGAATCGATACACTTTAAGTTTTTAACCTA
AATGTATCGATACATTCTTCAATATATC
Found at i:124432 original size:81 final size:81
Alignment explanation
Indices: 124306--124549 Score: 275
Period size: 81 Copynumber: 3.0 Consensus size: 81
124296 TTTTCATCTC
* * * *
124306 GGGGATACTCCAACTCCATTTGT-CTTGCAAAAACATCAAATTTTTCACCATCGAGGATACTTCA
1 GGGGATACTCCAACCCCATTTTTACTT-CCAAAACATCAAAATTTTCACCATCGAGGATACTTCA
*
124370 ACCTC-ATCATTTTTGA
65 ACCTCTATCATTTTCGA
*
124386 GGGGATACTCTAACCCCATTTTTACTTCCAAAAGCATCAAAATTTTCACCATC-AGGGATACTTC
1 GGGGATACTCCAACCCCATTTTTACTTCCAAAA-CATCAAAATTTTCACCATCGA-GGATACTTC
124450 AACC-CTATCATTTTCGA
64 AACCTCTATCATTTTCGA
* * * * * ** *
124467 GGGGATACTCCAACCTCGTTTTAATTTCCAAAATAT-TGAATTTTCACCATCGGGGATA-TTCAA
1 GGGGATACTCCAACCCCATTTTTACTTCCAAAACATCAAAATTTTCACCATCGAGGATACTTCAA
* *
124530 ACTCTATCATTTTCAA
66 CCTCTATCATTTTCGA
124546 GGGG
1 GGGG
124550 CTAGCCCTAT
Statistics
Matches: 141, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
78 6 0.04
79 34 0.24
80 29 0.21
81 72 0.51
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (81 bp):
GGGGATACTCCAACCCCATTTTTACTTCCAAAACATCAAAATTTTCACCATCGAGGATACTTCAA
CCTCTATCATTTTCGA
Found at i:128338 original size:13 final size:13
Alignment explanation
Indices: 128320--128344 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
128310 CATTTTGTGA
128320 TGTATCGATACAG
1 TGTATCGATACAG
128333 TGTATCGATACA
1 TGTATCGATACA
128345 TATTGTGTGT
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:128342 original size:33 final size:32
Alignment explanation
Indices: 128300--128363 Score: 110
Period size: 33 Copynumber: 2.0 Consensus size: 32
128290 TACAAGCCAA
*
128300 TGTATCGATACATTTTGTGATGTATCGATACAG
1 TGTATCGATACATATTGTG-TGTATCGATACAG
128333 TGTATCGATACATATTGTGTGTATCGATACA
1 TGTATCGATACATATTGTGTGTATCGATACA
128364 AATTTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 12 0.40
33 18 0.60
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATATTGTGTGTATCGATACAG
Found at i:128356 original size:19 final size:19
Alignment explanation
Indices: 128300--128363 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
128290 TACAAGCCAA
*
128300 TGTATCGATACATTTTGTG
1 TGTATCGATACATATTGTG
128319 ATGTATCGATAC--A----G
1 -TGTATCGATACATATTGTG
128333 TGTATCGATACATATTGTG
1 TGTATCGATACATATTGTG
128352 TGTATCGATACA
1 TGTATCGATACA
128364 AATTTAGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
19 13 0.35
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATATTGTG
Found at i:128440 original size:20 final size:20
Alignment explanation
Indices: 128396--128447 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
128386 GCCAATGACC
* **
128396 TGTATCGACACATTTTTTCA
1 TGTATCGATACATTTAGTCA
*
128416 AGTATCGATACATTTAGTCA
1 TGTATCGATACATTTAGTCA
128436 TGTATCGATACA
1 TGTATCGATACA
128448 ATGTATCGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTTAGTCA
Found at i:128453 original size:13 final size:13
Alignment explanation
Indices: 128435--128459 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
128425 ACATTTAGTC
128435 ATGTATCGATACA
1 ATGTATCGATACA
128448 ATGTATCGATAC
1 ATGTATCGATAC
128460 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:130466 original size:20 final size:21
Alignment explanation
Indices: 130437--130476 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
130427 TGGGGGCTGC
*
130437 CCGGTTGCGACCTGG-GGGTA
1 CCGGTCGCGACCTGGTGGGTA
130457 CCGGTCGCGACCTGGTGGGT
1 CCGGTCGCGACCTGGTGGGT
130477 GCTGCCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.07, C:0.28, G:0.45, T:0.20
Consensus pattern (21 bp):
CCGGTCGCGACCTGGTGGGTA
Found at i:130769 original size:20 final size:21
Alignment explanation
Indices: 130740--130780 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
130730 TGTTTTTGTT
130740 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
130759 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
130781 AAGAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:130916 original size:13 final size:13
Alignment explanation
Indices: 130898--130987 Score: 126
Period size: 13 Copynumber: 6.9 Consensus size: 13
130888 ATAAACCCCT
*
130898 TGTATCGATACAC
1 TGTATCGATACAA
*
130911 TGTATCGATATAA
1 TGTATCGATACAA
*
130924 TGTATCGATACAC
1 TGTATCGATACAA
*
130937 TGTATCGATATAA
1 TGTATCGATACAA
*
130950 TGTATCGATACAC
1 TGTATCGATACAA
*
130963 TGTATCGATATAA
1 TGTATCGATACAA
130976 TGTATCGATACA
1 TGTATCGATACA
130988 GAGAATGCTG
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 66 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:130927 original size:26 final size:26
Alignment explanation
Indices: 130898--130987 Score: 180
Period size: 26 Copynumber: 3.5 Consensus size: 26
130888 ATAAACCCCT
130898 TGTATCGATACACTGTATCGATATAA
1 TGTATCGATACACTGTATCGATATAA
130924 TGTATCGATACACTGTATCGATATAA
1 TGTATCGATACACTGTATCGATATAA
130950 TGTATCGATACACTGTATCGATATAA
1 TGTATCGATACACTGTATCGATATAA
130976 TGTATCGATACA
1 TGTATCGATACA
130988 GAGAATGCTG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 64 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (26 bp):
TGTATCGATACACTGTATCGATATAA
Found at i:137091 original size:20 final size:20
Alignment explanation
Indices: 137066--137131 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
137056 TTACAAGCCA
137066 ATGTATCGATACATTTTGTG
1 ATGTATCGATACATTTTGTG
137086 ATGTATCGATACA-------
1 ATGTATCGATACATTTTGTG
137099 ATGTATCGATACATTTTGTG
1 ATGTATCGATACATTTTGTG
137119 ATGTATCGATACA
1 ATGTATCGATACA
137132 ATGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 13 0.33
20 26 0.67
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTGTG
Found at i:137104 original size:13 final size:13
Alignment explanation
Indices: 137086--137144 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
137076 ACATTTTGTG
137086 ATGTATCGATACA
1 ATGTATCGATACA
137099 ATGTATCGATAC-
1 ATGTATCGATACA
* *
137111 AT-T-TTG-T--G
1 ATGTATCGATACA
137119 ATGTATCGATACA
1 ATGTATCGATACA
137132 ATGTATCGATACA
1 ATGTATCGATACA
137145 TATTGTGTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
8 2 0.05
9 2 0.05
10 4 0.11
11 2 0.05
12 2 0.05
13 25 0.68
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.36
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:137106 original size:33 final size:33
Alignment explanation
Indices: 137064--137164 Score: 186
Period size: 33 Copynumber: 3.1 Consensus size: 33
137054 CGTTACAAGC
137064 CAATGTATCGATACATTTTGTGATGTATCGATA
1 CAATGTATCGATACATTTTGTGATGTATCGATA
137097 CAATGTATCGATACATTTTGTGATGTATCGATA
1 CAATGTATCGATACATTTTGTGATGTATCGATA
*
137130 CAATGTATCGATACATATTGTG-TGTATCGATA
1 CAATGTATCGATACATTTTGTGATGTATCGATA
137162 CAA
1 CAA
137165 ATTTAGCTAC
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 13 0.19
33 54 0.81
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.38
Consensus pattern (33 bp):
CAATGTATCGATACATTTTGTGATGTATCGATA
Found at i:137225 original size:20 final size:20
Alignment explanation
Indices: 137197--137247 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
137187 CTAATGACCT
* **
137197 GTATGGATACATTTTTTCAA
1 GTATCGATACATTTAGTCAA
*
137217 GTATCGATACATTTAGTCAT
1 GTATCGATACATTTAGTCAA
137237 GTATCGATACA
1 GTATCGATACA
137248 ATGTATTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (20 bp):
GTATCGATACATTTAGTCAA
Found at i:139863 original size:156 final size:155
Alignment explanation
Indices: 139571--139896 Score: 390
Period size: 156 Copynumber: 2.1 Consensus size: 155
139561 AAGTTCAAGG
* * *
139571 AAAATT-TCAAAAATGCCCTTAGGGTATACCTTCAACATAAAAGTACTCGATACCCCTAAAGGAC
1 AAAATTATC-AAAATACCCTTAGGGGATACCTTCAACATAAAAGTACTCGATACCCCTAAAAGAC
* * * *
139635 TTAAAAAGTATTATAGATGGGATGAACCTATCCTAAATGCCCACCTTCGACATAAAAGTAGATCC
65 TTAAAAAGGATTAAAAATGGGATGAACCTATCCTAAATGCCCACCTTCGACATAAAAGCAGA-CC
*
139700 ATGGACAACTTAGGACTCGATTCTA-A
129 ATGGACAACCTAGGACTCGATTCTAGA
* * * * * *
139726 AAAATTATCAAAATACCTTTAGGGGATATCTTCGACGTAGAAGTAC-CTGATATCCCTAAAAGAC
1 AAAATTATCAAAATACCCTTAGGGGATACCTTCAACATAAAAGTACTC-GATACCCCTAAAAGAC
* *
139790 TTAAAAAGGATTACAAAATGGGATGAACCTATCCTAAATTCCCACCTTTGACATAAAAGCAGA-C
65 TTAAAAAGGATTA-AAAATGGGATGAACCTATCCTAAATGCCCACCTTCGACATAAAAGCAGACC
* * *
139854 TTGGTGACAACCTAGGACTCGATTTTAGG
129 AT-G-GACAACCTAGGACTCGATTCTAGA
*
139883 AAAATTATGAAAAT
1 AAAATTATCAAAAT
139897 GCTCCTATAG
Statistics
Matches: 145, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
154 3 0.02
155 63 0.43
156 66 0.46
157 13 0.09
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (155 bp):
AAAATTATCAAAATACCCTTAGGGGATACCTTCAACATAAAAGTACTCGATACCCCTAAAAGACT
TAAAAAGGATTAAAAATGGGATGAACCTATCCTAAATGCCCACCTTCGACATAAAAGCAGACCAT
GGACAACCTAGGACTCGATTCTAGA
Found at i:142118 original size:9 final size:9
Alignment explanation
Indices: 142104--142131 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
142094 AATATTAGAT
142104 AAATTTTAA
1 AAATTTTAA
142113 AAATTTTAA
1 AAATTTTAA
142122 AAATTTTAA
1 AAATTTTAA
142131 A
1 A
142132 TCGAGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AAATTTTAA
Found at i:143807 original size:13 final size:13
Alignment explanation
Indices: 143789--143815 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
143779 ACATTATGTT
143789 TTGTATCGATACA
1 TTGTATCGATACA
143802 TTGTATCGATACA
1 TTGTATCGATACA
143815 T
1 T
143816 GCACAATTGT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:143890 original size:20 final size:20
Alignment explanation
Indices: 143865--143918 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
143855 CTACCATTGT
143865 TTGTATCGATACAT-A-GCACA
1 TTGTATCGATACATGATG-A-A
143885 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
143905 TTGTATCGATACAT
1 TTGTATCGATACAT
143919 TGCTTCTAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.91
21 2 0.06
22 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:146111 original size:34 final size:35
Alignment explanation
Indices: 146068--146136 Score: 131
Period size: 34 Copynumber: 2.0 Consensus size: 35
146058 GTCCGGGGTG
146068 ATTTTTCAAAATTTGACACACC-TTTTTTACATGT
1 ATTTTTCAAAATTTGACACACCTTTTTTTACATGT
146102 ATTTTTCAAAATTTGACACACCTTTTTTTACATGT
1 ATTTTTCAAAATTTGACACACCTTTTTTTACATGT
146137 GCTCTGCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 22 0.65
35 12 0.35
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (35 bp):
ATTTTTCAAAATTTGACACACCTTTTTTTACATGT
Found at i:148485 original size:21 final size:21
Alignment explanation
Indices: 148452--148494 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
148442 CTAAGTAAAA
148452 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
148473 ATAC-TATTGGTATTAATACAT
1 ATACGTATT-GTATCAATACAT
148494 A
1 A
148495 AGGTTGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:148557 original size:20 final size:19
Alignment explanation
Indices: 148532--148602 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
148522 ACCCTGAAAA
148532 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
148552 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
148571 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
148592 GTATCGATACA
1 GTATCGATACA
148603 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:148655 original size:53 final size:53
Alignment explanation
Indices: 148572--148708 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
148562 AAATTGCATA
148572 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
* *
148626 GTATCGATACACACAATATGTATCGATACAGGTCATTGGTAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
148679 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
148709 TTGGTAGTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 66 0.82
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:148751 original size:10 final size:10
Alignment explanation
Indices: 148732--148770 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
148722 AATCTCATTT
*
148732 TCACTGTTCA
1 TCACTATTCA
148742 TCACTATTCA
1 TCACTATTCA
*
148752 TCACTGTTCA
1 TCACTATTCA
148762 -CACTATTCA
1 TCACTATTCA
148771 CGTATCACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.26, C:0.31, G:0.05, T:0.38
Consensus pattern (10 bp):
TCACTATTCA
Found at i:148767 original size:19 final size:20
Alignment explanation
Indices: 148732--148770 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
148722 AATCTCATTT
148732 TCACTGTTCATCACTATTCA
1 TCACTGTTCATCACTATTCA
148752 TCACTGTTCA-CACTATTCA
1 TCACTGTTCATCACTATTCA
148771 CGTATCACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.26, C:0.31, G:0.05, T:0.38
Consensus pattern (20 bp):
TCACTGTTCATCACTATTCA
Found at i:148837 original size:13 final size:13
Alignment explanation
Indices: 148819--148857 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
148809 TCACTATTCA
148819 TGTATCGATACAT
1 TGTATCGATACAT
*
148832 TGTATCGATACAG
1 TGTATCGATACAT
148845 TGTATCGATACAT
1 TGTATCGATACAT
148858 CATAAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:149389 original size:34 final size:35
Alignment explanation
Indices: 149326--149392 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
149316 CTAAGTGATT
149326 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
149362 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
149393 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Done.