Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 38
Found at i:4420909 original size:20 final size:21
Alignment explanation
Indices: 4420860--4420902 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4420850 CACTCTCTCA
**
4420860 CCCATCTCCTACGAAATCCGT
1 CCCATCTCCGGCGAAATCCGT
4420881 CCCATCTCCGGCGAAATCCGT
1 CCCATCTCCGGCGAAATCCGT
4420902 C
1 C
4420903 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.44, G:0.14, T:0.21
Consensus pattern (21 bp):
CCCATCTCCGGCGAAATCCGT
Found at i:4421214 original size:20 final size:20
Alignment explanation
Indices: 4421165--4421223 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
4421155 TTTATTCTCT
* **
4421165 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
4421185 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
4421205 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
4421224 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:4421414 original size:25 final size:24
Alignment explanation
Indices: 4421360--4421414 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
4421350 TGTTTATTAT
* *
4421360 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
4421384 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
4421410 TGTTT
1 TGTTT
4421415 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:4422564 original size:18 final size:18
Alignment explanation
Indices: 4422543--4422588 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
4422533 TCCACTTCGT
4422543 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
4422561 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
4422579 GAGCCATCAC
1 GAGCCATCAC
4422589 ATGATCGACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.28, C:0.46, G:0.13, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:4423171 original size:20 final size:19
Alignment explanation
Indices: 4423142--4423219 Score: 67
Period size: 20 Copynumber: 4.3 Consensus size: 19
4423132 CGCAACACGA
*
4423142 AAATGACTATCGTAATGCGG
1 AAATGACTATCGCAATGC-G
*
4423162 AAATGGCTATCGCAATGCG
1 AAATGACTATCGCAATGCG
**
4423181 AAATGAAAATCGCAA--CG
1 AAATGACTATCGCAATGCG
*
4423198 AAA--A-AATCGCAATGCG
1 AAATGACTATCGCAATGCG
4423214 AAATGA
1 AAATGA
4423220 AAATCGCAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
14 8 0.16
15 1 0.02
16 5 0.10
17 5 0.10
18 1 0.02
19 13 0.27
20 16 0.33
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.18
Consensus pattern (19 bp):
AAATGACTATCGCAATGCG
Found at i:4423192 original size:19 final size:19
Alignment explanation
Indices: 4423170--4423228 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 19
4423160 GGAAATGGCT
4423170 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4423189 ATCGCAA--CG-AA--AAA
1 ATCGCAATGCGAAATGAAA
4423203 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4423222 ATCGCAA
1 ATCGCAA
4423229 CGACAAAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 10 0.29
16 4 0.11
17 4 0.11
19 17 0.49
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4423205 original size:14 final size:14
Alignment explanation
Indices: 4423186--4423242 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
4423176 ATGCGAAATG
4423186 AAAATCGCAACGAA
1 AAAATCGCAACGAA
4423200 AAAATCGCAATGCGAAA
1 AAAATCGCAA--CG-AA
*
4423217 TGAAAATCGCAACGAC
1 --AAAATCGCAACGAA
4423233 AAAATCGCAA
1 AAAATCGCAA
4423243 TGCGATTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 20 0.54
16 3 0.08
17 4 0.11
19 10 0.27
ACGTcount: A:0.53, C:0.21, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAA
Found at i:4423212 original size:33 final size:33
Alignment explanation
Indices: 4423170--4423247 Score: 147
Period size: 33 Copynumber: 2.4 Consensus size: 33
4423160 GGAAATGGCT
4423170 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
*
4423203 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
4423236 ATCGCAATGCGA
1 ATCGCAATGCGA
4423248 TTTGTGTTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
Found at i:4423319 original size:20 final size:20
Alignment explanation
Indices: 4423285--4423379 Score: 147
Period size: 20 Copynumber: 4.8 Consensus size: 20
4423275 TTGCGATTTT
4423285 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
*
4423304 CATTTCCGCGTTGCGATAGC
1 CATTTCCGCATTGCGATAGC
*
4423324 CATTTCCGCGTTGCGATAGC
1 CATTTCCGCATTGCGATAGC
*
4423344 CATTTCCGCATTGCGATAGT
1 CATTTCCGCATTGCGATAGC
*
4423364 CATTTTCGCATTGCGA
1 CATTTCCGCATTGCGA
4423380 AAGTAAGTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
19 5 0.07
20 66 0.93
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (20 bp):
CATTTCCGCATTGCGATAGC
Found at i:4423390 original size:20 final size:20
Alignment explanation
Indices: 4423350--4423405 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
4423340 TAGCCATTTC
* * *
4423350 CGCATTGCGATAGTCATTTT
1 CGCATTGCGAAAGTAAGTTT
4423370 CGCATTGCGAAAGTAAGTTT
1 CGCATTGCGAAAGTAAGTTT
**
4423390 CGTGTTGCGAAAGTAA
1 CGCATTGCGAAAGTAA
4423406 ACTATTCTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (20 bp):
CGCATTGCGAAAGTAAGTTT
Found at i:4423397 original size:60 final size:59
Alignment explanation
Indices: 4423285--4423399 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 59
4423275 TTGCGATTTT
* * *
4423285 CATTTCGCATTGCGATAGCCATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGATAGC
1 CATTTCGCATTGCGATAGCCATTTCCGCATTGCGAAAGCAATTTCCGCGTTGCGATAGC
* * * *
4423344 CATTTCCGCATTGCGATAGTCATTTTCGCATTGCGAAAGTAAGTTT-CGTGTTGCGA
1 CATTT-CGCATTGCGATAGCCATTTCCGCATTGCGAAAGCAA-TTTCCGCGTTGCGA
4423400 AAGTAAACTA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
59 5 0.11
60 39 0.83
61 3 0.06
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.33
Consensus pattern (59 bp):
CATTTCGCATTGCGATAGCCATTTCCGCATTGCGAAAGCAATTTCCGCGTTGCGATAGC
Found at i:4423807 original size:21 final size:21
Alignment explanation
Indices: 4423747--4423807 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
4423737 GACTCAGCTG
*
4423747 TCATCCTTCAAGAGT-CCCTT
1 TCATCCTTCAAGAGTCCCCTA
* * *
4423767 TCAATCGTTCAAAAGGCCCCTA
1 TC-ATCCTTCAAGAGTCCCCTA
*
4423789 TCATCCCTCAAGAGTCCCC
1 TCATCCTTCAAGAGTCCCC
4423808 CCCACCGTTC
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
20 2 0.06
21 23 0.74
22 6 0.19
ACGTcount: A:0.25, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
TCATCCTTCAAGAGTCCCCTA
Found at i:4423834 original size:41 final size:42
Alignment explanation
Indices: 4423744--4423853 Score: 105
Period size: 41 Copynumber: 2.6 Consensus size: 42
4423734 CCCGACTCAG
* ** * *
4423744 CTGTCATCCTTCAAGAGTCCCTTTCAATCGTTCAAAAGGCCC
1 CTGTCATCCCTCAAGAGTCCCTCCCAACCGTTCAAAAGGCCA
* * *
4423786 CTATCATCCCTCAAGAGTCCC-CCCCACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCTCCCAACCGTTCAAAAGGCCA
** *
4423827 CTGTCATCGTTGAAGAGGTCCCTCCCA
1 CTGTCATCCCTCAAGA-GTCCCTCCCA
4423854 CCATTCCAGA
Statistics
Matches: 53, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
41 26 0.49
42 24 0.45
43 3 0.06
ACGTcount: A:0.23, C:0.37, G:0.16, T:0.24
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCTCCCAACCGTTCAAAAGGCCA
Found at i:4425483 original size:19 final size:19
Alignment explanation
Indices: 4425412--4425476 Score: 121
Period size: 19 Copynumber: 3.4 Consensus size: 19
4425402 GCAACGAGAG
*
4425412 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATAAA
4425431 AATCGCAATGCGAAATAAA
1 AATCGCAATGCGAAATAAA
4425450 AATCGCAATGCGAAATAAA
1 AATCGCAATGCGAAATAAA
4425469 AATCGCAA
1 AATCGCAA
4425477 CGAGAAAATC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.17
Consensus pattern (19 bp):
AATCGCAATGCGAAATAAA
Found at i:4425897 original size:41 final size:42
Alignment explanation
Indices: 4425791--4425913 Score: 153
Period size: 41 Copynumber: 3.0 Consensus size: 42
4425781 CGTTGCGAAA
* * * **
4425791 GTCAGAATCGCGTTGCGAAAGTCAGAATCGCGTTGCGA--AA
1 GTCAGTATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTT
*
4425831 GTCAGTATCGCGTTGCGAAAATCAGTATCGCATTGCGATTTT
1 GTCAGTATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTT
* *
4425873 GT-ATTATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTT
1 GTCAGTATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTT
4425914 CCAAATTCGC
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
40 34 0.47
41 36 0.50
42 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
GTCAGTATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTT
Found at i:4425910 original size:20 final size:20
Alignment explanation
Indices: 4425781--4425909 Score: 152
Period size: 20 Copynumber: 6.4 Consensus size: 20
4425771 TTCAGAATCT
*
4425781 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGTATCG
*
4425801 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGTATCG
4425821 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
*
4425841 CGTTGCGAAAATCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
* ** *
4425861 CATTGCGATTTTGT-ATTATCG
1 CGTTGCGA--AAGTCAGTATCG
*
4425882 CGTTGCGATAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
*
4425902 CATTGCGA
1 CGTTGCGA
4425910 TTTTCCAAAT
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
19 3 0.03
20 78 0.82
21 13 0.14
22 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGTATCG
Found at i:4425929 original size:41 final size:41
Alignment explanation
Indices: 4425797--4425931 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
4425787 GAAAGTCAGA
* * *** *
4425797 ATCGCGTTGCGA-AAGTCAGAATCGCGTTGCGAAAGTC-AGT
1 ATCGCGTTGCGATAA-TCAGTATCGCATTGCGATTTTCAAAT
* ** *
4425837 ATCGCGTTGCGAAAATCAGTATCGCATTGCGATTTTGTATT
1 ATCGCGTTGCGATAATCAGTATCGCATTGCGATTTTCAAAT
*
4425878 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT
1 ATCGCGTTGCGATAATCAGTATCGCATTGCGATTTT-CAAAT
*
4425920 -TCGCATTGCGAT
1 ATCGCGTTGCGAT
4425932 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
40 28 0.35
41 49 0.62
42 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (41 bp):
ATCGCGTTGCGATAATCAGTATCGCATTGCGATTTTCAAAT
Found at i:4425943 original size:20 final size:21
Alignment explanation
Indices: 4425899--4425950 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
4425889 ATAGTCAGTA
*
4425899 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
4425920 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
4425940 TCGCATTGCGA
1 TCGCATTGCGA
4425951 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:4425992 original size:21 final size:22
Alignment explanation
Indices: 4425940--4425992 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
4425930 ATTTACTTAT
4425940 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
** *
4425961 TCGCAACGCGAAATT-GTAAAA
1 TCGCATTGCGAAATTGGGAAAA
4425982 TCGCATTGCGA
1 TCGCATTGCGA
4425993 TAGTCATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:4426606 original size:15 final size:15
Alignment explanation
Indices: 4426582--4426620 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
4426572 CTGGATGTTA
4426582 CGGATACCCGATAAT
1 CGGATACCCGATAAT
* *
4426597 CGGGTACCCGGTAAT
1 CGGATACCCGATAAT
4426612 CGGATACCC
1 CGGATACCC
4426621 ATTTTTTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.18
Consensus pattern (15 bp):
CGGATACCCGATAAT
Found at i:4428312 original size:14 final size:14
Alignment explanation
Indices: 4428290--4428321 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4428280 CATCTGAGGG
4428290 GCATCGATACCATT
1 GCATCGATACCATT
*
4428304 GCATGGATACCATT
1 GCATCGATACCATT
4428318 GCAT
1 GCAT
4428322 AGGGGTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (14 bp):
GCATCGATACCATT
Found at i:4431143 original size:21 final size:21
Alignment explanation
Indices: 4431092--4431196 Score: 113
Period size: 21 Copynumber: 4.8 Consensus size: 21
4431082 TCGGTACCAA
*
4431092 TAGGTGGTATCGATACCCATTC
1 TAGG-GGTATCGATACCTATTC
* *
4431114 AAGGGGGTATCGATACCTATTG
1 TA-GGGGTATCGATACCTATTC
*
4431136 TAGGGGTATCAATACCTATTC
1 TAGGGGTATCGATACCTATTC
*
4431157 AAATGGGGTATCGATACC-ATTC
1 -TA-GGGGTATCGATACCTATTC
4431179 TCAGGGGTATCGATACCT
1 T-AGGGGTATCGATACCT
4431197 TATGCACAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
21 31 0.45
22 23 0.33
23 15 0.22
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (21 bp):
TAGGGGTATCGATACCTATTC
Found at i:4431185 original size:44 final size:43
Alignment explanation
Indices: 4431092--4431196 Score: 140
Period size: 44 Copynumber: 2.4 Consensus size: 43
4431082 TCGGTACCAA
* *
4431092 TAGGTGGTATCGATACCCATTCAAGGGGGTATCGATACCTATTG
1 TAGG-GGTATCGATACCTATTCAAGGGGGTATCGATACCTATTC
* *
4431136 TAGGGGTATCAATACCTATTCAAATGGGGTATCGATACC-ATTC
1 TAGGGGTATCGATACCTATTC-AAGGGGGTATCGATACCTATTC
4431179 TCAGGGGTATCGATACCT
1 T-AGGGGTATCGATACCT
4431197 TATGCACAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
43 19 0.35
44 35 0.65
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
TAGGGGTATCGATACCTATTCAAGGGGGTATCGATACCTATTC
Found at i:4435023 original size:22 final size:21
Alignment explanation
Indices: 4434981--4435020 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4434971 GAGTTTATTT
*
4434981 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
4435002 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
4435021 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:4439002 original size:249 final size:243
Alignment explanation
Indices: 4438559--4439003 Score: 633
Period size: 249 Copynumber: 1.8 Consensus size: 243
4438549 ATTAGTGTAT
* *
4438559 GAATTCTGAGAATTCATATATGATGAGGTTTTTATTGCTACTTTTATTGATTCTAAAGGTAAGCA
1 GAATTCTGAGAATTCATATATGATGAAGTTTTTATTGCTACTTTTATTGATTCGAAAGGTAAGCA
* *
4438624 ATTGCCGATCAATAACTAAACAGGTTTTCTTTGTTTGCATATTATTGTTCAGTGTATTTCGTTTC
66 ATTGCCAATCAATAACTAAACAGGTTTTCTTTGTTTGCATATTATTGATCAGTGTATTTCGTTTC
* * * *
4438689 GAATATGAATTGTGAAAATTACACTGTTTTGAAAAATTGTCTTGATATTTCTATTGGTCTTATTG
131 GAATATGAACTGTGAAAATTACACTGTTTTGAAAAATTGCCTTGATATTTATATTGGCCTTATTG
4438754 ATGTATGATTATACGAATTTGGTTGTTATTTGTATACCGATTCTCTAC
196 ATGTATGATTATACGAATTTGGTTGTTATTTGTATACCGATTCTCTAC
* * * * *
4438802 GAATTCTGAGAATT-TTACTATGATGAAGTTTTTGTTGCTATTTTTATTGATTGGAAAGGTTAGC
1 GAATTCTGAGAATTCATA-TATGATGAAGTTTTTATTGCTACTTTTATTGATTCGAAAGGTAAGC
* * *
4438866 AATTGTCAATTAATAATTAAACAGGTTTTC-TTGTTTGCATATGAATTTGTATTGATCAGTGTAT
65 AATTGCCAATCAATAACTAAACAGGTTTTCTTTGTTTGC--AT--A--T-TATTGATCAGTGTAT
* * *
4438930 TTCGTTTTGAATATGAACTGTGAAAATTACACTGTTTTGAAAGATTGCCTTGGTATTTATATTGG
123 TTCGTTTCGAATATGAACTGTGAAAATTACACTGTTTTGAAAAATTGCCTTGATATTTATATTGG
4438995 CCTTATTGA
188 CCTTATTGA
4439004 ATTTTTTCCC
Statistics
Matches: 175, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
242 10 0.06
243 80 0.46
244 2 0.01
246 1 0.01
248 1 0.01
249 81 0.46
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (243 bp):
GAATTCTGAGAATTCATATATGATGAAGTTTTTATTGCTACTTTTATTGATTCGAAAGGTAAGCA
ATTGCCAATCAATAACTAAACAGGTTTTCTTTGTTTGCATATTATTGATCAGTGTATTTCGTTTC
GAATATGAACTGTGAAAATTACACTGTTTTGAAAAATTGCCTTGATATTTATATTGGCCTTATTG
ATGTATGATTATACGAATTTGGTTGTTATTTGTATACCGATTCTCTAC
Found at i:4441880 original size:31 final size:31
Alignment explanation
Indices: 4441845--4441934 Score: 88
Period size: 31 Copynumber: 3.2 Consensus size: 31
4441835 ATCAAAATTT
4441845 TATGTATAGAATTGCATAAAGTCAAAGTTAA
1 TATGTATAGAATTGCATAAAGTCAAAGTTAA
* ** *
4441876 TATGTTTAG---TG-ATTTA-TGAAA---AA
1 TATGTATAGAATTGCATAAAGTCAAAGTTAA
4441899 TATGTATAGAATTGCATAAAGTCAAAGTTAA
1 TATGTATAGAATTGCATAAAGTCAAAGTTAA
4441930 TATGT
1 TATGT
4441935 GACATTACAT
Statistics
Matches: 43, Mismatches: 8, Indels: 16
0.64 0.12 0.24
Matches are distributed among these distances:
23 10 0.23
26 6 0.14
27 6 0.14
28 6 0.14
31 15 0.35
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.37
Consensus pattern (31 bp):
TATGTATAGAATTGCATAAAGTCAAAGTTAA
Found at i:4442893 original size:21 final size:21
Alignment explanation
Indices: 4442867--4442908 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4442857 AACATCGTAG
*
4442867 ACTGTCACATTAATACAATAA
1 ACTGTCACATCAATACAATAA
4442888 ACTGTCACATCAATACAATAA
1 ACTGTCACATCAATACAATAA
4442909 TGGTAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.21, G:0.05, T:0.26
Consensus pattern (21 bp):
ACTGTCACATCAATACAATAA
Found at i:4444605 original size:12 final size:12
Alignment explanation
Indices: 4444588--4444620 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
4444578 AATAGTGATC
4444588 AGTGACCGAAAT
1 AGTGACCGAAAT
4444600 AGTGACCGAAAT
1 AGTGACCGAAAT
*
4444612 AGTGCCCGA
1 AGTGACCGA
4444621 CGGTGGTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.36, C:0.21, G:0.27, T:0.15
Consensus pattern (12 bp):
AGTGACCGAAAT
Found at i:4445185 original size:118 final size:119
Alignment explanation
Indices: 4445063--4445276 Score: 256
Period size: 118 Copynumber: 1.8 Consensus size: 119
4445053 ATATTTTATA
* *
4445063 ATATTTTGAATTAAGACCATTAATTTAT-ATATTTTTACAA-TTTAATCAC-TGAGGTTTAATAT
1 ATATTTAGAATTAAGACCATTAATTT-TGATA-TTTTACAATTTTAATC-CTTGAGGTTTAAAAT
** * *
4445125 TTTAATTTTAAATAATA-TTTTAGGATTATTTACACTAATAATACCTAGATTTAATG
63 AATAAATTTAAATAATATTTTTAGAATTATTTACACTAATAATACCTAGATTTAATG
* *** * *
4445181 ATATTTAGAATTAGGATTTTTAATTTTGATATTTTACAATTTTAATCCTTTAGTTTTAAAATAAT
1 ATATTTAGAATTAAGACCATTAATTTTGATATTTTACAATTTTAATCCTTGAGGTTTAAAATAAT
*
4445246 AAATTTAAATATTATTTTTAGAATTATTTAC
66 AAATTTAAATAATATTTTTAGAATTATTTAC
4445277 TATTATAGTA
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
117 10 0.13
118 54 0.68
119 15 0.19
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.49
Consensus pattern (119 bp):
ATATTTAGAATTAAGACCATTAATTTTGATATTTTACAATTTTAATCCTTGAGGTTTAAAATAAT
AAATTTAAATAATATTTTTAGAATTATTTACACTAATAATACCTAGATTTAATG
Found at i:4445636 original size:20 final size:20
Alignment explanation
Indices: 4445613--4445684 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
4445603 TTTACATTCA
4445613 CATCTTTGCATTTGCATTTG
1 CATCTTTGCATTTGCATTTG
* * * *
4445633 CATCTTTACGTTTGTATTTA
1 CATCTTTGCATTTGCATTTG
*
4445653 CAT-TTT-CATTTTTTACATTTG
1 CATCTTTGCA---TTTGCATTTG
4445674 CATCTTTGCAT
1 CATCTTTGCAT
4445685 AGTTATATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
18 1 0.03
19 3 0.08
20 20 0.51
21 10 0.26
22 3 0.08
23 2 0.05
ACGTcount: A:0.18, C:0.18, G:0.10, T:0.54
Consensus pattern (20 bp):
CATCTTTGCATTTGCATTTG
Found at i:4445991 original size:42 final size:42
Alignment explanation
Indices: 4445930--4446013 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
4445920 AGAGATGATT
* * * * *
4445930 GATCAAGTAAAAAAGTTCCAGGGTGATTCAAATGAACAAATG
1 GATCAAGAAAAAAAATTCCAAGATGATTCAAAAGAACAAATG
*
4445972 GATCAAGAAAAAAAATTCCAAGATGATTCAAAAGAGCAAATG
1 GATCAAGAAAAAAAATTCCAAGATGATTCAAAAGAACAAATG
4446014 ACAAAACTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (42 bp):
GATCAAGAAAAAAAATTCCAAGATGATTCAAAAGAACAAATG
Found at i:4449504 original size:31 final size:31
Alignment explanation
Indices: 4449469--4449527 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
4449459 ACATTTACTT
*
4449469 TTTAAATGCATCAATTTTATCC-TTTAACTCA
1 TTTAAATACATCAATTTTA-CCATTTAACTCA
*
4449500 TTTAATTACATCAATTTTACCATTTAAC
1 TTTAAATACATCAATTTTACCATTTAAC
4449528 CTTTATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.34, C:0.19, G:0.02, T:0.46
Consensus pattern (31 bp):
TTTAAATACATCAATTTTACCATTTAACTCA
Found at i:4449969 original size:21 final size:21
Alignment explanation
Indices: 4449940--4449986 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
4449930 ATTCTGACTA
4449940 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
4449961 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
4449982 TCGCA
1 TCGCA
4449987 ATTCAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:4450007 original size:20 final size:20
Alignment explanation
Indices: 4449982--4450085 Score: 102
Period size: 20 Copynumber: 5.2 Consensus size: 20
4449972 TTTTCCTAAT
* * *
4449982 TCGCAATTCAAATATGTAAA
1 TCGCAATGCGAATACGTAAA
** *
4450002 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
4450023 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
4450043 TCACAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
4450063 TCGCAACGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
4450083 TCG
1 TCG
4450086 AAACTCGAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
19 1 0.01
20 52 0.75
21 16 0.23
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:4450094 original size:20 final size:20
Alignment explanation
Indices: 4450058--4450098 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4450048 ATGCGAATAC
*
4450058 GTAAATCGCAACGCGAATCT
1 GTAAATCGAAACGCGAATCT
*
4450078 GTAAATCGAAACTCGAATCT
1 GTAAATCGAAACGCGAATCT
4450098 G
1 G
4450099 ACTATCACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (20 bp):
GTAAATCGAAACGCGAATCT
Found at i:4450120 original size:20 final size:20
Alignment explanation
Indices: 4450095--4450168 Score: 139
Period size: 20 Copynumber: 3.7 Consensus size: 20
4450085 GAAACTCGAA
*
4450095 TCTGACTATCACAACGAGAT
1 TCTGACTATCGCAACGAGAT
4450115 TCTGACTATCGCAACGAGAT
1 TCTGACTATCGCAACGAGAT
4450135 TCTGACTATCGCAACGAGAT
1 TCTGACTATCGCAACGAGAT
4450155 TCTGACTATCGCAA
1 TCTGACTATCGCAA
4450169 TACTGAATTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (20 bp):
TCTGACTATCGCAACGAGAT
Found at i:4453495 original size:20 final size:20
Alignment explanation
Indices: 4453470--4453554 Score: 136
Period size: 20 Copynumber: 4.2 Consensus size: 20
4453460 CAACGCGGAA
4453470 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
4453490 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
*
4453510 ATCGCAACGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
4453530 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
4453550 ATCGC
1 ATCGC
4453555 GACGAGAGAA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 57 0.95
21 3 0.05
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:4453618 original size:34 final size:33
Alignment explanation
Indices: 4453530--4453625 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
4453520 GGAATTGACT
* ** *
4453530 ATCGCAACGCGGAAATGACTATCGCGACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
4453564 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
4453597 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
4453626 CGAATTTAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.41, C:0.21, G:0.25, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:4453621 original size:20 final size:19
Alignment explanation
Indices: 4453563--4453629 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
4453553 GCGACGAGAG
4453563 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4453582 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
4453596 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
4453616 AATCGCAACGCGAA
1 AATCGCAATGCGAA
4453630 TTTAGTTTCG
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
14 8 0.21
16 5 0.13
17 2 0.05
18 3 0.08
19 10 0.26
20 11 0.28
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:4453697 original size:33 final size:33
Alignment explanation
Indices: 4453640--4453735 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
4453630 TTTAGTTTCG
4453640 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
*
4453674 CGTTGCGATTTTCATTTCGCATTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
** *
4453707 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
4453736 AGTTTGTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 33 0.59
34 23 0.41
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:4453860 original size:14 final size:14
Alignment explanation
Indices: 4453841--4453877 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4453831 CATCAATTAA
4453841 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
4453855 ACAAATCATCTTTT
1 ACAAATCAACATTT
4453869 ACAAATCAA
1 ACAAATCAA
4453878 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:4455351 original size:42 final size:42
Alignment explanation
Indices: 4455272--4455364 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
4455262 CCTCTTCAAC
* * *
4455272 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* * **
4455314 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAAC
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGAGG
4455356 GATGACAGG
1 GATGACAGG
4455365 TGAGTCGGGC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:4455867 original size:20 final size:20
Alignment explanation
Indices: 4455844--4455912 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
4455834 GAAACTTAAA
4455844 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
4455864 ATCGCAACGTGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
4455884 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
4455904 ATCCCAACG
1 ATCGCAACG
4455913 AGAGAATCGC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:4455976 original size:34 final size:34
Alignment explanation
Indices: 4455935--4456090 Score: 145
Period size: 34 Copynumber: 4.4 Consensus size: 34
4455925 TGCGATTTTC
4455935 ATTTCGCATTGCGATTCTTTCGTTGCGATAGTCA
1 ATTTCGCATTGCGATTCTTTCGTTGCGATAGTCA
* *
4455969 AATTCGCACTGCGATAGTCATTTTCGCATTGCGATAGTCA
1 ATTTCGCATTGCGAT--TC--TTTCG--TTGCGATAGTCA
* * * **
4456009 TTTTCGCGTTGCGATT-TTGTTGTTGCGATTTTC-
1 ATTTCGCATTGCGATTCTT-TCGTTGCGATAGTCA
*
4456042 ATTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
1 ATTTCGCATTGCGATTCTTTCGTTGCGATAGTCA
* *
4456076 TTTTCGCGTTGCGAT
1 ATTTCGCATTGCGAT
4456091 AGTCATTTTC
Statistics
Matches: 96, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
33 25 0.26
34 36 0.38
35 2 0.02
36 4 0.04
38 6 0.06
40 23 0.24
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.42
Consensus pattern (34 bp):
ATTTCGCATTGCGATTCTTTCGTTGCGATAGTCA
Found at i:4456009 original size:20 final size:20
Alignment explanation
Indices: 4455957--4456113 Score: 126
Period size: 20 Copynumber: 8.5 Consensus size: 20
4455947 GATTCTTTCG
**
4455957 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
4455977 CTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
4455997 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
4456017 TTGCGAT--T--TTGTT-G--
1 TTGCGATAGTCATT-TTCGCA
**
4456031 TTGCGATTTTCA-TTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
4456050 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
4456064 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
*
4456084 TTGCGATAGTCATTTTCGTA
1 TTGCGATAGTCATTTTCGCA
4456104 TTGCGATAGT
1 TTGCGATAGT
4456114 AAACTATTCT
Statistics
Matches: 114, Mismatches: 9, Indels: 28
0.75 0.06 0.19
Matches are distributed among these distances:
14 14 0.12
16 12 0.11
17 6 0.05
18 5 0.04
19 7 0.06
20 70 0.61
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.41
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:4458012 original size:20 final size:20
Alignment explanation
Indices: 4457989--4458078 Score: 101
Period size: 20 Copynumber: 4.5 Consensus size: 20
4457979 TCTGAAACTT
4457989 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
4458009 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * **
4458029 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACACGAAAATG
** *
4458049 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
4458068 AAAATCGCAAC
1 AAAATCGCAAC
4458079 GACAGAATCG
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 12 0.20
20 49 0.80
ACGTcount: A:0.46, C:0.23, G:0.17, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:4458477 original size:22 final size:22
Alignment explanation
Indices: 4458415--4458480 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
4458405 TGACCGTGAA
* * *
4458415 TGATTTCGCCGGAGATGGAGAT
1 TGATTTCGTCGGAGATGGGGAC
*
4458437 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
4458459 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
4458481 GGATGTCGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.21, C:0.14, G:0.39, T:0.26
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:4458710 original size:20 final size:20
Alignment explanation
Indices: 4458687--4458782 Score: 73
Period size: 20 Copynumber: 5.2 Consensus size: 20
4458677 ATTCGCGTAA
* *
4458687 CGATTTATATGTTCGCATTG
1 CGATTTACATATTCGCATTG
*
4458707 CGATTTACGTATTCGCATTG
1 CGATTTACATATTCGCATTG
*
4458727 CGATTTACGTA-TCG-ATT-
1 CGATTTACATATTCGCATTG
*
4458744 ---TTCTA-A-ATTCGCGTTG
1 CGATT-TACATATTCGCATTG
*
4458760 CGATTTACGTATTCGCATTG
1 CGATTTACATATTCGCATTG
4458780 CGA
1 CGA
4458783 ATTAGGAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
13 1 0.02
14 5 0.08
15 4 0.07
18 5 0.08
19 5 0.08
20 40 0.67
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.41
Consensus pattern (20 bp):
CGATTTACATATTCGCATTG
Found at i:4458804 original size:21 final size:21
Alignment explanation
Indices: 4458780--4458819 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4458770 ATTCGCATTG
4458780 CGAATTAGGAAAATCGCAACA
1 CGAATTAGGAAAATCGCAACA
*
4458801 CGAATTTGGAAAATCGCAA
1 CGAATTAGGAAAATCGCAA
4458820 TGCGATAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (21 bp):
CGAATTAGGAAAATCGCAACA
Found at i:4470039 original size:23 final size:23
Alignment explanation
Indices: 4470009--4470080 Score: 144
Period size: 23 Copynumber: 3.1 Consensus size: 23
4469999 ATATTTTTTA
4470009 AAAAATGAAGGCAGTTCTAAAAG
1 AAAAATGAAGGCAGTTCTAAAAG
4470032 AAAAATGAAGGCAGTTCTAAAAG
1 AAAAATGAAGGCAGTTCTAAAAG
4470055 AAAAATGAAGGCAGTTCTAAAAG
1 AAAAATGAAGGCAGTTCTAAAAG
4470078 AAA
1 AAA
4470081 TTATACAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.54, C:0.08, G:0.21, T:0.17
Consensus pattern (23 bp):
AAAAATGAAGGCAGTTCTAAAAG
Found at i:4470466 original size:34 final size:33
Alignment explanation
Indices: 4470428--4470503 Score: 107
Period size: 34 Copynumber: 2.3 Consensus size: 33
4470418 AACTTATCTT
*
4470428 TTAGTATATAAGAACAGTAACTTATCTTTTATCA
1 TTAGTATATAAGAACAATAACTTATCTTTTAT-A
* *
4470462 TTAGTAGATAAGAACAATAATTTATCTTTTATA
1 TTAGTATATAAGAACAATAACTTATCTTTTATA
*
4470495 TTTGTATAT
1 TTAGTATAT
4470504 TATTATTGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 8 0.22
34 29 0.78
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (33 bp):
TTAGTATATAAGAACAATAACTTATCTTTTATA
Found at i:4473125 original size:60 final size:60
Alignment explanation
Indices: 4473009--4473125 Score: 166
Period size: 60 Copynumber: 1.9 Consensus size: 60
4472999 ATCATTTCGT
* *
4473009 AACTTTCAATAGTCAAAGGACTCAATAAAATAATACTATATAGTCGAGGGATCATTTTAC
1 AACTTTCAATAGTCAAAGGACTCAACAAAATAATACTATATAGTCGAGGGACCATTTTAC
* *
4473069 AACTTTTAATAGTCAAAGGACTTAACAAAATAATA-TCATATAGTCTGA-GGACCATTT
1 AACTTTCAATAGTCAAAGGACTCAACAAAATAATACT-ATATAGTC-GAGGGACCATTT
4473126 ATGTTCGTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
59 1 0.02
60 48 0.94
61 2 0.04
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.31
Consensus pattern (60 bp):
AACTTTCAATAGTCAAAGGACTCAACAAAATAATACTATATAGTCGAGGGACCATTTTAC
Found at i:4475733 original size:42 final size:41
Alignment explanation
Indices: 4475657--4475756 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 41
4475647 AGGTCTTCTG
* * *
4475657 GATGGCCCGAAGGACTTATCATCTTTCTCAAAAGACTTA-T
1 GATGGCCCGAAGGACTTAGCATCATGCTCAAAAGACTTACT
* *
4475697 AGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACT
1 -GATGGCCCGAAGGACTT-AGCATCATGCTCAAAAGACTTACT
4475740 GATGGCCCGAAGGACTT
1 GATGGCCCGAAGGACTT
4475757 TTATTGATTC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 15 0.30
42 34 0.68
43 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTAGCATCATGCTCAAAAGACTTACT
Found at i:4476207 original size:36 final size:36
Alignment explanation
Indices: 4475863--4476209 Score: 302
Period size: 36 Copynumber: 9.4 Consensus size: 36
4475853 ATGTTGGTCC
* *
4475863 CTCAAGTGAGACAAGGT-TTGTTTTAAGAAAAACAAT
1 CTCAAGTGAGATAA-ATCTTGTTTTAAGAAAAACAAT
* * * **
4475899 CTTAAGTGACG-TAAAATTATTGTTTCAAGTGAAACAAT
1 CTCAAGTGA-GAT-AAA-TCTTGTTTTAAGAAAAACAAT
* *
4475937 CTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAAT
1 CTCAAGTGAGATAAATCTTGTTTTAAGAAAAACAAT
* ** *** *
4475973 CTCAAGTGAGATAGATCTCCTGTTTCGAGTGGAACTAT
1 CTCAAGTGAGATAAATCT--TGTTTTAAGAAAAACAAT
* *
4476011 CTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAAT
1 CTCAAGTGAGATAAATCTTGTTTTAAGAAAAACAAT
** ** *
4476047 CTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTAT
1 CTCAAGTGAGATAAATC-T-TGTTTTAAGAAAAACAAT
* * *
4476085 CTCAAGCGAGATGAATATTGTTTTAAGAAAAACAAT
1 CTCAAGTGAGATAAATCTTGTTTTAAGAAAAACAAT
* * * * *
4476121 TTCAAGTGAGATAAAATTTCTGTTTCAAGTAAAACTAT
1 CTCAAGTGAGAT-AAATCT-TGTTTTAAGAAAAACAAT
*
4476159 CTCAAGCGAGATAAATCTTGTTTTAAGAAAAACAAT
1 CTCAAGTGAGATAAATCTTGTTTTAAGAAAAACAAT
4476195 CTCAAGTGAGATAAA
1 CTCAAGTGAGATAAA
4476210 ATTTCTGTAT
Statistics
Matches: 240, Mismatches: 60, Indels: 22
0.75 0.19 0.07
Matches are distributed among these distances:
36 119 0.50
37 18 0.08
38 103 0.43
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.30
Consensus pattern (36 bp):
CTCAAGTGAGATAAATCTTGTTTTAAGAAAAACAAT
Found at i:4476255 original size:74 final size:74
Alignment explanation
Indices: 4475880--4476217 Score: 513
Period size: 74 Copynumber: 4.6 Consensus size: 74
4475870 GAGACAAGGT
* *
4475880 TTGTTTTAAGAAAAACAATCTTAAGTGACG-TAAAATTAT-TGTTTCAAGTGAAACAATCTCAAG
1 TTGTTTTAAGAAAAACAATCTCAAGTGA-GATAAAATT-TCTGTTTCAAGTGAAACTATCTCAAG
4475943 CGAGATGAATC
64 CGAGATGAATC
* * * *
4475954 TTGTTTTAAGAAAAACAATCTCAAGTGAGAT-AGATCTCCTGTTTCGAGTGGAACTATCTCAAGC
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAAT-TTCTGTTTCAAGTGAAACTATCTCAAGC
4476018 GAGATGAATC
65 GAGATGAATC
*
4476028 TTGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATCTTCTGTTTCGAGTGAAACTATCTCAAGC
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAAT-TTCTGTTTCAAGTGAAACTATCTCAAGC
*
4476092 GAGATGAATA
65 GAGATGAATC
* *
4476102 TTGTTTTAAGAAAAACAATTTCAAGTGAGATAAAATTTCTGTTTCAAGTAAAACTATCTCAAGCG
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGTTTCAAGTGAAACTATCTCAAGCG
*
4476167 AGATAAATC
66 AGATGAATC
4476176 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGT
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGT
4476218 ATTAAATGAG
Statistics
Matches: 244, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
73 4 0.02
74 236 0.97
75 4 0.02
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.32
Consensus pattern (74 bp):
TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGTTTCAAGTGAAACTATCTCAAGCG
AGATGAATC
Found at i:4479531 original size:17 final size:14
Alignment explanation
Indices: 4479496--4479526 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
4479486 TTTGTGCCAA
4479496 CTTGCTCCTCATTT
1 CTTGCTCCTCATTT
4479510 CTTGCTCCTCATTT
1 CTTGCTCCTCATTT
4479524 CTT
1 CTT
4479527 CTTGCATCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.35, G:0.06, T:0.52
Consensus pattern (14 bp):
CTTGCTCCTCATTT
Found at i:4482106 original size:20 final size:20
Alignment explanation
Indices: 4482034--4482108 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
4482024 AACTGACTCA
4482034 TCGCCA-ACCGTCGTCCCGG
1 TCGCCACACCGTCGTCCCGG
*** *
4482053 TCGCCACGTTGTCATCCCGG
1 TCGCCACACCGTCGTCCCGG
* *
4482073 TTGCCACGCCGTCGTCCCGG
1 TCGCCACACCGTCGTCCCGG
*
4482093 TCGCCACACTGTCGTC
1 TCGCCACACCGTCGTC
4482109 GATGGCCGTT
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
19 6 0.14
20 38 0.86
ACGTcount: A:0.09, C:0.44, G:0.25, T:0.21
Consensus pattern (20 bp):
TCGCCACACCGTCGTCCCGG
Found at i:4483197 original size:20 final size:20
Alignment explanation
Indices: 4483172--4483213 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
4483162 TACGAATGAA
4483172 TATAATAAAAAAGGGCAAAG
1 TATAATAAAAAAGGGCAAAG
4483192 TATAATAAAAAAGGGCAAAG
1 TATAATAAAAAAGGGCAAAG
4483212 TA
1 TA
4483214 CTCAAGTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.60, C:0.05, G:0.19, T:0.17
Consensus pattern (20 bp):
TATAATAAAAAAGGGCAAAG
Found at i:4484506 original size:7 final size:7
Alignment explanation
Indices: 4484496--4484541 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
4484486 AAATATTTAA
4484496 TATATTT
1 TATATTT
4484503 TATATTT
1 TATATTT
4484510 TATATTT
1 TATATTT
*
4484517 T-TAATT
1 TATATTT
*
4484523 TAAATATT
1 TATAT-TT
4484531 TAT-TTT
1 TATATTT
4484537 TATAT
1 TATAT
4484542 GAATCAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
6 10 0.31
7 18 0.56
8 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
TATATTT
Found at i:4498657 original size:16 final size:18
Alignment explanation
Indices: 4498626--4498663 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
4498616 AAGAAGAAGA
4498626 AAAATAAGTGAAAAAAAT
1 AAAATAAGTGAAAAAAAT
4498644 AAAATAA-T-AAAAAAAT
1 AAAATAAGTGAAAAAAAT
4498660 AAAA
1 AAAA
4498664 AATGAATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.60
17 1 0.05
18 7 0.35
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAATAAGTGAAAAAAAT
Found at i:4498689 original size:9 final size:9
Alignment explanation
Indices: 4498624--4498690 Score: 66
Period size: 9 Copynumber: 7.2 Consensus size: 9
4498614 AAAAGAAGAA
4498624 GAAAAATAAGT
1 GAAAAA-AA-T
4498635 GAAAAAAAT
1 GAAAAAAAT
*
4498644 -AAAATAAT
1 GAAAAAAAT
4498652 -AAAAAAAT
1 GAAAAAAAT
*
4498660 AAAAAATGAAT
1 GAAAAA--AAT
4498671 GAAAAAAAT
1 GAAAAAAAT
4498680 GAAAAAAAT
1 GAAAAAAAT
4498689 GA
1 GA
4498691 GGGTTCAAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
8 14 0.28
9 20 0.40
10 2 0.04
11 14 0.28
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (9 bp):
GAAAAAAAT
Found at i:4498689 original size:18 final size:19
Alignment explanation
Indices: 4498624--4498690 Score: 79
Period size: 18 Copynumber: 3.6 Consensus size: 19
4498614 AAAAGAAGAA
4498624 GAAAAATAAGTGAAAAAAAT
1 GAAAAATAA-TGAAAAAAAT
4498644 --AAAATAAT-AAAAAAAT
1 GAAAAATAATGAAAAAAAT
*
4498660 AAAAAATGAATGAAAAAAAT
1 GAAAAAT-AATGAAAAAAAT
4498680 GAAAAA-AATGA
1 GAAAAATAATGA
4498691 GGGTTCAAGA
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
16 8 0.19
17 1 0.02
18 17 0.40
19 3 0.07
20 13 0.31
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (19 bp):
GAAAAATAATGAAAAAAAT
Found at i:4498690 original size:22 final size:19
Alignment explanation
Indices: 4498636--4498686 Score: 63
Period size: 16 Copynumber: 2.7 Consensus size: 19
4498626 AAAATAAGTG
4498636 AAAAAAAT--AAAAT-AAT
1 AAAAAAATAAAAAATGAAT
4498652 AAAAAAATAAAAAATGAAT
1 AAAAAAATAAAAAATGAAT
4498671 GAAAAAAATGAAAAAA
1 -AAAAAAAT-AAAAAA
4498687 ATGAGGGTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.27
18 5 0.17
19 3 0.10
20 8 0.27
21 6 0.20
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (19 bp):
AAAAAAATAAAAAATGAAT
Found at i:4499759 original size:55 final size:55
Alignment explanation
Indices: 4499674--4500421 Score: 1069
Period size: 55 Copynumber: 13.7 Consensus size: 55
4499664 AGGTTCCCCA
* * * * *
4499674 CGATCGTCGAAGATTGTTCAAGTCTCATACTCTCTGAAGGAATAGGGGGCGGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
*
4499729 CGATCGTTGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGGG-AGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
4499783 CGATAGTTGAAGATTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGGGC-GAACA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAG-ACG
** * *
4499838 CGATCGTTGAAGATTGTTTAAGTCTCATACTCTCTGAAGAAATAGGGGGCGGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
4499893 CGATCGTTGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * ** *
4499948 CGATAGTTGAAGATTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGGGTGGACA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * * *
4500003 CGATTGCTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGAGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
4500058 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCGGACA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
4500113 CGATTGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGAAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
4500168 CGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
*
4500221 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGACGAAATAGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
4500276 CGATTGATGAAGATTG-T-GAGTCTTATACTCTCTGAAGAAAT-GGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
4500328 TGATCATTGAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
4500383 CGATTGTTAAAGATTGTTCAAGTCTTATACTCTCTGAAG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
4500422 GACTATGGAG
Statistics
Matches: 622, Mismatches: 63, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
52 22 0.04
53 73 0.12
54 78 0.13
55 448 0.72
56 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (55 bp):
CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
Found at i:4504475 original size:63 final size:63
Alignment explanation
Indices: 4504321--4504567 Score: 179
Period size: 63 Copynumber: 3.8 Consensus size: 63
4504311 ATTCCTTTTA
* *
4504321 AATATTACAAATTAAGAGAT-AT-TCT-TTT--ATTTGAATATTAGTAAGATAATTAT-TCTTTG
1 AATATTTCAAATTAA-AGATAATATCTATTTAAATTTGAATATTA-AAAGATAATTATATCTTTG
* * *
4504380 AAATATGTCAAATTAATAGGTATTTATTATCTATTTAACTTTGAATATTAAAAGATAATTATATA
1 -AATATTTCAAATTAA-A-G-A--TAATATCTATTTAAATTTGAATATTAAAAGATAATTATAT-
4504445 CTTTG
59 CTTTG
* * * *
4504450 AATATTTCAAATTAAA-ATAATATCTAGTTAAATTTAAATAATAAAATGAGT--TTAAATCTTTT
1 AATATTTCAAATTAAAGATAATATCTATTTAAATTTGAATATTAAAA-GA-TAATTATATC-TTT
4504512 G
63 G
* * *
4504513 GATATTTCAAACTAAAAGATAATATTATCTGTTTAAATTTGAATATTAAAAGATA
1 AATATTTCAAA-TTAAAGAT-A-A-TATCTATTTAAATTTGAATATTAAAAGATA
4504568 TTAAATTGGA
Statistics
Matches: 148, Mismatches: 19, Indels: 33
0.74 0.09 0.17
Matches are distributed among these distances:
60 14 0.09
61 1 0.01
62 2 0.01
63 43 0.29
64 7 0.05
65 5 0.03
66 5 0.03
67 6 0.04
68 34 0.23
69 26 0.18
70 5 0.03
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.43
Consensus pattern (63 bp):
AATATTTCAAATTAAAGATAATATCTATTTAAATTTGAATATTAAAAGATAATTATATCTTTG
Found at i:4508420 original size:20 final size:21
Alignment explanation
Indices: 4508397--4508437 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
4508387 TATTATATGT
**
4508397 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
4508417 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
4508438 TAAAAATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:4509328 original size:19 final size:21
Alignment explanation
Indices: 4509296--4509334 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
4509286 TGTTGTTGTT
4509296 TTTTTTTCTCTTCTTTCTCTG
1 TTTTTTTCTCTTCTTTCTCTG
4509317 TTTTTTT-T-TTCTTTCTCT
1 TTTTTTTCTCTTCTTTCTCT
4509335 CCGTTTCTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 1 0.06
21 7 0.39
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.77
Consensus pattern (21 bp):
TTTTTTTCTCTTCTTTCTCTG
Found at i:4509343 original size:27 final size:27
Alignment explanation
Indices: 4509294--4509346 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4509284 GTTGTTGTTG
* *
4509294 TTTTTTTTTCTCTTCTTTCTCTGTTTT
1 TTTTTTTTTCTCTCCGTTCTCTGTTTT
4509321 TTTTTTCTTTCTCTCCGTT-TCTGTTT
1 TTTTTT-TTTCTCTCCGTTCTCTGTTT
4509347 CTGTCTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.00, C:0.21, G:0.06, T:0.74
Consensus pattern (27 bp):
TTTTTTTTTCTCTCCGTTCTCTGTTTT
Found at i:4509840 original size:3 final size:3
Alignment explanation
Indices: 4509832--4509917 Score: 136
Period size: 3 Copynumber: 28.7 Consensus size: 3
4509822 TTAATATATT
* * *
4509832 TAA TAA TAA TAG TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
4509880 TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4509918 TGGATAAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4512404 original size:14 final size:14
Alignment explanation
Indices: 4512385--4512419 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
4512375 ATAATGTAGG
4512385 GTTTAGGATTTATA
1 GTTTAGGATTTATA
4512399 GTTTAGGATTTATA
1 GTTTAGGATTTATA
*
4512413 ATTTAGG
1 GTTTAGG
4512420 GTTTTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.49
Consensus pattern (14 bp):
GTTTAGGATTTATA
Found at i:4516495 original size:18 final size:18
Alignment explanation
Indices: 4516448--4516488 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4516438 TGTAGCTGTT
* *
4516448 TCTGAACCTTCTGTTATA
1 TCTGAATCTGCTGTTATA
*
4516466 TCTGAATCTGCTGTTGTA
1 TCTGAATCTGCTGTTATA
4516484 TCTGA
1 TCTGA
4516489 TATTGCTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.44
Consensus pattern (18 bp):
TCTGAATCTGCTGTTATA
Found at i:4520720 original size:20 final size:20
Alignment explanation
Indices: 4520695--4520737 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4520685 TCTAAGAGCC
*
4520695 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
4520715 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
4520735 CAT
1 CAT
4520738 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:4525682 original size:20 final size:20
Alignment explanation
Indices: 4525657--4525699 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4525647 TCTAAGAGCC
*
4525657 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
4525677 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
4525697 CAT
1 CAT
4525700 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:4530468 original size:24 final size:24
Alignment explanation
Indices: 4530363--4530468 Score: 92
Period size: 24 Copynumber: 4.4 Consensus size: 24
4530353 AACGGAGATA
* *
4530363 TCAGAAATCAAAACAGAATT-TAG
1 TCAGAAATCAGAACAGAATTCAAG
* * *
4530386 AACAGATATCAGAACAGAATCCATA-
1 -TCAGAAATCAGAACAGAATTCA-AG
*
4530411 TCAGAAATCAGAAAAGAATTCAAG
1 TCAGAAATCAGAACAGAATTCAAG
*
4530435 TCATG-TATCAGAACAGAATTCAAG
1 TCA-GAAATCAGAACAGAATTCAAG
*
4530459 TCGGAAATCA
1 TCAGAAATCA
4530469 AATAAAATAT
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
23 2 0.03
24 60 0.94
25 1 0.02
26 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.15, T:0.20
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:4531608 original size:18 final size:18
Alignment explanation
Indices: 4531581--4531615 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4531571 TTCCATCTAA
4531581 TCTTACTATTTAATTCAT
1 TCTTACTATTTAATTCAT
* *
4531599 TCTTATTATTTATTTCA
1 TCTTACTATTTAATTCA
4531616 GTCATTTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (18 bp):
TCTTACTATTTAATTCAT
Found at i:4532759 original size:10 final size:10
Alignment explanation
Indices: 4532746--4532773 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4532736 GTCAAAGTTC
4532746 TGGTCAACTG
1 TGGTCAACTG
4532756 TGGTCAACTG
1 TGGTCAACTG
4532766 TGGTCAAC
1 TGGTCAAC
4532774 AGTCGACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (10 bp):
TGGTCAACTG
Found at i:4534981 original size:24 final size:24
Alignment explanation
Indices: 4534949--4535037 Score: 88
Period size: 24 Copynumber: 3.7 Consensus size: 24
4534939 TATATCAGAA
* * *
4534949 ATCAAAACATAATTCAAAACATAT
1 ATCAGAACAGAATTCAAATCATAT
* * *
4534973 ATCAGAACAGAATCCAGATCATAA
1 ATCAGAACAGAATTCAAATCATAT
* * * *
4534997 ATCAGAATAAAATTCAAGTCATGT
1 ATCAGAACAGAATTCAAATCATAT
4535021 ATCAGAACAGAATTCAA
1 ATCAGAACAGAATTCAA
4535038 GTCGGAAATC
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.52, C:0.17, G:0.09, T:0.22
Consensus pattern (24 bp):
ATCAGAACAGAATTCAAATCATAT
Found at i:4535048 original size:24 final size:24
Alignment explanation
Indices: 4534943--4535050 Score: 76
Period size: 24 Copynumber: 4.5 Consensus size: 24
4534933 AACAGATATA
* * *
4534943 TCAGAAATCAAAACATAATTCAAA
1 TCAGAAATCAGAACAGAATTCAAG
* * * *
4534967 ACATATATCAGAACAGAA-TCCAG
1 TCAGAAATCAGAACAGAATTCAAG
* * *
4534990 ATCATAAATCAGAATAAAATTCAAG
1 -TCAGAAATCAGAACAGAATTCAAG
*
4535015 TCATG-TATCAGAACAGAATTCAAG
1 TCA-GAAATCAGAACAGAATTCAAG
*
4535039 TCGGAAATCAGA
1 TCAGAAATCAGA
4535051 TAAAATATTT
Statistics
Matches: 62, Mismatches: 18, Indels: 8
0.70 0.20 0.09
Matches are distributed among these distances:
23 4 0.06
24 54 0.87
25 4 0.06
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:4536184 original size:18 final size:18
Alignment explanation
Indices: 4536161--4536196 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4536151 CTTCCGTCCG
4536161 ATCTTACTATTTAATTCA
1 ATCTTACTATTTAATTCA
* *
4536179 ATCTTATTATTTATTTCA
1 ATCTTACTATTTAATTCA
4536197 GTCATTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.56
Consensus pattern (18 bp):
ATCTTACTATTTAATTCA
Found at i:4537502 original size:10 final size:10
Alignment explanation
Indices: 4537489--4537516 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4537479 GTCAAAGTTC
4537489 TGGTCAACTG
1 TGGTCAACTG
4537499 TGGTCAACTG
1 TGGTCAACTG
4537509 TGGTCAAC
1 TGGTCAAC
4537517 AGTCGACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (10 bp):
TGGTCAACTG
Found at i:4541183 original size:19 final size:19
Alignment explanation
Indices: 4541155--4541201 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
4541145 GGGGTTTAGT
4541155 AAAATAAATTGAAA-CAAAGA
1 AAAATAAATT-AAAGC-AAGA
4541175 AAAAT-AATTAAAGCAAGA
1 AAAATAAATTAAAGCAAGA
*
4541193 AAAGTAAAT
1 AAAATAAAT
4541202 AGTTGAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 11 0.46
19 8 0.33
20 5 0.21
ACGTcount: A:0.68, C:0.04, G:0.11, T:0.17
Consensus pattern (19 bp):
AAAATAAATTAAAGCAAGA
Found at i:4542636 original size:59 final size:61
Alignment explanation
Indices: 4542547--4542661 Score: 162
Period size: 59 Copynumber: 1.9 Consensus size: 61
4542537 CGAGTTGTCA
* * *
4542547 TTTTATAACTTTTAATAGTCAAATGACTCAATAAAACAACATCCTATAGTC-GAGAGATCG
1 TTTTATAACTTTTAATAGTCAAAGGACTCAACAAAACAACATCATATAGTCTGAGAGATCG
* * *
4542607 TTTTATAAC-TTTAATAGTCGAAGGACTCAACAAAATAATATCATATAGTCTGAGA
1 TTTTATAACTTTTAATAGTCAAAGGACTCAACAAAACAACATCATATAGTCTGAGA
4542662 ACCATTTGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
59 35 0.73
60 13 0.27
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (61 bp):
TTTTATAACTTTTAATAGTCAAAGGACTCAACAAAACAACATCATATAGTCTGAGAGATCG
Found at i:4549366 original size:2 final size:2
Alignment explanation
Indices: 4549361--4549422 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
4549351 AAAATTTTAA
4549361 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4549403 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
4549423 TTGATGATGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4553219 original size:45 final size:45
Alignment explanation
Indices: 4553140--4553225 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
4553130 ATGCTCTAGT
* * * * *
4553140 TAAGGATGGACACGAGATCTAAACTTGAAAAGTTCGGATCTCCAA
1 TAAGGATGGACACGAAACCCAAACTCGAAAAGTTCAGATCTCCAA
**
4553185 TAAGGATGGACACGAAACCCAAACTCGATGAGTTCAGATCT
1 TAAGGATGGACACGAAACCCAAACTCGAAAAGTTCAGATCT
4553226 AATCTGACCT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (45 bp):
TAAGGATGGACACGAAACCCAAACTCGAAAAGTTCAGATCTCCAA
Found at i:4553278 original size:20 final size:20
Alignment explanation
Indices: 4553250--4553288 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4553240 CTATCTCCAG
*
4553250 CCCTCATCTCTACTCTACAC
1 CCCTAATCTCTACTCTACAC
4553270 CCCTAATCTCTACTCTACA
1 CCCTAATCTCTACTCTACA
4553289 GCATCTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.46, G:0.00, T:0.31
Consensus pattern (20 bp):
CCCTAATCTCTACTCTACAC
Found at i:4555647 original size:31 final size:31
Alignment explanation
Indices: 4555609--4555676 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
4555599 GAGTTTGACT
* *
4555609 TGAAAAGTGTAAAACTAAGCTTAACTCGACC
1 TGAAAAGTATAAAACTAAGCTCAACTCGACC
* * *
4555640 TGAAAAGTATAAAACTGAGCTCAACTCTACT
1 TGAAAAGTATAAAACTAAGCTCAACTCGACC
4555671 TGAAAA
1 TGAAAA
4555677 CTCACGAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.24
Consensus pattern (31 bp):
TGAAAAGTATAAAACTAAGCTCAACTCGACC
Found at i:4560584 original size:21 final size:20
Alignment explanation
Indices: 4560548--4560589 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
4560538 AGCATTTATC
*
4560548 TTCATTAAAATTATGTATTT
1 TTCATTAAAATCATGTATTT
*
4560568 TTCATTAAAAATCATGTGTTT
1 TTCATT-AAAATCATGTATTT
4560589 T
1 T
4560590 CAAAGGGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (20 bp):
TTCATTAAAATCATGTATTT
Found at i:4560589 original size:20 final size:20
Alignment explanation
Indices: 4560548--4560591 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4560538 AGCATTTATC
* *
4560548 TTCATTAAAATTATGTATTT
1 TTCATTAAAATCATGTAGTT
4560568 TTCATTAAAAATCATGT-GTT
1 TTCATT-AAAATCATGTAGTT
4560588 TTCA
1 TTCA
4560592 AAGGGGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (20 bp):
TTCATTAAAATCATGTAGTT
Found at i:4564304 original size:60 final size:60
Alignment explanation
Indices: 4564194--4564308 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
4564184 AAATAATTAT
* * * * **
4564194 ATCATTTTGTAACTTTTAAAAATTGGGGGACTCAATAAAAAGATGTCCTATAGTTAGAGG
1 ATCATTTTATAACTTTTAAAAATTGAGAGACTCAACAAAAAGATAACCTATAGTTAGAGG
*
4564254 ATCATTTTATAACTTTTAATAATTGAGAGACTCAACAAAATA-ATAACCTATAGTT
1 ATCATTTTATAACTTTTAAAAATTGAGAGACTCAACAAAA-AGATAACCTATAGTT
4564309 GGTAGATGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
60 46 0.98
61 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (60 bp):
ATCATTTTATAACTTTTAAAAATTGAGAGACTCAACAAAAAGATAACCTATAGTTAGAGG
Found at i:4569832 original size:20 final size:20
Alignment explanation
Indices: 4569804--4569885 Score: 85
Period size: 20 Copynumber: 4.1 Consensus size: 20
4569794 AGTCAACGGG
** *
4569804 TCAGATTGGTTTGGGTTGAC
1 TCAGATTGGTCCGAGTTGAC
*
4569824 TCAGTTTGGTCCGAGTTGAC
1 TCAGATTGGTCCGAGTTGAC
* *
4569844 TCAGACTAGTCCGAGTTGAC
1 TCAGATTGGTCCGAGTTGAC
*
4569864 TCAGACTT-GTCTGAGTTGAC
1 TCAGA-TTGGTCCGAGTTGAC
4569884 TC
1 TC
4569886 GAATCAGTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
20 51 0.98
21 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (20 bp):
TCAGATTGGTCCGAGTTGAC
Found at i:4587272 original size:39 final size:37
Alignment explanation
Indices: 4587131--4587546 Score: 204
Period size: 39 Copynumber: 11.1 Consensus size: 37
4587121 AAAAGAGATG
** * * *
4587131 AATTTTGTTTTAAGAAAAACAATCTCGAGTGAAATAA
1 AATTTTGTTTCGAGAAAAACTATCTCAAGTGAGATAA
* * * * *
4587168 AATTTATTGTTTCGAGTGAAAATTCTCTCAAGCGAGA-CA
1 AA-TT-TTGTTTCGAG-AAAAACTATCTCAAGTGAGATAA
* ** *
4587207 AAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAA
1 AATTTTGTTTCGAGAAAAACTATCTCAAGTGAGATAA
* * * * **
4587244 AATTTATGTTTCGAGTGAAAATTGTCTCAAGAGAGACGA
1 AATTT-TGTTTCGAG-AAAAACTATCTCAAGTGAGATAA
* *
4587283 AGTTTT-TTT-AAGAAAAA-TAATCTCAAGTGAGATAA
1 AATTTTGTTTCGAGAAAAACT-ATCTCAAGTGAGATAA
* ** **
4587318 AATTTATTTTTCGAGCAAAAACTATCTCAAACGAGA-CG
1 AATTT-TGTTTCGAG-AAAAACTATCTCAAGTGAGATAA
* * *
4587356 AAGTTTGTTT-AAGGAAAACTATCTCAAGTGAGATAA
1 AATTTTGTTTCGAGAAAAACTATCTCAAGTGAGATAA
* * *
4587392 ATTTTTTGTTTCGAGTAAAAACTATCTCAAGCGAGA-CA
1 A-ATTTTGTTTCGAG-AAAAACTATCTCAAGTGAGATAA
* ** * * *
4587430 AAGTTTGTTTTAAGAAAAACTATCTAAAGTTAGAAAA
1 AATTTTGTTTCGAGAAAAACTATCTCAAGTGAGATAA
* * * *
4587467 AATTTCT-TCTCGGAGTGAAAACTATCTCAAGCGAGA-AG
1 AATTT-TGTTTC-GAG-AAAAACTATCTCAAGTGAGATAA
* * * *
4587505 AAGTTTGTTT-TATGAAAAACAATCTCGAGTGAGATAA
1 AATTTTGTTTCGA-GAAAAACTATCTCAAGTGAGATAA
*
4587542 CATTT
1 AATTT
4587547 CTGATATTTT
Statistics
Matches: 273, Mismatches: 83, Indels: 46
0.68 0.21 0.11
Matches are distributed among these distances:
34 1 0.00
35 37 0.14
36 55 0.20
37 54 0.20
38 31 0.11
39 81 0.30
40 14 0.05
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (37 bp):
AATTTTGTTTCGAGAAAAACTATCTCAAGTGAGATAA
Found at i:4587323 original size:74 final size:75
Alignment explanation
Indices: 4587111--4587546 Score: 511
Period size: 74 Copynumber: 5.8 Consensus size: 75
4587101 ATTTCAAGAG
* * * * * *
4587111 AAACTTTCTCAAAAGAGATGAATTTTGTTTTAAGAAAAACAATCTCGAGTGAAATAAAATTTATT
1 AAACTATCTCAAGAGAGACGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTA-T
4587176 GTTTCGAGTGA
65 GTTTCGAGTGA
* * * *
4587187 AAATTCTCTCAAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATG
1 AAACTATCTCAAGAGAGACGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATG
4587252 TTTCGAGTGA
66 TTTCGAGTGA
* * * *
4587262 AAATTGTCTCAAGAGAGACGAAGTTT-TTTTAAGAAAAATAATCTCAAGTGAGATAAAATTTATT
1 AAACTATCTCAAGAGAGACGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATG
**
4587326 TTTCGAGCAA
66 TTTCGAGTGA
* * * *
4587336 AAACTATCTCAA-ACGAGACGAAGTTTG-TTTAAGGAAAACTATCTCAAGTGAGATAAATTTTTT
1 AAACTATCTCAAGA-GAGACGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTAT
*
4587399 GTTTCGAGTAA
65 GTTTCGAGTGA
* * * * * * *
4587410 AAACTATCTCAAGCGAGACAAAGTTTGTTTTAAGAAAAACTATCTAAAGTTAGAAAAAATTTCT-
1 AAACTATCTCAAGAGAGACGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATG
*
4587474 TCTCGGAGTGA
66 TTTC-GAGTGA
* * * * *
4587485 AAACTATCTCAAGCGAGAAGAAGTTTGTTTTATGAAAAACAATCTCGAGTGAGATAACATTT
1 AAACTATCTCAAGAGAGACGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTT
4587547 CTGATATTTT
Statistics
Matches: 311, Mismatches: 44, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
73 1 0.00
74 133 0.43
75 123 0.40
76 54 0.17
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (75 bp):
AAACTATCTCAAGAGAGACGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATG
TTTCGAGTGA
Found at i:4587373 original size:149 final size:149
Alignment explanation
Indices: 4587111--4587546 Score: 527
Period size: 149 Copynumber: 2.9 Consensus size: 149
4587101 ATTTCAAGAG
* * * * * * *
4587111 AAACTTTCTCAAAAGAGATGAATTTTGTTTTAAGAAAAACAATCTCGAGTGAAATAAAATTTATT
1 AAACTATCTCAAGAGAGACGAAGTTTGTTTTAAGAAAAATAATCTCAAGTGAGATAAAATTTATT
* * *
4587176 GTTTCGAGTGAAAATTCTCTCAAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGA
66 -TTTCGAGTGAAAACTATCTCAAGCGAGACGAAGTTTG-TTTAAGAAAAACAATCTCAAGTGAGA
*
4587241 TAAAATTTATGTTTCGAGTGA
129 TAAAATTTATGTTTCGAGTAA
* *
4587262 AAATTGTCTCAAGAGAGACGAAGTTT-TTTTAAGAAAAATAATCTCAAGTGAGATAAAATTTATT
1 AAACTATCTCAAGAGAGACGAAGTTTGTTTTAAGAAAAATAATCTCAAGTGAGATAAAATTTATT
** * * *
4587326 TTTCGAGCAAAAACTATCTCAAACGAGACGAAGTTTGTTTAAGGAAAACTATCTCAAGTGAGATA
66 TTTCGAGTGAAAACTATCTCAAGCGAGACGAAGTTTGTTTAAGAAAAACAATCTCAAGTGAGATA
* *
4587391 AATTTTTTGTTTCGAGTAA
131 AAATTTATGTTTCGAGTAA
* * * * * *
4587410 AAACTATCTCAAGCGAGACAAAGTTTGTTTTAAGAAAAACT-ATCTAAAGTTAGAAAAAATTT-C
1 AAACTATCTCAAGAGAGACGAAGTTTGTTTTAAGAAAAA-TAATCTCAAGTGAGATAAAATTTAT
* * * *
4587473 TTCTCGGAGTGAAAACTATCTCAAGCGAGAAGAAGTTTGTTTTATGAAAAACAATCTCGAGTGAG
65 TTTTC-GAGTGAAAACTATCTCAAGCGAGACGAAGTTTG-TTTAAGAAAAACAATCTCAAGTGAG
*
4587538 ATAACATTT
128 ATAAAATTT
4587547 CTGATATTTT
Statistics
Matches: 243, Mismatches: 38, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
148 68 0.28
149 90 0.37
150 64 0.26
151 21 0.09
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (149 bp):
AAACTATCTCAAGAGAGACGAAGTTTGTTTTAAGAAAAATAATCTCAAGTGAGATAAAATTTATT
TTTCGAGTGAAAACTATCTCAAGCGAGACGAAGTTTGTTTAAGAAAAACAATCTCAAGTGAGATA
AAATTTATGTTTCGAGTAA
Found at i:4612764 original size:10 final size:10
Alignment explanation
Indices: 4612749--4612773 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4612739 TAAGCATTTA
4612749 TTCATACTAC
1 TTCATACTAC
4612759 TTCATACTAC
1 TTCATACTAC
4612769 TTCAT
1 TTCAT
4612774 CATCGTCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (10 bp):
TTCATACTAC
Found at i:4616669 original size:41 final size:42
Alignment explanation
Indices: 4616563--4616669 Score: 137
Period size: 42 Copynumber: 2.6 Consensus size: 42
4616553 TCTTACTTAG
**
4616563 TAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGAT
1 TAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATGAT
* * * *
4616605 TAAATCTTTCGGGTCATCTGTAAGTCTTTTGAGCAAT-ATGA-
1 TAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGC-ATGATGAT
4616646 TAAGTCCTTCGGGCCATCTGTAAG
1 TAAGTCCTTCGGGCCATCTGTAAG
4616670 AAATTCGGGT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
41 21 0.38
42 32 0.58
43 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (42 bp):
TAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATGAT
Found at i:4617000 original size:236 final size:236
Alignment explanation
Indices: 4616464--4617294 Score: 744
Period size: 236 Copynumber: 3.4 Consensus size: 236
4616454 TGATTTTCAA
* * * *
4616464 AAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAATG-AGATTTTCAAA
1 AAAAATGAGAAAGTGATTTTCAAAGTTTCCCATTT-AATCTTTTCTGAAAATGAAAATTTT-GAA
*
4616528 AAGTAAGAAAA-TGATTTTCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAATAAGTCTTT
64 AAGTAAGAAAACT-ATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAATAAGTCTTT
* * * * *
4616592 CGAGCATGATGATTAAATCTTTCGGGTCATCTGTAAGTCTTTTGAGCAATATGATAAGTCCTTCG
128 CGAGCATGAAGATTAAATCTTTCGGGT-ATATGTAAGTCTTTCGAGCAAGATGACAAGTCCTTCG
* * *
4616657 GGCCATCTGTAAGAAATTCGGGTACGATGTTTTGACATGAATTTG
192 GGCCATCCGTAAGAAATTCGAGTACGATGTTTTCACATGAATTTG
* * *
4616702 AAAAATGAGAAAGTTATTTTCAAAGTTTCCCATTTATTCTTTTCTGAAAAT-AAATTTTTTGAAA
1 AAAAATGAGAAAGTGATTTTCAAAGTTTCCCATTTAATCTTTTCTGAAAATGAAA-ATTTTGAAA
* * * *
4616766 AGTAAGAAAACTATTTCCAAAATTTATTACTTAGTAAGTCCTTTGGGCCATCAGTAAGTCTTTCG
65 AGTAAGAAAACTATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAATAAGTCTTTCG
*
4616831 AGCATGAAGATTAAATCATTT-GATGT-TATGTAAGTCTTTCGAGCAAGATGACAAGTCCTTCGG
130 AGCATGAAGATTAAATC-TTTCG-GGTATATGTAAGTCTTTCGAGCAAGATGACAAGTCCTTCGG
* ** * *
4616894 GTCATCCGTAAGACCTTCGAGTAGGATGTTTTCACGTGAATTTG
193 GCCATCCGTAAGAAATTCGAGTACGATGTTTTCACATGAATTTG
* * * *
4616938 AAAAAT-AGGAAAGCGATTTTCAAAGTTTCCCATTTAATATTTTCAGAAAATGAAAATTTTGAAG
1 AAAAATGA-GAAAGTGATTTTCAAAGTTTCCCATTTAATCTTTTCTGAAAATGAAAATTTTGAAA
* * * * * *
4617002 ATTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTACTTCCAAAATTTATAAGTCATTCA
65 AGTAAGAAAACTATTTCCAAAG--T-TT---C--T----TACTT-----A---GTAAGTCCTTCG
* * * * * * *
4617067 AGCCATCAGT-AGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATCAGTCTTTCGAGC
110 GGCCATCAATAAGTCTTTCGAGCATGAAGATTAAATCTTTCGGGT-ATATGTAAGTCTTTCGAGC
** * ** ** * * ** *
4617131 AAGATGATTAGTCCTTCGGGCTATCTATAAGACCTTCGAGCAAGATGTTTTCATGTGATTTTTG
174 AAGATGACAAGTCCTTCGGGCCATCCGTAAGAAATTCGAGTACGATGTTTTCACATGA-ATTTG
* * * * * *
4617195 AAAAATGAGAAAGTGATTTTTAAAGTTTCTCATTTCATGTTTTCAGAAAATG-AAATATTTAAAA
1 AAAAATGAGAAAGTGATTTTCAAAGTTTCCCATTTAATCTTTTCTGAAAATGAAAAT-TTTGAAA
* * *
4617259 AGTAAGAAAGCAATTTCCAAAGTTTC-TACCTAGTAA
65 AGTAAGAAAACTATTTCCAAAGTTTCTTACTTAGTAA
4617295 ACTATTTCCA
Statistics
Matches: 490, Mismatches: 70, Indels: 68
0.78 0.11 0.11
Matches are distributed among these distances:
235 1 0.00
236 141 0.29
237 97 0.20
238 43 0.09
239 3 0.01
244 5 0.01
248 5 0.01
251 1 0.00
253 1 0.00
254 6 0.01
255 27 0.06
256 85 0.17
257 74 0.15
258 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (236 bp):
AAAAATGAGAAAGTGATTTTCAAAGTTTCCCATTTAATCTTTTCTGAAAATGAAAATTTTGAAAA
GTAAGAAAACTATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAATAAGTCTTTCGA
GCATGAAGATTAAATCTTTCGGGTATATGTAAGTCTTTCGAGCAAGATGACAAGTCCTTCGGGCC
ATCCGTAAGAAATTCGAGTACGATGTTTTCACATGAATTTG
Found at i:4617158 original size:41 final size:42
Alignment explanation
Indices: 4617077--4617177 Score: 134
Period size: 41 Copynumber: 2.4 Consensus size: 42
4617067 AGCCATCAGT
* *
4617077 AGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATC
1 AGTCTTTCGAGCAAGATGATTAAATCCTTCGGGTCATCTATA
*
4617119 AGTCTTTCGAGCAAGATGATT-AGTCCTTCGGG-CTATCTATA
1 AGTCTTTCGAGCAAGATGATTAAATCCTTCGGGTC-ATCTATA
* *
4617160 AGACCTTCGAGCAAGATG
1 AGTCTTTCGAGCAAGATG
4617178 TTTTCATGTG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
40 1 0.02
41 32 0.60
42 20 0.38
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (42 bp):
AGTCTTTCGAGCAAGATGATTAAATCCTTCGGGTCATCTATA
Found at i:4617380 original size:257 final size:257
Alignment explanation
Indices: 4616799--4617492 Score: 821
Period size: 257 Copynumber: 2.7 Consensus size: 257
4616789 TTATTACTTA
* * *
4616799 GTAAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGAAGATTAAATCATTTGATGTT--ATGT
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTG--GTTCAATGT
* * ** * *
4616862 AAGTCTTTCGAGCAAGATGACAAGTCCTTCGGG-TCATCCGTAAGACCTTCGAGTAGGATGTTTT
64 CAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCT-ATCTATAAGACCTTCGAGCAAGATGTTTT
* * *
4616926 CACGTGA-ATTTGAAAAAT-AGGAAAGCGATTTTCAAAGTTTCCCATTTAATATTTTCAGAAAAT
128 CATGTGATTTTTGAAAAATGA-GAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAAT
* * * *
4616989 GAAAATTTTGAAGATTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTACTTCCAAAATT
192 GAAAATTTTAAAAAGTAAGAAAGCAATTTCCAAAGTTTCTTACCCAGTAAACTACTTCCAAAATT
*
4617054 T
257 G
* * ** * * * *
4617055 ATAAGTCATTCAAGCCATCAGT-AGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATC
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGTTCA-ATGTC
*
4617119 AGTCTTTCGAGCAAGATGATTAGTCCTTCGGGCTATCTATAAGACCTTCGAGCAAGATGTTTTCA
65 AGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCTATCTATAAGACCTTCGAGCAAGATGTTTTCA
* * * *
4617184 TGTGATTTTTGAAAAATGAGAAAGTGATTTTTAAAGTTTCTCATTTCATGTTTTCAGAAAATG-A
130 TGTGATTTTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAA
* *
4617248 AATATTTAAAAAGTAAGAAAGCAATTTCCAAAGTTTC-TACCTAGTAAACTATTTCCAAAATTG
195 AAT-TTTAAAAAGTAAGAAAGCAATTTCCAAAGTTTCTTACCCAGTAAACTACTTCCAAAATTG
* * * *
4617311 GTAAGTCCTTCGGGTCATCAGTAACTCTTTTGAGCATGATGATTAAGTCCTTTGGTTCAAATGTC
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGTTC-AATGTC
* * * * * *
4617376 AGTCTTTCAAGCAAGATGATAAGTCATTCGGGCCATCTATAAGACCTTTGGGCAAGATGATTTCA
65 AGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCTATCTATAAGACCTTCGAGCAAGATGTTTTCA
* * *
4617441 TATGGTATTTAT-AAGAGAATGAGAAAACGATTTTCAAAGTTTCTCATTTAAT
130 TGT-G-ATTTTTGAA-A-AATGAGAAAGCGATTTTCAAAGTTTCTCATTTAAT
4617493 TTTAACAAAA
Statistics
Matches: 368, Mismatches: 57, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
253 2 0.01
255 28 0.08
256 124 0.34
257 172 0.47
258 5 0.01
259 6 0.02
260 31 0.08
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (257 bp):
GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGTTCAATGTCA
GTCTTTCGAGCAAGATGATAAGTCCTTCGGGCTATCTATAAGACCTTCGAGCAAGATGTTTTCAT
GTGATTTTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAA
ATTTTAAAAAGTAAGAAAGCAATTTCCAAAGTTTCTTACCCAGTAAACTACTTCCAAAATTG
Found at i:4619097 original size:19 final size:19
Alignment explanation
Indices: 4619050--4619095 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
4619040 GTCATCGAAG
4619050 GGGTCTAAAGTTTTGGTTA
1 GGGTCTAAAGTTTTGGTTA
4619069 GGGTCTAAAGTTTTGGTTA
1 GGGTCTAAAGTTTTGGTTA
4619088 GGGT-TAAA
1 GGGTCTAAA
4619096 AGGAGGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.24, C:0.04, G:0.33, T:0.39
Consensus pattern (19 bp):
GGGTCTAAAGTTTTGGTTA
Found at i:4621459 original size:21 final size:20
Alignment explanation
Indices: 4621373--4621530 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
4621363 AAATGACCAA
**
4621373 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
4621392 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
4621412 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
4621432 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
4621453 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
4621474 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
4621494 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
4621515 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
4621531 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:4621559 original size:20 final size:20
Alignment explanation
Indices: 4621497--4621806 Score: 281
Period size: 20 Copynumber: 15.5 Consensus size: 20
4621487 CGATTTTCCA
* ** *
4621497 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
4621517 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
4621537 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
4621557 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
4621577 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
4621597 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
4621617 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
4621637 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* *
4621657 AAATCGCAACG-ATAATCTGT
1 AAATCGCAACGCGT-ATCCGT
*
4621677 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
4621697 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
4621717 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
4621737 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
**
4621757 AAATCGCAAC-AATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
4621777 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
4621797 AAATCACAAC
1 AAATCGCAAC
4621807 ACTGAAATTT
Statistics
Matches: 248, Mismatches: 34, Indels: 16
0.83 0.11 0.05
Matches are distributed among these distances:
19 3 0.01
20 242 0.98
21 3 0.01
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:4621583 original size:60 final size:60
Alignment explanation
Indices: 4621497--4621806 Score: 324
Period size: 60 Copynumber: 5.2 Consensus size: 60
4621487 CGATTTTCCA
* ** * * * *
4621497 AAATCGCAACGCGAATATGAAAATCGCAACGCGAA-CACATAAATCGCAACGCGT-ATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGAGAATC-CGTAAATCGCAACG-ATAATCCGT
* * * *
4621557 AAATCGCAACGTGTATCCGTATATCGCAACGCGTATCCGTAAATCGCAATGCG-T-ATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAA--CGATAATCCGT
* * * * *
4621617 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGTAAATCGCAACGATAATCTGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
*
4621677 AAATCGCAACGAT-AATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACG-TGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* * * * * *
4621737 AAATCGCAACGAGAATCTGTAAATCGCAACAATAATCCGTAAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
*
4621797 AAATCACAAC
1 AAATCGCAAC
4621807 ACTGAAATTT
Statistics
Matches: 214, Mismatches: 29, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
58 2 0.01
59 1 0.00
60 208 0.97
61 1 0.00
62 2 0.01
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGTGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
Found at i:4621807 original size:40 final size:40
Alignment explanation
Indices: 4621497--4621806 Score: 367
Period size: 40 Copynumber: 7.8 Consensus size: 40
4621487 CGATTTTCCA
* * * ** *
4621497 AAATCGCAACGCGAATATGAAAATCGCAACGCGAA-CACAT
1 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATC-CGT
* * * *
4621537 AAATCGCAACGCGTATCCGTAAATCGCAACG-TGTATCCGT
1 AAATCGCAACGAGAATCTGTAAATCGCAACGAT-AATCCGT
* * * *
4621577 ATATCGCAACGCGTATCCGTAAATCGCAATGCG-T-ATCCGT
1 AAATCGCAACGAGAATCTGTAAATCGCAA--CGATAATCCGT
* * * *
4621617 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
*
4621657 AAATCGCAACGATAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
4621697 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
*
4621737 AAATCGCAACGAGAATCTGTAAATCGCAACAATAATCCGT
1 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
*
4621777 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCTGTAAATCGCAAC
4621807 ACTGAAATTT
Statistics
Matches: 248, Mismatches: 16, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
38 2 0.01
39 1 0.00
40 241 0.97
41 1 0.00
42 3 0.01
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (40 bp):
AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
Found at i:4622528 original size:24 final size:24
Alignment explanation
Indices: 4622489--4622535 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4622479 AAATTTGGTC
4622489 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
4622513 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
4622536 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:4625015 original size:33 final size:34
Alignment explanation
Indices: 4624964--4625128 Score: 183
Period size: 33 Copynumber: 4.7 Consensus size: 34
4624954 CGGAAATTAC
* *
4624964 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
*
4624997 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGC-GAAATGAA
4625031 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C--AATGAAAATCGCAATGCGAAATGAA
* *
4625069 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
4625102 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAA--C--AATGAAAATCGCAA
4625129 CGAGAGAATC
Statistics
Matches: 113, Mismatches: 7, Indels: 19
0.81 0.05 0.14
Matches are distributed among these distances:
32 1 0.01
33 50 0.44
34 16 0.14
35 1 0.01
36 2 0.02
37 1 0.01
38 26 0.23
39 16 0.14
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAACAATGAAAATCGCAATGCGAAATGAA
Found at i:4625047 original size:19 final size:19
Alignment explanation
Indices: 4624978--4625166 Score: 219
Period size: 19 Copynumber: 10.7 Consensus size: 19
4624968 GCAACGAGAG
4624978 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4624997 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
4625011 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
4625031 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4625050 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4625069 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
4625083 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4625102 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4625121 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
4625135 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
4625154 AATCGCATTGCGA
1 AATCGCAATGCGA
4625167 TTCTCCCGTT
Statistics
Matches: 146, Mismatches: 8, Indels: 32
0.78 0.04 0.17
Matches are distributed among these distances:
14 32 0.22
15 2 0.01
16 5 0.03
17 5 0.03
18 2 0.01
19 84 0.58
20 16 0.11
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:4625105 original size:52 final size:52
Alignment explanation
Indices: 4624964--4625166 Score: 281
Period size: 52 Copynumber: 3.9 Consensus size: 52
4624954 CGGAAATTAC
*
4624964 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
4625011 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
4625069 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
4625121 AATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
4625167 TTCTCCCGTT
Statistics
Matches: 140, Mismatches: 5, Indels: 17
0.86 0.03 0.10
Matches are distributed among these distances:
47 8 0.06
49 1 0.01
50 1 0.01
52 85 0.61
53 29 0.21
55 2 0.01
56 1 0.01
58 13 0.09
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:4625215 original size:19 final size:19
Alignment explanation
Indices: 4625175--4625272 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
4625165 GATTCTCCCG
4625175 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
4625195 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4625214 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
4625228 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4625247 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4625266 TTGCGAT
1 TTGCGAT
4625273 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:4625269 original size:52 final size:53
Alignment explanation
Indices: 4625156--4625272 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
4625146 GAAATTAAAA
4625156 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
*
4625209 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
4625261 TCGCATTGCGAT
1 TCGCATTGCGAT
4625273 AGTCAATTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:4625398 original size:14 final size:14
Alignment explanation
Indices: 4625379--4625415 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4625369 CATCAATTAC
4625379 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4625393 ACAAATCATCTTTT
1 ACAAATCAACTTTT
4625407 ACAAATCAA
1 ACAAATCAA
4625416 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:4627413 original size:14 final size:14
Alignment explanation
Indices: 4627394--4627450 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
4627384 GCGAAATGAA
*
4627394 AATCGCAACGACAG
1 AATCGCAACGAAAG
4627408 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
4627425 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
4627441 AATCGCAACG
1 AATCGCAACG
4627451 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:4627421 original size:33 final size:33
Alignment explanation
Indices: 4627375--4627467 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
4627365 GCGAAACCAA
*
4627375 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
4627408 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
4627441 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
4627468 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:4627432 original size:19 final size:19
Alignment explanation
Indices: 4627338--4627472 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
4627328 TAGTTTACTT
* *
4627338 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
4627358 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
4627377 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4627396 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
4627410 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
4627429 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
4627443 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4627462 TCGCAATGCGA
1 TCGCAACGCGA
4627473 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:4627490 original size:19 final size:19
Alignment explanation
Indices: 4627468--4627580 Score: 120
Period size: 19 Copynumber: 6.5 Consensus size: 19
4627458 AAAATCGCAA
4627468 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4627487 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
4627501 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4627520 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
4627534 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
4627553 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
4627572 TGCGATTTT
1 TGCGATTTT
4627581 AAGTTTTGTG
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
14 22 0.29
15 1 0.01
16 2 0.03
17 2 0.03
18 2 0.03
19 48 0.62
ACGTcount: A:0.07, C:0.18, G:0.28, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:4627510 original size:33 final size:33
Alignment explanation
Indices: 4627468--4627559 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
4627458 AAAATCGCAA
4627468 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
4627501 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
4627534 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
4627560 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:4627593 original size:20 final size:19
Alignment explanation
Indices: 4627468--4627596 Score: 100
Period size: 19 Copynumber: 7.3 Consensus size: 19
4627458 AAAATCGCAA
*
4627468 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTAGTTTCGCGT
*
4627487 TGCGATCTT-G--T--CGT
1 TGCGATTTTAGTTTCGCGT
*
4627501 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTAGTTTCGCGT
*
4627520 TGCGATTCT-G--T--CGT
1 TGCGATTTTAGTTTCGCGT
4627534 TGCGATTTTCA-TTTCGCGT
1 TGCGATTTT-AGTTTCGCGT
*
4627553 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTAGTTTCGCGT
* *
4627572 TGCGATTTTAAGTTTTGTGT
1 TGCGATTTT-AGTTTCGCGT
4627592 TGCGA
1 TGCGA
4627597 AAGTAAACTA
Statistics
Matches: 89, Mismatches: 8, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.54
20 12 0.13
ACGTcount: A:0.09, C:0.16, G:0.29, T:0.47
Consensus pattern (19 bp):
TGCGATTTTAGTTTCGCGT
Found at i:4627760 original size:93 final size:93
Alignment explanation
Indices: 4627644--4628298 Score: 1294
Period size: 93 Copynumber: 7.1 Consensus size: 93
4627634 ATGGATTGCA
4627644 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
4627708 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
4627736 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
4627801 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
4627829 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
4627894 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
4627922 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
4627987 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
4628015 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
4628080 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
4628108 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
4628173 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
4628201 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
4628266 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
4628294 TTACT
1 TTACT
4628299 AAGCAATCTA
Statistics
Matches: 561, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
92 4 0.01
93 557 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:4630024 original size:14 final size:14
Alignment explanation
Indices: 4630005--4630094 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
4629995 TTGAAATGAA
4630005 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
4630019 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
4630038 AATCGCAACTAGAG
1 AATCGCAACGAGAG
*
4630052 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
4630071 AATCGCAACGAGAG
1 AATCGCAACGAGAG
4630085 AATCGCAACG
1 AATCGCAACG
4630095 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 30 0.50
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 20 0.33
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:4630037 original size:33 final size:33
Alignment explanation
Indices: 4629997--4630111 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
4629987 TCTTTTGGTT
4629997 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
4630030 GAAATGAAAATCGCAACTAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
4630063 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
4630096 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
4630112 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:4630043 original size:19 final size:19
Alignment explanation
Indices: 4630019--4630116 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
4630009 GCAACGAGAG
4630019 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
4630038 AATCGCAA--C--TA-GAG
1 AATCGCAACGCGAAATGAA
4630052 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
4630071 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
4630085 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
4630104 AATCGCAATGCGA
1 AATCGCAACGCGA
4630117 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 32 0.52
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Done.