Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 533 of 770
Found at i:165546917 original size:80 final size:81
Alignment explanation
Indices: 165546749--165546937 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
165546739 GCTGGAAATT
* * * *
165546749 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
165546814 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
165546830 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
165546893 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
165546909 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
165546938 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:165555612 original size:40 final size:39
Alignment explanation
Indices: 165555447--165555630 Score: 131
Period size: 40 Copynumber: 4.6 Consensus size: 39
165555437 AAATTGAATG
* * *
165555447 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * *
165555487 ATAAT-CGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 AT-ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
165555527 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
165555567 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
165555606 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
165555631 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 24, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 5 0.04
40 100 0.88
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:165555613 original size:80 final size:80
Alignment explanation
Indices: 165555492--165555639 Score: 181
Period size: 80 Copynumber: 1.9 Consensus size: 80
165555482 AAATTATAAT
* * * *
165555492 CGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCGT
1 CGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCGT
165555557 GCGAGTCATTCTATC
66 GCGAGTCATTCTATC
* * * * * * *
165555572 CGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTGG
1 CGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTCG
165555636 TGCG
65 TGCG
165555640 GGTTACCATA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 55 0.98
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (80 bp):
CGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCGT
GCGAGTCATTCTATC
Found at i:165563700 original size:40 final size:39
Alignment explanation
Indices: 165563535--165563718 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
165563525 AAATTGAATG
* * *
165563535 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
165563575 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
165563615 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
165563655 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
165563694 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
165563719 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:165563743 original size:80 final size:81
Alignment explanation
Indices: 165563575--165563763 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
165563565 GCTGGAAATT
* * * *
165563575 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
165563640 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
165563656 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
165563719 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
165563735 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
165563764 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:165567669 original size:19 final size:19
Alignment explanation
Indices: 165567636--165567679 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
165567626 GGGGCCTATA
* *
165567636 GGCCCATTGGACCCA-CAT
1 GGCCCATTCGACCCAGAAT
165567654 GGCCCAGTTCGACCCAGAAT
1 GGCCCA-TTCGACCCAGAAT
165567674 GGCCCA
1 GGCCCA
165567680 ATATTGTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 8 0.36
20 8 0.36
ACGTcount: A:0.23, C:0.39, G:0.25, T:0.14
Consensus pattern (19 bp):
GGCCCATTCGACCCAGAAT
Found at i:165583977 original size:46 final size:46
Alignment explanation
Indices: 165583927--165584102 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
165583917 TGGTTGAGCA
165583927 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
165583973 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
165584018 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
165584066 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
165584103 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:165584083 original size:93 final size:93
Alignment explanation
Indices: 165583924--165584095 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
165583914 GGATGGTTGA
* *
165583924 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
165583989 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
165584017 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
165584082 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
165584096 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:165589070 original size:29 final size:29
Alignment explanation
Indices: 165589030--165589132 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
165589020 GTTGAGAGAT
*
165589030 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
165589059 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
165589088 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
165589117 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
165589133 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:165597142 original size:29 final size:29
Alignment explanation
Indices: 165597102--165597204 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
165597092 GTTGAGAGAT
*
165597102 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
165597131 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
165597160 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
165597189 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
165597205 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:165600656 original size:40 final size:39
Alignment explanation
Indices: 165600488--165600658 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
165600478 AGAAATTGAA
* *
165600488 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
165600528 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
165600568 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
165600608 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
165600648 TGATATCCGGG
1 TGATATCCGGG
165600659 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:165608560 original size:40 final size:39
Alignment explanation
Indices: 165608392--165608562 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
165608382 AGAAATTGAA
* *
165608392 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
165608432 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
165608472 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
165608512 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
165608552 TGATATCCGGG
1 TGATATCCGGG
165608563 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:165610122 original size:49 final size:49
Alignment explanation
Indices: 165610061--165610239 Score: 241
Period size: 49 Copynumber: 3.6 Consensus size: 49
165610051 CTGGTATGCA
* * * *
165610061 TAGTAGCTTGCACTTAGTACTTCACATGTGACCAATTATCCAGTATACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * * * *
165610110 TAGTAGCCTGCACTTAGTACTACACATCTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACG
* *
165610161 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
165610210 TAGTAGCCTGCACTTAGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
165610240 GCCTCACAAT
Statistics
Matches: 110, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 67 0.61
50 6 0.05
51 37 0.34
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:165610231 original size:100 final size:100
Alignment explanation
Indices: 165610048--165610236 Score: 324
Period size: 100 Copynumber: 1.9 Consensus size: 100
165610038 TAGACAAGGC
* * * * *
165610048 TATCTGGTATGCATAGTAGCTTGCACTTAGTACTTCACATGTGACCAATTATCCAGTATACGTAG
1 TATCGGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
165610113 TAGCCTGCACTTAGTACTACACATCTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACATCTGATCGAAGT
*
165610148 TATCGGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
165610213 TAGCCTGCACTTAGTACTACACAT
66 TAGCCTGCACTTAGTACTACACAT
165610237 GTGGCCTCAC
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
TAGCCTGCACTTAGTACTACACATCTGATCGAAGT
Found at i:165610517 original size:27 final size:27
Alignment explanation
Indices: 165610487--165610540 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
165610477 TCATACAACC
* *
165610487 CATGAAATAGTAATTTAACATTCAATT
1 CATGAAACAATAATTTAACATTCAATT
* **
165610514 CATGTAACAATAATTTGCCATTCAATT
1 CATGAAACAATAATTTAACATTCAATT
165610541 TCACATGACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (27 bp):
CATGAAACAATAATTTAACATTCAATT
Found at i:165614060 original size:21 final size:21
Alignment explanation
Indices: 165614032--165614091 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
165614022 CTTGACATAG
*
165614032 GGGC-ACACGCCCGTGTGAAA
1 GGGCAACACGCCCATGTGAAA
*
165614052 GGGCAACACGCCTATGTGAAA
1 GGGCAACACGCCCATGTGAAA
* *
165614073 GGGCACCACCCCCATGTGA
1 GGGCAACACGCCCATGTGA
165614092 CCATTTTGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 4 0.12
21 30 0.88
ACGTcount: A:0.27, C:0.32, G:0.30, T:0.12
Consensus pattern (21 bp):
GGGCAACACGCCCATGTGAAA
Found at i:165615341 original size:46 final size:46
Alignment explanation
Indices: 165615218--165615485 Score: 169
Period size: 46 Copynumber: 5.8 Consensus size: 46
165615208 TGGGTAAGGT
* * * *
165615218 GCCGATGCCATGTCCCCGACATGGTCTTACACTGGCTCATATCTCAAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTATATCTCTAG
* * * *
165615266 TCC-AAGCCACGTCCCAGAC-GGTCTTACACT-GAC-TATCATCTCGTA-
1 GCCGATG-CATGTCCCAGACATGTCTTACACTAG-CTTAT-ATCTC-TAG
* * *
165615311 GCTGATGCATGTCGCAGACATGTCTTACACTAGCTTATGTCTCTAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATATCTCTAG
* *
165615357 GCCGATGCATGTCCCAGATATGTCTTACACTAGC--ACTCATCT-TAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTA-T-ATCTCT-AG
* * * * * *
165615403 GCCGATGCCATGTCCCAAACATGGTATTACACTGGTTCTTTTA-ATGT-G
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG--CTTATATCTCTAG
*
165615451 GCCGATGCATGTCCCAGATATGTCTTACACTAGCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
165615486 CACACAAATG
Statistics
Matches: 172, Mismatches: 30, Indels: 40
0.71 0.12 0.17
Matches are distributed among these distances:
44 6 0.03
45 31 0.18
46 70 0.41
47 41 0.24
48 19 0.11
49 1 0.01
50 3 0.02
51 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATATCTCTAG
Found at i:165621099 original size:9 final size:9
Alignment explanation
Indices: 165621085--165621110 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
165621075 GGCATAATGA
165621085 GGAGGTGGG
1 GGAGGTGGG
165621094 GGAGGTGGG
1 GGAGGTGGG
165621103 GGAGGTGG
1 GGAGGTGG
165621111 ACTGTTCGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.77, T:0.12
Consensus pattern (9 bp):
GGAGGTGGG
Found at i:165623621 original size:55 final size:54
Alignment explanation
Indices: 165623466--165623672 Score: 227
Period size: 53 Copynumber: 3.8 Consensus size: 54
165623456 TTCCTTTTTA
* * * *
165623466 AACTTACCATTGCCATGTCTTGACATGGTCTTCCGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
165623519 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
165623573 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
165623628 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
165623673 AAACCCTAAT
Statistics
Matches: 124, Mismatches: 28, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
53 45 0.36
54 38 0.31
55 41 0.33
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:165628819 original size:29 final size:29
Alignment explanation
Indices: 165628773--165628828 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
165628763 GGGTAAGGGG
* *
165628773 TTTTACAAAATGACCATTTTGCCCCTAAA
1 TTTTACAAAATGAACATTTTACCCCTAAA
165628802 TTTTGACAAAAT-AACATTTTACCCCTA
1 TTTT-ACAAAATGAACATTTTACCCCTA
165628829 GGTCCAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (29 bp):
TTTTACAAAATGAACATTTTACCCCTAAA
Found at i:165634446 original size:46 final size:46
Alignment explanation
Indices: 165634396--165634571 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
165634386 TGGTTGAGCA
165634396 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
165634442 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
165634487 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
165634535 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
165634572 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:165634552 original size:93 final size:93
Alignment explanation
Indices: 165634393--165634564 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
165634383 GGATGGTTGA
* *
165634393 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
165634458 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
165634486 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
165634551 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
165634565 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:165643531 original size:19 final size:19
Alignment explanation
Indices: 165643495--165643533 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
165643485 TTTTCATCAT
* *
165643495 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
165643514 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
165643533 A
1 A
165643534 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:165644045 original size:28 final size:29
Alignment explanation
Indices: 165643972--165644059 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 29
165643962 AGCATGGCTG
* * * *
165643972 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
*
165643999 CCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAATTTGTGGCA-TAGCCA
165644028 CCAGA-ACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
165644056 CCAG
1 CCAG
165644060 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 12 0.24
28 25 0.49
29 14 0.27
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCATAGCCA
Found at i:165644211 original size:27 final size:27
Alignment explanation
Indices: 165644168--165644224 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
165644158 TTAACCCTAG
*
165644168 GGGTATAAAGGTCATTTTGCATACATA
1 GGGTATAAAGGTAATTTTGCATACATA
*
165644195 GGGTATAATGGTAATTTTGCATACATA
1 GGGTATAAAGGTAATTTTGCATACATA
165644222 GGG
1 GGG
165644225 GTATTCTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.33
Consensus pattern (27 bp):
GGGTATAAAGGTAATTTTGCATACATA
Found at i:165651820 original size:28 final size:29
Alignment explanation
Indices: 165651747--165651834 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 29
165651737 AGCATGGCTG
* * * *
165651747 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
*
165651774 CCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAATTTGTGGCA-TAGCCA
165651803 CCAGA-ACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
165651831 CCAG
1 CCAG
165651835 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 12 0.24
28 25 0.49
29 14 0.27
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCATAGCCA
Found at i:165651987 original size:28 final size:28
Alignment explanation
Indices: 165651940--165652004 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
165651930 AAATTAACCC
*
165651940 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
165651968 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
165651996 TAGGGGTAT
1 TAGGGGTAT
165652005 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:165660191 original size:8 final size:8
Alignment explanation
Indices: 165660180--165660223 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
165660170 ACAAAAGTAC
165660180 AAAAAAAT
1 AAAAAAAT
165660188 AAAAAAAT
1 AAAAAAAT
165660196 AAATAAAA-
1 AAA-AAAAT
* *
165660204 AGAAGAAT
1 AAAAAAAT
165660212 AAAAAAAT
1 AAAAAAAT
165660220 AAAA
1 AAAA
165660224 CAAAGGTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 3 0.10
8 23 0.77
9 4 0.13
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:165660201 original size:12 final size:11
Alignment explanation
Indices: 165660180--165660218 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
165660170 ACAAAAGTAC
165660180 AAAAAAATAAA
1 AAAAAAATAAA
165660191 AAAATAAATAAA
1 AAAA-AAATAAA
*
165660203 AAGAAGAATAAA
1 AA-AAAAATAAA
165660215 AAAA
1 AAAA
165660219 TAAAACAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 6 0.24
12 17 0.68
13 2 0.08
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:165662469 original size:27 final size:27
Alignment explanation
Indices: 165662434--165662545 Score: 122
Period size: 27 Copynumber: 4.1 Consensus size: 27
165662424 AGCATGGCTG
*
165662434 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGACAGAGCCA
*
165662460 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGACAGAGCCA
* *
165662488 CCAGAATAAAAAT-ATGTGACAGAGCCA
1 CCAG-ATACAGATAATGTGACAGAGCCA
* *
165662515 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGACAGAGCCA
165662542 CCAG
1 CCAG
165662546 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
25 3 0.04
26 8 0.11
27 39 0.54
28 16 0.22
29 6 0.08
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.16
Consensus pattern (27 bp):
CCAGATACAGATAATGTGACAGAGCCA
Found at i:165669783 original size:39 final size:40
Alignment explanation
Indices: 165669622--165669864 Score: 226
Period size: 40 Copynumber: 6.1 Consensus size: 40
165669612 TGAATGATAC
* ** *
165669622 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
165669662 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
* * ** *
165669702 CCGGGTTAAGACCCGAAGGCAATT-GTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
* *
165669742 CCGGACTAAGA-CCAAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
* * ** *
165669781 CCGGGTTAAGACCCGAAGGCAATT-GTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
* * ** *
165669821 CTGGGTTAAGACCCGAAGGCAATT-GTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
165669861 CCGG
1 CCGG
165669865 TTAAATCCCG
Statistics
Matches: 167, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
38 3 0.02
39 28 0.17
40 128 0.77
41 8 0.05
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
Found at i:165669784 original size:79 final size:80
Alignment explanation
Indices: 165669622--165669878 Score: 333
Period size: 79 Copynumber: 3.2 Consensus size: 80
165669612 TGAATGATAC
* * * * * * * *
165669622 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGCTAAGACCCGAAGGCATTCG
165669687 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
* *
165669702 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGACTAAGA-CCAAAGGCATTCG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGCTAAGACCCGAAGGCATTCG
165669766 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
* *
165669781 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCTGGGTTAAGACCCGAAGGCAATT-
1 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGCTAAGACCCGAAGGC-ATTC
** *
165669845 GTGCTTGTGGTTATAT
65 GTGCGAGTTGTTATAT
165669861 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
165669879 TACGTGATCG
Statistics
Matches: 157, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 89 0.57
80 64 0.41
81 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTTGTTATAT
Found at i:165674647 original size:77 final size:78
Alignment explanation
Indices: 165674531--165674680 Score: 250
Period size: 77 Copynumber: 1.9 Consensus size: 78
165674521 GTGCGAATTG
165674531 TGATATCCGGGCAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
1 TGATATCCGGGCAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
165674595 ATTGTGCGAGCTA
66 ATTGTGCGAGCTA
* *
165674608 TGATAT-CGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGC-AAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
*
165674672 ATTTGTGCG
65 AATTGTGCG
165674681 GGTTACCATA
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
76 5 0.07
77 46 0.68
78 17 0.25
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (78 bp):
TGATATCCGGGCAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGCTA
Found at i:165674678 original size:40 final size:39
Alignment explanation
Indices: 165674520--165674680 Score: 245
Period size: 38 Copynumber: 4.2 Consensus size: 39
165674510 TGTGTATGAA
*
165674520 TGTGCGAATTGTGATATCCGGGC-AAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
165674558 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
165674597 TGTGCGAGCTATGATAT-CGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
165674635 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
165674675 TGTGCG
1 TGTGCG
165674681 GGTTACCATA
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
38 59 0.52
39 37 0.33
40 17 0.15
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:165674696 original size:40 final size:39
Alignment explanation
Indices: 165674520--165674711 Score: 208
Period size: 38 Copynumber: 4.9 Consensus size: 39
165674510 TGTGTATGAA
* * *
165674520 TGTGCGAATTGTGATATCCGGGC-AAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATAACCGGGCTAAGCCCGAAGGCAAT
* * *
165674558 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATAACCGGGCTAAGCCCGAAGGCAAT
* *
165674597 TGTGCGAGCTATGAT-ATCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATAACCGGGCTAAGCCCGAAGGCAAT
* * * *
165674635 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATAACCGGGCTAAG-CCCGAAGGCAAT
* ** *
165674675 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATAACCGGGCTAAG-CCCGAAGGC
165674712 GTTTGAACGA
Statistics
Matches: 133, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
38 57 0.43
39 35 0.26
40 41 0.31
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATAACCGGGCTAAGCCCGAAGGCAAT
Found at i:165680480 original size:37 final size:37
Alignment explanation
Indices: 165680432--165680541 Score: 132
Period size: 37 Copynumber: 2.9 Consensus size: 37
165680422 ATATCACGAT
165680432 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-AAAC
1 TTGCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAAAC
**
165680469 TTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCAC
1 TTGCAC-AATGCCTTCGGGTCTTAGCCCGGA--TAGAAAC
* *
165680509 TAGCACAATTGCCTTCGGGTCTTAACCCGGATA
1 TTGCACAA-TGCCTTCGGGTCTTAGCCCGGATA
165680542 TAATTTCCAG
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
37 30 0.47
38 2 0.03
39 4 0.06
40 28 0.44
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (37 bp):
TTGCACAATGCCTTCGGGTCTTAGCCCGGATAGAAAC
Found at i:165680559 original size:40 final size:37
Alignment explanation
Indices: 165680435--165680582 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 37
165680425 TCACGATTTG
* *
165680435 CACAAATGCCTTCGGGTCTTAGCCCGGATAAAACTTG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAACTTC
* * **
165680472 CACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATA---ACTTC
* * *
165680512 CACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAACTTC
* *
165680549 CAGCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 CA-CA-AA-TGCCTTCGGGTCTTAGCCCGGATAT
165680583 CATTCAATTT
Statistics
Matches: 90, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
37 33 0.37
38 2 0.02
39 1 0.01
40 54 0.60
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (37 bp):
CACAAATGCCTTCGGGTCTTAGCCCGGATATAACTTC
Found at i:165689166 original size:28 final size:28
Alignment explanation
Indices: 165689105--165689202 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
165689095 TCACAAATTG
** * *
165689105 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
165689134 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
165689162 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
165689190 GCACTAAGTGTGC
1 GCACTAAGTGTGC
165689203 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:165696834 original size:28 final size:28
Alignment explanation
Indices: 165696773--165696870 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
165696763 TCACAAATTG
** * *
165696773 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
165696802 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
165696830 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
165696858 GCACTAAGTGTGC
1 GCACTAAGTGTGC
165696871 GGGCTTATGG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:165699573 original size:27 final size:27
Alignment explanation
Indices: 165699378--165699565 Score: 223
Period size: 27 Copynumber: 7.0 Consensus size: 27
165699368 GGGGCAAAAT
* * ** *
165699378 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
165699405 GGTAATTCTACCCCACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
165699432 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
165699459 GATAATTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
165699486 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
165699513 GGTATTTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
165699540 GGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
165699566 TAGTAATTTT
Statistics
Matches: 137, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 137 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:165699573 original size:81 final size:81
Alignment explanation
Indices: 165699397--165699573 Score: 282
Period size: 81 Copynumber: 2.2 Consensus size: 81
165699387 ACCCCACAAA
* *
165699397 GGTATCTCGGTAATTCTACCCCACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTGAT
1 GGTATTTCAGTAATTCTACCCCACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTGAT
*
165699462 AATTCTACCCTACGGG
66 AATTCTACCCTACAGG
* * * *
165699478 GGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTATAAGGGTATTTTGGT
1 GGTATTTCAGTAATTCTACCCCACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTGAT
165699543 AATTCTACCCTACAGG
66 AATTCTACCCTACAGG
*
165699559 GGTATTTTAGTAATT
1 GGTATTTCAGTAATT
165699574 TTATAAGCAA
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 87 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (81 bp):
GGTATTTCAGTAATTCTACCCCACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTGAT
AATTCTACCCTACAGG
Found at i:165699587 original size:54 final size:53
Alignment explanation
Indices: 165699488--165699654 Score: 160
Period size: 54 Copynumber: 3.1 Consensus size: 53
165699478 GGTATTTCAA
* * **
165699488 TAATTCTACCCTACAGGGGTATTTCGGT-A-TTTCTACCCTATAAGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTT-TGTAATTTTATAAAC-A-AAGGGTATTTTGG
* *
165699542 TAATTCTACCCTACAGGGGTATTTTAGTAATTTTATAAGCAAAGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTT-GTAATTTTATAAACAAAGGGTATTTTGG
* ** * *
165699596 TAATTTTA-CAAACTAGGGGTATTTTGATAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTCTACCCTAC-AGGGGTATTTTG-TAATTTTATAAACAAAGGGTATTTTGG
165699650 TAATT
1 TAATT
165699655 TGGTAAACTA
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
53 4 0.04
54 84 0.88
55 2 0.02
56 6 0.06
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (53 bp):
TAATTCTACCCTACAGGGGTATTTTGTAATTTTATAAACAAAGGGTATTTTGG
Found at i:165699662 original size:27 final size:27
Alignment explanation
Indices: 165699558--165699655 Score: 117
Period size: 27 Copynumber: 3.6 Consensus size: 27
165699548 TACCCTACAG
*
165699558 GGGTATTTTAGTAATTTTATAAGCAAA
1 GGGTATTTTAGTAATTTTATAAACAAA
* * *
165699585 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTAGTAATTTTATAAACAAA
* *
165699612 GGGTATTTT-GATAATTTTGTAAACCAA
1 GGGTATTTTAG-TAATTTTATAAACAAA
*
165699639 GGGTATTTTGGTAATTT
1 GGGTATTTTAGTAATTT
165699656 GGTAAACTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.02
27 59 0.97
28 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTATAAACAAA
Found at i:165699670 original size:26 final size:27
Alignment explanation
Indices: 165699614--165699671 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
165699604 CAAACTAGGG
* *
165699614 GTATTTTGATAATTTTGTAAACCAAGG
1 GTATTTTGATAATTTGGTAAACCAAGA
* *
165699641 GTATTTTGGTAATTTGGTAAACTAA-A
1 GTATTTTGATAATTTGGTAAACCAAGA
165699667 GTATT
1 GTATT
165699672 CTAAACAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (27 bp):
GTATTTTGATAATTTGGTAAACCAAGA
Found at i:165704761 original size:43 final size:43
Alignment explanation
Indices: 165704683--165704853 Score: 186
Period size: 43 Copynumber: 4.0 Consensus size: 43
165704673 TAGGATTTTT
* * * *
165704683 GATATGTG-TTCTCGTGTAAGACCACATCTGTGACATTAGCATC
1 GATATGTGATT-TCATGTAAGACCACGTCTGGGACATTGGCATC
* *
165704726 GATATGTGATTTCGA-GTAAGACCATGTCTGGGACATCGGCATC
1 GATATGTGATTTC-ATGTAAGACCACGTCTGGGACATTGGCATC
* ** *
165704769 GTTATTGTGA-TTCATGTAAGACCTTGTCTGGGACAGTGGCATC
1 GATA-TGTGATTTCATGTAAGACCACGTCTGGGACATTGGCATC
* *
165704812 GACATGTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
1 GATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCAT
165704854 TGTACGATAT
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 6 0.06
43 94 0.88
44 7 0.07
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
GATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCATC
Found at i:165707416 original size:39 final size:39
Alignment explanation
Indices: 165707301--165707497 Score: 207
Period size: 39 Copynumber: 5.0 Consensus size: 39
165707291 TACTCGTTCA
* * * *
165707301 AATT-CCTTCGGGACATAGCCCGGTTATGATAACCCGCAC
1 AATTGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCAC
* * *
165707340 AAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCAC
1 AATTGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCAC
* *
165707380 AATCGCCTTCGGGCTTAGCCCGGATATCATATCTCGCAC
1 AATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCAC
* * * *
165707419 ATTTGCCTTCGGGCTTAGCCCGGATATCACAATTCTCAC
1 AATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCAC
* * * * *
165707458 ATTTTCCTTAGGGCTTAGCCCGGATATCACAATTCGCAC
1 AATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCAC
165707497 A
1 A
165707498 TTCATACACA
Statistics
Matches: 136, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 96 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (39 bp):
AATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCAC
Found at i:165707498 original size:39 final size:39
Alignment explanation
Indices: 165707343--165707499 Score: 217
Period size: 39 Copynumber: 4.0 Consensus size: 39
165707333 CCCGCACAAA
* * *
165707343 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCACATT
* *
165707383 CGCCTTCGGGCTTAGCCCGGATATCA-TATCTCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATT
*
165707422 TGCCTTCGGGCTTAGCCCGGATATCACAATTCTCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
* *
165707461 TTCCTTAGGGCTTAGCCCGGATATCACAATTCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
165707500 CATACACATC
Statistics
Matches: 104, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 92 0.88
40 11 0.11
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.28
Consensus pattern (39 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
Found at i:165711528 original size:47 final size:46
Alignment explanation
Indices: 165711465--165711572 Score: 180
Period size: 47 Copynumber: 2.3 Consensus size: 46
165711455 ATCCATAAGT
*
165711465 GAACTCAGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTC-GACTCAACTCAATGAACTCGGATGCCTAGTTACATCTCAC
165711512 GAACTCGTACTCAACTCAATGAACTCGGATGCCTAGTTACATCTCAC
1 GAACTCG-ACTCAACTCAATGAACTCGGATGCCTAGTTACATCTCAC
*
165711559 GAACTCGGCTCAAC
1 GAACTCGACTCAAC
165711573 GAGTTCGGAC
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
46 7 0.12
47 51 0.88
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (46 bp):
GAACTCGACTCAACTCAATGAACTCGGATGCCTAGTTACATCTCAC
Found at i:165731607 original size:40 final size:40
Alignment explanation
Indices: 165731562--165731729 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
165731552 CGGAATACAA
165731562 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
165731602 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
165731642 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
165731682 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
165731722 CCGGATAT
1 CCGGATAT
165731730 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:165741831 original size:40 final size:40
Alignment explanation
Indices: 165741786--165741953 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
165741776 CGGAATACAA
165741786 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
165741826 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
165741866 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
165741906 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
165741946 CCGGATAT
1 CCGGATAT
165741954 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:165746678 original size:40 final size:40
Alignment explanation
Indices: 165746582--165746760 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
165746572 CGAATGGTAT
* * * *
165746582 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
165746623 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
165746663 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
165746703 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
165746743 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
165746761 ACAATCGAGC
Statistics
Matches: 118, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
40 93 0.79
41 25 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:165746723 original size:80 final size:81
Alignment explanation
Indices: 165746582--165746760 Score: 245
Period size: 80 Copynumber: 2.2 Consensus size: 81
165746572 CGAATGGTAT
* *
165746582 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
165746647 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * *
165746663 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
165746726 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
165746743 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
165746761 ACAATCGAGC
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.01
80 59 0.69
81 26 0.30
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:165746781 original size:40 final size:40
Alignment explanation
Indices: 165746703--165746786 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
165746693 GTTACTAAAT
* * *
165746703 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
165746743 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
165746783 CCGG
1 CCGG
165746787 TTAAATTCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:165746785 original size:80 final size:80
Alignment explanation
Indices: 165746616--165746795 Score: 200
Period size: 80 Copynumber: 2.2 Consensus size: 80
165746606 GTGCTAAGTG
* * * *
165746616 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
* * * * *
165746681 GCATTTGTGCGAGTT
66 ACAATCGAGCGAGTC
* * *
165746696 ACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
165746760 GACAATCGAGCGAGTC
65 GACAATCGAGCGAGTC
* * * *
165746776 GCTATATCCGGTTAAATTCC
1 ACTAAATCCGGGTCAATTCC
165746796 AAAGGTACGT
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
79 1 0.01
80 81 0.99
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (80 bp):
ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:165750563 original size:60 final size:60
Alignment explanation
Indices: 165750493--165750612 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
165750483 GGGAGCACCA
*
165750493 GTCTTTTTTGTCAAAAAGAAGGACGAATTTATGAGAATGTGTTTGGATTACAGCTAGTTG
1 GTCTTTTTTGTCAAAAAGAAGGACGAATTTATGAGAATGTGTTTGGATTACAGCCAGTTG
165750553 GTCTTTTTTGTCAAAAAGAAGGACGAATTTATGAGAATGTGTTTGGATTACAGCCAGTTG
1 GTCTTTTTTGTCAAAAAGAAGGACGAATTTATGAGAATGTGTTTGGATTACAGCCAGTTG
165750613 AAAAATGAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (60 bp):
GTCTTTTTTGTCAAAAAGAAGGACGAATTTATGAGAATGTGTTTGGATTACAGCCAGTTG
Found at i:165756335 original size:56 final size:56
Alignment explanation
Indices: 165756248--165756415 Score: 239
Period size: 56 Copynumber: 3.0 Consensus size: 56
165756238 TCTTACATGT
* * * * * *
165756248 AATCACATATCGATGCCAATGCACTAGATGTGGTCTTACTCACACACATATATCGG
1 AATCACATATCGATGCCAACGAATTAAATGTGGTCTTACTCGCACACATATATCGA
*
165756304 AATCACATATCGATGCCAACGAATTAAATGTGGTCTTACTCGCACACATTTATCGA
1 AATCACATATCGATGCCAACGAATTAAATGTGGTCTTACTCGCACACATATATCGA
* *
165756360 AATCACATATCGATGCCAAC-ATATTAAATGTGGTCTTACTTGTACACATATATCGA
1 AATCACATATCGATGCCAACGA-ATTAAATGTGGTCTTACTCGCACACATATATCGA
165756416 TACCATGGTC
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
55 1 0.01
56 100 0.99
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGAATTAAATGTGGTCTTACTCGCACACATATATCGA
Found at i:165757379 original size:21 final size:21
Alignment explanation
Indices: 165757354--165757396 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
165757344 ATCATTTTAC
* * *
165757354 ATATATAACCTTTATGAAATA
1 ATATAAAACCATTATAAAATA
165757375 ATATAAAACCATTATAAAATA
1 ATATAAAACCATTATAAAATA
165757396 A
1 A
165757397 GGTCACAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (21 bp):
ATATAAAACCATTATAAAATA
Found at i:165760562 original size:33 final size:33
Alignment explanation
Indices: 165760487--165760563 Score: 79
Period size: 33 Copynumber: 2.3 Consensus size: 33
165760477 TTTACTTGCA
* *
165760487 TACTG-TACTGAAATGGGCTAAGGCCCTGACTG
1 TACTGTTATTGAAATAGGCTAAGGCCCTGACTG
*
165760519 TCACTATTATTGAAATAGGCTAA-G-CCTAGACTG
1 T-ACTGTTATTGAAATAGGCTAAGGCCCT-GACTG
165760552 CTACTGTTATTG
1 -TACTGTTATTG
165760564 GGAAAGGGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
32 4 0.11
33 18 0.49
34 15 0.41
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (33 bp):
TACTGTTATTGAAATAGGCTAAGGCCCTGACTG
Found at i:165773898 original size:16 final size:16
Alignment explanation
Indices: 165773851--165773898 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
165773841 TTTTACTCAA
* *
165773851 GTTTTCAAATAAGAAG
1 GTTTTCAAAAAACAAG
*
165773867 GTTTTCAATGAAAACATG
1 GTTTTCAA--AAAACAAG
165773885 GTTTTCAAAAAACA
1 GTTTTCAAAAAACA
165773899 CTTCATTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 14 0.52
18 13 0.48
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (16 bp):
GTTTTCAAAAAACAAG
Found at i:165781647 original size:13 final size:15
Alignment explanation
Indices: 165781621--165781660 Score: 66
Period size: 13 Copynumber: 2.8 Consensus size: 15
165781611 CCTTAATTTA
165781621 TTAATATTTATTAAT
1 TTAATATTTATTAAT
165781636 TTAAT-TTT-TTAAT
1 TTAATATTTATTAAT
165781649 TTAATATTTATT
1 TTAATATTTATT
165781661 TAATAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.43
14 6 0.26
15 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTAATATTTATTAAT
Found at i:165784446 original size:14 final size:14
Alignment explanation
Indices: 165784427--165784455 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
165784417 ACAGATGGAT
165784427 TCGTATAATTCTTA
1 TCGTATAATTCTTA
165784441 TCGTATAATTCTTA
1 TCGTATAATTCTTA
165784455 T
1 T
165784456 ATATATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:165788688 original size:20 final size:21
Alignment explanation
Indices: 165788622--165788690 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
165788612 TCACTTCGTT
165788622 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
165788643 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
165788664 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
165788685 -CTTTTT
1 TCTTTTT
165788691 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:165791089 original size:18 final size:18
Alignment explanation
Indices: 165791056--165791149 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
165791046 AAGGTTTTCT
165791056 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
165791071 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
165791089 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
165791107 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
165791125 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
165791143 TATTGAT
1 TATTGAT
165791150 CGTGACCTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:165799416 original size:14 final size:14
Alignment explanation
Indices: 165799397--165799424 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
165799387 TATATTAGTA
165799397 TTTTCTATTCTATT
1 TTTTCTATTCTATT
165799411 TTTTCTATTCTATT
1 TTTTCTATTCTATT
165799425 AGTATTAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:165799432 original size:6 final size:6
Alignment explanation
Indices: 165799421--165799499 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
165799411 TTTTCTATTC
* *
165799421 TATTAG TATTAGAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG
1 TATTAG TATT--AG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
165799468 -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG T
165799500 TAGTGATCCC
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.06
5 28 0.44
6 26 0.41
8 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:165799447 original size:11 final size:11
Alignment explanation
Indices: 165799422--165799503 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
165799412 TTTCTATTCT
165799422 ATTAGTATTAG
1 ATTAGTATTAG
165799433 ---AGTATTAG
1 ATTAGTATTAG
**
165799441 ATTAGTATTCT
1 ATTAGTATTAG
*
165799452 ATT-CTATTAG
1 ATTAGTATTAG
165799462 TATTAG-ATTAG
1 -ATTAGTATTAG
165799473 TATTAGTTAGATTAG
1 -ATTAG-T--ATTAG
165799488 ATTAGTATTAG
1 ATTAGTATTAG
165799499 -TTAGT
1 ATTAGT
165799504 GATCCCGGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
8 8 0.14
10 9 0.16
11 28 0.50
13 1 0.02
14 5 0.09
15 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:165799488 original size:20 final size:21
Alignment explanation
Indices: 165799458--165799503 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
165799448 TTCTATTCTA
165799458 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
165799479 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
165799499 TTAGT
1 TTAGT
165799504 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:165807717 original size:32 final size:32
Alignment explanation
Indices: 165807676--165807737 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
165807666 CATCTATTTT
165807676 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
165807708 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
165807738 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:165811881 original size:22 final size:22
Alignment explanation
Indices: 165811855--165811898 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
165811845 TTATCTCTTT
165811855 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
165811877 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
165811899 AAATCGAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.23, T:0.18
Consensus pattern (22 bp):
TGATTGAAAAGGAGCAATAAAA
Found at i:165814152 original size:21 final size:21
Alignment explanation
Indices: 165814128--165814171 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
165814118 ACGACCTAAT
*
165814128 TAAATAGAAAGGATA-ATTAAA
1 TAAATA-AAAGGATACAATAAA
*
165814149 TAAATAAAATGATACAATAAA
1 TAAATAAAAGGATACAATAAA
165814170 TA
1 TA
165814172 CTAAAGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (21 bp):
TAAATAAAAGGATACAATAAA
Found at i:165820844 original size:29 final size:29
Alignment explanation
Indices: 165820811--165820884 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
165820801 CCTTCGAGCT
165820811 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
165820840 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
165820869 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
165820885 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:165820845 original size:58 final size:58
Alignment explanation
Indices: 165820752--165820884 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
165820742 ATACTCGATT
* * * * *
165820752 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
165820810 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
165820868 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
165820885 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:165827728 original size:40 final size:40
Alignment explanation
Indices: 165827669--165827810 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
165827659 AAATTGAATG
* * *
165827669 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
165827709 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
165827749 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
165827789 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
165827811 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:165827811 original size:40 final size:39
Alignment explanation
Indices: 165827708--165827836 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
165827698 TGCTGGAAAT
* * *
165827708 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
165827748 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
165827788 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
165827828 TATATCCGG
1 TATATCCGG
165827837 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:165830045 original size:49 final size:47
Alignment explanation
Indices: 165829870--165830092 Score: 293
Period size: 47 Copynumber: 4.7 Consensus size: 47
165829860 CCCTTCGGGA
* * * * * *
165829870 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
165829917 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
165829964 CTTATCACACATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
165830011 CTTATTACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
165830060 CTTATCTCATATTTATACACATTCACATTCATC
1 CTTATCACATA--TATACACTTTCACATTCATC
165830093 GCGTAGAATC
Statistics
Matches: 156, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
47 92 0.59
48 2 0.01
49 62 0.40
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:165830053 original size:96 final size:94
Alignment explanation
Indices: 165829870--165830092 Score: 293
Period size: 96 Copynumber: 2.3 Consensus size: 94
165829860 CCCTTCGGGA
* * * * *
165829870 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
165829935 TTTCACATTCATCACATTGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * * * *
165829964 CTTATCACACATATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTA-T-CACATATATAC
165830029 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
165830060 CTTATCTCATATTTATACACATTCACATTCATC
1 CTTATCACATA--TATACACTTTCACATTCATC
165830093 GCGTAGAATC
Statistics
Matches: 110, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
94 42 0.38
95 1 0.01
96 49 0.45
98 18 0.16
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:165835017 original size:40 final size:39
Alignment explanation
Indices: 165834947--165835084 Score: 181
Period size: 40 Copynumber: 3.5 Consensus size: 39
165834937 AAACCAAGTA
* **
165834947 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTGAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATG
165834986 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
* *
165835026 CCTTCGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATG
165835066 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
165835085 TTACCATCCG
Statistics
Matches: 89, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
39 17 0.19
40 71 0.80
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
Found at i:165842731 original size:40 final size:40
Alignment explanation
Indices: 165842661--165842874 Score: 328
Period size: 40 Copynumber: 5.4 Consensus size: 40
165842651 AAACCAAGTA
* *
165842661 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
165842700 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
165842740 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
165842780 CCTTCGGGACTTAG-CCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
165842819 CCTTCGGGACTTAGCCCGTA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
165842859 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
165842875 TGGTTACCAT
Statistics
Matches: 165, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
39 53 0.32
40 112 0.68
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:165842806 original size:79 final size:78
Alignment explanation
Indices: 165842661--165842874 Score: 324
Period size: 79 Copynumber: 2.7 Consensus size: 78
165842651 AAACCAAGTA
* *
165842661 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAG-CCGGATATAG
165842725 TAACTCGCACAAATG
64 TAACTCGCACAAATG
165842740 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCGGATATAGT
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCGGATATAGT
*
165842805 AACTTGCACAAATG
65 AACTCGCACAAATG
* *
165842819 CCTTCGGGACTTAGCCCGTA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCC
165842875 TGGTTACCAT
Statistics
Matches: 126, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
78 1 0.01
79 89 0.71
80 36 0.29
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCGGATATAGTA
ACTCGCACAAATG
Found at i:165851608 original size:28 final size:28
Alignment explanation
Indices: 165851562--165851630 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
165851552 TTTAAAACCC
*
165851562 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
165851589 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
165851617 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
165851631 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:165853281 original size:20 final size:20
Alignment explanation
Indices: 165853258--165853295 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
165853248 CACATCCAAA
*
165853258 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
165853278 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
165853296 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:165859617 original size:28 final size:28
Alignment explanation
Indices: 165859571--165859639 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
165859561 TTTAAAACCC
*
165859571 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
165859598 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
165859626 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
165859640 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:165861291 original size:20 final size:20
Alignment explanation
Indices: 165861268--165861305 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
165861258 CACATCCAAA
*
165861268 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
165861288 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
165861306 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:165875860 original size:19 final size:19
Alignment explanation
Indices: 165875838--165875882 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
165875828 AAATGCATAT
*
165875838 TGGCGCACGAAGCACATCC
1 TGGCGCACAAAGCACATCC
165875857 TGGCGCACAAAGCACATCC
1 TGGCGCACAAAGCACATCC
165875876 TGGCGCA
1 TGGCGCA
165875883 TGAGGTGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.27, C:0.36, G:0.27, T:0.11
Consensus pattern (19 bp):
TGGCGCACAAAGCACATCC
Found at i:165877510 original size:30 final size:30
Alignment explanation
Indices: 165877453--165877511 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
165877443 TAAAATTTTG
*
165877453 TGGCACACAGTCGTGTCACTACCCCATGTA
1 TGGCACACAGTCGTGTCACTACACCATGTA
* *
165877483 TGGCACACAGTTGTGT-AGCTAGACCATGT
1 TGGCACACAGTCGTGTCA-CTACACCATGT
165877512 GGCACTGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (30 bp):
TGGCACACAGTCGTGTCACTACACCATGTA
Found at i:165877515 original size:28 final size:28
Alignment explanation
Indices: 165877451--165877516 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 28
165877441 GCTAAAATTT
*
165877451 TGTGGCACACAGTCGTGTCACTACCCCA
1 TGTGGCACACAGTCGTGTCACTACACCA
* *
165877479 TGTATGGCACACAGTTGTGT-AGCTAGACCA
1 TG--TGGCACACAGTCGTGTCA-CTACACCA
165877509 TGTGGCAC
1 TGTGGCAC
165877517 TGAAAATTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
28 8 0.25
29 1 0.03
30 23 0.72
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.24
Consensus pattern (28 bp):
TGTGGCACACAGTCGTGTCACTACACCA
Found at i:165879679 original size:28 final size:27
Alignment explanation
Indices: 165879616--165879685 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
165879606 ATAGTGAGTC
165879616 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
165879643 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
165879671 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
165879686 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:165884860 original size:41 final size:41
Alignment explanation
Indices: 165884795--165884902 Score: 155
Period size: 41 Copynumber: 2.7 Consensus size: 41
165884785 AGCTTAACAT
165884795 TTTAGTGGCG-TTTTTCTAAAAACGCCGCTATAGATCAAAC
1 TTTAGTGGCGTTTTTTCTAAAAACGCCGCTATAGATCAAAC
* * *
165884835 TTTAGTGGCGTTTTTTCTAAAAACGCCGCTATAGGTCCACC
1 TTTAGTGGCGTTTTTTCTAAAAACGCCGCTATAGATCAAAC
* * *
165884876 TTTCGCGGCGTTTTTTATAAAAACGCC
1 TTTAGTGGCGTTTTTTCTAAAAACGCC
165884903 ACTAAAATGT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 10 0.16
41 51 0.84
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTTCTAAAAACGCCGCTATAGATCAAAC
Found at i:165885038 original size:113 final size:112
Alignment explanation
Indices: 165884837--165885129 Score: 379
Period size: 113 Copynumber: 2.6 Consensus size: 112
165884827 GATCAAACTT
* * * * * *
165884837 TAGTGGCGTTTTTTCTAAAAACGCCGCTATAGGTCCACCTTTCGCGGCGTTTTTTATAAAAACGC
1 TAGTGGCG--TTTTCCAAAAACGCCGCAATAGAT-CAACTTTAGCGGCGTTTTTGA-AAAAACGC
* *
165884902 CACTAAAATGTTAAGAAAAACGACGTCATTTTCTATGAGCTTCATTGGCAG
62 CACTAAAATGTTAAGAAAAACGACGTCATTTTATATGAGCTCCATTGGCAG
* *
165884953 TAGTGGCGTTTTCGATAAAACGCCGCAATAGATCAACTTTAGCGGCGTTTTTGAAAAAACGGCAC
1 TAGTGGCGTTTTCCA-AAAACGCCGCAATAGATCAACTTTAGCGGCGTTTTTGAAAAAACGCCAC
* * * *
165885018 TAAAATGTTAAGGAAAACGACGTCGTTTTATATGTGCTCCTTTGGCAG
65 TAAAATGTTAAGAAAAACGACGTCATTTTATATGAGCTCCATTGGCAG
* *
165885066 TAGCGGCGTTTTCCCAAAAACGCCGCAAAAGATCAAACTTTAGCGGCGTTTTTGAAAAAACGCC
1 TAGTGGCGTTTT-CCAAAAACGCCGCAATAGATC-AACTTTAGCGGCGTTTTTGAAAAAACGCC
165885130 GCAATTGCTA
Statistics
Matches: 157, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
113 80 0.51
114 54 0.34
115 15 0.10
116 8 0.05
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (112 bp):
TAGTGGCGTTTTCCAAAAACGCCGCAATAGATCAACTTTAGCGGCGTTTTTGAAAAAACGCCACT
AAAATGTTAAGAAAAACGACGTCATTTTATATGAGCTCCATTGGCAG
Found at i:165885593 original size:15 final size:14
Alignment explanation
Indices: 165885563--165885606 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
165885553 CTTAATATTT
*
165885563 TTATAGGTTTAGGG
1 TTATGGGTTTAGGG
165885577 TTATGGGTTTAAGGG
1 TTATGGGTTT-AGGG
*
165885592 TTAT-GATTTAGGG
1 TTATGGGTTTAGGG
165885605 TT
1 TT
165885607 GATGATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 6 0.22
14 13 0.48
15 8 0.30
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.45
Consensus pattern (14 bp):
TTATGGGTTTAGGG
Found at i:165885611 original size:14 final size:13
Alignment explanation
Indices: 165885570--165885630 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 13
165885560 TTTTTATAGG
*
165885570 TTTAGGGTTATGGG
1 TTTAGGGTTAT-GA
165885584 TTTAAGGGTTATGA
1 TTT-AGGGTTATGA
165885598 TTTAGGGTTGATGA
1 TTTAGGGTT-ATGA
**
165885612 TTTATGTTTTATGA
1 TTTA-GGGTTATGA
165885626 TTTAG
1 TTTAG
165885631 AGTTTGAGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
13 7 0.17
14 23 0.56
15 11 0.27
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (13 bp):
TTTAGGGTTATGA
Found at i:165885615 original size:28 final size:28
Alignment explanation
Indices: 165885570--165885630 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
165885560 TTTTTATAGG
*
165885570 TTTAGGGTTATGGGTTTAAGGGTTATGA
1 TTTAGGGTTATGGATTTAAGGGTTATGA
* **
165885598 TTTAGGGTTGAT-GATTTATGTTTTATGA
1 TTTAGGGTT-ATGGATTTAAGGGTTATGA
165885626 TTTAG
1 TTTAG
165885631 AGTTTGAGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (28 bp):
TTTAGGGTTATGGATTTAAGGGTTATGA
Found at i:165886191 original size:7 final size:7
Alignment explanation
Indices: 165886179--165886236 Score: 71
Period size: 7 Copynumber: 8.1 Consensus size: 7
165886169 TTTAAGGTCC
165886179 AGGGTTT
1 AGGGTTT
165886186 AGGGTTT
1 AGGGTTT
165886193 AGGGTTT
1 AGGGTTT
** *
165886200 AATGCTT
1 AGGGTTT
165886207 AGGGTTT
1 AGGGTTT
*
165886214 AGGATTT
1 AGGGTTT
165886221 AAGGGTTT
1 -AGGGTTT
165886229 AGGGTTT
1 AGGGTTT
165886236 A
1 A
165886237 ATTTTGGAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 36 0.86
8 6 0.14
ACGTcount: A:0.21, C:0.02, G:0.36, T:0.41
Consensus pattern (7 bp):
AGGGTTT
Found at i:165890493 original size:363 final size:363
Alignment explanation
Indices: 165889304--165890991 Score: 3342
Period size: 363 Copynumber: 4.7 Consensus size: 363
165889294 TGCCCATTAT
165889304 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
165889369 AGGCTGGAAACCTAACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTAACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGT
165889434 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATT
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATT
165889499 GAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTT
196 GAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTT
165889564 GATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTAATATTTAATATT
261 GATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTAATATTTAATATT
165889629 TTTAAATTTCTTTAAAAGTTATAACTACTTTTTATCAA
326 TTTAAATTTCTTTAAAAGTTATAACTACTTTTTATCAA
165889667 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
165889732 AGGCTGGAAACCTAACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTAACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGT
165889797 AACAACGCCACGTATGATGAATCTTAAAAAA-TCAAAAAGAATTGAAAAAAGTTCTATCGCTATT
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATT
165889861 GAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTT
196 GAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTT
165889926 GATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTAATATTTAATATT
261 GATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTAATATTTAATATT
165889991 TTTAAATTTCTTTAAAAGTTATAACTACTTTTTATCAA
326 TTTAAATTTCTTTAAAAGTTATAACTACTTTTTATCAA
165890029 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
165890094 AGGCTGGAAACCTAACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTAACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGT
165890159 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATT
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATT
165890224 GAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTT
196 GAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTT
165890289 GATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTAATATTTAATATT
261 GATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTAATATTTAATATT
165890354 TTTAAATTTCTTTAAAAGTTATAACTACTTTTTATCAA
326 TTTAAATTTCTTTAAAAGTTATAACTACTTTTTATCAA
165890392 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
165890457 AGGCTGGAAACCTAACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTAACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGT
165890522 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATT
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATT
165890587 GAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTT
196 GAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTT
165890652 GATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTAATATTTAATATT
261 GATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTAATATTTAATATT
165890717 TTTAAATTTCTTTAAAAGTTATAACTACTTTTTATCAA
326 TTTAAATTTCTTTAAAAGTTATAACTACTTTTTATCAA
165890755 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
* *
165890820 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATAGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTAACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGT
*
165890885 AACAACACCACGTATGATGAATCTTAAAAAATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATT
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATT
165890950 GAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAA
196 GAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAA
165890992 CGATTGCTCA
Statistics
Matches: 1321, Mismatches: 3, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
362 362 0.27
363 959 0.73
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (363 bp):
AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
AGGCTGGAAACCTAACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGT
AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATT
GAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTT
GATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTAATATTTAATATT
TTTAAATTTCTTTAAAAGTTATAACTACTTTTTATCAA
Found at i:165891040 original size:9 final size:9
Alignment explanation
Indices: 165891028--165891260 Score: 150
Period size: 9 Copynumber: 25.4 Consensus size: 9
165891018 CATAATTTAC
165891028 ATAACTTAT
1 ATAACTTAT
*
165891037 ATAAC-AAT
1 ATAACTTAT
*
165891045 ATAACTTAC
1 ATAACTTAT
165891054 ATAACTTAT
1 ATAACTTAT
* *
165891063 ATAACATAC
1 ATAACTTAT
165891072 ATAACTTAT
1 ATAACTTAT
* *
165891081 ATAACATAC
1 ATAACTTAT
165891090 ATAACTTAT
1 ATAACTTAT
165891099 ATAACTTAT
1 ATAACTTAT
*
165891108 ATAACTTAG
1 ATAACTTAT
*
165891117 ATAA-ATAT
1 ATAACTTAT
*
165891125 ATAACTTAC
1 ATAACTTAT
*
165891134 ATAACTTAC
1 ATAACTTAT
165891143 ATAATACTTAAAT
1 AT-A-ACTT--AT
**
165891156 ATATTTTATAT
1 ATA-ACT-TAT
*
165891167 CATAATTTAT
1 -ATAACTTAT
*
165891177 ATAACTTAC
1 ATAACTTAT
165891186 ATAACTTAT
1 ATAACTTAT
*
165891195 ATAACTTAG
1 ATAACTTAT
*
165891204 ATAA-ATAT
1 ATAACTTAT
* *
165891212 ATAATTTAC
1 ATAACTTAT
*
165891221 ATAA-ATAT
1 ATAACTTAT
* *
165891229 ATATCATAT
1 ATAACTTAT
* *
165891238 CATAAATTAC
1 -ATAACTTAT
*
165891248 ATAACTTAC
1 ATAACTTAT
165891257 ATAA
1 ATAA
165891261 TACTTAAATA
Statistics
Matches: 176, Mismatches: 37, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
8 24 0.14
9 125 0.71
10 9 0.05
11 8 0.05
12 6 0.03
13 4 0.02
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.38
Consensus pattern (9 bp):
ATAACTTAT
Found at i:165891066 original size:18 final size:18
Alignment explanation
Indices: 165891018--165891260 Score: 188
Period size: 18 Copynumber: 13.3 Consensus size: 18
165891008 CTACGCATAT
* *
165891018 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
165891036 TATAAC-AATATAACTTA
1 CATAACTTATATAACTTA
*
165891053 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
*
165891071 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
165891089 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
165891107 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
165891124 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
165891142 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
*
165891166 TCATAATTTATATAACTTA
1 -CATAACTTATATAACTTA
165891185 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
165891203 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
165891220 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
165891237 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
165891256 CATAA
1 CATAA
165891261 TACTTAAATA
Statistics
Matches: 182, Mismatches: 32, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
17 52 0.29
18 95 0.52
19 11 0.06
20 5 0.03
21 5 0.03
22 4 0.02
23 4 0.02
24 3 0.02
25 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:165891103 original size:71 final size:73
Alignment explanation
Indices: 165891013--165891260 Score: 245
Period size: 71 Copynumber: 3.4 Consensus size: 73
165891003 CATGACTACG
* * *
165891013 CATATCATAATTTACATAACTTATATAAC-AATATAACTTACATAACTTATATAACATACATAAC
1 CATATCATAATTTACATAACTTACATAACTTATATAACTTACATAACTTATATAACTTACATAAC
*
165891077 TTATATAA
66 TTATATAT
* * * * * * *
165891085 CATA-CATAACTTATATAACTTATATAACTTAGATAA-ATATATAACTTACATAACTTACATAAT
1 CATATCATAATTTACATAACTTACATAACTTATATAACTTACATAACTTATATAACTTACAT-A-
165891148 ACTTAAATATATTT
64 ACTT--ATATA--T
* * * * *
165891162 TATATCATAATTTATATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAA-
1 CATATCATAATTTACATAACTTACATAACTTATATAACTTACATAACTTATATAACTTACATAAC
*
165891225 ATATATAT
66 TTATATAT
*
165891233 CATATCATAAATTACATAACTTACATAA
1 CATATCATAATTTACATAACTTACATAA
165891261 TACTTAAATA
Statistics
Matches: 145, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
71 68 0.47
72 10 0.07
73 9 0.06
75 6 0.04
76 1 0.01
77 4 0.03
78 41 0.28
79 6 0.04
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (73 bp):
CATATCATAATTTACATAACTTACATAACTTATATAACTTACATAACTTATATAACTTACATAAC
TTATATAT
Found at i:165891181 original size:114 final size:114
Alignment explanation
Indices: 165891053--165891284 Score: 315
Period size: 114 Copynumber: 2.0 Consensus size: 114
165891043 ATATAACTTA
* * *
165891053 CATAACTTATATAACATACATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGA
1 CATAACTTATATAACATACATAACTTATATAACATACATAA-ATATATAACTTACATAA-ATAGA
* * *
165891118 TA-AATAT-ATAACTTACATAACTTACATAATACTTAAATATATTTTATAT
64 TATAATATCATAAATTACATAACTTACATAATACTTAAATATATATCATAT
* * * * * *
165891167 CATAATTTATATAACTTACATAACTTATATAACTTAGATAAATATATAATTTACATAAATATATA
1 CATAACTTATATAACATACATAACTTATATAACATACATAAATATATAACTTACATAAATAGATA
*
165891232 TCATATCATAAATTACATAACTTACATAATACTTAAATATATATCATAT
66 TAATATCATAAATTACATAACTTACATAATACTTAAATATATATCATAT
165891281 CATA
1 CATA
165891285 CATAACTAGT
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
112 5 0.05
113 18 0.17
114 80 0.78
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (114 bp):
CATAACTTATATAACATACATAACTTATATAACATACATAAATATATAACTTACATAAATAGATA
TAATATCATAAATTACATAACTTACATAATACTTAAATATATATCATAT
Found at i:165891185 original size:43 final size:38
Alignment explanation
Indices: 165891013--165891284 Score: 128
Period size: 36 Copynumber: 7.2 Consensus size: 38
165891003 CATGACTACG
* * *
165891013 CATATCATAATTTACATAACTTATAT-AAC-AATATA-A
1 CATATCATAA-TTACATAACTTACATAAACTTATATATT
* * * *
165891049 CTTA-CATAACTTATATAACATACAT-AACTTATATA-A
1 CATATCATAA-TTACATAACTTACATAAACTTATATATT
* * *
165891085 CATA-CATAACTTATATAACTTATAT-AACTTAGATA--
1 CATATCATAA-TTACATAACTTACATAAACTTATATATT
*
165891120 AATAT-ATAACTTACATAACTTACATAATACTTAAATATATTT
1 CATATCATAA-TTACATAACTTACATAA-ACTT--ATATA-TT
* * *
165891162 TATATCATAATTTATATAACTTACAT-AACTTATATA-A
1 CATATCATAA-TTACATAACTTACATAAACTTATATATT
* * * * *
165891199 CTTA-GATAAATATATAATTTACATAAA--TATATA-T
1 CATATCATAATTACATAACTTACATAAACTTATATATT
165891233 CATATCATAAATTACATAACTTACATAATACTTAAATATATAT
1 CATATCAT-AATTACATAACTTACATAA-ACTT--ATATAT-T
165891276 CATATCATA
1 CATATCATA
165891285 CATAACTAGT
Statistics
Matches: 187, Mismatches: 29, Indels: 34
0.75 0.12 0.14
Matches are distributed among these distances:
34 9 0.05
35 56 0.30
36 63 0.34
37 7 0.04
39 10 0.05
41 9 0.05
42 6 0.03
43 27 0.14
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.39
Consensus pattern (38 bp):
CATATCATAATTACATAACTTACATAAACTTATATATT
Found at i:165897432 original size:29 final size:27
Alignment explanation
Indices: 165897398--165897500 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
165897388 TACTCAATCA
*
165897398 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
165897427 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
165897456 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
165897485 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
165897501 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:165905229 original size:29 final size:27
Alignment explanation
Indices: 165905195--165905297 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
165905185 TACTCAATCA
*
165905195 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
165905224 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
165905253 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
165905282 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
165905298 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:165909266 original size:79 final size:81
Alignment explanation
Indices: 165909165--165909349 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
165909155 ACGACTCGCT
** * *
165909165 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
165909228 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
165909245 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
165909309 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
165909325 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
165909350 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:165909349 original size:40 final size:39
Alignment explanation
Indices: 165909158--165909349 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
165909148 GGATATAACG
* ** * *
165909158 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
165909198 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
165909238 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
165909277 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
165909317 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
165909350 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:165917245 original size:40 final size:40
Alignment explanation
Indices: 165917199--165917338 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
165917189 CGGATATAAC
*
165917199 GACTCGCTCAAATGCCTTCGGGAC-GAAGCCC-GGTTATAGT
1 GACTCGCACAAATGCCTTCGGGACTGAA-CCCGGGTT-TAGT
* *
165917239 GACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGT
1 GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
* * * * * *
165917279 AACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATT
1 GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
* *
165917318 AACTCGCACGAATGCCTTCGG
1 GACTCGCACAAATGCCTTCGG
165917339 ATCCTAGTCC
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.38
40 48 0.55
41 6 0.07
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
Found at i:165917308 original size:79 final size:81
Alignment explanation
Indices: 165917207--165917389 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
165917197 ACGACTCGCT
** * *
165917207 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
165917270 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
165917287 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
165917351 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
165917367 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
165917390 ACATCATTCG
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.61
80 32 0.36
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:165918406 original size:26 final size:26
Alignment explanation
Indices: 165918377--165918430 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
165918367 TGGCATTAAC
165918377 TCAAAATCCACCTTGGCCAAATACCA
1 TCAAAATCCACCTTGGCCAAATACCA
165918403 TCAAAATCCACCTTGGCCAAATACCA
1 TCAAAATCCACCTTGGCCAAATACCA
165918429 TC
1 TC
165918431 CCCATGATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.35, G:0.07, T:0.20
Consensus pattern (26 bp):
TCAAAATCCACCTTGGCCAAATACCA
Found at i:165923162 original size:55 final size:55
Alignment explanation
Indices: 165923078--165923185 Score: 189
Period size: 55 Copynumber: 2.0 Consensus size: 55
165923068 CTATTTCATG
* * *
165923078 TTAAATTTTCGTCCTAGAGTTGATGTCGTGACAAACCAGGACCTGTGTCACGATT
1 TTAAATTTTCGTCCCAGAGTCGATGTCGTGACAAAACAGGACCTGTGTCACGATT
165923133 TTAAATTTTCGTCCCAGAGTCGATGTCGTGACAAAACAGGACCTGTGTCACGA
1 TTAAATTTTCGTCCCAGAGTCGATGTCGTGACAAAACAGGACCTGTGTCACGA
165923186 CATAGCAGAC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (55 bp):
TTAAATTTTCGTCCCAGAGTCGATGTCGTGACAAAACAGGACCTGTGTCACGATT
Found at i:165924087 original size:16 final size:15
Alignment explanation
Indices: 165924066--165924099 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
165924056 AGAAAGTGTT
165924066 AAACAACATAAAAGAA
1 AAACAACA-AAAAGAA
*
165924082 AAACAATAAAAAGAA
1 AAACAACAAAAAGAA
165924097 AAA
1 AAA
165924100 ACTAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.79, C:0.09, G:0.06, T:0.06
Consensus pattern (15 bp):
AAACAACAAAAAGAA
Found at i:165924341 original size:28 final size:25
Alignment explanation
Indices: 165924286--165924344 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 25
165924276 CATGAAATAC
*
165924286 TTTTTTATTTTTTCTTTTTCTCGTA
1 TTTTTTATTTTTCCTTTTTCTCGTA
165924311 TTTTTCTATTTTTCCTCTTTT-TCGATCA
1 TTTTT-TATTTTTCCT-TTTTCTCG-T-A
165924339 TTTTTT
1 TTTTTT
165924345 GTGGAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
25 5 0.17
26 12 0.41
27 6 0.21
28 6 0.21
ACGTcount: A:0.08, C:0.15, G:0.03, T:0.73
Consensus pattern (25 bp):
TTTTTTATTTTTCCTTTTTCTCGTA
Found at i:165930004 original size:16 final size:17
Alignment explanation
Indices: 165929978--165930028 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 17
165929968 AAATAAGAAA
165929978 TAATAATTATAATAATT
1 TAATAATTATAATAATT
*
165929995 TAATAA-TATAATAATA
1 TAATAATTATAATAATT
*
165930011 TATATATGTTATAATAAT
1 TA-ATA-ATTATAATAAT
165930029 AATAGAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 11 0.38
17 9 0.31
19 9 0.31
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
TAATAATTATAATAATT
Found at i:165930010 original size:8 final size:8
Alignment explanation
Indices: 165929977--165930012 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
165929967 TAAATAAGAA
165929977 ATAATAATT
1 ATAATAA-T
165929986 ATAATAAT
1 ATAATAAT
*
165929994 TTAATAAT
1 ATAATAAT
165930002 ATAATAAT
1 ATAATAAT
165930010 ATA
1 ATA
165930013 TATATGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
ATAATAAT
Found at i:165930030 original size:25 final size:23
Alignment explanation
Indices: 165929976--165930032 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 23
165929966 TTAAATAAGA
*
165929976 AATAATAATTATAATAATTTAAT
1 AATAATAATAATAATAATTTAAT
165929999 AAT-ATAATAATATATATATGTT-AT
1 AATAATAATAATA-ATA-AT-TTAAT
165930023 AATAATAATA
1 AATAATAATA
165930033 GAATAAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 8 0.28
23 6 0.21
24 7 0.24
25 8 0.28
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AATAATAATAATAATAATTTAAT
Found at i:165933105 original size:40 final size:40
Alignment explanation
Indices: 165933050--165933253 Score: 275
Period size: 40 Copynumber: 5.1 Consensus size: 40
165933040 TGAATGATAC
* * * *
165933050 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* *
165933090 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTCTAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
165933130 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
165933170 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** *
165933210 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
165933250 CCGG
1 CCGG
165933254 CTAAATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 143 0.99
41 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:165933183 original size:80 final size:80
Alignment explanation
Indices: 165933046--165933257 Score: 311
Period size: 80 Copynumber: 2.7 Consensus size: 80
165933036 CAATTGAATG
* * * *
165933046 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
165933110 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* * *
165933126 CTATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
165933191 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
165933206 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
165933258 ATTCCGAAGA
Statistics
Matches: 118, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
79 6 0.05
80 110 0.93
81 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:165937980 original size:33 final size:33
Alignment explanation
Indices: 165937938--165938004 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
165937928 CAATGCAAAA
165937938 TAATACAAACCTAGAATGAATTAGAAAATTAAG
1 TAATACAAACCTAGAATGAATTAGAAAATTAAG
165937971 TAATACAAACCTAGAATGAATTAGAAAATTAAG
1 TAATACAAACCTAGAATGAATTAGAAAATTAAG
165938004 T
1 T
165938005 CCCATATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.54, C:0.09, G:0.12, T:0.25
Consensus pattern (33 bp):
TAATACAAACCTAGAATGAATTAGAAAATTAAG
Found at i:165941203 original size:100 final size:100
Alignment explanation
Indices: 165941086--165941268 Score: 285
Period size: 100 Copynumber: 1.8 Consensus size: 100
165941076 TATCTAGTAC
* * * *
165941086 GCATAGTAGCCTACACTTAGTACTACACATGCCACCAATAATCTGGTACACGTAGTAGCCTGCAC
1 GCATAATAGCCTACACTTAGTACTACACATGCCACCAATAATCCGGTACACATAATAGCCTGCAC
165941151 TTAGTACTACACACGTGATCACAGTTTTCGGGTAT
66 TTAGTACTACACACGTGATCACAGTTTTCGGGTAT
* ** * *
165941186 GCATAATAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACATAATAGCTTGCAC
1 GCATAATAGCCTACACTTAGTACTACACATGCCACCAATAATCCGGTACACATAATAGCCTGCAC
165941251 TTAGTACTACACACGTGA
66 TTAGTACTACACACGTGA
165941269 CCTTACAATA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 74 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (100 bp):
GCATAATAGCCTACACTTAGTACTACACATGCCACCAATAATCCGGTACACATAATAGCCTGCAC
TTAGTACTACACACGTGATCACAGTTTTCGGGTAT
Found at i:165941269 original size:49 final size:49
Alignment explanation
Indices: 165941082--165941270 Score: 207
Period size: 49 Copynumber: 3.8 Consensus size: 49
165941072 AAGCTATCTA
* * * * ** * *
165941082 GTACGCATAGTAGCCTACACTTAGTACTACACATGCCACCAATAATCTG
1 GTACACATAATAGCCTGCACTTAGTACTACACACGTGACCAATTATCCG
* * * * *
165941131 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGG
1 GTACACATAATAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCG
** *
165941182 GTATGCATAATAGCCTGCACTTAGTACTACACATGTGACCAATTATCCG
1 GTACACATAATAGCCTGCACTTAGTACTACACACGTGACCAATTATCCG
*
165941231 GTACACATAATAGCTTGCACTTAGTACTACACACGTGACC
1 GTACACATAATAGCCTGCACTTAGTACTACACACGTGACC
165941271 TTACAATAGT
Statistics
Matches: 116, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 75 0.65
50 2 0.02
51 39 0.34
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
GTACACATAATAGCCTGCACTTAGTACTACACACGTGACCAATTATCCG
Found at i:165945788 original size:46 final size:45
Alignment explanation
Indices: 165945721--165945890 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 45
165945711 AACCCGCCCC
*
165945721 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCA
* * * *
165945767 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCATCCA
* * *
165945813 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCA
165945859 T-AGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
165945891 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
44 2 0.02
45 31 0.30
46 66 0.63
47 4 0.04
48 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCATCCA
Found at i:165945894 original size:91 final size:92
Alignment explanation
Indices: 165945726--165945894 Score: 304
Period size: 92 Copynumber: 1.8 Consensus size: 92
165945716 GCCCCTAAGT
* *
165945726 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
165945791 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
*
165945818 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
165945882 CGAGTTCGGATGC
66 CGAGTTCGGATGC
165945895 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 35 0.47
92 39 0.53
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:165946346 original size:30 final size:30
Alignment explanation
Indices: 165946312--165946371 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
165946302 ATTTAATACG
165946312 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
165946342 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
165946372 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Done.