Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 98 of 438
Found at i:27619973 original size:98 final size:98
Alignment explanation
Indices: 27619795--27620000 Score: 281
Period size: 98 Copynumber: 2.1 Consensus size: 98
27619785 ACGGTTCTAA
* * * *
27619795 AAAAAATAGTGACAAAACCGCTTCAAGCAGGATGCACTGTCAGTAAAAGTACTGAAAAAAGCTTC
1 AAAAAATAATGACAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTTC
* * *
27619860 CACATGGACGTTCTTTTTCTACAGTAGTT-TCTG
66 CACATAGACGCTCTTTTTCTACAATAGTTCT-TG
* * *
27619893 AAAAAATAATGTCAAAAATGCTTCAAGCAGTATGCACTGTCAGCAAAAGTACTAAAAAAAGC-TC
1 AAAAAATAATGACAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTTC
*
27619957 CTACGTAGACGCTCTTTTTCTACAATAGTTCTTG
66 C-ACATAGACGCTCTTTTTCTACAATAGTTCTTG
27619991 AAAAAATAAT
1 AAAAAATAAT
27620001 TTTGAGAAGA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
97 3 0.03
98 91 0.96
99 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (98 bp):
AAAAAATAATGACAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTTC
CACATAGACGCTCTTTTTCTACAATAGTTCTTG
Found at i:27620116 original size:126 final size:126
Alignment explanation
Indices: 27619886--27620232 Score: 527
Period size: 126 Copynumber: 2.7 Consensus size: 126
27619876 TTCTACAGTA
* * * * *
27619886 GTTTCTGAAAAAATAATGTCAAAAATGCTTCAAGCAGTATGCACTGTCAGCAAAAGTACTAAAAA
1 GTTT-TGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAA
* *
27619951 AAGCTCCTACGTAGACGCTCTTTTTCTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACG
65 AAGCTCCCACGTGGACGCTCTTTTTCTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACG
* *
27620013 GTTTTGAAAAAATAGTGTCAAAAACGCTTCAAGTAGGACT-CACTGAT-AGCAAAATTATTGAAA
1 GTTTTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGA-TGCACTG-TCAGCAAAATTACTGAAA
**
27620076 AAAGCTCCCACGTGGACATTCTTTTTCTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACG
64 AAAGCTCCCACGTGGACGCTCTTTTTCTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACG
* * *
27620139 ATTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAA
1 GTTTTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAA
27620204 AGCTCCCACGTGGACGCTCTTTTTCTACA
66 AGCTCCCACGTGGACGCTCTTTTTCTACA
27620233 GTAATTCCTG
Statistics
Matches: 198, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
125 2 0.01
126 190 0.96
127 6 0.03
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (126 bp):
GTTTTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAA
AGCTCCCACGTGGACGCTCTTTTTCTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACG
Found at i:27623737 original size:18 final size:18
Alignment explanation
Indices: 27623711--27623754 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
27623701 AATGGGGAAA
* * *
27623711 AGGAAACATATAAGGGTT
1 AGGATACATATAAGAGCT
27623729 AGGATACATATAAGAGCT
1 AGGATACATATAAGAGCT
27623747 AGGATACA
1 AGGATACA
27623755 CACCTAGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.09, G:0.25, T:0.20
Consensus pattern (18 bp):
AGGATACATATAAGAGCT
Found at i:27630130 original size:29 final size:28
Alignment explanation
Indices: 27630098--27630163 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
27630088 TGCCGGCGTT
27630098 TATATTATCA-AGTACTATGTATTGATGAC
1 TATATTATCAGA-TACTATGTATTGATG-C
* * *
27630127 TATAGTATCAGATACTTTGTATTGGTGC
1 TATATTATCAGATACTATGTATTGATGC
27630155 TCATATTAT
1 T-ATATTAT
27630164 ATTGGGCACT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 2 0.06
29 28 0.90
30 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (28 bp):
TATATTATCAGATACTATGTATTGATGC
Found at i:27632662 original size:39 final size:40
Alignment explanation
Indices: 27632562--27632743 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
27632552 TCGAATGATG
* * *
27632562 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
27632602 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
27632642 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
27632680 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
27632721 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
27632744 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:27632707 original size:78 final size:80
Alignment explanation
Indices: 27632562--27632743 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
27632552 TCGAATGATG
* * * *
27632562 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
27632627 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
27632642 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
27632704 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
27632721 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
27632744 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:27640198 original size:39 final size:40
Alignment explanation
Indices: 27640098--27640279 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
27640088 TCGAATGATG
* * *
27640098 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
27640138 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
27640178 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
27640216 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
27640257 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
27640280 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:27640243 original size:78 final size:80
Alignment explanation
Indices: 27640098--27640279 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
27640088 TCGAATGATG
* * * *
27640098 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
27640163 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
27640178 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
27640240 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
27640257 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
27640280 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:27642997 original size:13 final size:13
Alignment explanation
Indices: 27642981--27643006 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27642971 AAACAAACAT
27642981 TAATCACAATAAC
1 TAATCACAATAAC
27642994 TAATCACAATAAC
1 TAATCACAATAAC
27643007 CAACCATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (13 bp):
TAATCACAATAAC
Found at i:27648868 original size:42 final size:41
Alignment explanation
Indices: 27648809--27648936 Score: 161
Period size: 42 Copynumber: 3.0 Consensus size: 41
27648799 TGAGTTTCCA
*
27648809 TTTAACCCTATTGGGTTT-TCGTTCAGCCCTTTTGAGCTTTCG
1 TTTAACCCTA-TGGGTTTCT-GTTCAGCTCTTTTGAGCTTTCG
27648851 TTTAACCCTATCGGGTTTCTGTTCAGCTCTTTTGAGC-TTCTG
1 TTTAACCCTAT-GGGTTTCTGTTCAGCTCTTTTGAGCTTTC-G
* * *
27648893 TTTAACCCTTATGGGTTTCTATTCAACTCTTATGAGCTTTCG
1 TTTAACCC-TATGGGTTTCTGTTCAGCTCTTTTGAGCTTTCG
27648935 TT
1 TT
27648937 CAATCCTTAC
Statistics
Matches: 77, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
41 4 0.05
42 66 0.86
43 7 0.09
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (41 bp):
TTTAACCCTATGGGTTTCTGTTCAGCTCTTTTGAGCTTTCG
Found at i:27648912 original size:21 final size:21
Alignment explanation
Indices: 27648812--27648957 Score: 68
Period size: 21 Copynumber: 7.0 Consensus size: 21
27648802 GTTTCCATTT
27648812 AACCC-TATTGGGTTT-TCGTTC
1 AACCCTTA-TGGGTTTCT-GTTC
* * * *
27648833 AGCCCTTTTGAGCTTTC-GTTT
1 AACCCTTATG-GGTTTCTGTTC
27648854 AACCC-TATCGGGTTTCTGTTC
1 AACCCTTAT-GGGTTTCTGTTC
* * * * * *
27648875 AGCTCTTTTGAGCTTCTGTTT
1 AACCCTTATGGGTTTCTGTTC
*
27648896 AACCCTTATGGGTTTCTATTC
1 AACCCTTATGGGTTTCTGTTC
* *
27648917 AACTCTTATGAGCTTTC-GTTC
1 AACCCTTATG-GGTTTCTGTTC
* * *
27648938 AATCCTTACGAGTTTCTGTT
1 AACCCTTATGGGTTTCTGTT
27648958 TAGCACTTAT
Statistics
Matches: 88, Mismatches: 29, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
20 11 0.12
21 65 0.74
22 12 0.14
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (21 bp):
AACCCTTATGGGTTTCTGTTC
Found at i:27648967 original size:42 final size:41
Alignment explanation
Indices: 27648825--27648967 Score: 137
Period size: 42 Copynumber: 3.4 Consensus size: 41
27648815 CCTATTGGGT
* * *
27648825 TTTC-GTTCAGCCCTTTTGAGCTTTCGTTTAACCCTATCGGG
1 TTTCTGTTCAGCTCTTATGAGCTTTCGTTTAACCTTA-CGGG
* *
27648866 TTTCTGTTCAGCTCTTTTGAGC-TTCTGTTTAACCCTTATGGG
1 TTTCTGTTCAGCTCTTATGAGCTTTC-GTTTAA-CCTTACGGG
* * * *
27648908 TTTCTATTCAACTCTTATGAGCTTTCGTTCAATCCTTACGAG
1 TTTCTGTTCAGCTCTTATGAGCTTTCGTTTAA-CCTTACGGG
* *
27648950 TTTCTGTTTAGCACTTAT
1 TTTCTGTTCAGCTCTTAT
27648968 TGCTTCAGTT
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
41 7 0.08
42 70 0.83
43 7 0.08
ACGTcount: A:0.15, C:0.23, G:0.16, T:0.45
Consensus pattern (41 bp):
TTTCTGTTCAGCTCTTATGAGCTTTCGTTTAACCTTACGGG
Found at i:27653759 original size:9 final size:9
Alignment explanation
Indices: 27653727--27653752 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27653717 CAACCCATAG
27653727 AATTTTTTT
1 AATTTTTTT
27653736 AATTTTTTT
1 AATTTTTTT
27653745 AATTTTTT
1 AATTTTTT
27653753 GTATTTTGTT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
AATTTTTTT
Found at i:27656613 original size:145 final size:145
Alignment explanation
Indices: 27656350--27656640 Score: 528
Period size: 145 Copynumber: 2.0 Consensus size: 145
27656340 CACACATTTG
*
27656350 ATTTGATATACTAAGATGATAAAGGCACTTAGGTTTCAGCCCACTTATTCCATAAAAGCCCTACC
1 ATTTGATATACTAAGATGATAAAGGCACTTAGGTTTCAACCCACTTATTCCATAAAAGCCCTACC
*
27656415 TTCGTAATTAACCCTTAATGAACCCCATTGAGCCTAACACATCGTTTCTTGATTTTTCCAATAAT
66 TTCGTAATTAACCCTTAATGAACCCCATTGAGCCTAACACATAGTTTCTTGATTTTTCCAATAAT
27656480 GTTAACCCATAACTC
131 GTTAACCCATAACTC
*
27656495 ATTTGATATACTAAGATGATAAAGGCACTTAGGTTTTAACCCACTTATTCCATAAAAGCCCTACC
1 ATTTGATATACTAAGATGATAAAGGCACTTAGGTTTCAACCCACTTATTCCATAAAAGCCCTACC
* * *
27656560 TTCGTAATTAACCTTTAATGAACTCCATTGAGCCTAACACATAGTTTCTTGATTTTTCCATTAAT
66 TTCGTAATTAACCCTTAATGAACCCCATTGAGCCTAACACATAGTTTCTTGATTTTTCCAATAAT
27656625 GTTAACCCATAACTC
131 GTTAACCCATAACTC
27656640 A
1 A
27656641 ATTTTTCGTT
Statistics
Matches: 140, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
145 140 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (145 bp):
ATTTGATATACTAAGATGATAAAGGCACTTAGGTTTCAACCCACTTATTCCATAAAAGCCCTACC
TTCGTAATTAACCCTTAATGAACCCCATTGAGCCTAACACATAGTTTCTTGATTTTTCCAATAAT
GTTAACCCATAACTC
Found at i:27657335 original size:14 final size:12
Alignment explanation
Indices: 27657285--27657337 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 12
27657275 CCAATGCATG
*
27657285 ATTATTTTGTGA
1 ATTATTTTGAGA
27657297 ATTATTTTGAGA
1 ATTATTTTGAGA
27657309 CATTATTTATGAGA
1 -ATTATTT-TGAGA
27657323 ATTATAATTTGAGA
1 ATTAT--TTTGAGA
27657337 A
1 A
27657338 AATTAATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
12 11 0.31
13 12 0.33
14 11 0.31
15 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (12 bp):
ATTATTTTGAGA
Found at i:27662448 original size:2 final size:2
Alignment explanation
Indices: 27662443--27662473 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
27662433 TCATAATAAC
27662443 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27662474 GATTCTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27663216 original size:21 final size:21
Alignment explanation
Indices: 27663192--27663234 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
27663182 GGAAGAAAAC
27663192 TAACCTTTTATATTATCTTAT
1 TAACCTTTTATATTATCTTAT
* *
27663213 TAACCTTTTATTTTATTTTAT
1 TAACCTTTTATATTATCTTAT
27663234 T
1 T
27663235 TTATTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.63
Consensus pattern (21 bp):
TAACCTTTTATATTATCTTAT
Found at i:27665238 original size:38 final size:38
Alignment explanation
Indices: 27665190--27665264 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
27665180 CTTGATTAAG
* *
27665190 AAAAGGAAAAGACCATCATTGAAATATATCATGGCATT
1 AAAAGGAAAAGACCATCATTGAAAGATACCATGGCATT
*
27665228 AAAAGGAAAAGACCATGATTGAAAGATACCATGGCAT
1 AAAAGGAAAAGACCATCATTGAAAGATACCATGGCAT
27665265 CCCCGAAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (38 bp):
AAAAGGAAAAGACCATCATTGAAAGATACCATGGCATT
Found at i:27665319 original size:15 final size:16
Alignment explanation
Indices: 27665288--27665320 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27665278 AAAAGGTTGA
27665288 AAATGATACCAATTGG
1 AAATGATACCAATTGG
*
27665304 AAATGATAGC-ATTGG
1 AAATGATACCAATTGG
27665319 AA
1 AA
27665321 TGGACTCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAATGATACCAATTGG
Found at i:27665407 original size:18 final size:19
Alignment explanation
Indices: 27665359--27665407 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
27665349 TGTTATGTGA
27665359 ATAAGCAT-TTTTGAATAT
1 ATAAGCATGTTTTGAATAT
27665377 ATAAG-AGTGTTTTGAATAT
1 ATAAGCA-TGTTTTGAATAT
*
27665396 -TATGCATGTTTT
1 ATAAGCATGTTTT
27665408 ACGTAAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 1 0.04
18 15 0.56
19 11 0.41
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (19 bp):
ATAAGCATGTTTTGAATAT
Found at i:27668604 original size:24 final size:24
Alignment explanation
Indices: 27668574--27668621 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
27668564 AAGAGTTATG
27668574 ATTTAAGGATAATGTTCTTTTTTT
1 ATTTAAGGATAATGTTCTTTTTTT
27668598 ATTTAAGGATAATGTTCTTTTTTT
1 ATTTAAGGATAATGTTCTTTTTTT
27668622 TTCTTACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.04, G:0.12, T:0.58
Consensus pattern (24 bp):
ATTTAAGGATAATGTTCTTTTTTT
Found at i:27669861 original size:20 final size:20
Alignment explanation
Indices: 27669838--27669882 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
27669828 AGGAATATCT
*
27669838 ATACCTTAGGAAATA-TATTG
1 ATACCTTAAGAAA-AGTATTG
27669858 ATACCTTAAGAAAAGTATTG
1 ATACCTTAAGAAAAGTATTG
27669878 ATACC
1 ATACC
27669883 GGATCGATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
ATACCTTAAGAAAAGTATTG
Found at i:27675071 original size:25 final size:23
Alignment explanation
Indices: 27675019--27675073 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
27675009 TATAAATAGT
27675019 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
27675042 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
27675067 AATAGTG
1 AATAGTG
27675074 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:27675195 original size:22 final size:24
Alignment explanation
Indices: 27675137--27675204 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 24
27675127 AGATATAAAA
* *
27675137 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
27675161 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
27675185 -AAAATATATACATAAGATAA
1 AAAAATATATACATAATATAA
27675205 CATGTAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 18 0.47
24 1 0.03
25 19 0.50
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:27675250 original size:25 final size:25
Alignment explanation
Indices: 27675222--27675355 Score: 77
Period size: 25 Copynumber: 5.6 Consensus size: 25
27675212 AAAAAAATAT
27675222 ATATATAAATAATATAGTATTAAAG
1 ATATATAAATAATATAGTATTAAAG
* * *
27675247 ATATATACATAAAATAGTA-TAATAT
1 ATATATAAATAATATAGTATTAA-AG
** * *
27675272 ATATATACGTAATATAGAATT-TAG
1 ATATATAAATAATATAGTATTAAAG
** *
27675296 A-ATATACCTAATATA-T-TAAAAG
1 ATATATAAATAATATAGTATTAAAG
*
27675318 AATATATATAA-AATATAATATTAAA-
1 -ATATATA-AATAATATAGTATTAAAG
*
27675343 AAATAT-AATAATA
1 ATATATAAATAATA
27675356 ACAAAAAAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
21 1 0.01
22 4 0.05
23 18 0.21
24 21 0.25
25 35 0.42
26 5 0.06
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAGTATTAAAG
Found at i:27675326 original size:15 final size:14
Alignment explanation
Indices: 27675306--27675349 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
27675296 AATATACCTA
27675306 ATATATTAAAAGAAT
1 ATATATTAAAA-AAT
*
27675321 ATATA-TAAAATAT
1 ATATATTAAAAAAT
27675334 A-ATATTAAAAAAT
1 ATATATTAAAAAAT
27675347 ATA
1 ATA
27675350 ATAATAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 3 0.12
13 11 0.44
14 6 0.24
15 5 0.20
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (14 bp):
ATATATTAAAAAAT
Found at i:27675350 original size:15 final size:15
Alignment explanation
Indices: 27675308--27675352 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
27675298 TATACCTAAT
27675308 ATATTAAAAGAATAT-
1 ATATTAAAA-AATATA
27675323 ATA-T--AAAATATA
1 ATATTAAAAAATATA
27675335 ATATTAAAAAATATA
1 ATATTAAAAAATATA
27675350 ATA
1 ATA
27675353 ATAACAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
11 5 0.19
12 5 0.19
13 1 0.04
14 1 0.04
15 14 0.54
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
ATATTAAAAAATATA
Found at i:27675660 original size:16 final size:16
Alignment explanation
Indices: 27675622--27675660 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
27675612 AATCTCCAAA
*
27675622 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
27675638 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
27675654 AATAACT
1 AAAAACT
27675661 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:27677608 original size:40 final size:40
Alignment explanation
Indices: 27677553--27677796 Score: 355
Period size: 40 Copynumber: 6.1 Consensus size: 40
27677543 TGAATGATAC
* * * *
27677553 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
27677593 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
27677633 CTGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
27677673 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
27677713 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** *
27677753 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
27677793 CCGG
1 CCGG
27677797 CTAAATTCCG
Statistics
Matches: 185, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 183 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:27685834 original size:40 final size:40
Alignment explanation
Indices: 27685779--27685986 Score: 303
Period size: 40 Copynumber: 5.2 Consensus size: 40
27685769 TGAATGATAC
* * *
27685779 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
27685819 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
27685859 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
27685899 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
27685939 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
27685979 CC-GGCTAA
1 CCGGGCTAA
27685987 ATTCCGAAGA
Statistics
Matches: 154, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 5 0.03
40 147 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:27688319 original size:40 final size:40
Alignment explanation
Indices: 27688274--27688481 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
27688264 CGGAATACAA
*
27688274 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * *
27688314 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
27688354 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
27688394 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** ** * *
27688434 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTT-GCACGAATGCCTTCGGGTCTTAGC
27688474 CCGGATAT
1 CCGGATAT
27688482 CATTCAATTG
Statistics
Matches: 143, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
39 3 0.02
40 138 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:27696262 original size:40 final size:40
Alignment explanation
Indices: 27696217--27696424 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
27696207 CGGAATACAA
*
27696217 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * *
27696257 CCGGATATAACGACTTGCACAAATGCCTTCGGGTGTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
27696297 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
27696337 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** ** * *
27696377 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTT-GCACGAATGCCTTCGGGTCTTAGC
27696417 CCGGATAT
1 CCGGATAT
27696425 CATTCAATTG
Statistics
Matches: 143, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
39 3 0.02
40 138 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:27701275 original size:33 final size:34
Alignment explanation
Indices: 27701207--27701304 Score: 114
Period size: 33 Copynumber: 2.9 Consensus size: 34
27701197 TTTTGCATTT
* *
27701207 CTGATATTG-TACTGAATCGGGCTAAGGCCCACA
1 CTGATATTGCTACTGTATTGGGCTAAGGCCCACA
*
27701240 CTGTTATTGCTACTGTATTGGGCTAAGGCCC-CA
1 CTGATATTGCTACTGTATTGGGCTAAGGCCCACA
*
27701273 CTGATATTGCTGCTAGTA-TGGGCTCAA-GCCCA
1 CTGATATTGCTACT-GTATTGGGCT-AAGGCCCA
27701305 GTCTATTCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
33 32 0.57
34 24 0.43
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (34 bp):
CTGATATTGCTACTGTATTGGGCTAAGGCCCACA
Found at i:27702014 original size:11 final size:11
Alignment explanation
Indices: 27701998--27702023 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27701988 AGTTATCATC
27701998 TATTATTATTT
1 TATTATTATTT
27702009 TATTATTATTT
1 TATTATTATTT
27702020 TATT
1 TATT
27702024 CCAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTATTATTT
Found at i:27702509 original size:13 final size:14
Alignment explanation
Indices: 27702491--27702523 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
27702481 TGAATTATTA
*
27702491 TTTTATTTTAGTT-
1 TTTTATTTTAATTG
27702504 TTTTATTTTAATTG
1 TTTTATTTTAATTG
27702518 TTTTAT
1 TTTTAT
27702524 CTTACTTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (14 bp):
TTTTATTTTAATTG
Found at i:27703566 original size:54 final size:54
Alignment explanation
Indices: 27703502--27703606 Score: 183
Period size: 54 Copynumber: 1.9 Consensus size: 54
27703492 GGCCATGCGA
*
27703502 CTTGACACACAGGCCTGTGAGGTTATTTCGAGTGTTACACAGCCTAGCACACGG
1 CTTGACACACAGGCCTGTGAGGTCATTTCGAGTGTTACACAGCCTAGCACACGG
* *
27703556 CTTGACACACAGGCCTGTGAGGTCATTTCGAGTGTTACACGGCCTGGCACA
1 CTTGACACACAGGCCTGTGAGGTCATTTCGAGTGTTACACAGCCTAGCACA
27703607 TAGTTGTGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.24
Consensus pattern (54 bp):
CTTGACACACAGGCCTGTGAGGTCATTTCGAGTGTTACACAGCCTAGCACACGG
Found at i:27707415 original size:9 final size:9
Alignment explanation
Indices: 27707388--27707424 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
27707378 TGAGTTTTCG
27707388 AATTCGAAT
1 AATTCGAAT
* *
27707397 AACTCAAAT
1 AATTCGAAT
27707406 AATTCGAAT
1 AATTCGAAT
27707415 AATTCGAAT
1 AATTCGAAT
27707424 A
1 A
27707425 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:27708320 original size:5 final size:5
Alignment explanation
Indices: 27708310--27708340 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
27708300 GAACAAATAT
27708310 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
27708341 ATTCCTTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:27712085 original size:22 final size:22
Alignment explanation
Indices: 27712007--27712084 Score: 138
Period size: 22 Copynumber: 3.5 Consensus size: 22
27711997 CGTATTGATG
27712007 GCACACGGGCGTACCCCTGTGT
1 GCACACGGGCGTACCCCTGTGT
27712029 GCACACGGGCGTACCCCTGTGT
1 GCACACGGGCGTACCCCTGTGT
* *
27712051 GCACACGGGCGTGCCCCTGTAT
1 GCACACGGGCGTACCCCTGTGT
27712073 GCACACGGGCGT
1 GCACACGGGCGT
27712085 GTGACCCTGT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.14, C:0.36, G:0.33, T:0.17
Consensus pattern (22 bp):
GCACACGGGCGTACCCCTGTGT
Found at i:27714499 original size:40 final size:40
Alignment explanation
Indices: 27714395--27714518 Score: 124
Period size: 40 Copynumber: 3.1 Consensus size: 40
27714385 CGGAATACAA
**
27714395 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
27714435 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
*** * * *
27714475 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
27714515 CCGG
1 CCGG
27714519 TATCATTCAA
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 2 0.03
40 66 0.97
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:27722450 original size:40 final size:40
Alignment explanation
Indices: 27722405--27722534 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
27722395 CGGAATACAA
27722405 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
27722445 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
27722485 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
27722525 CCGGATATAA
1 CCGGATATAA
27722535 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:27722549 original size:40 final size:40
Alignment explanation
Indices: 27722405--27722567 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
27722395 CGGAATACAA
* **
27722405 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
27722445 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
27722485 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
27722525 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
27722564 CCGG
1 CCGG
27722568 TATCATTCAA
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
39 11 0.11
40 89 0.89
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:27724988 original size:40 final size:41
Alignment explanation
Indices: 27724883--27725116 Score: 226
Period size: 40 Copynumber: 5.8 Consensus size: 41
27724873 CACTTAATTA
* * *
27724883 TACCCTTGAATTGCACTTATGTG-CCTATGTTTGTACTTCGA
1 TACCCCTGAATTGCACTTACGTGCCCT-TGTTTGTACTTCGG
* * *
27724924 TACCCCTAAATTGCACTTACGTGCCCTTATTTGTACTTTGG
1 TACCCCTGAATTGCACTTACGTGCCCTTGTTTGTACTTCGG
* * * *
27724965 TA-CCCTGAATTGCACTTATGTGCCCCTGTCTGTACTTCAG
1 TACCCCTGAATTGCACTTACGTGCCCTTGTTTGTACTTCGG
* * * * *
27725005 TACCCCTGAATTTCACTTATGTTCCC-T-ATTGTACTTCGA
1 TACCCCTGAATTGCACTTACGTGCCCTTGTTTGTACTTCGG
* * *
27725044 CACCCCCTGAATTACAGTTACGTGCCCTTGTTTGTACTTCGG
1 TA-CCCCTGAATTGCACTTACGTGCCCTTGTTTGTACTTCGG
* * *
27725086 TA-CCCTAAATTGCACATACGTGCCCCTGTTT
1 TACCCCTGAATTGCACTTACGTGCCCTTGTTT
27725117 ACACTCCAAT
Statistics
Matches: 156, Mismatches: 32, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
39 9 0.06
40 78 0.50
41 55 0.35
42 14 0.09
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.37
Consensus pattern (41 bp):
TACCCCTGAATTGCACTTACGTGCCCTTGTTTGTACTTCGG
Found at i:27724991 original size:21 final size:21
Alignment explanation
Indices: 27724924--27725026 Score: 56
Period size: 20 Copynumber: 5.0 Consensus size: 21
27724914 TGTACTTCGA
* *
27724924 TACCCCTAAATTGCACTTACG
1 TACCCCTGAATTGCACTTATG
* * * *
27724945 T-GCCCTTATTTGTACTT-TGG
1 TACCCCTGAATTGCACTTAT-G
27724965 TA-CCCTGAATTGCACTTATG
1 TACCCCTGAATTGCACTTATG
* *
27724985 TGCCCCTG--TCTGTACTTCA-G
1 TACCCCTGAAT-TGCACTT-ATG
*
27725005 TACCCCTGAATTTCACTTATG
1 TACCCCTGAATTGCACTTATG
27725026 T
1 T
27725027 TCCCTATTGT
Statistics
Matches: 60, Mismatches: 13, Indels: 18
0.66 0.14 0.20
Matches are distributed among these distances:
19 1 0.02
20 43 0.72
21 15 0.25
22 1 0.02
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.38
Consensus pattern (21 bp):
TACCCCTGAATTGCACTTATG
Found at i:27725052 original size:81 final size:80
Alignment explanation
Indices: 27724884--27725110 Score: 244
Period size: 81 Copynumber: 2.8 Consensus size: 80
27724874 ACTTAATTAT
*
27724884 ACCCTTGAATTGCACTTATGTGCCTATGTTTGTACTTCGATACCCCTAAATTGCACTTACGTGCC
1 ACCC-TGAATTGCACTTATGTGCCCATGTTTGTACTTCG-TACCCCTAAATTGCACTTACGTGCC
* **
27724949 CTTATTTGTACTTTGGT
64 CTTATTTGTACTTCGAC
* * * * * *
27724966 ACCCTGAATTGCACTTATGTGCCCCTGTCTGTACTTCAGTACCCCTGAATTTCACTTATGTTCCC
1 ACCCTGAATTGCACTTATGTGCCCATGTTTGTACTTC-GTACCCCTAAATTGCACTTACGTGCCC
27725031 -TA-TTGTACTTCGAC
65 TTATTTGTACTTCGAC
* * * * *
27725045 ACCCCCTGAATTACAGTTACGTGCCCTTGTTTGTACTTCGGTA-CCCTAAATTGCACATACGTGC
1 A--CCCTGAATTGCACTTATGTGCCCATGTTTGTACTTC-GTACCCCTAAATTGCACTTACGTGC
27725109 CC
63 CC
27725111 CTGTTTACAC
Statistics
Matches: 121, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
79 10 0.08
80 20 0.17
81 86 0.71
82 5 0.04
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.36
Consensus pattern (80 bp):
ACCCTGAATTGCACTTATGTGCCCATGTTTGTACTTCGTACCCCTAAATTGCACTTACGTGCCCT
TATTTGTACTTCGAC
Found at i:27728066 original size:30 final size:30
Alignment explanation
Indices: 27728032--27728088 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
27728022 AGCAAGTAGG
27728032 TGCGCTTTAAAGTTTAATGTGTTGGATAGA
1 TGCGCTTTAAAGTTTAATGTGTTGGATAGA
27728062 TGCGCTTTAAAGTTTAATGTGTTGGAT
1 TGCGCTTTAAAGTTTAATGTGTTGGAT
27728089 TTATGACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.26, T:0.42
Consensus pattern (30 bp):
TGCGCTTTAAAGTTTAATGTGTTGGATAGA
Found at i:27729359 original size:27 final size:26
Alignment explanation
Indices: 27729307--27729366 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
27729297 ACATATATAT
*
27729307 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
27729333 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
27729360 ATATCTG
1 ATATCTG
27729367 GCAGCCCCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:27735996 original size:30 final size:29
Alignment explanation
Indices: 27735953--27736013 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
27735943 CAAGTAGCCG
*
27735953 AAGCTAGTTAAATCGCACACTTAGTGTCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
*
27735982 AAGCTAGTTTAAATCTCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
27736012 AA
1 AA
27736014 ACTTCCGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:27743827 original size:37 final size:37
Alignment explanation
Indices: 27743773--27743913 Score: 219
Period size: 37 Copynumber: 3.8 Consensus size: 37
27743763 CGAATAGTCC
* *
27743773 CCACACGTAGTTATCGGGTCTTACCCGGAAAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGAAATAATCT
** *
27743810 CCACACGTAGTTTTCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGAAATAATCT
*
27743847 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGAAATAATCT
*
27743884 CTACACGTAGTCATCGGGTCTTACCCGGAA
1 CCACACGTAGTCATCGGGTCTTACCCGGAA
27743914 TATATTTCCA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGAAATAATCT
Found at i:27744111 original size:48 final size:48
Alignment explanation
Indices: 27744053--27744502 Score: 756
Period size: 48 Copynumber: 9.4 Consensus size: 48
27744043 ATATACACAC
* *
27744053 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACACATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
27744101 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACACATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
27744149 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACACATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
27744197 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACACATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
27744245 ATCTCATACACATTTCACATTAGCTATTCGGCTTTACCACATATACAT
1 ATCTCATACACATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
27744293 ATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACACATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
27744341 ATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACACATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
27744389 ATCTCATTCATATTTCACATTATCCATTCGGCTTTACCACATATACAT
1 ATCTCATACACATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
27744437 ATCTCATTCACATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACACATTTCACACTAGCCATTCGGCTTTACCACATATACAT
27744485 ATCTCATACACATTTCAC
1 ATCTCATACACATTTCAC
27744503 TACAAGCTAT
Statistics
Matches: 386, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 386 1.00
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACACATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:27747033 original size:6 final size:6
Alignment explanation
Indices: 27747024--27747073 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
27747014 TGGAAAAACC
* *
27747024 AAAAGA AAAAGA ACAAGA AAAA-A AGAAAGA GAAAGA AAAAGA AAAGAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA A-AAAGA AAAAGA AAAAGA AAA-AGA
27747073 A
1 A
27747074 TAGAAAAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
5 2 0.05
6 30 0.81
7 5 0.14
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:27747045 original size:24 final size:24
Alignment explanation
Indices: 27747025--27747081 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
27747015 GGAAAAACCA
*
27747025 AAAGAAAAAGAACAAGAAAAAAAG
1 AAAGAAAAAGAAAAAGAAAAAAAG
* *
27747049 AAAGAGAAAGAAAAAG-AAAAGAG
1 AAAGAAAAAGAAAAAGAAAAAAAG
27747072 AATAGAAAAA
1 AA-AGAAAAA
27747082 AGAGAGGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 8 0.29
24 20 0.71
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (24 bp):
AAAGAAAAAGAAAAAGAAAAAAAG
Found at i:27747056 original size:14 final size:15
Alignment explanation
Indices: 27747026--27747092 Score: 59
Period size: 14 Copynumber: 4.5 Consensus size: 15
27747016 GAAAAACCAA
27747026 AAGAAAAAGAACA-AG
1 AAGAAAAAGAA-AGAG
27747041 AA-AAAAAGAAAGAG
1 AAGAAAAAGAAAGAG
27747055 AAAGAAAAAGAAAAGAG
1 -AAGAAAAAG-AAAGAG
* *
27747072 AATAGAAA-AAAGAG
1 AAGAAAAAGAAAGAG
*
27747086 AGGAAAA
1 AAGAAAA
27747093 TTGAAGAGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
13 1 0.02
14 20 0.47
15 4 0.09
16 12 0.28
17 6 0.14
ACGTcount: A:0.75, C:0.01, G:0.22, T:0.01
Consensus pattern (15 bp):
AAGAAAAAGAAAGAG
Found at i:27747062 original size:17 final size:18
Alignment explanation
Indices: 27747042--27747084 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
27747032 AAGAACAAGA
27747042 AAAAAAGAAAGAGAA-AG
1 AAAAAAGAAAGAGAATAG
27747059 -AAAAAGAAAAGAGAATAG
1 AAAAAAG-AAAGAGAATAG
27747077 AAAAAAGA
1 AAAAAAGA
27747085 GAGGAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.26
17 8 0.35
18 3 0.13
19 6 0.26
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (18 bp):
AAAAAAGAAAGAGAATAG
Found at i:27747078 original size:18 final size:17
Alignment explanation
Indices: 27747025--27747081 Score: 68
Period size: 14 Copynumber: 3.5 Consensus size: 17
27747015 GGAAAAACCA
*
27747025 AAAGAAAAAGAACA-AG
1 AAAGAAAAAGAAAAGAG
27747041 -AA-AAAAAG-AAAGAG
1 AAAGAAAAAGAAAAGAG
27747055 AAAGAAAAAGAAAAGAG
1 AAAGAAAAAGAAAAGAG
27747072 AATAGAAAAA
1 AA-AGAAAAA
27747082 AGAGAGGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 2 0.06
14 8 0.23
15 4 0.11
16 6 0.17
17 8 0.23
18 7 0.20
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (17 bp):
AAAGAAAAAGAAAAGAG
Found at i:27750144 original size:20 final size:20
Alignment explanation
Indices: 27750119--27750193 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 20
27750109 TTAGTTTAAG
27750119 TATTTAATTTGTCTTAAGTT
1 TATTTAATTTGTCTTAAGTT
* *
27750139 TATTTAATGTGTTCTAATTAGTT
1 TATTTAATTTG-TCT--TAAGTT
*
27750162 CAACAATTTAATTTGTCTTAAGTT
1 ----TATTTAATTTGTCTTAAGTT
27750186 TATTTAAT
1 TATTTAAT
27750194 AAGTTCCAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
20 17 0.40
21 3 0.07
23 5 0.12
24 5 0.12
26 3 0.07
27 9 0.21
ACGTcount: A:0.29, C:0.07, G:0.09, T:0.55
Consensus pattern (20 bp):
TATTTAATTTGTCTTAAGTT
Found at i:27750171 original size:47 final size:47
Alignment explanation
Indices: 27750120--27750228 Score: 182
Period size: 47 Copynumber: 2.3 Consensus size: 47
27750110 TAGTTTAAGT
** *
27750120 ATTTAATTTGTCTTAAGTTTATTTAATGTGTTCTAATTAGTTCAACA
1 ATTTAATTTGTCTTAAGTTTATTTAATAAGTTCCAATTAGTTCAACA
*
27750167 ATTTAATTTGTCTTAAGTTTATTTAATAAGTTCCAATTAGTTCAACT
1 ATTTAATTTGTCTTAAGTTTATTTAATAAGTTCCAATTAGTTCAACA
27750214 ATTTAATTTGTCTTA
1 ATTTAATTTGTCTTA
27750229 GCTTATTACA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.51
Consensus pattern (47 bp):
ATTTAATTTGTCTTAAGTTTATTTAATAAGTTCCAATTAGTTCAACA
Found at i:27754116 original size:51 final size:49
Alignment explanation
Indices: 27754001--27754122 Score: 149
Period size: 51 Copynumber: 2.4 Consensus size: 49
27753991 TAGCCTGCAC
27754001 GCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACATAGTA
1 GCCTGCACTTAGTACTACACACGTGA-CTCACCATCTAATACACATAGTA
* * * *
27754051 GCCTACACTTAGTACTACACACGTGA-TCA-CAGTTTTCAGGTACGCATAGTA
1 GCCTGCACTTAGTACTACACACGTGACTCACCA--TCT-A-ATACACATAGTA
27754102 GCCTGCACTTAGTACTACACA
1 GCCTGCACTTAGTACTACACA
27754123 TGCGACCTCA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
47 2 0.03
48 3 0.05
49 2 0.03
50 26 0.41
51 30 0.48
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (49 bp):
GCCTGCACTTAGTACTACACACGTGACTCACCATCTAATACACATAGTA
Found at i:27758646 original size:42 final size:42
Alignment explanation
Indices: 27758599--27758745 Score: 161
Period size: 42 Copynumber: 3.5 Consensus size: 42
27758589 TATGTGAAAG
* **
27758599 CCATATCTGGGATATGGCATCTATATGAGACTTTTTGTAAGA
1 CCATATCTGGGATATGGCATCAATATGAGACTTCGTGTAAGA
27758641 CCATATCTGGGATATGGCATCAATATGAGACTTCGTGTAAGA
1 CCATATCTGGGATATGGCATCAATATGAGACTTCGTGTAAGA
* * * * ** * *
27758683 CTATAGCTGGGCTATTGTCATCAATACAAGA-TCCCATGTAAGA
1 CCATATCTGGGATA-TGGCATCAATATGAGACT-TCGTGTAAGA
*
27758726 CCATATTTGGGATATGGCAT
1 CCATATCTGGGATATGGCAT
27758746 TGGTATGGTA
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 56 0.64
43 31 0.36
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (42 bp):
CCATATCTGGGATATGGCATCAATATGAGACTTCGTGTAAGA
Found at i:27768700 original size:20 final size:20
Alignment explanation
Indices: 27768675--27768719 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
27768665 TGCTAGGGAA
27768675 TATGTTGCTACCAAAGAGAT
1 TATGTTGCTACCAAAGAGAT
* *
27768695 TATGTTTCTACCGAAGAGAT
1 TATGTTGCTACCAAAGAGAT
27768715 TATGT
1 TATGT
27768720 GTAAGAGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (20 bp):
TATGTTGCTACCAAAGAGAT
Found at i:27770000 original size:21 final size:21
Alignment explanation
Indices: 27769976--27770043 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
27769966 ACAGAGTTAA
*
27769976 AAGAATTGAAAGCTTAGTTGC
1 AAGAATTGAAAGCTCAGTTGC
* * * **
27769997 AAGAGTTGAAAGATAGAGTTAA
1 AAGAATTGAAAGCT-CAGTTGC
*
27770019 AAGAATTGAAAGCTCAGCTGC
1 AAGAATTGAAAGCTCAGTTGC
27770040 AAGA
1 AAGA
27770044 GCATTTAAGA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
21 19 0.54
22 16 0.46
ACGTcount: A:0.44, C:0.09, G:0.25, T:0.22
Consensus pattern (21 bp):
AAGAATTGAAAGCTCAGTTGC
Found at i:27770022 original size:22 final size:22
Alignment explanation
Indices: 27769968--27770030 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
27769958 TGGCTCCAAC
*
27769968 AGAGTTAAAAGAATTGAAAGCT
1 AGAGTTAAAAGAATTGAAAGAT
* ** *
27769990 -TAGTTGCAAGAGTTGAAAGAT
1 AGAGTTAAAAGAATTGAAAGAT
27770011 AGAGTTAAAAGAATTGAAAG
1 AGAGTTAAAAGAATTGAAAG
27770031 CTCAGCTGCA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.48, C:0.03, G:0.25, T:0.24
Consensus pattern (22 bp):
AGAGTTAAAAGAATTGAAAGAT
Found at i:27772736 original size:53 final size:54
Alignment explanation
Indices: 27772607--27772861 Score: 247
Period size: 55 Copynumber: 4.8 Consensus size: 54
27772597 ACACAGGTAC
* * * *
27772607 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
27772656 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
27772709 CTCACCAATGCCATGTCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * * *
27772764 CTTATCAATGCCATGTCTCGACATGGTCTTACATGATATCATTTCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
** * * *
27772817 CCTTACCAATTTACATGCCTTGGCATGGTCTTACATGGCATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
27772862 AAACCCCTAA
Statistics
Matches: 169, Mismatches: 26, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 50 0.30
54 10 0.06
55 68 0.40
56 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:27772798 original size:108 final size:110
Alignment explanation
Indices: 27772652--27772854 Score: 295
Period size: 108 Copynumber: 1.9 Consensus size: 110
27772642 GTATCCTTTT
* * *
27772652 GAAACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACC
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCATTGCCTTA-GAAACCTCACC
* *
27772715 AA-TGCCATGTCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
65 AATTGACATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
* * *
27772760 GAAACTTATCAATGCCATGTCTCGACATGGTCTTACATGATATCATTTCCTTAGAAACCTTACCA
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCATTGCCTTAGAAACCTCACCA
*
27772825 ATTTACATGCCTTGGCATGGTCTTACATGG
66 ATTGACATGCCTTGGCATGGTCTTACATGG
27772855 CATCCTTAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 50 0.60
109 7 0.08
110 25 0.30
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (110 bp):
GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCATTGCCTTAGAAACCTCACCA
ATTGACATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
Found at i:27782763 original size:39 final size:38
Alignment explanation
Indices: 27782664--27782763 Score: 103
Period size: 39 Copynumber: 2.6 Consensus size: 38
27782654 GAAATCCTTG
* *
27782664 TTATAACTATTGCAATTATAA-TTTAGGATCAAATAATA
1 TTATAATTA-TGCAATTATAATTTTAGGATCAAACAATA
* * * * *
27782702 TTATAATTACTGTAATTGTAATTTTTGGGTCAAACATTA
1 TTATAATTA-TGCAATTATAATTTTAGGATCAAACAATA
27782741 TTATAATTATGGCAATTATAATT
1 TTATAATTAT-GCAATTATAATT
27782764 ATTATATTCG
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
38 18 0.36
39 32 0.64
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (38 bp):
TTATAATTATGCAATTATAATTTTAGGATCAAACAATA
Found at i:27786768 original size:19 final size:19
Alignment explanation
Indices: 27786744--27786789 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
27786734 CTAGTGTCTT
27786744 CCTAGAAAGAGAATTTGTC
1 CCTAGAAAGAGAATTTGTC
27786763 CCTAGAAAGAGAATTTGTC
1 CCTAGAAAGAGAATTTGTC
*
27786782 TCTAGAAA
1 CCTAGAAA
27786790 ATCAAGTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (19 bp):
CCTAGAAAGAGAATTTGTC
Found at i:27801580 original size:46 final size:45
Alignment explanation
Indices: 27801530--27801705 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 45
27801520 TGGTTGAGCA
27801530 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
27801576 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
27801621 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
27801669 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27801706 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:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:27801686 original size:93 final size:93
Alignment explanation
Indices: 27801527--27801698 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
27801517 GGATGGTTGA
* *
27801527 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27801592 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
27801620 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27801685 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
27801699 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:27804519 original size:17 final size:17
Alignment explanation
Indices: 27804497--27804529 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27804487 ATTCATAATA
*
27804497 TAATTAATTTTAATTTT
1 TAATTAAATTTAATTTT
27804514 TAATTAAATTTAATTT
1 TAATTAAATTTAATTT
27804530 GGGTTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATTAAATTTAATTTT
Found at i:27805419 original size:3 final size:3
Alignment explanation
Indices: 27805411--27805436 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
27805401 GGTTAAATTG
27805411 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
27805437 AGTCAAAGCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27809104 original size:127 final size:124
Alignment explanation
Indices: 27808873--27809125 Score: 391
Period size: 127 Copynumber: 2.0 Consensus size: 124
27808863 GAAGTTTAGA
*
27808873 TTTTTAAAATAAAAATATGTTTTTTAATCATATTAAAGGAAAAGTTTAAATTTTTAAAACAAAGT
1 TTTTTAAAAAAAAAATATGTTTTTTAATCATATTAAAGGAAAAGTTTAAATTTTTAAAACAAAGT
* * *
27808938 TTTGATCTTTTCAACTATTTTGAAATAAAGCTTTGATTTTTAAGAAAAATAGTGATTTT
66 TTTGATCTTTTCAACTATTTCGAAATAAAGCTTTAATTTTTAAGAAAAATAGTAATTTT
* * *
27808997 TTTTTAAAAAAAAAATATGTTTTTTTAGTTATTTTAAAGGAAAAGTTTAAATATTTTAAAACAAA
1 TTTTTAAAAAAAAAATATG-TTTTTTAATCATATTAAAGGAAAAGTTTAAAT-TTTTAAAACAAA
*
27809062 GTTTTGTTAT-TTTTCAACTATTTCGAAATAAAGCTTTAATTTTTAAGAAAAGTAGTAATTTT
64 GTTTTG--ATCTTTTCAACTATTTCGAAATAAAGCTTTAATTTTTAAGAAAAATAGTAATTTT
27809124 TT
1 TT
27809126 AAAAAGAAAA
Statistics
Matches: 117, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
124 18 0.15
125 29 0.25
126 18 0.15
127 50 0.43
128 2 0.02
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.45
Consensus pattern (124 bp):
TTTTTAAAAAAAAAATATGTTTTTTAATCATATTAAAGGAAAAGTTTAAATTTTTAAAACAAAGT
TTTGATCTTTTCAACTATTTCGAAATAAAGCTTTAATTTTTAAGAAAAATAGTAATTTT
Found at i:27809608 original size:46 final size:47
Alignment explanation
Indices: 27809554--27809648 Score: 147
Period size: 46 Copynumber: 2.0 Consensus size: 47
27809544 TGTTTCTATC
*
27809554 TTTAATAAGTTATTTATACTTATATCTTCCCTTTCA-TTTGCATTTA
1 TTTAATAAGTTATTTACACTTATATCTTCCCTTTCATTTTGCATTTA
* *
27809600 TTTAATAAGTTTTTTACACTTATATCTTCTCTTTCATTTTTGCATTTA
1 TTTAATAAGTTATTTACACTTATATCTTCCCTTTCA-TTTTGCATTTA
27809648 T
1 T
27809649 ACCTTATATA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 33 0.75
48 11 0.25
ACGTcount: A:0.24, C:0.15, G:0.04, T:0.57
Consensus pattern (47 bp):
TTTAATAAGTTATTTACACTTATATCTTCCCTTTCATTTTGCATTTA
Found at i:27813101 original size:51 final size:51
Alignment explanation
Indices: 27813020--27813266 Score: 397
Period size: 51 Copynumber: 4.8 Consensus size: 51
27813010 ATACACGGTA
* *
27813020 GCCTTCACATAGTACCACCCTTGTAG-CCAAAGTTATTTTATTCACAAAGTG
1 GCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAAGTG
27813071 GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTG
1 GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTG
* *
27813122 GCCTTCACATAGTACCACACATGTGTCCAAAGCTATTATATTCACAAAGTG
1 GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTG
* * *
27813173 ACCTTCACATAGTACCACACTTGTGCCCAAAGCTATTATATTCACAAAGTG
1 GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTG
* *
27813224 ACCTTCACATAGTACCACACTTGTGTCCAAAACTATTTTATTC
1 GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
27813267 CTTAGGTTCA
Statistics
Matches: 185, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
50 1 0.01
51 184 0.99
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.30
Consensus pattern (51 bp):
GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTG
Found at i:27813322 original size:28 final size:28
Alignment explanation
Indices: 27813290--27813434 Score: 162
Period size: 28 Copynumber: 5.5 Consensus size: 28
27813280 GAGAAATTTC
27813290 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
* * *
27813318 TCACTTAG----TTGCTATAGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
* * *
27813342 TCACTTAGCACATTGGCATGAACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
27813370 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
27813398 TCACTTAG----ATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
27813422 TCACTTAGCACAA
1 TCACTTAGCACAA
27813435 GGTCATATCC
Statistics
Matches: 98, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
24 43 0.44
28 55 0.56
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.37
Consensus pattern (28 bp):
TCACTTAGCACAATGCCATGGACTTATT
Found at i:27813346 original size:52 final size:53
Alignment explanation
Indices: 27813290--27813429 Score: 164
Period size: 52 Copynumber: 2.7 Consensus size: 53
27813280 GAGAAATTTC
*
27813290 TCACTTAGCACAATGCCATGGACTTATTTCACTTAG-TTGCTATAGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATTGCCATAGACTTATT
* * * *
27813342 TCACTTAGCACATTGGCATGAACTTATTTCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAG---ATTGCCATAGACTTATT
*
27813398 TCACTTAG----ATGCCATGGTCTTATTTCACTTAG
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAG
27813430 CACAAGGTCA
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
52 53 0.71
56 22 0.29
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (53 bp):
TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATTGCCATAGACTTATT
Found at i:27814925 original size:48 final size:47
Alignment explanation
Indices: 27814820--27815142 Score: 184
Period size: 48 Copynumber: 6.8 Consensus size: 47
27814810 TAATTGTGTG
* * *
27814820 AGCTAGTGTAAGA-CATGTCTGGGACATGCATCGACCA-C-ATTATG-A
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATCG-GCATCGA-GACGTA
* * * *
27814865 GAGCCAGTGTAAGACCATATCTGGGACATGACATCGGCATTGAGTCG-A
1 -AGCTAGTGTAAGACCATGTCTGGGACATG-CATCGGCATCGAGACGTA
* * *
27814913 GTGCTATTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGTA
1 -AGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCGAGACGTA
** *
27814962 AGCTAGTGTAAGA-CATGTCTGGGACATGCATCAACTAT-GAGATGT-
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGC-ATCGAGACGTA
* * * * * * *
27815007 -G-TCAGTGTAAGACCATGTTTGGGATATGACATCAGCATGGATATGCAA
1 AGCT-AGTGTAAGACCATGTCTGGGACATG-CATCGGCATCGAGACG-TA
* * * * *
27815055 GAGCTAGTGTAAGACCATGTCT-AGACATGGCATCAGCCTCGTTGATG-A
1 -AGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCG-AGACGTA
* *
27815103 TAGCTAATGTAAGACCATGTCTGGGACATGGCATCAGCAT
1 -AGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCAT
27815143 ACTTACTACA
Statistics
Matches: 222, Mismatches: 36, Indels: 35
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.00
44 10 0.05
45 15 0.07
46 35 0.16
47 31 0.14
48 77 0.35
49 31 0.14
50 21 0.09
51 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (47 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGACGTA
Found at i:27815076 original size:142 final size:139
Alignment explanation
Indices: 27814820--27815138 Score: 367
Period size: 142 Copynumber: 2.2 Consensus size: 139
27814810 TAATTGTGTG
27814820 AGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGCCAGTGTAAGACCATAT
1 AGCTAGTGTAAGACATGTCTGGGACATGCATC-A-CACA-TATGAGAGCCAGTGTAAGACCATAT
* * * * * * * *
27814885 CTGGGACATGACATCGGCATTGAGTCGAGTGCTATTGTAAGACCATGTCTGGGACATGGCATCGG
63 CTGGGACATGACATCAGCATGGAATCAAGAGCTAGTGTAAGACCATGTCT-AGACATGGCATCAG
27814950 CCTCG-AGACG-T
127 CCTCGTAGACGAT
* *
27814961 AAGCTAGTGTAAGACATGTCTGGGACATGCATCA-AC-TATGAGATGTGTCAGTGTAAGACCATG
1 -AGCTAGTGTAAGACATGTCTGGGACATGCATCACACATATGAGA---GCCAGTGTAAGACCATA
* *
27815024 TTTGGGATATGACATCAGCATGGATATGCAAGAGCTAGTGTAAGACCATGTCTAGACATGGCATC
62 TCTGGGACATGACATCAGCATGGA-AT-CAAGAGCTAGTGTAAGACCATGTCTAGACATGGCATC
* *
27815089 AGCCTCGTTGATGAT
125 AGCCTCGTAGACGAT
*
27815104 AGCTAATGTAAGACCATGTCTGGGACATGGCATCA
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCA
27815139 GCATACTTAC
Statistics
Matches: 153, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
137 7 0.05
139 2 0.01
140 35 0.23
141 19 0.12
142 69 0.45
143 15 0.10
144 6 0.04
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (139 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCACACATATGAGAGCCAGTGTAAGACCATATCTG
GGACATGACATCAGCATGGAATCAAGAGCTAGTGTAAGACCATGTCTAGACATGGCATCAGCCTC
GTAGACGAT
Found at i:27816310 original size:20 final size:21
Alignment explanation
Indices: 27816272--27816310 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27816262 TCGAAATGGT
27816272 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
*
27816293 CACACGGGTGTG-TGCCCT
1 CACACGGGCGTGTTGCCCT
27816311 GTTTTAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.36, G:0.31, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:27822644 original size:48 final size:47
Alignment explanation
Indices: 27822542--27822808 Score: 231
Period size: 48 Copynumber: 5.8 Consensus size: 47
27822532 AATTGTGTGA
* *
27822542 GCTAGTGTAA-AACATGTCTGGGACAT-GCATCGGCCACATT-A-TGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGAGTGAGT
* *
27822588 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGTCGAGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGT-GAGT
* * * **
27822636 GCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCGAGACA-T
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGTGAGT
* *
27822682 AAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC--T-ACGAGATGT
1 --GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GTGA-GT
* *
27822728 GTTAGTGTAAGACCATGTCTGGGACATGGCATCGACCA-TGA-T-A--
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG-GCATTGAGTGAGT
27822771 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
27822809 ACTTACTCTA
Statistics
Matches: 184, Mismatches: 21, Indels: 35
0.77 0.09 0.15
Matches are distributed among these distances:
42 2 0.01
43 34 0.18
44 14 0.08
45 18 0.10
46 25 0.14
47 30 0.16
48 60 0.33
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGTGAGT
Found at i:27822755 original size:92 final size:89
Alignment explanation
Indices: 27822582--27822803 Score: 247
Period size: 92 Copynumber: 2.4 Consensus size: 89
27822572 CGGCCACATT
* * * * * *
27822582 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC-ATTGAG-TCGAGTGCTAGTGTA
1 ATGATAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTA-CGAGAT---GTGTTAGTGTA
*
27822645 AGACCATGTCTGGAACATGGCATCGGCC
62 AGACCATGTCTGGAACATGGCATCGACC
27822673 -TCGAGACATAAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTACGAGATGTGTTAGTG
1 AT---G--AT-AGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGAGATGTGTTAGTG
*
27822735 TAAGACCATGTCTGGGACATGGCATCGACC
60 TAAGACCATGTCTGGAACATGGCATCGACC
27822765 ATGATAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 ATGATAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
27822804 GGCATACTTA
Statistics
Matches: 112, Mismatches: 8, Indels: 24
0.78 0.06 0.17
Matches are distributed among these distances:
87 13 0.12
88 16 0.14
89 5 0.04
90 2 0.02
92 36 0.32
93 2 0.02
94 10 0.09
95 16 0.14
96 12 0.11
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (89 bp):
ATGATAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGAGATGTGTTAGTGTAAGAC
CATGTCTGGAACATGGCATCGACC
Found at i:27822802 original size:135 final size:139
Alignment explanation
Indices: 27822541--27822806 Score: 355
Period size: 142 Copynumber: 1.9 Consensus size: 139
27822531 TAATTGTGTG
* *
27822541 AGCTAGTGTAAAACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGT
1 AGCTAGTGTAAAACATGTCTGGGACATGCATCAGCCACATGAT-AGAGCCAGTGTAAGACCATGT
*
27822606 CTAGGACATGGCATCGGCATTGAGTCGAGTGCTAGTGTAAGACCATGTCTGGAACATGGCATCGG
65 CTAGGACATGGCATCGCCATTGAGTC-AG-GCTAGTGTAAGACCATGTCTGGAACATGGCATCGG
27822671 CCTCGAGACATA
128 CCTCGAGACATA
* * * **
27822683 AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GAT-GTGTTAGTGTAAGACCATGT
1 AGCTAGTGTAAAACATGTCTGGGACATGCATCAGCCAC-ATGATAGAGCCAGTGTAAGACCATGT
* *
27822746 CTGGGACATGGCATCGACCA-TGA-T-A-GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
65 CTAGGACATGGCATCG-CCATTGAGTCAGGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGC
27822807 ATACTTACTC
Statistics
Matches: 112, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
135 35 0.31
137 1 0.01
139 1 0.01
140 35 0.31
141 2 0.02
142 37 0.33
143 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (139 bp):
AGCTAGTGTAAAACATGTCTGGGACATGCATCAGCCACATGATAGAGCCAGTGTAAGACCATGTC
TAGGACATGGCATCGCCATTGAGTCAGGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCT
CGAGACATA
Found at i:27824262 original size:22 final size:21
Alignment explanation
Indices: 27824223--27824263 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
27824213 TGCTAGACAC
*
27824223 AGGGGCACACGCCTGTGTGGG
1 AGGGGCACACGCCCGTGTGGG
*
27824244 AGGGGCAACGCGCCCGTGTG
1 AGGGGC-ACACGCCCGTGTG
27824264 ATCAATTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.15, C:0.27, G:0.46, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCCGTGTGGG
Found at i:27825485 original size:46 final size:45
Alignment explanation
Indices: 27825338--27825561 Score: 204
Period size: 46 Copynumber: 4.8 Consensus size: 45
27825328 ATGGGATAGG
* *
27825338 ATGCCGATGCCATGTCCCGGACATGGTCTTACACTAGCT-T-AACTC
1 ATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTC
* * * *
27825383 GTAGCCGATGCATGTCCCAAACATGTCTTAGACTGGCT-TACATCTC
1 AT-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTC
* * *
27825429 GAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTC
1 -ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC
* * * *
27825475 ACTGCCGATGCCATGTCCCAGACATAGTCTTACATTGGCTCTCGTAAT-
1 A-TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTC
*
27825523 ATGGCCAATGCATGTCCCAGACATGTCTTACACTAGCTC
1 AT-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
27825562 ACAATAGTCC
Statistics
Matches: 148, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
44 13 0.09
45 14 0.09
46 66 0.45
47 30 0.20
48 24 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (45 bp):
ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC
Found at i:27825517 original size:48 final size:46
Alignment explanation
Indices: 27825435--27825561 Score: 168
Period size: 47 Copynumber: 2.7 Consensus size: 46
27825425 TCTCGAGGCT
*
27825435 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGT-CTCACT-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTAAT-A-TGGCC
* *
27825481 GATGCCATGTCCCAGACATAGTCTTACATTGGCTCTCGTAATATGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTAATATGGCC
*
27825529 AATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
27825562 ACAATAGTCC
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
46 17 0.24
47 29 0.41
48 24 0.34
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTAATATGGCC
Found at i:27828316 original size:17 final size:18
Alignment explanation
Indices: 27828296--27828331 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
27828286 AAGCTATGAG
27828296 AAAAGAGAATGAAA-AGA
1 AAAAGAGAATGAAAGAGA
*
27828313 AAAAGAGACTGAAAGAGA
1 AAAAGAGAATGAAAGAGA
27828331 A
1 A
27828332 TGTGAGCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.67, C:0.03, G:0.25, T:0.06
Consensus pattern (18 bp):
AAAAGAGAATGAAAGAGA
Found at i:27838240 original size:28 final size:28
Alignment explanation
Indices: 27838171--27838271 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
27838161 GACAAGATTG
* * * *
27838171 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
27838201 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
27838229 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
27838258 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
27838272 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:27846184 original size:28 final size:28
Alignment explanation
Indices: 27846115--27846215 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
27846105 GACAAGATTG
* * * *
27846115 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
27846145 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
27846173 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
27846202 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
27846216 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:27847818 original size:105 final size:102
Alignment explanation
Indices: 27847607--27847867 Score: 246
Period size: 105 Copynumber: 2.6 Consensus size: 102
27847597 GACGGATAAG
** * * * *
27847607 ACCATGGTTGGACCATAGCAATATTTAAATGTAATACCACAGCTAGGCTATGGCAT-TTCAGTGA
1 ACCATGGTTGGACCATAGCAATATTTATGTGTAAGACCATAGCTTGGCTATGGCATCCTCAGTGA
* *
27847671 AAAGACCATAACTGGGTTATGGCACCATGAACGTAAG
66 AAAGACCATAACTGGGTTATGGCACCATCAACGTAAA
* *
27847708 GCCATGGTTGGACCATAGCAGTATATGTATATGTGTAAGACCATAGCTTGGCTATGGCATCCTGA
1 ACCATGGTTGGACCATAGCA--ATAT-T-TATGTGTAAGACCATAGCTTGGCTATGGCATCCTCA
* * * ** *
27847773 -TGATAGGACCATAATTGGGTTATGGCATTA-CAAGTGTAAA
62 GTGAAAAGACCATAACTGGGTTATGGCACCATCAA-CGTAAA
** * *
27847813 ACCATGGCAGGGCCATGGCAATA-TT-TGTGTAAGACCATAG-TTGGACTATGGCATC
1 ACCATGGTTGGACCATAGCAATATTTATGTGTAAGACCATAGCTTGG-CTATGGCATC
27847868 AAGAAAATGT
Statistics
Matches: 132, Mismatches: 21, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
98 4 0.03
99 25 0.19
100 1 0.01
101 20 0.15
103 7 0.05
104 3 0.02
105 70 0.53
106 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (102 bp):
ACCATGGTTGGACCATAGCAATATTTATGTGTAAGACCATAGCTTGGCTATGGCATCCTCAGTGA
AAAGACCATAACTGGGTTATGGCACCATCAACGTAAA
Found at i:27851082 original size:16 final size:15
Alignment explanation
Indices: 27851047--27851076 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
27851037 AATACTAAAT
27851047 CTCATCCATATCAAA
1 CTCATCCATATCAAA
27851062 CTCATACCATATCAA
1 CTCAT-CCATATCAA
27851077 TATCATTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (15 bp):
CTCATCCATATCAAA
Found at i:27852652 original size:27 final size:27
Alignment explanation
Indices: 27852622--27852708 Score: 133
Period size: 27 Copynumber: 3.2 Consensus size: 27
27852612 GTGATGAAGT
27852622 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
27852649 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
27852676 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
27852703 CACCAG
1 CACCAG
27852709 GACGCTTCCT
Statistics
Matches: 56, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
26 8 0.14
27 46 0.82
28 2 0.04
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:27854358 original size:26 final size:26
Alignment explanation
Indices: 27854328--27854435 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
27854318 TGAAATTCCC
27854328 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
27854354 ATCATGGAACATTTACCTAATCGATT
1 ATCATGGAACATTTACCTAACCCATT
*
27854380 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
27854406 ATCATGGAAAATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27854432 ATCA
1 ATCA
27854436 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:27856501 original size:20 final size:20
Alignment explanation
Indices: 27856468--27856529 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
27856458 ATAGTGATAT
*
27856468 ACAGAGGCACCGAAGTGCAA
1 ACAGAAGCACCGAAGTGCAA
* *
27856488 GCAGAAGCATCGAAGTGCAA
1 ACAGAAGCACCGAAGTGCAA
* *
27856508 ACAGAGGCACCAAAGTGCAA
1 ACAGAAGCACCGAAGTGCAA
27856528 AC
1 AC
27856530 CCATACAAGC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.42, C:0.24, G:0.27, T:0.06
Consensus pattern (20 bp):
ACAGAAGCACCGAAGTGCAA
Found at i:27857439 original size:11 final size:10
Alignment explanation
Indices: 27857401--27857446 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 10
27857391 GTATTTATGT
27857401 TTTTAACATA
1 TTTTAACATA
27857411 TTTTAAACATA
1 TTTT-AACATA
*
27857422 ATTTAACATTA
1 TTTTAACA-TA
*
27857433 TTTTAACTTA
1 TTTTAACATA
27857443 TTTT
1 TTTT
27857447 TCTCTAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
10 14 0.45
11 17 0.55
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAACATA
Found at i:27860943 original size:25 final size:25
Alignment explanation
Indices: 27860914--27860975 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
27860904 ATTGATGTTT
27860914 CTGTTAAAAATTTCATCTATTTTTA
1 CTGTTAAAAATTTCATCTATTTTTA
27860939 CTGTTAAAAATTTCATCTATTTTTA
1 CTGTTAAAAATTTCATCTATTTTTA
*
27860964 CTATTAAAAATT
1 CTGTTAAAAATT
27860976 GATTATTGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.35, C:0.11, G:0.03, T:0.50
Consensus pattern (25 bp):
CTGTTAAAAATTTCATCTATTTTTA
Found at i:27861938 original size:28 final size:28
Alignment explanation
Indices: 27861882--27861949 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
27861872 CAATTTTTTG
* * **
27861882 TTCTTGATTTGTTATTCTCAATTGTCAA
1 TTCTCGATTTTTTATTCTCAATTCCCAA
27861910 TTCTCGATTTTTTATTCTCAATTCCCAA
1 TTCTCGATTTTTTATTCTCAATTCCCAA
*
27861938 TT-TCAATTTTTT
1 TTCTCGATTTTTT
27861950 TTTAAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 9 0.26
28 26 0.74
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.56
Consensus pattern (28 bp):
TTCTCGATTTTTTATTCTCAATTCCCAA
Found at i:27862089 original size:15 final size:16
Alignment explanation
Indices: 27862067--27862103 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
27862057 GTAATAAAAT
*
27862067 ATTATTAAATTATTTA
1 ATTATTAAATTAGTTA
27862083 A-TATT-AATTAGTTA
1 ATTATTAAATTAGTTA
27862097 ATTATTA
1 ATTATTA
27862104 TGATGTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
14 9 0.50
15 8 0.44
16 1 0.06
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTATTAAATTAGTTA
Found at i:27864836 original size:25 final size:25
Alignment explanation
Indices: 27864779--27864858 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
27864769 AGTTTCCTGG
* * *
27864779 TATGGCCCAGATAAGCTTCTTGTTA
1 TATGGCTCAGATGAGCTTCTTGATA
* * *
27864804 CATAGCTCAGATGAGCATCTTGATA
1 TATGGCTCAGATGAGCTTCTTGATA
*
27864829 TATGGCTCGAGAGTGTGCTTCTTGAT-
1 TATGGCTC-AGA-TGAGCTTCTTGATA
27864855 TATG
1 TATG
27864859 TGCGCTTATG
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
25 25 0.58
26 7 0.16
27 11 0.26
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (25 bp):
TATGGCTCAGATGAGCTTCTTGATA
Found at i:27867526 original size:28 final size:27
Alignment explanation
Indices: 27867463--27867532 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
27867453 ATAGTGAGTC
27867463 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
27867490 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
27867518 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27867533 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:27882373 original size:40 final size:40
Alignment explanation
Indices: 27882307--27882473 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
27882297 AAATTGAATG
* * *
27882307 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
27882346 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
27882386 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
27882426 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
27882466 ATATCCGG
1 ATATCCGG
27882474 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:27884052 original size:40 final size:40
Alignment explanation
Indices: 27883994--27884161 Score: 259
Period size: 40 Copynumber: 4.2 Consensus size: 40
27883984 CGGATGATAA
* * *
27883994 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTGACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
27884034 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
27884074 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
27884114 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
27884154 CC-GGCTAA
1 CCGGGCTAA
27884162 ATTCTGAAGG
Statistics
Matches: 119, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 8 0.07
40 111 0.93
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:27887309 original size:46 final size:46
Alignment explanation
Indices: 27887259--27887515 Score: 157
Period size: 46 Copynumber: 5.7 Consensus size: 46
27887249 TTGGGCATCT
*
27887259 GAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * * *
27887305 GAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCC
*
27887352 G-A-GC-TT--GTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * * * * * * *
27887393 GAACTAGTTGAGTTGAGT-CGAGTTC-GTGAAATGTA-ACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACGTCC
* **
27887439 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * *
27887485 GAGCTCATTGAG--G-GTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27887516 GCGGGTTACA
Statistics
Matches: 162, Mismatches: 29, Indels: 43
0.69 0.12 0.18
Matches are distributed among these distances:
41 4 0.02
42 19 0.12
43 24 0.15
44 6 0.04
45 17 0.10
46 78 0.48
47 13 0.08
48 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
Found at i:27887373 original size:88 final size:91
Alignment explanation
Indices: 27887269--27887508 Score: 361
Period size: 88 Copynumber: 2.7 Consensus size: 91
27887259 GAACTTGTTG
27887269 AGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGTTGAGTCCGAGTTCGTG
1 AGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGTTGAGTCCGAGTTCGTG
*
27887334 AGATGTAACTAGGCATCCGAG-C-TT
66 AAATGTAACTAGGCATCCGAGCCGTT
27887358 -GTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACT-AGTTGAGTTGAGT-CGAGTTCGT
1 AGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCA-TTGAGTTGAGTCCGAGTTCGT
27887420 GAAATGTAACTAGGCATCCGAGCTCGTT
65 GAAATGTAACTAGGCATCCGAGC-CGTT
** *
27887448 GAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCATTGAG--G-GTCCGAGTTCG
1 -AGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGTTGAGTCCGAGTTCG
27887509 CTTATGGGCG
Statistics
Matches: 139, Mismatches: 4, Indels: 15
0.88 0.03 0.09
Matches are distributed among these distances:
87 31 0.22
88 51 0.37
89 3 0.02
90 11 0.08
92 42 0.30
93 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (91 bp):
AGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGTTGAGTCCGAGTTCGTG
AAATGTAACTAGGCATCCGAGCCGTT
Found at i:27889803 original size:23 final size:23
Alignment explanation
Indices: 27889777--27889822 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
27889767 ACAAATTTAA
27889777 CAGTTTCTTCTGAGATGTTCTAT
1 CAGTTTCTTCTGAGATGTTCTAT
27889800 CAGTTTCTTCTGAGATGTTCTAT
1 CAGTTTCTTCTGAGATGTTCTAT
27889823 GTATTTATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (23 bp):
CAGTTTCTTCTGAGATGTTCTAT
Found at i:27890248 original size:30 final size:29
Alignment explanation
Indices: 27890213--27890269 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
27890203 ATAGTATCAT
*
27890213 ATCTTGGGTTTCTTTATTCTGGGTTTCTCA
1 ATCTTGGATTTCTTTATTC-GGGTTTCTCA
*
27890243 ATCTTGGATTTCTTTATTCGGTTTTCT
1 ATCTTGGATTTCTTTATTCGGGTTTCT
27890270 TGTTATCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.11, C:0.16, G:0.18, T:0.56
Consensus pattern (29 bp):
ATCTTGGATTTCTTTATTCGGGTTTCTCA
Found at i:27892746 original size:46 final size:46
Alignment explanation
Indices: 27892696--27893053 Score: 257
Period size: 46 Copynumber: 7.7 Consensus size: 46
27892686 TTGGGCATCG
*
27892696 GAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCC
* * * * * *
27892742 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTA-ACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-ACGTCC
* *
27892789 GAACTCGTTGA-ATGAGTCCGAGTTCACTTATGGATGCGAACGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCC
* * * * * * * *
27892834 GAACTTGTTTAGTTGAGTCCGAGTTC-GTGAGATGTA-ACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-ACGTCC
* *
27892881 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCC
* * * * * * * *
27892926 TGAACTAGTTAAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCATCC
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-ACGTCC
* *
27892974 GAGA-TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GA-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCC
* * * *
27893020 GAGCTCGTTGAGTTGAGTCTGTGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27893054 GCGGGTTACA
Statistics
Matches: 233, Mismatches: 59, Indels: 40
0.70 0.18 0.12
Matches are distributed among these distances:
45 22 0.09
46 124 0.53
47 82 0.35
48 5 0.02
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCC
Found at i:27892799 original size:93 final size:93
Alignment explanation
Indices: 27892689--27893038 Score: 553
Period size: 93 Copynumber: 3.8 Consensus size: 93
27892679 CGGATATTTG
* * *
27892689 GGCATCGGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
27892754 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
27892782 GGCATCCGAACTCGTTGA-ATGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTTGTTTAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
27892846 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
27892874 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAACTAGTTAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGA
*
27892938 GTTGAGTCCGAGTTCGTGAAATGTAACTA
65 GTTGAGTCCGAGTTCGTGAGATGTAACTA
* *
27892967 GGCATCCGAGA-TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGA
1 GGCATCCGA-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGA
27893031 GTTGAGTC
65 GTTGAGTC
27893039 TGTGTTCGCT
Statistics
Matches: 238, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
92 89 0.37
93 147 0.62
94 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:27897336 original size:33 final size:34
Alignment explanation
Indices: 27897294--27897369 Score: 113
Period size: 33 Copynumber: 2.3 Consensus size: 34
27897284 AGTAATAGTC
*
27897294 CAGTATCAGT-TAGGGCCTTAGCCC-ATTCAGTAA
1 CAGTATCAGTGT-GAGCCTTAGCCCAATTCAGTAA
27897327 CAGTATCAGTGTGAGCCTTAGCCCAATTCAGTAA
1 CAGTATCAGTGTGAGCCTTAGCCCAATTCAGTAA
27897361 CAGTA-CAGT
1 CAGTATCAGT
27897370 ACAAAATGCA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
33 25 0.62
34 15 0.38
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (34 bp):
CAGTATCAGTGTGAGCCTTAGCCCAATTCAGTAA
Found at i:27899661 original size:131 final size:132
Alignment explanation
Indices: 27899426--27899690 Score: 496
Period size: 131 Copynumber: 2.0 Consensus size: 132
27899416 ACTGAAGCAA
27899426 GCATGCATTTATGCAACACAACACACAAAAAAAATTATTAAAGATTTGGGGCATTACAACTCTAC
1 GCATGCATTTATGCAACACAACACACAAAAAAAATTATTAAAGATTTGGGGCATTACAACTCTAC
* *
27899491 CCCCTAAAATAAAATTTCGGCCTCGAAATTTACCTGTCAAAACAGATAAGGGTATTGTTTTCGTT
66 CCCCTAAAATAAAATTTCGGCCTCGAAATTTACCTGTCAAAACAGATAAGGGTATTGTTGTCGTA
27899556 TC
131 TC
27899558 GCATGCATTTATGCAACACAACACAC-AAAAAAATTATTAAAGATTTGGGGCATTACAACTCTAC
1 GCATGCATTTATGCAACACAACACACAAAAAAAATTATTAAAGATTTGGGGCATTACAACTCTAC
*
27899622 CCCCTAAAATAAAATTTCGGCCTCGAAATTTACCTGTCAAAACAGATGAGGGTATTGTTGTCGTA
66 CCCCTAAAATAAAATTTCGGCCTCGAAATTTACCTGTCAAAACAGATAAGGGTATTGTTGTCGTA
27899687 TC
131 TC
27899689 GC
1 GC
27899691 CTCCTTGGGT
Statistics
Matches: 130, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
131 104 0.80
132 26 0.20
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.28
Consensus pattern (132 bp):
GCATGCATTTATGCAACACAACACACAAAAAAAATTATTAAAGATTTGGGGCATTACAACTCTAC
CCCCTAAAATAAAATTTCGGCCTCGAAATTTACCTGTCAAAACAGATAAGGGTATTGTTGTCGTA
TC
Found at i:27903792 original size:37 final size:37
Alignment explanation
Indices: 27903739--27903829 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
27903729 TTATTACGAA
27903739 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
27903776 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
27903813 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
27903830 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:27903980 original size:49 final size:49
Alignment explanation
Indices: 27903925--27904240 Score: 498
Period size: 49 Copynumber: 6.5 Consensus size: 49
27903915 TTTTACATTA
*
27903925 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* *
27903974 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
*
27904023 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
27904072 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
*
27904121 GCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* * *
27904168 GCCA-TACGGCCTTATCAC--ACATATGCACTTTCACATTCATCACATTG
1 GCCATTA-GGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* *
27904215 GCCATTCGGCCTTATCACACATATAT
1 GCCATTAGGCCTTATCACATATATAT
27904241 GTATATCATA
Statistics
Matches: 255, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
46 2 0.01
47 85 0.33
48 1 0.00
49 167 0.65
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
Found at i:27907819 original size:29 final size:29
Alignment explanation
Indices: 27907784--27908027 Score: 454
Period size: 29 Copynumber: 8.4 Consensus size: 29
27907774 TGAAAAACTT
* *
27907784 GCACACACAGTGCCTCAATTACTGATCTC
1 GCACACATAGTGCCTCGATTACTGATCTC
*
27907813 GCACACATAGTGCCTCAATTACTGATCTC
1 GCACACATAGTGCCTCGATTACTGATCTC
27907842 GCACACATAGTGCCTCGATTACTGATC-C
1 GCACACATAGTGCCTCGATTACTGATCTC
27907870 GCACACATAGTGCCTCGATTACTGATCTC
1 GCACACATAGTGCCTCGATTACTGATCTC
27907899 GCACACATAGTGCCTCGATTACTGATCTC
1 GCACACATAGTGCCTCGATTACTGATCTC
27907928 GCACACATAGTGCCTCGATTACTGATCTC
1 GCACACATAGTGCCTCGATTACTGATCTC
27907957 GCACACATAGTGCCTCGATTACTGATCTC
1 GCACACATAGTGCCTCGATTACTGATCTC
27907986 GCACACATAGTGCCTCGATTACTGATCTC
1 GCACACATAGTGCCTCGATTACTGATCTC
27908015 GCACACATAGTGC
1 GCACACATAGTGC
27908028 TCGGTTAACG
Statistics
Matches: 212, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
28 28 0.13
29 184 0.87
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACATAGTGCCTCGATTACTGATCTC
Found at i:27907853 original size:86 final size:86
Alignment explanation
Indices: 27907779--27908059 Score: 404
Period size: 87 Copynumber: 3.2 Consensus size: 86
27907769 TCTGTTGAAA
* * *
27907779 AACTTGCACACACAGTGCCTCAATTACTGATCTCGCACACATAGTGCCTCAATTACTGATCTCGC
1 AACTCGCACACACAGTGCCTCGATTACTGATCTCGCACACATAGTGCCTCGATTACTGATCTCGC
*
27907844 ACACATAGTGCCTCGATTACTG
66 ACACATAGTGCCTCGATTA-AG
* *
27907866 ATC-CGCACACATAGTGCCTCGATTACTGATCTCGCACACATAGTGCCTCGATTACTGATCTCGC
1 AACTCGCACACACAGTGCCTCGATTACTGATCTCGCACACATAGTGCCTCGATTACTGATCTCGC
*
27907930 ACACATAGTGCCTCGATTACTG
66 ACACATAGTGCCTCGATTA-AG
* *
27907952 ATCTCGCACACATAGTGCCTCGATTACTGATCTCGCACACATAGTGCCTCGATTACTGATCTCGC
1 AACTCGCACACACAGTGCCTCGATTACTGATCTCGCACACATAGTGCCTCGATTACTGATCTCGC
*
27908017 ACACATAGTG-CTCGGTTAACGG
66 ACACATAGTGCCTCGATTAA--G
* *
27908039 AATTTGCACACACAGTGCCTC
1 AACTCGCACACACAGTGCCTC
27908060 TAATCATTCG
Statistics
Matches: 180, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
86 89 0.49
87 91 0.51
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (86 bp):
AACTCGCACACACAGTGCCTCGATTACTGATCTCGCACACATAGTGCCTCGATTACTGATCTCGC
ACACATAGTGCCTCGATTAAG
Found at i:27910165 original size:37 final size:37
Alignment explanation
Indices: 27910112--27910202 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
27910102 TTATTACGAA
27910112 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
27910149 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
27910186 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
27910203 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:27910354 original size:49 final size:49
Alignment explanation
Indices: 27910298--27910663 Score: 587
Period size: 49 Copynumber: 7.5 Consensus size: 49
27910288 TTTTACATTA
27910298 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
27910347 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
27910396 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
27910445 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
27910494 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
27910543 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* * * *
27910592 GCCA-TACGGCCTTATCAC--ACATATGCACTTTCACATTCATCACATTG
1 GCCATTA-GGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
27910639 GCCATTCGGCCTTA-CACACATATAT
1 GCCATTAGGCCTTATCACATATATAT
27910664 GTATATCATA
Statistics
Matches: 305, Mismatches: 8, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
46 3 0.01
47 38 0.12
48 8 0.03
49 256 0.84
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.30
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
Found at i:27910658 original size:23 final size:23
Alignment explanation
Indices: 27910585--27910659 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
27910575 TCACATTCAT
*
27910585 CACATTGGCCATACGGCCTTATCA
1 CACATTGGCCATTCGGCCTTA-CA
* * *
27910609 CACATAT-GCACTTTC-ACATT-CA
1 CACAT-TGGC-CATTCGGCCTTACA
27910631 TCACATTGGCCATTCGGCCTTACA
1 -CACATTGGCCATTCGGCCTTACA
27910655 CACAT
1 CACAT
27910660 ATATGTATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 13
0.66 0.12 0.22
Matches are distributed among these distances:
22 7 0.18
23 15 0.39
24 12 0.32
25 4 0.11
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.28
Consensus pattern (23 bp):
CACATTGGCCATTCGGCCTTACA
Found at i:27916227 original size:27 final size:27
Alignment explanation
Indices: 27916188--27916239 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
27916178 ATCATACAAA
* *
27916188 TCATAGGGACATATCAGTTATTTTACC
1 TCATAGGGACATAACAGTCATTTTACC
*
27916215 TCATAGGGGCATAACAGTCATTTTA
1 TCATAGGGACATAACAGTCATTTTA
27916240 TTAAATGGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (27 bp):
TCATAGGGACATAACAGTCATTTTACC
Found at i:27924211 original size:16 final size:16
Alignment explanation
Indices: 27924177--27924227 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
27924167 AATGAATCGC
* *
27924177 AAAAGCCGAAATGCCG
1 AAAAGCCGAAAAGCTG
*
27924193 AAAAGCCAAAAAGCTG
1 AAAAGCCGAAAAGCTG
* *
27924209 AAATGCTGAAAAGCTG
1 AAAAGCCGAAAAGCTG
27924225 AAA
1 AAA
27924228 GTTAGGCTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.51, C:0.18, G:0.22, T:0.10
Consensus pattern (16 bp):
AAAAGCCGAAAAGCTG
Found at i:27924211 original size:24 final size:24
Alignment explanation
Indices: 27924177--27924222 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
27924167 AATGAATCGC
27924177 AAAAGCCGAAATGCCGAAAAGCCA
1 AAAAGCCGAAATGCCGAAAAGCCA
* *
27924201 AAAAGCTGAAATGCTGAAAAGC
1 AAAAGCCGAAATGCCGAAAAGC
27924223 TGAAAGTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.20, G:0.22, T:0.09
Consensus pattern (24 bp):
AAAAGCCGAAATGCCGAAAAGCCA
Found at i:27924508 original size:29 final size:29
Alignment explanation
Indices: 27924443--27924557 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 29
27924433 GCATGAGTAT
* *
27924443 AATATGATTTGGGCCTAATGGGCCATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
** *
27924472 AAGGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAATTGGGCCTAGTGGGCCATATG
* * * *
27924501 AATATGAACTAGGCC-AGATGGGTCATTTG
1 AATATGAATTGGGCCTAG-TGGGCCATATG
* *
27924530 AATAAG-ATTGGGCCTAGTGGGCTATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
27924558 CATGTATGTA
Statistics
Matches: 66, Mismatches: 18, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
28 16 0.24
29 50 0.76
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (29 bp):
AATATGAATTGGGCCTAGTGGGCCATATG
Found at i:27931889 original size:16 final size:16
Alignment explanation
Indices: 27931870--27931900 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
27931860 ATGCCGAGAA
27931870 GCCAAAAAGTCGAAAT
1 GCCAAAAAGTCGAAAT
27931886 GCCAAAAAGTCGAAA
1 GCCAAAAAGTCGAAA
27931901 GTTGGGCTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.19, T:0.10
Consensus pattern (16 bp):
GCCAAAAAGTCGAAAT
Done.