Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 182 of 362
Found at i:60292158 original size:11 final size:12
Alignment explanation
Indices: 60292122--60292166 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
60292112 TTATGTTGTA
*
60292122 ATTATTATTATT
1 ATTATTCTTATT
*
60292134 ACTATTCTTTATT
1 ATTATTC-TTATT
60292147 ATT-TTCTTATT
1 ATTATTCTTATT
60292158 ATTATTCTT
1 ATTATTCTT
60292167 GTCATTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 8 0.29
12 13 0.46
13 7 0.25
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTATTCTTATT
Found at i:60293763 original size:6 final size:6
Alignment explanation
Indices: 60293752--60293831 Score: 106
Period size: 6 Copynumber: 13.3 Consensus size: 6
60293742 ATTGAGTCCA
* * * * *
60293752 TTTATC TTTATC TTTATC TTTATG TTTATT TTTATT TCTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
60293800 TTTATT TTTATT TTTATT TTTATG TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT
60293832 GTTTTCCTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:60294054 original size:19 final size:21
Alignment explanation
Indices: 60294030--60294071 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
60294020 ATCTCCCTAC
60294030 ATTATGA-TAT-TTTGTTTGT
1 ATTATGATTATATTTGTTTGT
60294049 ATTATGATTTATATTTGTTTGT
1 ATTATGA-TTATATTTGTTTGT
60294071 A
1 A
60294072 CATTGATGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
21 3 0.15
22 10 0.50
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (21 bp):
ATTATGATTATATTTGTTTGT
Found at i:60294572 original size:29 final size:29
Alignment explanation
Indices: 60294530--60294588 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
60294520 TGATATACTG
60294530 AGATGATAAAGGCACCTAGGTTTTAACTT
1 AGATGATAAAGGCACCTAGGTTTTAACTT
60294559 AGATGATAAAGGCACCTAGGTTTTAACTT
1 AGATGATAAAGGCACCTAGGTTTTAACTT
60294588 A
1 A
60294589 CTTACCCCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.31
Consensus pattern (29 bp):
AGATGATAAAGGCACCTAGGTTTTAACTT
Found at i:60296032 original size:30 final size:30
Alignment explanation
Indices: 60295998--60296057 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
60295988 CTATATTTGA
60295998 GATGTTTTTCTACTACAATATGAACTAAAC
1 GATGTTTTTCTACTACAATATGAACTAAAC
60296028 GATGTTTTTCTACTACAATATGAACTAAAC
1 GATGTTTTTCTACTACAATATGAACTAAAC
60296058 TCCCTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (30 bp):
GATGTTTTTCTACTACAATATGAACTAAAC
Found at i:60301767 original size:16 final size:17
Alignment explanation
Indices: 60301734--60301774 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
60301724 AATAGTTATT
60301734 TAATTTAATATTTATAA
1 TAATTTAATATTTATAA
60301751 TAATTT-AT-TTTATTAA
1 TAATTTAATATTTA-TAA
*
60301767 TAACTTAA
1 TAATTTAA
60301775 AAAAATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 4 0.19
16 10 0.48
17 7 0.33
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
TAATTTAATATTTATAA
Found at i:60311872 original size:22 final size:22
Alignment explanation
Indices: 60311833--60311874 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
60311823 ACTCATAAAT
*
60311833 GAAACAGAAAACATAATAGATA
1 GAAACAGAAAACAAAATAGATA
* *
60311855 GAAACATAAGACAAAATAGA
1 GAAACAGAAAACAAAATAGA
60311875 CATATACATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.64, C:0.10, G:0.14, T:0.12
Consensus pattern (22 bp):
GAAACAGAAAACAAAATAGATA
Found at i:60313301 original size:18 final size:17
Alignment explanation
Indices: 60313222--60313310 Score: 78
Period size: 16 Copynumber: 5.2 Consensus size: 17
60313212 TTCACACTCT
*
60313222 TTTTCAATTTATTTTTC
1 TTTTCAATTTCTTTTTC
60313239 TTGTTCACACTTTCTTTTT-
1 TT-TTCA-A-TTTCTTTTTC
* *
60313258 ATTTCAATATC-TTTTC
1 TTTTCAATTTCTTTTTC
*
60313274 TTGT-AATTTCTTTTTCC
1 TTTTCAATTTCTTTTT-C
60313291 TTTTCAATTTC-TTTTC
1 TTTTCAATTTCTTTTTC
60313307 TTTT
1 TTTT
60313311 TCTCTCAAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
15 9 0.16
16 14 0.24
17 11 0.19
18 14 0.24
19 2 0.03
20 8 0.14
ACGTcount: A:0.15, C:0.17, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTCAATTTCTTTTTC
Found at i:60314968 original size:49 final size:49
Alignment explanation
Indices: 60314896--60314994 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
60314886 TTTATAGAAA
60314896 ACTAACTAGATACCTAAATGGACAATTTCAGCCACTGATGATGTACATG
1 ACTAACTAGATACCTAAATGGACAATTTCAGCCACTGATGATGTACATG
60314945 ACTAACTAGATACCTAAATGGACAATTTCAGCCACTGATGATGTACATG
1 ACTAACTAGATACCTAAATGGACAATTTCAGCCACTGATGATGTACATG
60314994 A
1 A
60314995 TCTCGACCAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.26
Consensus pattern (49 bp):
ACTAACTAGATACCTAAATGGACAATTTCAGCCACTGATGATGTACATG
Found at i:60331806 original size:98 final size:98
Alignment explanation
Indices: 60331651--60331831 Score: 238
Period size: 98 Copynumber: 1.8 Consensus size: 98
60331641 GGATGTTATA
* * * * * **
60331651 TATGGTCTTACACACCATAATTCCTCACGTTTAATGTCGTGGCGAACTACCTTGTGTTCATTGTC
1 TATGGTCTAACACACCATAATTCCCCACGTTTAATGTCATGGAGAACAACCCCGTGTTCATTGTC
60331716 CTGCCAGACTACCATTTGTTGCCATAGTCGAAC
66 CTGCCAGACTACCATTTGTTGCCATAGTCGAAC
* * *
60331749 TATGGTCTAACACATCATAATTCCCCATGTTTAATGTCATGGTAG-ACAACCCCGTGTTTATTGT
1 TATGGTCTAACACACCATAATTCCCCACGTTTAATGTCATGG-AGAACAACCCCGTGTTCATTGT
**
60331813 CCTGGTAGACTACCATTTG
65 CCTGCCAGACTACCATTTG
60331832 GTTCTATGTC
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
98 69 0.99
99 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (98 bp):
TATGGTCTAACACACCATAATTCCCCACGTTTAATGTCATGGAGAACAACCCCGTGTTCATTGTC
CTGCCAGACTACCATTTGTTGCCATAGTCGAAC
Found at i:60331813 original size:27 final size:27
Alignment explanation
Indices: 60331771--60331822 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
60331761 CATCATAATT
60331771 CCCCATGTTTAATGTCATGGTAGACAA
1 CCCCATGTTTAATGTCATGGTAGACAA
* * *
60331798 CCCCGTGTTTATTGTCCTGGTAGAC
1 CCCCATGTTTAATGTCATGGTAGAC
60331823 TACCATTTGG
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:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (27 bp):
CCCCATGTTTAATGTCATGGTAGACAA
Found at i:60331851 original size:98 final size:97
Alignment explanation
Indices: 60331650--60331876 Score: 232
Period size: 98 Copynumber: 2.4 Consensus size: 97
60331640 GGGATGTTAT
* * * * * * **
60331650 ATATGGTCTTACACACCATAATTCCTCACGTTTAATGTCGTGGCGAACTACCTTGTGTTCATTGT
1 ATATGGTCTTACACATCATAATTCCCCATGTTTAATGTCATGGAGAACAACCCCGTGTTCATTGT
60331715 CCTGCCAGACTACCATTTGTTGCCATAGTCGA
66 CCTGCCAGACTACCATTTGTTGCCATAGTCGA
* *
60331747 ACTATGGTCTAACACATCATAATTCCCCATGTTTAATGTCATGGTAG-ACAACCCCGTGTTTATT
1 A-TATGGTCTTACACATCATAATTCCCCATGTTTAATGTCATGG-AGAACAACCCCGTGTTCATT
** *
60331811 GTCCTGGTAGACTACCATTTGGTT-CTAT-GTCTGA
64 GTCCTGCCAGACTACCATTT-GTTGCCATAGTC-GA
* *
60331845 GATATGGTGTTACACAT--T-ATTCCCAATGTTTA
1 -ATATGGTCTTACACATCATAATTCCCCATGTTTA
60331877 GCATCCTAAA
Statistics
Matches: 109, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
95 13 0.12
96 1 0.01
97 4 0.04
98 86 0.79
99 5 0.05
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (97 bp):
ATATGGTCTTACACATCATAATTCCCCATGTTTAATGTCATGGAGAACAACCCCGTGTTCATTGT
CCTGCCAGACTACCATTTGTTGCCATAGTCGA
Found at i:60336986 original size:47 final size:47
Alignment explanation
Indices: 60336928--60337139 Score: 302
Period size: 47 Copynumber: 4.6 Consensus size: 47
60336918 GATAATTGTG
60336928 ATGTG-AA-TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
*
60336973 ATGTGAAAGTGTATATATATGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
* *
60337020 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
* * * * * * * *
60337067 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
*
60337114 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
60337140 TCCCGAAGGG
Statistics
Matches: 150, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 5 0.03
46 2 0.01
47 143 0.95
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
Found at i:60339463 original size:40 final size:40
Alignment explanation
Indices: 60339402--60339682 Score: 366
Period size: 40 Copynumber: 7.0 Consensus size: 40
60339392 AGGTCTCGAC
60339402 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
60339441 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
60339481 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * *
60339521 GATGTATCTGGGCTAAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * *
60339561 GATGTATCCGGACCAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * ** * *
60339601 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * ** * * *
60339641 GTTATATCTAGGCTAGGTCCTGAAGAGCAATCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
60339681 GA
1 GA
60339683 CGTGTATTCG
Statistics
Matches: 211, Mismatches: 30, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
39 4 0.02
40 207 0.98
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:60342709 original size:27 final size:28
Alignment explanation
Indices: 60342625--60342722 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
60342615 CATGAGATTG
* * * *
60342625 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
60342654 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
60342682 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
60342709 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
60342723 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:60342733 original size:27 final size:27
Alignment explanation
Indices: 60342653--60342734 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
60342643 TAAATTGTAC
* *
60342653 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
60342681 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
60342708 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
60342735 TTTTGAATCA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:60350547 original size:27 final size:28
Alignment explanation
Indices: 60350463--60350559 Score: 133
Period size: 27 Copynumber: 3.5 Consensus size: 28
60350453 CATGAGATTG
* * * *
60350463 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
60350492 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
60350520 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
60350547 GCACTGAGTGTGC
1 GCACTAAGTGTGC
60350560 AGACTTAATA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 23 0.37
28 22 0.35
29 18 0.29
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:60350571 original size:27 final size:27
Alignment explanation
Indices: 60350491--60350573 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
60350481 TAAATTGTAC
* *
60350491 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
60350519 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
60350546 AGCACTGAGTGTGCAGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
60350573 A
1 A
60350574 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:60350574 original size:29 final size:27
Alignment explanation
Indices: 60350463--60350574 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
60350453 CATGAGATTG
** * *
60350463 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
60350492 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
60350520 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
60350547 GCACTGAGTGTGCAGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
60350575 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:60354024 original size:47 final size:47
Alignment explanation
Indices: 60353966--60354177 Score: 311
Period size: 47 Copynumber: 4.6 Consensus size: 47
60353956 GATAATTGTG
60353966 ATGTG-AA-TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
60354011 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
* *
60354058 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
* * * * * * * *
60354105 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
*
60354152 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
60354178 TCCCGAAGGG
Statistics
Matches: 152, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 5 0.03
46 2 0.01
47 145 0.95
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
Found at i:60361489 original size:40 final size:40
Alignment explanation
Indices: 60361408--60361585 Score: 241
Period size: 40 Copynumber: 4.5 Consensus size: 40
60361398 CAACCAAGTA
** * *
60361408 CCTTCGGGGTTTAG-CCGGATATAGTTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
60361447 CCTTCGGGACGTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
60361487 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
60361527 CCTTTGGGACTTAGCCCAGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
60361567 CCTTCGGGACATAGCCCGG
1 CCTTCGGGACTTAGCCCGG
60361586 TTATCATCCG
Statistics
Matches: 122, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 11 0.09
40 111 0.91
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:60369528 original size:40 final size:40
Alignment explanation
Indices: 60369447--60369622 Score: 228
Period size: 40 Copynumber: 4.4 Consensus size: 40
60369437 CAACCAAGTA
** * *
60369447 CCTTCGGGGTTTAG-CCGGATATAGTTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
60369486 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
60369526 CCTTCAGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
60369566 CCTTTGGGACTTAGCCCGGAAATAGTAACTCCCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
**
60369606 CCTTTAGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
60369623 AGTTATCATC
Statistics
Matches: 122, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 12 0.10
40 110 0.90
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:60378602 original size:38 final size:38
Alignment explanation
Indices: 60378551--60378627 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
60378541 CGTCACAACC
60378551 GAGGGTTTGACACAATTTTGAAGGATTTATGTGTCGAA
1 GAGGGTTTGACACAATTTTGAAGGATTTATGTGTCGAA
60378589 GAGGGTTTGACACAATTTTGAAGGATTTATGTGTCGAA
1 GAGGGTTTGACACAATTTTGAAGGATTTATGTGTCGAA
60378627 G
1 G
60378628 GCACATAATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.29, C:0.08, G:0.30, T:0.34
Consensus pattern (38 bp):
GAGGGTTTGACACAATTTTGAAGGATTTATGTGTCGAA
Found at i:60382063 original size:50 final size:50
Alignment explanation
Indices: 60381988--60382088 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
60381978 TTTATTTATC
60381988 AAGTTACATATTATTCACATAATCATTTTCATAATTGCCATTACATTTCT
1 AAGTTACATATTATTCACATAATCATTTTCATAATTGCCATTACATTTCT
60382038 AAGTTACATATTATTCACATAATCATTTTCATAATTGCCATTACATTTCT
1 AAGTTACATATTATTCACATAATCATTTTCATAATTGCCATTACATTTCT
60382088 A
1 A
60382089 CTCTCGTTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.35, C:0.18, G:0.04, T:0.44
Consensus pattern (50 bp):
AAGTTACATATTATTCACATAATCATTTTCATAATTGCCATTACATTTCT
Found at i:60388256 original size:21 final size:21
Alignment explanation
Indices: 60388232--60388288 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
60388222 TATGGTCCAA
*
60388232 GGGACACTCCCGTGTGACCCT
1 GGGACACACCCGTGTGACCCT
60388253 GGGACACACCCGTGTGACCCT
1 GGGACACACCCGTGTGACCCT
60388274 GGGACA-AGCCCGTGT
1 GGGACACA-CCCGTGT
60388289 TGGAGGCCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 1 0.03
21 33 0.97
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.16
Consensus pattern (21 bp):
GGGACACACCCGTGTGACCCT
Found at i:60390190 original size:5 final size:5
Alignment explanation
Indices: 60390182--60390210 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
60390172 AAAATAAAAA
60390182 TTATT TTATT TTATT TTATT TTATT TTAT
1 TTATT TTATT TTATT TTATT TTATT TTAT
60390211 GGTTGGCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:60391009 original size:20 final size:21
Alignment explanation
Indices: 60390984--60391023 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
60390974 CACTTAAAAC
60390984 AGGGC-ACACGGC-CGTGTGGG
1 AGGGCAACAC-GCTCGTGTGGG
60391004 AGGGCAACACGCTCGTGTGG
1 AGGGCAACACGCTCGTGTGG
60391024 CCCTGTTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.17, C:0.25, G:0.45, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCTCGTGTGGG
Found at i:60393936 original size:49 final size:49
Alignment explanation
Indices: 60393873--60394085 Score: 156
Period size: 49 Copynumber: 4.5 Consensus size: 49
60393863 GTTGATGTCG
* *
60393873 TGTCCCAGATAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCA
1 TGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGACGCCA
** * * ** * *
60393922 TGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGTTGATGGCA
1 TGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAG-GCCGACGCCA
* * * * *
60393971 TATCCCAGACAAGTCTTACACTAAC--ACACA-A-C-AAGCCGACGCCA
1 TGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGACGCCA
* * * *
60394015 TGTCCCGGACAGGTCTTATACTAGCTTGT-ATATCTCGAGGCCGACG-CA
1 TGTCCCAGACAGGTCTTACACTAACTT-TCATATATCGAGGCCGACGCCA
*
60394063 TGTCCTAGAC-GTGTCTTACACTA
1 TGTCCCAGACAG-GTCTTACACTA
60394086 GCTCACATGC
Statistics
Matches: 123, Mismatches: 32, Indels: 19
0.71 0.18 0.11
Matches are distributed among these distances:
44 26 0.21
45 1 0.01
46 3 0.02
47 3 0.02
48 22 0.18
49 68 0.55
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGACGCCA
Found at i:60402510 original size:40 final size:40
Alignment explanation
Indices: 60402392--60402593 Score: 196
Period size: 40 Copynumber: 5.1 Consensus size: 40
60402382 CAGATGATAA
* * *
60402392 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
** * * * *
60402432 CTAGGCTAAG-CCCGAAGGAAATT-GTGCTAATTATTATAT
1 CCGGGCTAAGTCCCGAAGG-CATTCGTGCGAGTTACTATAT
60402471 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
** * * *
60402511 CCGGGCTAAGTTTCGAAGGCATTTGTGCGAGTTCCTATAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * *
60402551 CCGGGCTATGTCCCGAAGGCATTCGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
60402591 CCG
1 CCG
60402594 ATTGAATTCT
Statistics
Matches: 132, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
39 31 0.23
40 101 0.77
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:60402569 original size:80 final size:79
Alignment explanation
Indices: 60402388--60402593 Score: 218
Period size: 80 Copynumber: 2.6 Consensus size: 79
60402378 TATTCAGATG
* * * **
60402388 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCTAGGCTAAGCCCGAAGGAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-TCCGGGCTAAGCCCGAAGGAA
* *
60402452 ATTGTGCTAATTATT
65 ATTGTGCGAATTACT
* ** *
60402467 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGTTTCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAG-CCCGAAGGAA
* * *
60402532 TTTGTGCGAGTTCCT
65 ATTGTGCGAATTACT
* * *
60402547 ATAACCGGGCTATGTCCCGAAGGCATTCGAGTGAG-TAGCTATATCCG
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATATCCG
60402594 ATTGAATTCT
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 48 0.45
80 58 0.55
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCGAAGGAAA
TTGTGCGAATTACT
Found at i:60410699 original size:40 final size:40
Alignment explanation
Indices: 60410592--60410793 Score: 250
Period size: 40 Copynumber: 5.1 Consensus size: 40
60410582 CAGATGATAA
* * *
60410592 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
* * *
60410632 CTGGGCTAAG-CCCGAAGGCAATT-GTGCGAATTATTATAT
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
60410671 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * *
60410711 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
60410751 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
60410791 CCG
1 CCG
60410794 ATTGAATTCC
Statistics
Matches: 141, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 32 0.23
40 109 0.77
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:60413981 original size:40 final size:40
Alignment explanation
Indices: 60413887--60414031 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
60413877 TACTCGAATG
*
60413887 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
60413928 ACATCTGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
60413968 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
60414008 ATATCCGAGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
60414032 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.67
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:60416525 original size:49 final size:48
Alignment explanation
Indices: 60416373--60416544 Score: 159
Period size: 49 Copynumber: 3.5 Consensus size: 48
60416363 AGATGCCGAC
* * *
60416373 GCCATGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATTAAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTATCATCTA-TCAGGTCGAT
* * * * * * *
60416421 GTCATGTCCCAAACAGGTCTTACACTGACTTTCATATATCAAGGCCAAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATC-AGGTCGAT
* * *
60416470 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCAG-GTCGAT
* *
60416519 GGCATGTCCCAGACAAGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
60416545 AACACACAAC
Statistics
Matches: 99, Mismatches: 21, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
47 16 0.16
48 15 0.15
49 68 0.69
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCAGGTCGAT
Found at i:60421749 original size:20 final size:20
Alignment explanation
Indices: 60421720--60421764 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
60421710 AATTCATGTA
* *
60421720 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
60421740 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
60421760 TTCAT
1 TTCAT
60421765 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:60423956 original size:3 final size:3
Alignment explanation
Indices: 60423948--60423980 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
60423938 TATTGCTTAG
60423948 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
60423981 ATGAGAGTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:60427108 original size:13 final size:13
Alignment explanation
Indices: 60427087--60427157 Score: 79
Period size: 13 Copynumber: 5.5 Consensus size: 13
60427077 AAATTTTTCC
60427087 AAAGCACTTCTCA
1 AAAGCACTTCTCA
*
60427100 AAAGTACTTCTCA
1 AAAGCACTTCTCA
* *
60427113 AAAGCACTTTTCC
1 AAAGCACTTCTCA
* * *
60427126 ACAGCACTTTTCC
1 AAAGCACTTCTCA
*
60427139 AAAGCACTTTTCA
1 AAAGCACTTCTCA
60427152 AAAGCA
1 AAAGCA
60427158 ATGAAGAACT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.37, C:0.28, G:0.08, T:0.27
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:60427116 original size:26 final size:26
Alignment explanation
Indices: 60427087--60427157 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
60427077 AAATTTTTCC
* *
60427087 AAAGCACTTCTCAAAAGTACTTCTCA
1 AAAGCACTTTTCAAAAGCACTTCTCA
* * * *
60427113 AAAGCACTTTTCCACAGCACTTTTCC
1 AAAGCACTTTTCAAAAGCACTTCTCA
60427139 AAAGCACTTTTCAAAAGCA
1 AAAGCACTTTTCAAAAGCA
60427158 ATGAAGAACT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.37, C:0.28, G:0.08, T:0.27
Consensus pattern (26 bp):
AAAGCACTTTTCAAAAGCACTTCTCA
Found at i:60427132 original size:39 final size:39
Alignment explanation
Indices: 60427081--60427157 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
60427071 ACACTTAAAT
*
60427081 TTTTCCAAAGCACTTCTCAAAAGTACTTCTCAAAAGCAC
1 TTTTCCAAAGCACTTCTCAAAAGCACTTCTCAAAAGCAC
* * * *
60427120 TTTTCCACAGCACTTTTCCAAAGCACTTTTCAAAAGCA
1 TTTTCCAAAGCACTTCTCAAAAGCACTTCTCAAAAGCA
60427158 ATGAAGAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.30
Consensus pattern (39 bp):
TTTTCCAAAGCACTTCTCAAAAGCACTTCTCAAAAGCAC
Found at i:60427275 original size:50 final size:50
Alignment explanation
Indices: 60427209--60427501 Score: 318
Period size: 50 Copynumber: 5.8 Consensus size: 50
60427199 TTAACTTTGA
* *
60427209 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAG
* * * *
60427259 TCACGTGTGTATTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAG
* * * ** * * ** *
60427309 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGTTAACTT-TG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTAAG
* *
60427359 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAAG
1 -TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAG
* * * * * *
60427410 TCAAGTGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGATTGATAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAG
* * *
60427460 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
60427502 GAGCTTCGGT
Statistics
Matches: 200, Mismatches: 40, Indels: 6
0.81 0.16 0.02
Matches are distributed among these distances:
50 163 0.81
51 37 0.19
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAG
Found at i:60427366 original size:101 final size:99
Alignment explanation
Indices: 60427213--60427501 Score: 291
Period size: 101 Copynumber: 2.9 Consensus size: 99
60427203 CTTTGATCAC
* * * * * *
60427213 GTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA-AG-TCACGTGTGTATTACTA
1 GTGTGTAGTACTAAGTGCAAGCTACTAC-AGTACCAGAT--TAATAGATCACGTGTGTAGTACTA
* * *
60427276 AGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCGCA
63 AGTGCAGGCTACTATGTGTACCAGATGGTTAAGTC-AA
* * *
60427314 -TGTGTAGTACTAAGTGCAGGCTACTATGCA-TACCCG-TTAACTTTGATCACGTGTGTAGTACT
1 GTGTGTAGTACTAAGTGCAAGCTACTA--CAGTACCAGATTAA--TAGATCACGTGTGTAGTACT
** *
60427376 AAGTGCAGGCTACTACATGTATCAGATGGTTAAGTCAA
62 AAGTGCAGGCTACTATGTGTACCAGATGGTTAAGTCAA
* * *
60427414 GTGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGATTGATAGGTCACATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAAGCTACTACA-GTACCAGATTAATAGATCACGTGTGTAGTACTAAG
*
60427479 TGCAGGCTACTATGCGTACCAGA
65 TGCAGGCTACTATGTGTACCAGA
60427502 GAGCTTCGGT
Statistics
Matches: 155, Mismatches: 23, Indels: 21
0.78 0.12 0.11
Matches are distributed among these distances:
97 2 0.01
99 3 0.02
100 70 0.45
101 76 0.49
102 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (99 bp):
GTGTGTAGTACTAAGTGCAAGCTACTACAGTACCAGATTAATAGATCACGTGTGTAGTACTAAGT
GCAGGCTACTATGTGTACCAGATGGTTAAGTCAA
Found at i:60427447 original size:151 final size:152
Alignment explanation
Indices: 60427172--60427498 Score: 541
Period size: 151 Copynumber: 2.2 Consensus size: 152
60427162 AGAACTGGCC
* *
60427172 CTAAGTGCAAGCTACTATGCGT-CCCTGTTAACTTTGATCACGTGTGTAGTACTAAGTGTAGGCT
1 CTAAGTGCAGGCTACTATGCGTACCCTGTTAACTTTGATCACGTGTGTAGTACTAAGTGCAGGCT
* * * * **
60427236 ACTACGTGTATCAGATGGTTAAGTCACGTGTGTATTACTAAGTGCAGGCTACTATGTGTACCAGA
66 ACTACATGTATCAGATGGTTAAGTCAAGTGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGA
* *
60427301 TTGTTAGGTCGCATGTGTAGTA
131 TTGATAGGTCACATGTGTAGTA
*
60427323 CTAAGTGCAGGCTACTATGCATACCC-GTTAACTTTGATCACGTGTGTAGTACTAAGTGCAGGCT
1 CTAAGTGCAGGCTACTATGCGTACCCTGTTAACTTTGATCACGTGTGTAGTACTAAGTGCAGGCT
60427387 ACTACATGTATCAGATGGTTAAGTCAAGTGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGA
66 ACTACATGTATCAGATGGTTAAGTCAAGTGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGA
60427452 TTGATAGGTCACATGTGTAGTA
131 TTGATAGGTCACATGTGTAGTA
60427474 CTAAGTGCAGGCTACTATGCGTACC
1 CTAAGTGCAGGCTACTATGCGTACC
60427499 AGAGAGCTTC
Statistics
Matches: 163, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
151 160 0.98
152 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (152 bp):
CTAAGTGCAGGCTACTATGCGTACCCTGTTAACTTTGATCACGTGTGTAGTACTAAGTGCAGGCT
ACTACATGTATCAGATGGTTAAGTCAAGTGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGA
TTGATAGGTCACATGTGTAGTA
Found at i:60427722 original size:16 final size:16
Alignment explanation
Indices: 60427701--60427732 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
60427691 AGAATGGAGT
60427701 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
60427717 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
60427733 TAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:60439640 original size:21 final size:20
Alignment explanation
Indices: 60439607--60439645 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
60439597 TAGATATAGG
60439607 TTGAGTGAATTTGACATGTTT
1 TTGAGTGAATTTGA-ATGTTT
**
60439628 TTGAGTGTGTTTGAATGT
1 TTGAGTGAATTTGAATGT
60439646 AGTTTAGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.21, C:0.03, G:0.28, T:0.49
Consensus pattern (20 bp):
TTGAGTGAATTTGAATGTTT
Found at i:60444032 original size:20 final size:20
Alignment explanation
Indices: 60444007--60444049 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
60443997 ATATAAGGAT
60444007 AAGGTATCGATACTTTGTGA
1 AAGGTATCGATACTTTGTGA
* * *
60444027 AAGGTATTGATATTTTGTTA
1 AAGGTATCGATACTTTGTGA
60444047 AAG
1 AAG
60444050 ATATTAATGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.40
Consensus pattern (20 bp):
AAGGTATCGATACTTTGTGA
Found at i:60444054 original size:20 final size:20
Alignment explanation
Indices: 60444015--60444054 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
60444005 ATAAGGTATC
*
60444015 GATACTTTGTGAAAGGTATT
1 GATACTTTGTGAAAGATATT
* *
60444035 GATATTTTGTTAAAGATATT
1 GATACTTTGTGAAAGATATT
60444055 AATGCTTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.45
Consensus pattern (20 bp):
GATACTTTGTGAAAGATATT
Found at i:60448893 original size:55 final size:53
Alignment explanation
Indices: 60448768--60448956 Score: 209
Period size: 55 Copynumber: 3.5 Consensus size: 53
60448758 AACTTACCAT
* * * *
60448768 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTTCCTTATAGAACTCATCAA
* * *
60448821 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATAAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTTCCTTATAG-AACTCATCAA
* * * * * *
60448876 TGCCATGTCTTGACATGGTTTTAAATGATTTCCTTTCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTTCCTTATAGAACTCATCAA
*
60448930 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
60448957 ATATCCTCAT
Statistics
Matches: 112, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.02
53 34 0.30
54 32 0.29
55 42 0.38
56 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTTCCTTATAGAACTCATCAA
Found at i:60449058 original size:47 final size:47
Alignment explanation
Indices: 60448943--60449064 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
60448933 CATGCCTTGG
* **
60448943 CATGGTCTTACATGATATCCTCATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
60448990 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
60449037 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
60449065 GTGCCAATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:60449253 original size:44 final size:44
Alignment explanation
Indices: 60449204--60449287 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
60449194 TCCTTAACCG
* *
60449204 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCCA
* *
60449248 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
60449288 GAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCCA
Found at i:60462992 original size:40 final size:40
Alignment explanation
Indices: 60462928--60463099 Score: 249
Period size: 40 Copynumber: 4.3 Consensus size: 40
60462918 CGGATGATAA
* *
60462928 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
60462968 CGAAGGCATTTGTGCGAGTTACTA-ATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATAT-CCGGGCTAAGTCC
*
60463008 CGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
60463048 CGAAGGCATTTATGTGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
60463088 CGAAGGCGTTTG
1 CGAAGGCATTTG
60463100 AGTGGGTAGC
Statistics
Matches: 123, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
39 1 0.01
40 120 0.98
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:60466307 original size:54 final size:55
Alignment explanation
Indices: 60466164--60466317 Score: 195
Period size: 55 Copynumber: 2.8 Consensus size: 55
60466154 ACGTATCATG
* * **
60466164 AACTCACCAACGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGT
1 AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTATAGT
* * * * *
60466219 AACTCATCAATGCAATGTCTTGACATGGTTTTACATGATTTCCTTGCCTTATAG-
1 AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGT
*
60466273 AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
60466318 ATCTTACCAA
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
54 39 0.47
55 42 0.51
56 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (55 bp):
AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGT
Found at i:60466349 original size:47 final size:47
Alignment explanation
Indices: 60466296--60466417 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
60466286 CATGCCTTGG
* *
60466296 CATGGTCTTACATGATATCCTTATCTTACCAAATACCGTGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATACCATGTTCCAAA
* * *
60466343 CATGGTCTTACATGGTATCCTTGTCATACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATACCATGTTCCAAA
60466390 CATGGTCTTACATGGTATCCTTATCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
60466418 GTGCCAATGC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATACCATGTTCCAAA
Found at i:60470628 original size:15 final size:15
Alignment explanation
Indices: 60470610--60470666 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
60470600 CTCTTTGGAC
60470610 ATGATCTCTAATGAA
1 ATGATCTCTAATGAA
* * **
60470625 ATGATGTCTCATTTCA
1 ATGATCTCT-AATGAA
60470641 AT-ATCTCTAATGAA
1 ATGATCTCTAATGAA
*
60470655 ATGATGTCTAAT
1 ATGATCTCTAAT
60470667 TTCAATATTC
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
14 5 0.16
15 21 0.68
16 5 0.16
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (15 bp):
ATGATCTCTAATGAA
Found at i:60470649 original size:30 final size:30
Alignment explanation
Indices: 60470613--60470674 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
60470603 TTTGGACATG
*
60470613 ATCTCTAATGAAATGATGTCTCATTTCAAT
1 ATCTCTAATGAAATGATGTCTAATTTCAAT
60470643 ATCTCTAATGAAATGATGTCTAATTTCAAT
1 ATCTCTAATGAAATGATGTCTAATTTCAAT
60470673 AT
1 AT
60470675 TCTTGGTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (30 bp):
ATCTCTAATGAAATGATGTCTAATTTCAAT
Found at i:60472427 original size:29 final size:29
Alignment explanation
Indices: 60472392--60472465 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
60472382 GTTGTGAGAT
* *
60472392 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
60472421 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
60472450 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
60472466 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:60474315 original size:32 final size:32
Alignment explanation
Indices: 60474278--60474342 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
60474268 TTAGTATTTC
60474278 TTTAGTTAAAGTTAACAAAATGAGAATTTTTA
1 TTTAGTTAAAGTTAACAAAATGAGAATTTTTA
60474310 TTTAGTTAAAGTTAACAAAATGAGAATTTTTA
1 TTTAGTTAAAGTTAACAAAATGAGAATTTTTA
60474342 T
1 T
60474343 GTGTTTCATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (32 bp):
TTTAGTTAAAGTTAACAAAATGAGAATTTTTA
Found at i:60483431 original size:27 final size:26
Alignment explanation
Indices: 60483396--60483507 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
60483386 AACATGGCTG
* *
60483396 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
60483422 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
60483450 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
60483477 CCAGATCAGATAATTGTGGCACAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
60483504 CCAG
1 CCAG
60483508 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.14
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:60483488 original size:54 final size:54
Alignment explanation
Indices: 60483396--60483507 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
60483386 AACATGGCTG
* * *
60483396 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCACAGCCA
* *
60483450 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCACAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCACAGCCA
60483504 CCAG
1 CCAG
60483508 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.14
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCACAGCCA
Found at i:60491190 original size:27 final size:26
Alignment explanation
Indices: 60491155--60491266 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
60491145 ATCATGGCTG
* *
60491155 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
60491181 CCAGATACAGATAATCATGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
60491209 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
60491236 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
60491263 CCAG
1 CCAG
60491267 GACGCTTCGT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:60491215 original size:54 final size:54
Alignment explanation
Indices: 60491155--60491266 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
60491145 ATCATGGCTG
* *
60491155 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCATGGCAGAGCCA
1 CCAGAACAGAAATATGTGACAGAGCCACCAGAT-CAGATAATCATGGCAGAGCCA
* ** *
60491209 CCAGAACAGAAATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAATATGTGACAGAGCCACCAGATCAGATAATCATGGCAGAGCCA
60491263 CCAG
1 CCAG
60491267 GACGCTTCGT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAATATGTGACAGAGCCACCAGATCAGATAATCATGGCAGAGCCA
Found at i:60498813 original size:40 final size:40
Alignment explanation
Indices: 60498609--60498801 Score: 323
Period size: 40 Copynumber: 4.8 Consensus size: 40
60498599 CGGATGATAA
60498609 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* * *
60498649 CCGGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAATT
1 CC-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
60498690 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
*
60498730 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
60498770 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
60498802 AGCTATATCC
Statistics
Matches: 142, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
40 105 0.74
41 37 0.26
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:60501176 original size:21 final size:21
Alignment explanation
Indices: 60501152--60501193 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
60501142 AATTATTAAA
* *
60501152 ATAATTAATTTTAATAATTTT
1 ATAATAAATTTGAATAATTTT
*
60501173 ATAATAAATTTGATTAATTTT
1 ATAATAAATTTGAATAATTTT
60501194 GATCATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
ATAATAAATTTGAATAATTTT
Found at i:60524989 original size:21 final size:21
Alignment explanation
Indices: 60524935--60524978 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
60524925 AACCAGTCTG
*
60524935 ACATTAAAATTTCTAAATCAA
1 ACATTAAAATTTCTAAACCAA
60524956 ACATTAAAATTTCTAAACCAA
1 ACATTAAAATTTCTAAACCAA
60524977 AC
1 AC
60524979 CTTCACATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (21 bp):
ACATTAAAATTTCTAAACCAA
Found at i:60534541 original size:20 final size:21
Alignment explanation
Indices: 60534500--60534555 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
60534490 GCTAATAGAT
*
60534500 GCACCATAGTGCAAATACAGAG
1 GCACCAAAGTGC-AATACAGAG
*
60534522 GTACCAAAGTGCAA-ACAGAG
1 GCACCAAAGTGCAATACAGAG
60534542 GCACCAAAGTGCAA
1 GCACCAAAGTGCAA
60534556 CAAAGGCATC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 19 0.61
21 2 0.06
22 10 0.32
ACGTcount: A:0.43, C:0.23, G:0.23, T:0.11
Consensus pattern (21 bp):
GCACCAAAGTGCAATACAGAG
Found at i:60534562 original size:19 final size:19
Alignment explanation
Indices: 60534524--60534574 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
60534514 ATACAGAGGT
*
60534524 ACCAAAGTGCAAACAGAGGC
1 ACCAAAGTGC-AACAAAGGC
60534544 ACCAAAGTGCAACAAAGGC
1 ACCAAAGTGCAACAAAGGC
* *
60534563 ATCGAAGTGCAA
1 ACCAAAGTGCAA
60534575 ACCCGTACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.45, C:0.24, G:0.24, T:0.08
Consensus pattern (19 bp):
ACCAAAGTGCAACAAAGGC
Found at i:60538520 original size:19 final size:20
Alignment explanation
Indices: 60538478--60538521 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
60538468 CCTCTTGGGT
**
60538478 ATTTATTTTTAATTTGTTAG
1 ATTTATTTTTAATTCATTAG
60538498 -TTTATTTTT-ATTCATTAG
1 ATTTATTTTTAATTCATTAG
60538516 ATTTAT
1 ATTTAT
60538522 ATTTGCTAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.66
Consensus pattern (20 bp):
ATTTATTTTTAATTCATTAG
Found at i:60551243 original size:48 final size:48
Alignment explanation
Indices: 60551175--60551595 Score: 680
Period size: 48 Copynumber: 8.8 Consensus size: 48
60551165 CAAGATAAAT
* * *
60551175 ATATATATGTGTGGTGAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
*
60551223 ATATGTGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
* * * * * *
60551271 ATATGTATATGTGGTAAAGCTGAATGCCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
* *
60551319 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
60551367 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
60551415 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
*
60551463 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
* * * * *
60551511 ATATGGATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
60551559 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
60551596 TGTTGTAACA
Statistics
Matches: 347, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 347 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
Found at i:60553325 original size:32 final size:32
Alignment explanation
Indices: 60553284--60553349 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
60553274 TTTGATAGTG
60553284 TGGTGATTTCTGACAATTGAAAATGTGTTTGT
1 TGGTGATTTCTGACAATTGAAAATGTGTTTGT
60553316 TGGTGATTTCTGACAATTGAAAATGTGTTTGT
1 TGGTGATTTCTGACAATTGAAAATGTGTTTGT
60553348 TG
1 TG
60553350 TATTGTAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.24, C:0.06, G:0.26, T:0.44
Consensus pattern (32 bp):
TGGTGATTTCTGACAATTGAAAATGTGTTTGT
Found at i:60553997 original size:40 final size:40
Alignment explanation
Indices: 60553684--60553985 Score: 478
Period size: 40 Copynumber: 7.5 Consensus size: 40
60553674 AGTTGTATAG
*
60553684 CCGGGCTAAGTCCCGAAGAGCATTCGAGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
60553724 CCGGGTTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
60553764 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAA
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
60553804 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
60553844 CCGGGTTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* * *
60553884 TCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* ** * * *
60553924 CCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
60553964 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
60553986 ATCATGCTGG
Statistics
Matches: 241, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 241 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
Found at i:60557092 original size:48 final size:48
Alignment explanation
Indices: 60557024--60557444 Score: 698
Period size: 48 Copynumber: 8.8 Consensus size: 48
60557014 CAAGATAAAT
* * *
60557024 ATATATATGTGTGGTGAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
*
60557072 ATATGTGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
* * * * *
60557120 ATATGTATATGTGGTAAAGCCGAATGCCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
* *
60557168 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
60557216 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
60557264 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
*
60557312 ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
* * * *
60557360 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
60557408 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
60557445 TGTTGTAACA
Statistics
Matches: 351, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 351 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
Found at i:60561129 original size:17 final size:17
Alignment explanation
Indices: 60561087--60561130 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
60561077 AAACTTGAGT
*
60561087 TCTAATAGATGAAGCTG
1 TCTAATAGCTGAAGCTG
60561104 TCTAATAGCTGAAGCTG
1 TCTAATAGCTGAAGCTG
60561121 TCTAATAGCT
1 TCTAATAGCT
60561131 ATAAAACCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (17 bp):
TCTAATAGCTGAAGCTG
Found at i:60561664 original size:22 final size:22
Alignment explanation
Indices: 60561610--60561664 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
60561600 TTAAATTGAG
*
60561610 AAATGCGAAAAGTTAGTGGTTA
1 AAATGCGAAATGTTAGTGGTTA
60561632 AAATGCGAAATGTTAGTGGTTA
1 AAATGCGAAATGTTAGTGGTTA
*
60561654 AAATGGGAAAT
1 AAATGCGAAAT
60561665 AAAAGAACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.42, C:0.04, G:0.27, T:0.27
Consensus pattern (22 bp):
AAATGCGAAATGTTAGTGGTTA
Found at i:60566400 original size:21 final size:20
Alignment explanation
Indices: 60566372--60566410 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
60566362 ACGTGTATTT
60566372 TGAAGTTTCTTGATAGATTA
1 TGAAGTTTCTTGATAGATTA
*
60566392 TGAATGTTTGTTGATAGAT
1 TGAA-GTTTCTTGATAGAT
60566411 ATACAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.03, G:0.23, T:0.46
Consensus pattern (20 bp):
TGAAGTTTCTTGATAGATTA
Found at i:60570588 original size:48 final size:48
Alignment explanation
Indices: 60570532--60570766 Score: 330
Period size: 48 Copynumber: 4.9 Consensus size: 48
60570522 GTCTTACATG
* * *
60570532 ACATATCATCACCGATGCCATGTCCTAGACATGGTCTTACACTGGCAC
1 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCAC
* *
60570580 ACATATCATCGCCGATGCCATGTCCTAGACATGGTCGTACACAGGCAC
1 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCAC
* *
60570628 ATATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAAGCAC
1 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCAC
* *
60570676 ATATATCATCGCCGATGCCATGTCCCAGACATGGTCATAC-CTAGGCAC
1 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACAC-AGGCAC
* *
60570724 ACATCTCAAAT-GTCGATGCCATGTCCCAGACATGGTCTTACAC
1 ACATATC--ATCGCCGATGCCATGTCCCAGACATGGTCTTACAC
60570767 GGAATCTCAT
Statistics
Matches: 170, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
47 1 0.01
48 138 0.81
49 28 0.16
50 3 0.02
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (48 bp):
ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGCAC
Found at i:60571232 original size:29 final size:29
Alignment explanation
Indices: 60571177--60571234 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
60571167 CAAAAATCAT
* *
60571177 ACTTTTACAAATTTACATTTTTACCCCTA
1 ACTTTCACAAATTTACATATTTACCCCTA
*
60571206 ACTTTCACATATTTACA-ATTTAGCCCCTA
1 ACTTTCACAAATTTACATATTTA-CCCCTA
60571235 GGCTCGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.31, C:0.26, G:0.02, T:0.41
Consensus pattern (29 bp):
ACTTTCACAAATTTACATATTTACCCCTA
Found at i:60579954 original size:27 final size:28
Alignment explanation
Indices: 60579905--60579963 Score: 111
Period size: 27 Copynumber: 2.1 Consensus size: 28
60579895 ACCCAAATTG
60579905 GTACTTAAGGTTTTTTTTTCCTAGATTA
1 GTACTTAAGGTTTTTTTTTCCTAGATTA
60579933 GTACTTAAGG-TTTTTTTTCCTAGATTA
1 GTACTTAAGGTTTTTTTTTCCTAGATTA
60579960 GTAC
1 GTAC
60579964 CCAAACGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 21 0.68
28 10 0.32
ACGTcount: A:0.22, C:0.12, G:0.15, T:0.51
Consensus pattern (28 bp):
GTACTTAAGGTTTTTTTTTCCTAGATTA
Found at i:60579974 original size:27 final size:27
Alignment explanation
Indices: 60579916--60579974 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
60579906 TACTTAAGGT
** *
60579916 TTTTTTTTCCTAGATTAGTACTTAAGG
1 TTTTTTTTCCTAGATTAGTACCAAACG
60579943 TTTTTTTTCCTAGATTAGTACCCAAACG
1 TTTTTTTTCCTAGATTAGTA-CCAAACG
60579971 TTTT
1 TTTT
60579975 CTCCATTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.22, C:0.15, G:0.12, T:0.51
Consensus pattern (27 bp):
TTTTTTTTCCTAGATTAGTACCAAACG
Found at i:60582485 original size:30 final size:29
Alignment explanation
Indices: 60582445--60582503 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
60582435 TTATGGATTG
*
60582445 ATGGGTTTTGTTTATTATGTTAACTTTTTT
1 ATGGGTTTTGTTTATGATGTTAA-TTTTTT
* *
60582475 ATGGTTTTTGTTTGTGATGTTAATTTTTT
1 ATGGGTTTTGTTTATGATGTTAATTTTTT
60582504 GGATTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.15, C:0.02, G:0.19, T:0.64
Consensus pattern (29 bp):
ATGGGTTTTGTTTATGATGTTAATTTTTT
Found at i:60582510 original size:27 final size:29
Alignment explanation
Indices: 60582445--60582514 Score: 74
Period size: 30 Copynumber: 2.5 Consensus size: 29
60582435 TTATGGATTG
* *
60582445 ATGGGTTTTGTTTATTATGTTAACTTTTTT
1 ATGGATTTTGTTTATGATGTTAAC-TTTTT
* *
60582475 ATGGTTTTTGTTTGTGATGTTAA-TTTTT
1 ATGGATTTTGTTTATGATGTTAACTTTTT
60582503 -TGGATTTT-TTTA
1 ATGGATTTTGTTTA
60582515 AAGGATTGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 3 0.09
27 7 0.20
28 5 0.14
30 20 0.57
ACGTcount: A:0.16, C:0.01, G:0.19, T:0.64
Consensus pattern (29 bp):
ATGGATTTTGTTTATGATGTTAACTTTTT
Found at i:60584014 original size:28 final size:28
Alignment explanation
Indices: 60583947--60584006 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
60583937 GAAGTCTGCT
*
60583947 AGGACTATCTAAATTTGAGAAGTCCGTC
1 AGGACTATCTAAATGTGAGAAGTCCGTC
* *
60583975 AGGACTATCTAAATGTGGGAAGTTCGTC
1 AGGACTATCTAAATGTGAGAAGTCCGTC
60584003 AGGA
1 AGGA
60584007 TTGTCTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (28 bp):
AGGACTATCTAAATGTGAGAAGTCCGTC
Found at i:60585676 original size:17 final size:18
Alignment explanation
Indices: 60585654--60585688 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
60585644 GGAATATTGG
*
60585654 GAAAAAGAA-GGAAATAA
1 GAAAAAAAATGGAAATAA
60585671 GAAAAAAAATGGAAATAA
1 GAAAAAAAATGGAAATAA
60585689 TTTTTAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (18 bp):
GAAAAAAAATGGAAATAA
Found at i:60600590 original size:44 final size:44
Alignment explanation
Indices: 60600517--60600603 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
60600507 CTGATATCTC
*
60600517 AAAGTCTATGGTTATACCATGGCAATTAAGGA-AGAATTGACGGA
1 AAAGTCCATGGTTATACCATGGCAATTAAGGAGA-AATTGACGGA
*
60600561 AAAGTCCAT-GTTCATAGCATGG-AATTTAAGGAGAAATTGACGG
1 AAAGTCCATGGTT-ATACCATGGCAA-TTAAGGAGAAATTGACGG
60600604 TTAAGGATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
43 5 0.13
44 32 0.84
45 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.25
Consensus pattern (44 bp):
AAAGTCCATGGTTATACCATGGCAATTAAGGAGAAATTGACGGA
Found at i:60605842 original size:40 final size:39
Alignment explanation
Indices: 60605746--60606031 Score: 364
Period size: 40 Copynumber: 7.3 Consensus size: 39
60605736 ATTTGAATGA
* *
60605746 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGA-T
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
60605784 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGA-TT
*
60605824 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGA-TT
60605864 TATCCGGG-TAAGACCCGAAGGCATTTGTGCTAGTGA-T
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
60605901 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
60605941 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
60605981 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
60606020 ATATCC-GGCTAA
1 -TATCCGGGCTAA
60606032 ATTCCGAAGA
Statistics
Matches: 227, Mismatches: 15, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
37 9 0.04
38 61 0.27
39 39 0.17
40 118 0.52
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:60605966 original size:117 final size:118
Alignment explanation
Indices: 60605745--60606021 Score: 380
Period size: 117 Copynumber: 2.4 Consensus size: 118
60605735 CATTTGAATG
* * *
60605745 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATCCGGGCTAAGTCCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATCCGGGCTAAGACCCGAAGGCATT
* * * * *
60605810 TATGCTAGTGATTTTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGATT
66 TATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
*
60605863 TTATCCGGG-TAAGACCCGAAGGCATTTGTGCTAGTGATTATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATCCGGGCTAAGACCCGAAGGCATT
*
60605927 TGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
66 TATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* * * * *
60605980 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTAT
60606022 ATCCGGCTAA
Statistics
Matches: 141, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
117 99 0.70
118 42 0.30
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (118 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATCCGGGCTAAGACCCGAAGGCATT
TATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
Found at i:60606040 original size:157 final size:155
Alignment explanation
Indices: 60605746--60606031 Score: 412
Period size: 157 Copynumber: 1.8 Consensus size: 155
60605736 ATTTGAATGA
* * *
60605746 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATCCGGGCTAAGTCCCGAAGGCATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATCCGGGCTAAGACCCGAAGGCATTT
* * * * * * *
60605811 ATGCTAGTGATTTTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGTAAG
66 ATGCGAGTGACTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGCTAAG
60605876 ACCCGAAGGCATTTGTGCTAGTGAT
131 ACCCGAAGGCATTTGTGCTAGTGAT
*
60605901 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGAT-TATCCGGGCTAAGACCCGAAGGCAT
* * *
60605966 TTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGGCT
64 TTATGCGAG-TGACTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGCT
60606030 AA
128 AA
60606032 ATTCCGAAGA
Statistics
Matches: 114, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
155 31 0.27
156 4 0.04
157 77 0.68
158 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (155 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATCCGGGCTAAGACCCGAAGGCATTT
ATGCGAGTGACTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGCTAAG
ACCCGAAGGCATTTGTGCTAGTGAT
Found at i:60614290 original size:40 final size:40
Alignment explanation
Indices: 60614235--60614525 Score: 390
Period size: 40 Copynumber: 7.3 Consensus size: 40
60614225 ATTTGAATGA
* *
60614235 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
60614275 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
60614315 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
60614355 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
60614395 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * *
60614435 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * * * *
60614475 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
60614515 TATCC-GGCTAA
1 TATCCGGGCTAA
60614526 ATTCCGAAGA
Statistics
Matches: 234, Mismatches: 14, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
39 7 0.03
40 224 0.96
41 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:60616737 original size:47 final size:47
Alignment explanation
Indices: 60616675--60616796 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
60616665 GCATTGGCAC
60616675 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
60616722 TTAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
60616769 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
60616797 CCAAGGCATG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:60616833 original size:54 final size:54
Alignment explanation
Indices: 60616769--60616971 Score: 212
Period size: 54 Copynumber: 3.8 Consensus size: 54
60616759 TGGCATTTGG
* * * * *
60616769 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTAATAAGTTCTA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
* * * **
60616823 TAAGGTAAGGAAATCATGCAAGACCATATCAAGACATGGCATTGATGAGTTACTA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTA
* * * *
60616878 TAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-A
1 TAAGG-TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
* * * *
60616931 TAAGGCAAGGATACCACGTAAGACCTTGTCAAGACATGGCA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCA
60616972 ATGGTAAGTT
Statistics
Matches: 123, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
52 4 0.03
53 31 0.25
54 44 0.36
55 40 0.33
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
Found at i:60616903 original size:55 final size:54
Alignment explanation
Indices: 60616775--60616971 Score: 218
Period size: 55 Copynumber: 3.6 Consensus size: 54
60616765 TTGGTAAGAT
* * * * *
60616775 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTAATAAGTTCTATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * **
60616829 AAGGAAATCATGCAAGACCATATCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * *
60616884 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
60616937 AAGGATACCACGTAAGACCTTGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
60616972 ATGGTAAGTT
Statistics
Matches: 119, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 4 0.03
53 32 0.27
54 39 0.33
55 40 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:60616983 original size:53 final size:54
Alignment explanation
Indices: 60616775--60616982 Score: 213
Period size: 53 Copynumber: 3.9 Consensus size: 54
60616765 TTGGTAAGAT
* * * *
60616775 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTAATAAGTTCTATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * ** *
60616829 AAGGAAATCATGCAAGACCATATCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * *
60616884 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * *
60616937 AAGGATACCACGTAAGACCTTGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
60616983 AAAAAGGAAA
Statistics
Matches: 128, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
52 4 0.03
53 41 0.32
54 39 0.30
55 40 0.31
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:60617001 original size:108 final size:109
Alignment explanation
Indices: 60616783--60617006 Score: 272
Period size: 108 Copynumber: 2.1 Consensus size: 109
60616773 ATAAGGATAT
* * *
60616783 CATGTAAGACCATGCCAAGGCATGGCATTAATAAGTTCTATAAGGTAAGGAAATCATGCAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTAATAAGTTCTATAAGGCAAGGAAACCACGCAAGACC
* * * * *
60616848 ATATCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
66 ATATCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGGTCC
** * * *
60616892 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTAATAAGTTCTATAAGGCAAGGAAACCACGCAAGACC
* * *
60616956 TTGTCAAGACATGGCAATGGTAAGTT-CAAAAAGGAAAAGGTTCC
66 ATATCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGG-TCC
*
60617000 CAAGTAA
1 CATGTAA
60617007 TCCAATGAGT
Statistics
Matches: 97, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
107 11 0.11
108 51 0.53
109 35 0.36
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTAATAAGTTCTATAAGGCAAGGAAACCACGCAAGACC
ATATCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGGTCC
Found at i:60627674 original size:133 final size:133
Alignment explanation
Indices: 60627436--60627702 Score: 525
Period size: 133 Copynumber: 2.0 Consensus size: 133
60627426 GTATCTACAC
60627436 GCTTGCATCAATGCCGTCTTTCAAATTCAAACATAAAAATAATAATTAAAAGTTAGTTATACTGC
1 GCTTGCATCAATGCCGTCTTTCAAATTCAAACATAAAAATAATAATTAAAAGTTAGTTATACTGC
*
60627501 AGATCGGTCCCATTTGTTGCTTATCGAAGAGCAGAATTTACAGTCTAGTTTCATTGAAGCTAACT
66 AGATCAGTCCCATTTGTTGCTTATCGAAGAGCAGAATTTACAGTCTAGTTTCATTGAAGCTAACT
60627566 TTG
131 TTG
60627569 GCTTGCATCAATGCCGTCTTTCAAATTCAAACATAAAAATAATAATTAAAAGTTAGTTATACTGC
1 GCTTGCATCAATGCCGTCTTTCAAATTCAAACATAAAAATAATAATTAAAAGTTAGTTATACTGC
60627634 AGATCAGTCCCATTTGTTGCTTATCGAAGAGCAGAATTTACAGTCTAGTTTCATTGAAGCTAACT
66 AGATCAGTCCCATTTGTTGCTTATCGAAGAGCAGAATTTACAGTCTAGTTTCATTGAAGCTAACT
60627699 TTG
131 TTG
60627702 G
1 G
60627703 GTTTCCACGG
Statistics
Matches: 133, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 133 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (133 bp):
GCTTGCATCAATGCCGTCTTTCAAATTCAAACATAAAAATAATAATTAAAAGTTAGTTATACTGC
AGATCAGTCCCATTTGTTGCTTATCGAAGAGCAGAATTTACAGTCTAGTTTCATTGAAGCTAACT
TTG
Found at i:60633864 original size:12 final size:12
Alignment explanation
Indices: 60633844--60633874 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
60633834 GCTACACTCA
*
60633844 TTTTCTTTTTTC
1 TTTTTTTTTTTC
60633856 TTTTTTTTTTTC
1 TTTTTTTTTTTC
60633868 TTTTTTT
1 TTTTTTT
60633875 CTGAATTAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:60636282 original size:28 final size:29
Alignment explanation
Indices: 60636229--60636284 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
60636219 CAGGGGTTTC
*
60636229 CACACGGCCTGGCACATGCCCGTGTCCTT
1 CACACGGCCTGGCACACGCCCGTGTCCTT
60636258 CACACGGCCAT-G-ACACGCCCGTGTCCT
1 CACACGGCC-TGGCACACGCCCGTGTCCT
60636285 AGCTCGTGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 14 0.56
29 10 0.40
30 1 0.04
ACGTcount: A:0.16, C:0.43, G:0.23, T:0.18
Consensus pattern (29 bp):
CACACGGCCTGGCACACGCCCGTGTCCTT
Found at i:60641510 original size:47 final size:47
Alignment explanation
Indices: 60641439--60642078 Score: 1136
Period size: 47 Copynumber: 13.6 Consensus size: 47
60641429 CCCTTCGGGA
* * * * * *
60641439 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
60641486 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60641533 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60641580 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60641627 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60641674 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60641721 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60641768 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60641815 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60641862 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60641909 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60641956 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60642005 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60642052 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
60642079 TATTCAAATA
Statistics
Matches: 573, Mismatches: 18, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 528 0.92
49 45 0.08
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60641517 original size:25 final size:25
Alignment explanation
Indices: 60641489--60641567 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
60641479 ACTCGGCCCT
60641489 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
60641514 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
60641536 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
60641561 ATCACAT
1 ATCACAT
60641568 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:60651456 original size:11 final size:11
Alignment explanation
Indices: 60651440--60651471 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
60651430 TTATTTAATG
60651440 TATAATAATAA
1 TATAATAATAA
*
60651451 TATAATAGTAA
1 TATAATAATAA
60651462 TATAATAATA
1 TATAATAATA
60651472 TTTTAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
TATAATAATAA
Found at i:60655227 original size:50 final size:49
Alignment explanation
Indices: 60655099--60655290 Score: 215
Period size: 50 Copynumber: 3.9 Consensus size: 49
60655089 TATGTAGCCA
* * * *
60655099 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGACC
1 AACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
* *
60655148 AATTAT-TCGGTACACATAGTAGCCTGCACTTTGTACTACACACGTGACC
1 AACTATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
* * *
60655197 TAACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCA
1 -AACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CC
* * ** *
60655248 AAGTTATCGGGTATGCATAGTAGCCCGCACTTAGTACTACACA
1 AA-CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
60655291 TGCGACCTGA
Statistics
Matches: 120, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
48 1 0.01
49 41 0.34
50 43 0.36
51 35 0.29
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
AACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
Found at i:60655231 original size:99 final size:101
Alignment explanation
Indices: 60655099--60655290 Score: 255
Period size: 99 Copynumber: 1.9 Consensus size: 101
60655089 TATGTAGCCA
* * * * *
60655099 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGA-CCAA-TTATTC-GGTAC
1 AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGATCAAAGTTA-TCGGGTAC
* *
60655161 ACATAGTAGCCTGCACTTTGTACTACACACGTGACCT
65 ACATAGTAGCCCGCACTTAGTACTACACACGTGACCT
* * **
60655198 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTATG
1 AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGATCAAAGTTATCGGGTACA
60655263 CATAGTAGCCCGCACTTAGTACTACACA
66 CATAGTAGCCCGCACTTAGTACTACACA
60655291 TGCGACCTGA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
99 41 0.52
100 5 0.06
101 33 0.42
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (101 bp):
AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGATCAAAGTTATCGGGTACA
CATAGTAGCCCGCACTTAGTACTACACACGTGACCT
Found at i:60660764 original size:72 final size:72
Alignment explanation
Indices: 60660674--60660816 Score: 286
Period size: 72 Copynumber: 2.0 Consensus size: 72
60660664 GCGATGCTAA
60660674 GAAAAAGGGAAAAGAGAGAGGGGGTAAGCATAAAACTTAGTAAGTTGTATGTAACTAATAAACAA
1 GAAAAAGGGAAAAGAGAGAGGGGGTAAGCATAAAACTTAGTAAGTTGTATGTAACTAATAAACAA
60660739 CATAGAC
66 CATAGAC
60660746 GAAAAAGGGAAAAGAGAGAGGGGGTAAGCATAAAACTTAGTAAGTTGTATGTAACTAATAAACAA
1 GAAAAAGGGAAAAGAGAGAGGGGGTAAGCATAAAACTTAGTAAGTTGTATGTAACTAATAAACAA
60660811 CATAGA
66 CATAGA
60660817 TCATAAAATT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.49, C:0.08, G:0.25, T:0.18
Consensus pattern (72 bp):
GAAAAAGGGAAAAGAGAGAGGGGGTAAGCATAAAACTTAGTAAGTTGTATGTAACTAATAAACAA
CATAGAC
Found at i:60664449 original size:49 final size:49
Alignment explanation
Indices: 60664393--60664637 Score: 267
Period size: 49 Copynumber: 4.9 Consensus size: 49
60664383 TAGACAAGGC
* *
60664393 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
60664442 TATCTGGTACACATAGTAGCCTGCACTTAGTACTATAAACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * * *
60664492 CATATGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * *
60664543 TATCGGGTACGA-ATAGTAGCCTGCACTTTGTACTACACATGCGACCAAT
1 TATCTGGTAC-ACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *** *
60664592 TATCCGGTACACGCCGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
60664638 TCACAATAGG
Statistics
Matches: 161, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 79 0.49
50 45 0.28
51 35 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:60664632 original size:100 final size:99
Alignment explanation
Indices: 60664407--60664637 Score: 277
Period size: 100 Copynumber: 2.3 Consensus size: 99
60664397 TGGTACGCAT
* * *
60664407 AGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACATAGTAGCCTGCACTTAG
1 AGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGGGTACACATAGTAGCCTGCACTTAG
* * * *
60664472 TACTATAAACGTGACCTAACCATATGATACACGT
66 TACTACAAACGCGACCTAACCATACGATACACGC
*
60664506 AGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGA-ATAGTAGCCTGCACT
1 AGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCGGGTAC-ACATAGTAGCCTGCACT
* * * ** * *
60664570 TTGTACTACACATGCGACC-AATTATCCGGTACACGC
63 TAGTACTACAAACGCGACCTAACCATACGATACACGC
*
60664606 CGTAGCCTGCACTTAGTACTACACACGTGACC
1 AGTAGCCTGCACTTAGTACTACACACGTGACC
60664638 TCACAATAGG
Statistics
Matches: 112, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
99 29 0.26
100 43 0.38
101 39 0.35
102 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
AGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGGGTACACATAGTAGCCTGCACTTAG
TACTACAAACGCGACCTAACCATACGATACACGC
Found at i:60667826 original size:32 final size:34
Alignment explanation
Indices: 60667790--60667854 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
60667780 TAACAATGGT
*
60667790 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
60667822 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
60667855 TGCCTCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:60669733 original size:26 final size:26
Alignment explanation
Indices: 60669702--60669809 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
60669692 TGAAATGCCC
*
60669702 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
60669728 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
60669754 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
60669780 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
60669806 ATCA
1 ATCA
60669810 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:60672311 original size:51 final size:49
Alignment explanation
Indices: 60672178--60672318 Score: 187
Period size: 51 Copynumber: 2.8 Consensus size: 49
60672168 AAGGCTATCT
* * *
60672178 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC
1 GGTACGAATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATTC
* *
60672227 GGTAC-ACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTA-TC
1 GGTACGA-ATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATTC
60672277 GAGTACGAATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 G-GTACGAATAGTAGCCTGCACTTAGTACTACACACGTGACC
60672319 TCACAATAGA
Statistics
Matches: 80, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
49 34 0.43
50 7 0.09
51 38 0.47
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (49 bp):
GGTACGAATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATTC
Found at i:60672489 original size:18 final size:18
Alignment explanation
Indices: 60672466--60672501 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
60672456 ATTTCATATG
60672466 ATAAAAAAATAT-AATAAA
1 ATAAAAAAA-ATCAATAAA
60672484 ATAAAAAAAATCAATAAA
1 ATAAAAAAAATCAATAAA
60672502 TTATTTACGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 15 0.88
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (18 bp):
ATAAAAAAAATCAATAAA
Found at i:60677064 original size:19 final size:19
Alignment explanation
Indices: 60677040--60677080 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
60677030 CCTAATGAGT
60677040 ATATTTTCAATATAAATCA
1 ATATTTTCAATATAAATCA
60677059 ATATTTTCAATATAAATCA
1 ATATTTTCAATATAAATCA
60677078 ATA
1 ATA
60677081 AGAACATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATATTTTCAATATAAATCA
Found at i:60684497 original size:27 final size:27
Alignment explanation
Indices: 60684457--60684510 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
60684447 AGTATACATA
*
60684457 TTTGGGACTTCATAACTTATTAGGTTC
1 TTTGGGACTCCATAACTTATTAGGTTC
60684484 TTTGGGACTCCATAACTTATTAGGTTC
1 TTTGGGACTCCATAACTTATTAGGTTC
60684511 ATTCAAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.43
Consensus pattern (27 bp):
TTTGGGACTCCATAACTTATTAGGTTC
Found at i:60694224 original size:18 final size:18
Alignment explanation
Indices: 60694201--60694237 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
60694191 ATGTTTTATT
*
60694201 TAATGTATTATAATAATA
1 TAATGTAATATAATAATA
60694219 TAATGTAATATAATAATA
1 TAATGTAATATAATAATA
60694237 T
1 T
60694238 TTTATATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (18 bp):
TAATGTAATATAATAATA
Found at i:60696079 original size:169 final size:172
Alignment explanation
Indices: 60695790--60696131 Score: 618
Period size: 169 Copynumber: 2.0 Consensus size: 172
60695780 AAATAGTAAT
*
60695790 TGTAAAAAGAAAAAAAGTTAAGACCTTTATAGTTATGGAGGAAAAACTAAAAATGGTAAAAAATA
1 TGTAAAAAGAAAAAAAGTTAAGACCTTTATAGTTATGGAGGAAAAACTAAAAATGGTAAAAAACA
60695855 AGAAACTGAAAATAACTTGGAGAAAGAAAATGAATCGACTAGGGTAAAAATGAGATAGAATATAA
66 AGAAACTGAAAATAACTTGGAGAAAGAAAATGAATCGACTAGGGTAAAAATGAGATAGAATATAA
60695920 CAGCGA-T-GGATAAGACTAGCCTAAAATTATGGCCTGACCC
131 CAGCGAGTGGGATAAGACTAGCCTAAAATTATGGCCTGACCC
60695960 TGTAAAAAG-AAAAAAGTTAAGACCTTTATAGTTATGGAGGAAAAACTAAAAATGGTAAAAAACA
1 TGTAAAAAGAAAAAAAGTTAAGACCTTTATAGTTATGGAGGAAAAACTAAAAATGGTAAAAAACA
60696024 AGAAACTGAAAATAACTTGGAGAAAGAAAATGAATCGACTAGGGTAAAAATGAGATAGAATATAA
66 AGAAACTGAAAATAACTTGGAGAAAGAAAATGAATCGACTAGGGTAAAAATGAGATAGAATATAA
*
60696089 CAGTGATGTGGAGGATAAGACTAGCCTAAAATTATGGCCTGAC
131 CAGCGA-GT-G-GGATAAGACTAGCCTAAAATTATGGCCTGAC
60696132 ATGGTAAGGT
Statistics
Matches: 165, Mismatches: 2, Indels: 6
0.95 0.01 0.03
Matches are distributed among these distances:
169 124 0.75
170 9 0.05
171 1 0.01
174 31 0.19
ACGTcount: A:0.49, C:0.09, G:0.21, T:0.21
Consensus pattern (172 bp):
TGTAAAAAGAAAAAAAGTTAAGACCTTTATAGTTATGGAGGAAAAACTAAAAATGGTAAAAAACA
AGAAACTGAAAATAACTTGGAGAAAGAAAATGAATCGACTAGGGTAAAAATGAGATAGAATATAA
CAGCGAGTGGGATAAGACTAGCCTAAAATTATGGCCTGACCC
Found at i:60706366 original size:16 final size:17
Alignment explanation
Indices: 60706345--60706380 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
60706335 TAGCCTGTGT
60706345 CACACAC-GGCACTAGA
1 CACACACAGGCACTAGA
60706361 CACACACAGGCACTAGA
1 CACACACAGGCACTAGA
60706378 CAC
1 CAC
60706381 GCCCATGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.39, C:0.39, G:0.17, T:0.06
Consensus pattern (17 bp):
CACACACAGGCACTAGA
Found at i:60710744 original size:37 final size:37
Alignment explanation
Indices: 60710694--60710772 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
60710684 TTATTACGAA
* * *
60710694 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
60710731 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
60710768 GTCTT
1 GTCTT
60710773 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:60710954 original size:47 final size:47
Alignment explanation
Indices: 60710891--60711203 Score: 519
Period size: 47 Copynumber: 6.8 Consensus size: 47
60710881 CCCTTCGGGA
* * * * *
60710891 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60710938 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60710985 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60711032 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60711079 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60711125 CTTATCACATATATACACTTT-ACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60711170 CTTATCA-ATATAT-CACTTTCACATTTATCACATC
1 CTTATCACATATATACACTTTCACATTCATCACATC
60711204 CCATACTTAT
Statistics
Matches: 254, Mismatches: 10, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
43 6 0.02
44 24 0.09
45 25 0.10
46 23 0.09
47 176 0.69
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60713248 original size:56 final size:56
Alignment explanation
Indices: 60713181--60713337 Score: 305
Period size: 56 Copynumber: 2.8 Consensus size: 56
60713171 TATTAGTTTA
60713181 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
60713237 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
60713293 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTT
60713338 TGCCCATCAT
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 100 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:60714692 original size:22 final size:24
Alignment explanation
Indices: 60714647--60714692 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
60714637 TAATCTTTAA
60714647 TATATAATTATATCTATTATAATT
1 TATATAATTATATCTATTATAATT
60714671 TATAT-ATTA-ATCT-TTATCAATT
1 TATATAATTATATCTATTAT-AATT
60714693 AGCATAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
23 4 0.19
24 5 0.24
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATAATTATATCTATTATAATT
Found at i:60725983 original size:40 final size:39
Alignment explanation
Indices: 60725901--60726083 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 39
60725891 GAATGATGTA
* * *
60725901 CGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACTATATC
1 CGGGCTAAGTC-CGAAGGCATTTGTGC-GAGTTACTAAATC
* * *
60725941 CGGACTAAGATCCGAAGGAATTTGTGCGAGTTACTAATTC
1 CGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATC
* * *
60725981 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTAAATC
1 CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATC
* *
60726020 CGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA-C
1 CGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AATC
*
60726060 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGT-CCGAAGGCATTTG
60726084 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 33 0.28
40 76 0.63
41 11 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:60726105 original size:79 final size:77
Alignment explanation
Indices: 60725933--60726116 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 77
60725923 GTGCTAAGTG
* * *
60725933 ACTATATCCGGACTAAGATCCGAAGGAATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGAATTTGTGCAAGTTACTAATACCGGGCTAAGCCCGAAGG
**
60725998 CATTGGTGCGAGTC
64 CATTGGAACGAGTC
* * *
60726012 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAACCGGGCTATGTCCCGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGAATTTGTGCAAGTTACTAAT-ACCGGGCTAAG-CCCGAA
*
60726076 GGCATTTGAACGAGT-
62 GGCATTGGAACGAGTC
*
60726091 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
60726117 TACGTGATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 30 0.34
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGAATTTGTGCAAGTTACTAATACCGGGCTAAGCCCGAAGGCA
TTGGAACGAGTC
Found at i:60734524 original size:20 final size:21
Alignment explanation
Indices: 60734474--60734525 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
60734464 CTGCCCCTAG
*
60734474 GAAAATTTTAGAAATTTTGCA
1 GAAAATTTTAGAAATTTAGCA
60734495 GAAAAGTTTT-GAAATTTAGCTA
1 GAAAA-TTTTAGAAATTTAGC-A
60734517 -AAAATTTTA
1 GAAAATTTTA
60734526 TGAGTTCCCG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.15
21 18 0.67
22 5 0.19
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.38
Consensus pattern (21 bp):
GAAAATTTTAGAAATTTAGCA
Found at i:60739900 original size:6 final size:6
Alignment explanation
Indices: 60739877--60739998 Score: 70
Period size: 6 Copynumber: 19.8 Consensus size: 6
60739867 TATCAAAACT
* * * *
60739877 AGAATC AAAATG AGAATC AGAATC AGAATC AG-GTGAC ATAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * * * *
60739926 AGAATC AGAATA AGAATT AG-GTGAC AAAATT AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
*
60739975 AGGTAA-C AGAATC AAAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
60739999 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 21, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
5 4 0.05
6 73 0.85
7 6 0.07
8 3 0.03
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:60739920 original size:37 final size:36
Alignment explanation
Indices: 60739879--60739998 Score: 124
Period size: 37 Copynumber: 3.4 Consensus size: 36
60739869 TCAAAACTAG
*
60739879 AATCAAAATGAGAATCAGAATCAGAATCAGGTGACA
1 AATCAAAATCAGAATCAGAATCAGAATCAGGTGACA
* * *
60739915 TAATCAGAATCAGAATCAGAATAAGAATTAGGTG---
1 -AATCAAAATCAGAATCAGAATCAGAATCAGGTGACA
* * *
60739949 -A-CAAAATTAGAATCAGAATCAGTATCAGGTAACA
1 AATCAAAATCAGAATCAGAATCAGAATCAGGTGACA
60739983 GAATCAAAATCAGAAT
1 -AATCAAAATCAGAAT
60739999 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
31 24 0.36
32 1 0.02
36 1 0.02
37 40 0.61
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.20
Consensus pattern (36 bp):
AATCAAAATCAGAATCAGAATCAGAATCAGGTGACA
Found at i:60739927 original size:31 final size:31
Alignment explanation
Indices: 60739882--60739998 Score: 108
Period size: 31 Copynumber: 3.6 Consensus size: 31
60739872 AAACTAGAAT
*
60739882 CAAAATGAGAATCAGAATCAGAATCAGGTGA
1 CAAAATCAGAATCAGAATCAGAATCAGGTGA
* *
60739913 CATAATCAGAATCAGAATCAGAATAAGAATTAGGTGA
1 C---A--A-AATCAGAATCAGAATCAGAATCAGGTGA
* * *
60739950 CAAAATTAGAATCAGAATCAGTATCAGGTAA
1 CAAAATCAGAATCAGAATCAGAATCAGGTGA
* *
60739981 CAGAATCAAAATCAGAAT
1 CAAAATCAGAATCAGAAT
60739999 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
31 39 0.57
32 1 0.01
34 2 0.03
36 1 0.01
37 26 0.38
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.20
Consensus pattern (31 bp):
CAAAATCAGAATCAGAATCAGAATCAGGTGA
Done.