Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 159 of 318
Found at i:50121270 original size:40 final size:40
Alignment explanation
Indices: 50121189--50121369 Score: 251
Period size: 40 Copynumber: 4.6 Consensus size: 40
50121179 AAACCAAGTA
** * *
50121189 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
50121228 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
50121268 CCTTCCGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
50121308 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
50121348 CCTTCGGG-CTTAGCCCGATTAT
1 CCTTCGGGACTTAGCCCGGTTAT
50121370 CAATCCGAAT
Statistics
Matches: 129, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 25 0.19
40 104 0.81
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:50122354 original size:21 final size:21
Alignment explanation
Indices: 50122329--50122373 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
50122319 ATGAGCATTA
50122329 AAATTTATAATTTGACTACTT
1 AAATTTATAATTTGACTACTT
*
50122350 AAATTTATAATTTGACTATTT
1 AAATTTATAATTTGACTACTT
50122371 AAA
1 AAA
50122374 CCCTTCTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (21 bp):
AAATTTATAATTTGACTACTT
Found at i:50125454 original size:47 final size:45
Alignment explanation
Indices: 50125385--50125605 Score: 146
Period size: 47 Copynumber: 4.7 Consensus size: 45
50125375 AGGGTATAAT
* *
50125385 ATCGATGCCATTTCCCAGACATGGTCTTACACTGGCTCATCCATTAA
1 ATCGATGCCATGTCCCAGACATGGTCTTACACTGACTC-T-CATTAA
**
50125432 ATCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATTC
1 ATCGATGCCATGTCCCAGACATGGTCTTACACTGACTCT--CAT-TAA
* * * * * * * **
50125480 GTGCCGATGCCATGTCTCAAACGTAGTCTTACACTAACACATC-TTGT
1 AT--CGATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCATTAA
* *
50125527 AGCTGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCA-TAA
1 ATC-GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATTAA
*
50125571 TGTAGCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 ---A-TCGATGCCATGTCCCAGACATGGTCTTACACT
50125606 AGCACACAAA
Statistics
Matches: 137, Mismatches: 26, Indels: 23
0.74 0.14 0.12
Matches are distributed among these distances:
44 3 0.02
45 24 0.18
46 15 0.11
47 59 0.43
48 4 0.03
49 1 0.01
50 30 0.22
51 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (45 bp):
ATCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATTAA
Found at i:50147402 original size:27 final size:27
Alignment explanation
Indices: 50147372--50147549 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
50147362 ATATTGAGTC
* * * *
50147372 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
50147399 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50147426 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
50147454 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
50147481 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
50147508 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50147535 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50147550 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:50147511 original size:82 final size:81
Alignment explanation
Indices: 50147393--50147548 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
50147383 TGCTATATAA
* *
50147393 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
50147458 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
50147475 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
50147539 CACTTAGTGC
65 CACTTAGTGC
50147549 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:50155490 original size:27 final size:27
Alignment explanation
Indices: 50155460--50155637 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
50155450 ATATTGAGTC
* * * *
50155460 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
50155487 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50155514 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
50155542 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
50155569 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
50155596 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50155623 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50155638 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:50155599 original size:82 final size:81
Alignment explanation
Indices: 50155481--50155636 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
50155471 TGCTATATAA
* *
50155481 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
50155546 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
50155563 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
50155627 CACTTAGTGC
65 CACTTAGTGC
50155637 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:50164784 original size:22 final size:24
Alignment explanation
Indices: 50164739--50164786 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
50164729 TACTCTTTAA
50164739 TATATAATTATATCTATTATAATT
1 TATATAATTATATCTATTATAATT
50164763 TATAT-ATTA-ATCT-TTATCAATT
1 TATATAATTATATCTATTAT-AATT
50164785 TA
1 TA
50164787 GCATAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 4 0.17
24 5 0.22
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATAATTATATCTATTATAATT
Found at i:50166889 original size:22 final size:22
Alignment explanation
Indices: 50166846--50166889 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
50166836 ATTTTTTGCA
*
50166846 TAATAAAAAGAGAGGAAATCAC
1 TAATAAAAAGAGAGCAAATCAC
* * *
50166868 TAATAAAATGTGAGCAAGTCAC
1 TAATAAAAAGAGAGCAAATCAC
50166890 AAAGTATAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.11, G:0.18, T:0.18
Consensus pattern (22 bp):
TAATAAAAAGAGAGCAAATCAC
Found at i:50168519 original size:14 final size:15
Alignment explanation
Indices: 50168490--50168522 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
50168480 CAGAGATGTG
50168490 TATTAATTCATAATT
1 TATTAATTCATAATT
*
50168505 TATTAATT-TTAATT
1 TATTAATTCATAATT
50168519 TATT
1 TATT
50168523 CCCCATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTAATTCATAATT
Found at i:50178175 original size:46 final size:46
Alignment explanation
Indices: 50178108--50178285 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
50178098 TGTAACCTGC
* *
50178108 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * *
50178154 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* * * * ** *
50178200 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCAGAAATTCACAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
50178247 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
50178286 CTCAACCATC
Statistics
Matches: 106, Mismatches: 21, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
45 2 0.02
46 69 0.65
47 33 0.31
48 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:50178228 original size:93 final size:93
Alignment explanation
Indices: 50178116--50178286 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
50178106 GCCCATAAGT
* *** *
50178116 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGAAATTCACATCCATAAGTGAACTCGGACTCAACTCAA
50178181 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
50178209 GAACTCGGACTCAACTCAACGAGTTCAGAAATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGAAATTCACATCCATAAGTGAACTCGGACTCAACTCAA
50178274 CGAGTTCGGATGC
66 CGAGTTCGGATGC
50178287 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGAAATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:50178738 original size:29 final size:29
Alignment explanation
Indices: 50178706--50178761 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
50178696 ATTTAATACG
50178706 AACTTTTGAAAAATTACACTTTTTCCCTA
1 AACTTTTGAAAAATTACACTTTTTCCCTA
* *
50178735 AACTTTTGCATAATTACACTTTTTCCC
1 AACTTTTGAAAAATTACACTTTTTCCC
50178762 CTAGGCTCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.43
Consensus pattern (29 bp):
AACTTTTGAAAAATTACACTTTTTCCCTA
Found at i:50181018 original size:28 final size:28
Alignment explanation
Indices: 50180953--50181131 Score: 288
Period size: 28 Copynumber: 6.4 Consensus size: 28
50180943 GAGATTGGCG
* * * *
50180953 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
50180982 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
50181010 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
50181038 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
50181066 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
50181094 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
50181121 CTGAGTGTGCG
1 CTAAGTGTGCG
50181132 GACTTAATAT
Statistics
Matches: 143, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 24 0.17
28 104 0.73
29 15 0.10
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:50188698 original size:28 final size:28
Alignment explanation
Indices: 50188633--50188811 Score: 270
Period size: 28 Copynumber: 6.4 Consensus size: 28
50188623 GAGATTGGCG
* * * *
50188633 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
50188662 ATAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
50188690 CTAAGTGTGCGAGTTAGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
50188718 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
50188746 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
50188774 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
50188801 CTGAGTGTGCG
1 CTAAGTGTGCG
50188812 GACTTAATAT
Statistics
Matches: 139, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
27 24 0.17
28 101 0.73
29 14 0.10
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:50194503 original size:39 final size:39
Alignment explanation
Indices: 50194329--50194487 Score: 255
Period size: 39 Copynumber: 4.1 Consensus size: 39
50194319 TGTGAATATA
*
50194329 TATATGCGAGAATTATATCCGGACTTCAGGTCCGTAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* * *
50194368 TACAAGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
50194407 TCTATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
50194446 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
50194485 TAT
1 TAT
50194488 GTGCTGGACA
Statistics
Matches: 110, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 110 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.28
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:50197398 original size:28 final size:28
Alignment explanation
Indices: 50197358--50197413 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
50197348 TGTAGGGATA
*
50197358 GGTGGGTTGATTTATTCCCTACACGGAG
1 GGTGGGTTGATTTATTCCCCACACGGAG
50197386 GGTGGGTTGATTTATTCCCCACACGGAG
1 GGTGGGTTGATTTATTCCCCACACGGAG
50197414 TGTATGGCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.30
Consensus pattern (28 bp):
GGTGGGTTGATTTATTCCCCACACGGAG
Found at i:50203345 original size:50 final size:49
Alignment explanation
Indices: 50203226--50203355 Score: 199
Period size: 50 Copynumber: 2.6 Consensus size: 49
50203216 CTGGTACGCA
* * *
50203226 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
50203275 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AA-CAGTCTAATACACG
*
50203325 TAGTAGCCTGCACTTCGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
50203356 TCACAGTTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
49 31 0.41
50 42 0.56
51 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:50206511 original size:87 final size:87
Alignment explanation
Indices: 50206365--50206542 Score: 311
Period size: 87 Copynumber: 2.0 Consensus size: 87
50206355 GTGTTTGAAG
*
50206365 GAGAGTAGTGTATGGTCGGTTGTTAGAAGGGGAGTTTGAAAGGAGTTTGAAGTGGTCAATTGAGG
1 GAGAGTAGTGTATGGCCGGTTGTTAGAAGGGGAGTTTGAAAGGAGTTTGAAGTGGTCAATTGAGG
50206430 GATTGATGGAGAGATATGGGGA
66 GATTGATGGAGAGATATGGGGA
* * *
50206452 GAGAGTGGTGTGTGGCCGGTTGTTAGTAGGGGAGTTTGAAAGGAGTTTGAAGTGGTCAATTGAGG
1 GAGAGTAGTGTATGGCCGGTTGTTAGAAGGGGAGTTTGAAAGGAGTTTGAAGTGGTCAATTGAGG
*
50206517 GATTGATGGAGAGATGTGGGGA
66 GATTGATGGAGAGATATGGGGA
50206539 GAGA
1 GAGA
50206543 AAAGGGGAAG
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.26, C:0.03, G:0.44, T:0.27
Consensus pattern (87 bp):
GAGAGTAGTGTATGGCCGGTTGTTAGAAGGGGAGTTTGAAAGGAGTTTGAAGTGGTCAATTGAGG
GATTGATGGAGAGATATGGGGA
Found at i:50207785 original size:20 final size:20
Alignment explanation
Indices: 50207760--50207797 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
50207750 CATGGGCTTT
50207760 GGCCATAATGGGCCATGTTG
1 GGCCATAATGGGCCATGTTG
*
50207780 GGCCATAGTGGGCCATGT
1 GGCCATAATGGGCCATGT
50207798 GGGTCCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.21, G:0.37, T:0.24
Consensus pattern (20 bp):
GGCCATAATGGGCCATGTTG
Found at i:50215773 original size:41 final size:41
Alignment explanation
Indices: 50215700--50215938 Score: 433
Period size: 41 Copynumber: 5.8 Consensus size: 41
50215690 TTTGGGAATT
*
50215700 GAGCAATAGCGGCGCTTTTTGTTAAAACGCCGCTGAAGACCA
1 GAGCATTAGCGGCGC-TTTTGTTAAAACGCCGCTGAAGACCA
*
50215742 GAGCATTAGCGGCGCTTTTGATAAAACGCCGCTGAAGACCA
1 GAGCATTAGCGGCGCTTTTGTTAAAACGCCGCTGAAGACCA
50215783 GAGCATTAGCGGCGCTTTTGTTAAAACGCCGCTGAAGACCA
1 GAGCATTAGCGGCGCTTTTGTTAAAACGCCGCTGAAGACCA
50215824 GAGCATTAGCGGCGCTTTTGTTAAAACGCCGCTGAAGACCA
1 GAGCATTAGCGGCGCTTTTGTTAAAACGCCGCTGAAGACCA
*
50215865 GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTGAAGACCA
1 GAGCATTAGCGGCGCTTTTGTTAAAACGCCGCTGAAGACCA
*
50215906 GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCT
1 GAGCATTAGCGGCGCTTTTGTTAAAACGCCGCT
50215939 AAAAGTTATA
Statistics
Matches: 193, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
41 179 0.93
42 14 0.07
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTTTGTTAAAACGCCGCTGAAGACCA
Found at i:50216582 original size:24 final size:24
Alignment explanation
Indices: 50216555--50216603 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
50216545 CATATATTTA
50216555 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
50216579 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
50216603 T
1 T
50216604 GTTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:50217082 original size:7 final size:7
Alignment explanation
Indices: 50217070--50217104 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
50217060 AAAATCTTCA
50217070 AAAAAAT
1 AAAAAAT
50217077 AAAAAATT
1 AAAAAA-T
*
50217085 TAAAAAT
1 AAAAAAT
50217092 AAAAAAT
1 AAAAAAT
50217099 AAAAAA
1 AAAAAA
50217105 CTTAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAAAAT
Found at i:50217104 original size:15 final size:15
Alignment explanation
Indices: 50217069--50217104 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
50217059 AAAAATCTTC
50217069 AAAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
**
50217084 TTAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
50217099 AAAAAA
1 AAAAAA
50217105 CTTAAATATT
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:50217119 original size:7 final size:7
Alignment explanation
Indices: 50217109--50217136 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
50217099 AAAAAACTTA
50217109 AATATTT
1 AATATTT
50217116 AATATTT
1 AATATTT
50217123 AATATTT
1 AATATTT
50217130 AATATTT
1 AATATTT
50217137 TAGTCCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATATTT
Found at i:50217245 original size:10 final size:10
Alignment explanation
Indices: 50217223--50217257 Score: 56
Period size: 9 Copynumber: 3.7 Consensus size: 10
50217213 AAATTAAAAG
50217223 AAAAAATAG-
1 AAAAAATAGA
50217232 AAAAAATAGA
1 AAAAAATAGA
50217242 AAAAAATA-A
1 AAAAAATAGA
50217251 AAAAAAT
1 AAAAAAT
50217258 TAAAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (10 bp):
AAAAAATAGA
Found at i:50222313 original size:40 final size:40
Alignment explanation
Indices: 50222077--50222299 Score: 287
Period size: 40 Copynumber: 5.6 Consensus size: 40
50222067 TGAATGATGT
* * * *
50222077 CCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
50222116 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
50222156 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
50222194 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
50222235 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
50222275 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
50222300 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 44 0.27
40 113 0.68
41 9 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:50222313 original size:80 final size:80
Alignment explanation
Indices: 50222076--50222318 Score: 293
Period size: 79 Copynumber: 3.1 Consensus size: 80
50222066 TTGAATGATG
* * * * *
50222076 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
50222138 TTGTGCGAGTTACTA-A
64 TTGTGCGAGTTACTATA
* *
50222154 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCAT
50222217 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
50222234 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
**
50222299 GAACGAG-TAGCTATA
66 GTGCGAGTTA-CTATA
50222314 TCCGG
1 TCCGG
50222319 TTAAATTCCA
Statistics
Matches: 142, Mismatches: 14, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
78 2 0.01
79 70 0.49
80 68 0.48
81 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:50230443 original size:40 final size:40
Alignment explanation
Indices: 50230206--50230429 Score: 278
Period size: 40 Copynumber: 5.6 Consensus size: 40
50230196 TGAATGATGT
* * * *
50230206 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
50230246 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
50230286 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
50230324 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
50230365 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
50230405 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
50230430 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
39 34 0.21
40 118 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:50230451 original size:119 final size:119
Alignment explanation
Indices: 50230212--50230452 Score: 303
Period size: 119 Copynumber: 2.0 Consensus size: 119
50230202 ATGTCCGGGC
*
50230212 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAG
* ** *
50230277 TTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCTGGGT
66 TTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCTCGGT
* * *
50230331 TAAGTCCCGAAGGCATTTGTGC-GAGTTACCATAACCGGGCTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCATTTGTGCG
* * *
50230394 AGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATC-CGGT
64 AGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAATCTCGGT
50230450 TAA
1 TAA
50230453 ATTCTGAAGG
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
118 3 0.03
119 73 0.69
120 30 0.28
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAG
TTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCTCGGT
Found at i:50232156 original size:42 final size:42
Alignment explanation
Indices: 50232104--50232268 Score: 188
Period size: 43 Copynumber: 3.9 Consensus size: 42
50232094 GTTCATGATT
50232104 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGTC
* * * * * *
50232146 TTTAGTGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTTACGATT
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATG-TC
* * * *
50232189 TTTAGCGGCGTTT-TCGGGAAAAGCGCTGCTAAAGGTCATGGAC
1 TTTAGCGGCGTTTGT-GAGAAAAGCGCCGCTAAAAGTCAT-GTC
* *
50232232 TTTAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAAGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTC
50232269 TGTTCTCCTA
Statistics
Matches: 101, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 36 0.36
43 63 0.62
44 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGTC
Found at i:50232325 original size:28 final size:28
Alignment explanation
Indices: 50232294--50232355 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
50232284 GCCTATTTAG
* * *
50232294 GCCCAATCTCGTTCACATGGCCTATCAA
1 GCCCAATCACATTCACATGGCCCATCAA
*
50232322 GCCCAATCACATTCATATGGCCCATCAA
1 GCCCAATCACATTCACATGGCCCATCAA
50232350 GCCCAA
1 GCCCAA
50232356 CTACTTCCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.37, G:0.13, T:0.21
Consensus pattern (28 bp):
GCCCAATCACATTCACATGGCCCATCAA
Found at i:50235237 original size:27 final size:27
Alignment explanation
Indices: 50235207--50235601 Score: 182
Period size: 27 Copynumber: 14.7 Consensus size: 27
50235197 TTTACCCTAT
*
50235207 AGGGGTATGTCAGTAATTTCACAATCG
1 AGGGGTATTTCAGTAATTTCACAATCG
*
50235234 A-GGGTATTTCTA-TAATTTTACAAATC-
1 AGGGGTATTTC-AGTAATTTCAC-AATCG
** * *
50235260 AGGGGTATTTTGGTAATTTTAAAAATCG
1 AGGGGTATTTCAGTAA-TTTCACAATCG
*
50235288 A-GGGTGTTTCAGTAATTTCACAAATCG
1 AGGGGTATTTCAGTAATTTCAC-AATCG
* * * * *
50235315 -GTGGCATTT-TGATTATTTTACAAATCG
1 AGGGGTATTTCAG-TAATTTCAC-AATCG
* *
50235342 A-GGGTATTTCAGTAACTTCACAATTG
1 AGGGGTATTTCAGTAATTTCACAATCG
* * *
50235368 A-GTGTATTTC-GATAGTTTTACAAATC-
1 AGGGGTATTTCAG-TAATTTCAC-AATCG
* * *
50235394 AAGGGTGTTTC-GATAATTTTACAAATCG
1 AGGGGTATTTCAG-TAATTTCAC-AATCG
* * *
50235422 A-GGGTGTTTCGGTAATTTTACTAATCG
1 AGGGGTATTTCAGTAATTTCAC-AATCG
* *
50235449 A-GGGTGTTTC-GATAATTTCACAAATTG
1 AGGGGTATTTCAG-TAATTTCAC-AATCG
* * *
50235476 -GGGGTATTT-TGATGATTTTACAAATCG
1 AGGGGTATTTCAG-TAATTTCAC-AATCG
*
50235503 A-GGGTATTTTAGTAATTTCACAATC-
1 AGGGGTATTTCAGTAATTTCACAATCG
* * *
50235528 AAGGGTATTTCGGTAATTTTACAAATCG
1 AGGGGTATTTCAGTAATTTCAC-AATCG
*
50235556 -GGGGTATTTCAGTAATTTTACAAATC-
1 AGGGGTATTTCAGTAATTTCAC-AATCG
* *
50235582 AAGGGTATTTTAGTAATTTC
1 AGGGGTATTTCAGTAATTTC
50235602 TCTTTATTAT
Statistics
Matches: 292, Mismatches: 51, Indels: 50
0.74 0.13 0.13
Matches are distributed among these distances:
25 2 0.01
26 64 0.22
27 217 0.74
28 9 0.03
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGGTATTTCAGTAATTTCACAATCG
Found at i:50235311 original size:54 final size:54
Alignment explanation
Indices: 50235219--50235600 Score: 375
Period size: 54 Copynumber: 7.1 Consensus size: 54
50235209 GGGTATGTCA
* *
50235219 GTAATTTCAC-AATCGAGGGTATTTCTA-TAATTTTACAAATCAGGGGTATTTTG
1 GTAATTTTACAAATCGAGGGTATTTC-AGTAATTTCACAAATCAGGGGTATTTTG
* * *
50235272 GTAATTTTAAAAATCGAGGGTGTTTCAGTAATTTCACAAATC-GGTGGCATTTTG
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCAGG-GGTATTTTG
* * * * * * *
50235326 ATTATTTTACAAATCGAGGGTATTTCAGTAACTTCACAATTGA-GTGTATTTCG
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTG
* * * * * * *
50235379 ATAGTTTTACAAATCAAGGGTGTTTC-GATAATTTTACAAATC-GAGGGTGTTTCG
1 GTAATTTTACAAATCGAGGGTATTTCAG-TAATTTCACAAATCAG-GGGTATTTTG
* * **
50235433 GTAATTTTACTAATCGAGGGTGTTTC-GATAATTTCACAAATTGGGGGTATTTTG
1 GTAATTTTACAAATCGAGGGTATTTCAG-TAATTTCACAAATCAGGGGTATTTTG
* * * * *
50235487 ATGATTTTACAAATCGAGGGTATTTTAGTAATTTCAC-AATCAAGGGTATTTCG
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTG
* * * *
50235540 GTAATTTTACAAATCGGGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTA
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTG
50235594 GTAATTT
1 GTAATTT
50235601 CTCTTTATTA
Statistics
Matches: 270, Mismatches: 49, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
52 1 0.00
53 93 0.34
54 174 0.64
55 2 0.01
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (54 bp):
GTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTG
Found at i:50235422 original size:80 final size:80
Alignment explanation
Indices: 50235220--50235601 Score: 394
Period size: 80 Copynumber: 4.8 Consensus size: 80
50235210 GGTATGTCAG
* * * ** * *
50235220 TAATTTCAC-AATCGAGGGTATTTCTATAATTTTACAAATC-AGGGGTATTTTGGTAATTTTAAA
1 TAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAATCGA-GGGTATTTCAGTAA-TTTCAC
*
50235283 AATCGAGGGTGTTTC-A
64 AATCGAGGGTATTTCGA
* * * * * *
50235299 GTAATTTCACAAATCGGTGGCATTTTGATTATTTTACAAATCGAGGGTATTTCAGTAACTTCACA
1 -TAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTCACA
* *
50235364 ATTGAGTGTATTTCGA
65 ATCGAGGGTATTTCGA
* ** * * * *
50235380 TAGTTTTACAAATCAAGGGTGTTTCGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACTA
1 TAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTCAC-A
*
50235445 ATCGAGGGTGTTTCGA
65 ATCGAGGGTATTTCGA
* * * * *
50235461 TAATTTCACAAATTGGGGGTATTTTGATGATTTTACAAATCGAGGGTATTTTAGTAATTTCACAA
1 TAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAA
* *
50235526 TCAAGGGTATTTCGG
66 TCGAGGGTATTTCGA
* *
50235541 TAATTTTACAAATCGGGGGTATTTC-AGTAATTTTACAAATCAAGGGTATTTTAGTAATTTC
1 TAATTTTACAAATCGGGGGTATTTCGA-TAATTTTACAAATCGAGGGTATTTCAGTAATTTC
50235602 TCTTTATTAT
Statistics
Matches: 247, Mismatches: 50, Indels: 10
0.80 0.16 0.03
Matches are distributed among these distances:
79 1 0.00
80 142 0.57
81 103 0.42
82 1 0.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (80 bp):
TAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAA
TCGAGGGTATTTCGA
Found at i:50235437 original size:134 final size:134
Alignment explanation
Indices: 50235209--50235591 Score: 441
Period size: 134 Copynumber: 2.9 Consensus size: 134
50235199 TACCCTATAG
* * *
50235209 GGGTATGTCAGTAATTTCACAATCGAGGGTATTTCTATAATTTTACAAATCAGGGGTATTTTGGT
1 GGGTATTTCAGTAATTTCACAATCGAGGGTATTTCTATAATTTTACAAATCAAGGGTATTTCGGT
* * * * *
50235274 AATTTTAAAAATCGAGGGTGTTTCAGTAATTTCACAAATCG-GTGGCATTTTGATTATTTTACAA
66 AATTTTACAAATCGAGGGTGTTTCAGTAATTTTACAAATCGAG-GGCATTTCGATAATTTCACAA
50235338 ATCGA
130 ATCGA
* * * * * * *
50235343 GGGTATTTCAGTAACTTCACAATTGAGTGTATTTCGATAGTTTTACAAATCAAGGGTGTTTCGAT
1 GGGTATTTCAGTAATTTCACAATCGAGGGTATTTCTATAATTTTACAAATCAAGGGTATTTCGGT
* * **
50235408 AATTTTACAAATCGAGGGTGTTTCGGTAATTTTACTAATCGAGGGTGTTTCGATAATTTCACAAA
66 AATTTTACAAATCGAGGGTGTTTCAGTAATTTTACAAATCGAGGGCATTTCGATAATTTCACAAA
* *
50235473 TTGG
131 TCGA
* * * *
50235477 GGGTATTT-TGATGATTTTACAAATCGAGGGTATTT-TAGTAATTTCAC-AATCAAGGGTATTTC
1 GGGTATTTCAG-TAATTTCAC-AATCGAGGGTATTTCTA-TAATTTTACAAATCAAGGGTATTTC
* * * *
50235539 GGTAATTTTACAAATCGGGGGTATTTCAGTAATTTTACAAATCAAGGGTATTT
63 GGTAATTTTACAAATCGAGGGTGTTTCAGTAATTTTACAAATCGAGGGCATTT
50235592 TAGTAATTTC
Statistics
Matches: 207, Mismatches: 38, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
133 1 0.00
134 186 0.90
135 20 0.10
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (134 bp):
GGGTATTTCAGTAATTTCACAATCGAGGGTATTTCTATAATTTTACAAATCAAGGGTATTTCGGT
AATTTTACAAATCGAGGGTGTTTCAGTAATTTTACAAATCGAGGGCATTTCGATAATTTCACAAA
TCGA
Found at i:50235510 original size:161 final size:159
Alignment explanation
Indices: 50235220--50235600 Score: 496
Period size: 161 Copynumber: 2.4 Consensus size: 159
50235210 GGTATGTCAG
* *
50235220 TAATTTCAC-AATCGAGGGTATTTCTATAATTTTACAAATCAGGGGTATTTTGGTAATTTTAAAA
1 TAATTTTACAAATCGAGGGTATTTC-ATAATTTTACAAATCA-GGGTATTTCGGTAATTTTAAAA
* *
50235284 ATCGAGGGTGTTTCAGTAATTTCACAAATCGGTGGCATTTTGATTATTTTACAAATCGAGGGTAT
64 ATCGAGGGTGTTTCAGTAATTTCACAAATCGGGGGCATTTTGATGATTTTACAAATCGAGGGTAT
** *
50235349 TTCAGTAACTTCACAATTGAGTGTATTTCGA
129 TTCAGTAACTTCACAATCAAGGGTATTTCGA
* * * * **
50235380 TAGTTTTACAAATCAAGGGTGTTTCGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACTA
1 TAATTTTACAAATCGAGGGTATTTC-ATAATTTTACAAATC-AGGGTATTTCGGTAATTTTAAAA
* *
50235445 ATCGAGGGTGTTTC-GATAATTTCACAAATTGGGGGTATTTTGATGATTTTACAAATCGAGGGTA
64 ATCGAGGGTGTTTCAG-TAATTTCACAAATCGGGGGCATTTTGATGATTTTACAAATCGAGGGTA
* * *
50235509 TTTTAGTAATTTCACAATCAAGGGTATTTCGG
128 TTTCAGTAACTTCACAATCAAGGGTATTTCGA
* **
50235541 TAATTTTACAAATCGGGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTAGTAATTT
1 TAATTTTACAAATCGAGGGTATTTCA-TAATTTTACAAATC-AGGGTATTTCGGTAATTT
50235601 CTCTTTATTA
Statistics
Matches: 190, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
160 9 0.05
161 180 0.95
162 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (159 bp):
TAATTTTACAAATCGAGGGTATTTCATAATTTTACAAATCAGGGTATTTCGGTAATTTTAAAAAT
CGAGGGTGTTTCAGTAATTTCACAAATCGGGGGCATTTTGATGATTTTACAAATCGAGGGTATTT
CAGTAACTTCACAATCAAGGGTATTTCGA
Found at i:50240128 original size:141 final size:141
Alignment explanation
Indices: 50239855--50240135 Score: 431
Period size: 141 Copynumber: 2.0 Consensus size: 141
50239845 GATTTTATGA
50239855 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* * * * * *
50239920 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACTTGCATATGTGTGATAAGGCTGA
66 TATATATGATAAGGCAGAATGGCCAATGTGATGAACGTGAACTTACATATGTGTGAGAAGGCCGA
50239985 ATGGCCAATGT
131 ATGGCCAATGT
50239996 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* * * *
50240061 TATATATGATAAGGTAGAATGGCCAATGTGATGAACGTGGAAGTGTATATATGTG-GCGAA-GCC
66 TATATATGATAAGGCAGAATGGCCAATGTGATGAACGT-GAACT-TACATATGTGTGAGAAGGCC
*
50240124 GAATGGCTAATG
129 GAATGGCCAATG
50240136 CGAAACGTGT
Statistics
Matches: 127, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
141 112 0.88
142 7 0.06
143 8 0.06
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (141 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
TATATATGATAAGGCAGAATGGCCAATGTGATGAACGTGAACTTACATATGTGTGAGAAGGCCGA
ATGGCCAATGT
Found at i:50240130 original size:47 final size:47
Alignment explanation
Indices: 50239855--50240095 Score: 428
Period size: 47 Copynumber: 5.1 Consensus size: 47
50239845 GATTTTATGA
50239855 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
50239902 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * *
50239949 GATGAATGTGAACTTGCATATGTGTGATAAGGCTGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
50239996 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* **
50240043 GATGAATGTGAACATGCATATATATGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
50240090 GATGAA
1 GATGAA
50240096 CGTGGAAGTG
Statistics
Matches: 185, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 185 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:50240228 original size:50 final size:46
Alignment explanation
Indices: 50240119--50240295 Score: 264
Period size: 46 Copynumber: 3.8 Consensus size: 46
50240109 ATATGTGGCG
50240119 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
* *
50240165 AAGCAGAATGGCTAATGCGAAACGTGTATGCGATGGACGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTAT--GA--GATGGATATGAGGTA
50240215 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
* * **
50240261 AAGCCGAATGGCTAATGTGAGATATGTATGAGATG
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
50240296 TGTATATATA
Statistics
Matches: 119, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
46 73 0.61
48 4 0.03
50 42 0.35
ACGTcount: A:0.34, C:0.11, G:0.33, T:0.22
Consensus pattern (46 bp):
AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
Found at i:50240289 original size:96 final size:96
Alignment explanation
Indices: 50240119--50240295 Score: 300
Period size: 96 Copynumber: 1.8 Consensus size: 96
50240109 ATATGTGGCG
50240119 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCAGAATGGCTAATGCG
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCAGAATGGCTAATGCG
* *
50240184 AAACGTGTATGCGATGGACGGATATGAGGTA
66 AAACATGTATGAGATGGACGGATATGAGGTA
* *
50240215 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCGAATGGCTAATGTG
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCAGAATGGCTAATGCG
* *
50240280 AGATATGTATGAGATG
66 AAACATGTATGAGATG
50240296 TGTATATATA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 75 1.00
ACGTcount: A:0.34, C:0.11, G:0.33, T:0.22
Consensus pattern (96 bp):
AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCAGAATGGCTAATGCG
AAACATGTATGAGATGGACGGATATGAGGTA
Found at i:50248075 original size:41 final size:41
Alignment explanation
Indices: 50248030--50248288 Score: 310
Period size: 41 Copynumber: 6.4 Consensus size: 41
50248020 GTTTTATCAA
* *
50248030 AAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGTTTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCG-CTTTTGGT
* * *
50248071 AAAACGCCGCTAAAAA-TAGAGCAATAGCGGCGTTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* * *
50248111 AAAACGCCGCTAAAAATCAGAGCATTAGCGGCGCTTTAGAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* * * *
50248152 AAAACGCCGCT-AAAACTAGAGCATTAGCGACGCTTTCGAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
** ***
50248192 AAAACGCCTTTAAAAACCAGAGCATTAGCGGCGCTTTCCCT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
*
50248233 AAAACGCCGCTAAAAACCAAAGCATTAGCGGCGCTTTCT-GT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTT-TGGT
50248274 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
50248289 GTCATATAAC
Statistics
Matches: 194, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
40 58 0.30
41 136 0.70
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
Found at i:50248165 original size:81 final size:80
Alignment explanation
Indices: 50248001--50248288 Score: 308
Period size: 81 Copynumber: 3.5 Consensus size: 80
50247991 CCACTACAGG
* * *** * *
50248001 AAAATAGGGCTTTAGCGGCGTTTTATCAAAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTT
1 AAAATAGAGCATTAGCGGCGTTTT-TGGTAAAACGCCGCTAAAAACAGAGCATTAGCGGCG-CTT
* *
50248066 TTGGTAAAACGCCGCTA
64 TAGATAAAACGCCGCTA
*
50248083 AAAATAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAATCAGAGCATTAGCGGCGCTTT
1 AAAATAGAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTT
50248148 AGATAAAACGCCGCTA
65 AGATAAAACGCCGCTA
* * * * * **
50248164 AAACTAGAGCATTAGCGACGCTTTCGATAAAACGCCTTTAAAAACCAGAGCATTAGCGGCGCTTT
1 AAAATAGAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTT
***
50248229 CCCTAAAACGCCGCTA
65 AGATAAAACGCCGCTA
* * *
50248245 AAAACCAAAGCATTAGCGGCGCTTTCT-GTAAAACGCCGCTAAAA
1 AAAA-TAGAGCATTAGCGGCG-TTTTTGGTAAAACGCCGCTAAAA
50248289 GTCATATAAC
Statistics
Matches: 171, Mismatches: 32, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
81 106 0.62
82 63 0.37
83 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (80 bp):
AAAATAGAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTA
GATAAAACGCCGCTA
Found at i:50248221 original size:122 final size:121
Alignment explanation
Indices: 50248012--50248288 Score: 324
Period size: 122 Copynumber: 2.3 Consensus size: 121
50248002 AAATAGGGCT
* * * * * * *
50248012 TTAGCGGCGTTTTATCAAAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTTGGTAAAACG
1 TTAGCGGCGCTTTA-GATAAAACGCCGCT-AAAACAGAGCAATAGCGACGTCTTTCGATAAAACG
* * *** * *
50248077 CCGCTAAAAATAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAATCAGAGCA
64 CCGCTAAAAACAGAGCAATAGCGGCGCTTTCCCTAAAACGCCGCTAAAAACCAAAGCA
*
50248135 TTAGCGGCGCTTTAGATAAAACGCCGCTAAAACTAGAGCATTAGCGACG-CTTTCGATAAAACGC
1 TTAGCGGCGCTTTAGATAAAACGCCGCTAAAAC-AGAGCAATAGCGACGTCTTTCGATAAAACGC
** *
50248199 CTTTAAAAACCAGAGCATTAGCGGCGCTTTCCCTAAAACGCCGCTAAAAACCAAAGCA
65 CGCTAAAAA-CAGAGCAATAGCGGCGCTTTCCCTAAAACGCCGCTAAAAACCAAAGCA
*
50248257 TTAGCGGCGCTTTCTG-TAAAACGCCGCTAAAA
1 TTAGCGGCGCTTT-AGATAAAACGCCGCTAAAA
50248289 GTCATATAAC
Statistics
Matches: 132, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
121 24 0.18
122 94 0.71
123 14 0.11
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (121 bp):
TTAGCGGCGCTTTAGATAAAACGCCGCTAAAACAGAGCAATAGCGACGTCTTTCGATAAAACGCC
GCTAAAAACAGAGCAATAGCGGCGCTTTCCCTAAAACGCCGCTAAAAACCAAAGCA
Found at i:50248924 original size:22 final size:22
Alignment explanation
Indices: 50248870--50248921 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
50248860 TATGGTTAAA
*
50248870 GGTTTAAGGTTTATGAGTTACT
1 GGTTTAAGGTTTATGAATTACT
**
50248892 ATTTTAAGGTTTATGAATTA-T
1 GGTTTAAGGTTTATGAATTACT
50248913 GGTTTAAGG
1 GGTTTAAGG
50248922 GTTGAGGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.46
Consensus pattern (22 bp):
GGTTTAAGGTTTATGAATTACT
Found at i:50248958 original size:7 final size:7
Alignment explanation
Indices: 50248943--50248980 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
50248933 AAGTTTAGGA
*
50248943 GTTAGGG
1 GTTATGG
50248950 GTTATGG
1 GTTATGG
50248957 GTTATGG
1 GTTATGG
50248964 GTTATGG
1 GTTATGG
50248971 GTTATGG
1 GTTATGG
50248978 GTT
1 GTT
50248981 TAGGGTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.13, C:0.00, G:0.45, T:0.42
Consensus pattern (7 bp):
GTTATGG
Found at i:50248967 original size:21 final size:21
Alignment explanation
Indices: 50248935--50248988 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
50248925 GAGGTTTAAA
50248935 GTTTAGGAGTTAGGGGTTATGG
1 GTTTAGG-GTTAGGGGTTATGG
*
50248957 G-TTATGGGTTATGGGTTATGG
1 GTTTA-GGGTTAGGGGTTATGG
50248978 GTTTAGGGTTA
1 GTTTAGGGTTA
50248989 ATATTAACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.41
Consensus pattern (21 bp):
GTTTAGGGTTAGGGGTTATGG
Found at i:50248986 original size:14 final size:15
Alignment explanation
Indices: 50248951--50248988 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
50248941 GAGTTAGGGG
50248951 TTATGGGTTATGGG-
1 TTATGGGTTATGGGT
50248965 TTATGGGTTATGGGT
1 TTATGGGTTATGGGT
50248980 TTA-GGGTTA
1 TTATGGGTTA
50248989 ATATTAACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 20 0.87
15 3 0.13
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (15 bp):
TTATGGGTTATGGGT
Found at i:50249015 original size:16 final size:16
Alignment explanation
Indices: 50248994--50249035 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
50248984 GGTTAATATT
*
50248994 AACCCCTAAAACTTTA
1 AACCCCTAAAACCTTA
50249010 AACCCCT-AAACCTTA
1 AACCCCTAAAACCTTA
50249025 AACCCCTAAAA
1 AACCCCTAAAA
50249036 AATCATAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.19
Consensus pattern (16 bp):
AACCCCTAAAACCTTA
Found at i:50249084 original size:48 final size:46
Alignment explanation
Indices: 50249010--50249137 Score: 150
Period size: 48 Copynumber: 2.7 Consensus size: 46
50249000 TAAAACTTTA
* * *
50249010 AACCCCTAAACCTTAAACCCCTAAAAAATCATAGACACTAGTCTATAT
1 AACCCCTAAACCTTAAACCCCAAAAAAATCATAAACACTAATC--TAT
* * *
50249058 AACCCCTAAACCCCTAAA-CCCAAAAAAACCCTAAACACTAATCTAT
1 AACCCCTAAA-CCTTAAACCCCAAAAAAATCATAAACACTAATCTAT
*
50249104 AACCCCTAAACCTTAAATCCCAAAAAACATCATA
1 AACCCCTAAACCTTAAACCCCAAAAAA-ATCATA
50249138 TGGATGTTGA
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
45 6 0.09
46 22 0.32
47 4 0.06
48 30 0.44
49 6 0.09
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.19
Consensus pattern (46 bp):
AACCCCTAAACCTTAAACCCCAAAAAAATCATAAACACTAATCTAT
Found at i:50249726 original size:19 final size:20
Alignment explanation
Indices: 50249691--50249734 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
50249681 TAGATTTTAA
50249691 AAAAACATTGATAAATAAAT
1 AAAAACATTGATAAATAAAT
50249711 AAAAACATTGAT-AATAAAT
1 AAAAACATTGATAAATAAAT
50249730 AAAAA
1 AAAAA
50249735 TAAAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAAACATTGATAAATAAAT
Found at i:50249737 original size:6 final size:6
Alignment explanation
Indices: 50249721--50249754 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
50249711 AAAAACATTG
50249721 ATAATAA ATAAAA ATAAAA TATAAAA ATAAAA AT
1 ATAA-AA ATAAAA ATAAAA -ATAAAA ATAAAA AT
50249755 GTATAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.62
7 10 0.38
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (6 bp):
ATAAAA
Found at i:50249744 original size:13 final size:13
Alignment explanation
Indices: 50249728--50249752 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50249718 TTGATAATAA
50249728 ATAAAAATAAAAT
1 ATAAAAATAAAAT
50249741 ATAAAAATAAAA
1 ATAAAAATAAAA
50249753 ATGTATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
ATAAAAATAAAAT
Found at i:50249764 original size:15 final size:14
Alignment explanation
Indices: 50249728--50249769 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
50249718 TTGATAATAA
50249728 ATAAAAAT-AAAAT
1 ATAAAAATAAAAAT
50249741 ATAAAAATAAAAAT
1 ATAAAAATAAAAAT
* *
50249755 GTATAAAATAGAAAT
1 ATA-AAAATAAAAAT
50249770 TAGTGCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 8 0.32
14 7 0.28
15 10 0.40
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (14 bp):
ATAAAAATAAAAAT
Found at i:50249988 original size:6 final size:6
Alignment explanation
Indices: 50249976--50250024 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
50249966 ACCCATACGA
* *
50249976 TCCCTT CCCCTT CCCCTT TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT
1 TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT
50250024 T
1 T
50250025 GGTTTTGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (6 bp):
TCCCTT
Found at i:50252450 original size:28 final size:28
Alignment explanation
Indices: 50252387--50252540 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
50252377 ATATTAAGTC
* *
50252387 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
50252414 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
50252442 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
50252470 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
50252498 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
50252526 CGCATACTTAGTGCT
1 CGCACACTTAGTGCT
50252541 GTACAATTTA
Statistics
Matches: 123, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 22 0.18
28 101 0.82
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:50255868 original size:7 final size:6
Alignment explanation
Indices: 50255846--50255879 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
50255836 TATCTACAAT
*
50255846 ATTTAA ATTTAA ATTTAAA ATTTAT ATTTAA ATT
1 ATTTAA ATTTAA ATTT-AA ATTTAA ATTTAA ATT
50255880 AATATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
ATTTAA
Found at i:50255884 original size:12 final size:12
Alignment explanation
Indices: 50255843--50255884 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
50255833 GTTTATCTAC
50255843 AATATTTAAATTT
1 AATATTTAAA-TT
50255856 AA-ATTTAAAATT
1 AATATTT-AAATT
*
50255868 TATATTTAAATT
1 AATATTTAAATT
50255880 AATAT
1 AATAT
50255885 AATTTAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATATTTAAATT
Found at i:50255945 original size:22 final size:21
Alignment explanation
Indices: 50255906--50255946 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
50255896 TTTACATAAT
*
50255906 ATTATTTAACTAATATATTTA
1 ATTATTTAACTAAAATATTTA
*
50255927 ATTATTTTAATTAAAATATT
1 ATTA-TTTAACTAAAATATT
50255947 GAAGTCAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATTTAACTAAAATATTTA
Found at i:50257391 original size:46 final size:46
Alignment explanation
Indices: 50257341--50257516 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
50257331 TGGTTGAGCA
*
50257341 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
50257387 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
50257432 CATCCGAACTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
50257480 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50257517 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:50257497 original size:93 final size:93
Alignment explanation
Indices: 50257338--50257509 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
50257328 GGATGGTTGA
* * *
50257338 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50257403 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
50257431 GCATCCGAACTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50257496 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
50257510 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50262182 original size:40 final size:40
Alignment explanation
Indices: 50262098--50262322 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
50262088 TTGAATGATG
* * * *
50262098 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
50262138 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
50262178 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
50262217 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
50262257 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
50262298 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
50262323 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:50262344 original size:119 final size:119
Alignment explanation
Indices: 50262098--50262355 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
50262088 TTGAATGATG
* *
50262098 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
50262163 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
50262217 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
50262280 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
50262337 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
50262356 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:50277358 original size:40 final size:40
Alignment explanation
Indices: 50277278--50277498 Score: 279
Period size: 40 Copynumber: 5.5 Consensus size: 40
50277268 ATGATGTCCA
* * * *
50277278 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
* * *
50277318 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
50277358 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
50277397 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* *
50277437 GGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
*
50277477 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
50277499 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 116 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:50279103 original size:14 final size:15
Alignment explanation
Indices: 50279081--50279114 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
50279071 AGACCCCATC
50279081 CATCACTCACTCA-T
1 CATCACTCACTCATT
*
50279095 CATCCCTCACTCATT
1 CATCACTCACTCATT
50279110 CATCA
1 CATCA
50279115 TTCTCTCCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.26, C:0.44, G:0.00, T:0.29
Consensus pattern (15 bp):
CATCACTCACTCATT
Found at i:50279104 original size:18 final size:18
Alignment explanation
Indices: 50279077--50279115 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
50279067 AATAAGACCC
50279077 CATCCATCACTCACTCAT
1 CATCCATCACTCACTCAT
* *
50279095 CATCCCTCACTCATTCAT
1 CATCCATCACTCACTCAT
50279113 CAT
1 CAT
50279116 TCTCTCCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.44, G:0.00, T:0.31
Consensus pattern (18 bp):
CATCCATCACTCACTCAT
Found at i:50285056 original size:79 final size:81
Alignment explanation
Indices: 50284920--50285104 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
50284910 TTGAATGATG
*
50284920 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
50284984 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
50284999 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
50285061 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
50285079 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
50285105 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:50285118 original size:40 final size:40
Alignment explanation
Indices: 50284921--50285104 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
50284911 TGAATGATGT
* * * *
50284921 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
50284961 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
50285001 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
50285039 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
50285080 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
50285105 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:50285126 original size:79 final size:79
Alignment explanation
Indices: 50284921--50285127 Score: 199
Period size: 79 Copynumber: 2.6 Consensus size: 79
50284911 TGAATGATGT
** * * * **
50284921 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
*
50284984 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** *
50285001 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
*
50285066 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* *
50285080 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAA
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAA
50285128 ATTCCGAATG
Statistics
Matches: 109, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 64 0.59
80 42 0.39
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:50292942 original size:79 final size:81
Alignment explanation
Indices: 50292808--50292990 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
50292798 GAATGATGTT
*
50292808 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAAGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAAGCATTTG
*
50292872 TGCGAGATACTA-ATTC
66 TGCGAGATACTATA-AC
* * * ** *
50292888 CGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAAGCATTT
*
50292950 GTGCGAGTTACTATAAC
65 GTGCGAGATACTATAAC
*
50292967 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
50292991 AACGAGGAGC
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.64
80 31 0.35
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAAGCATTTG
TGCGAGATACTATAAC
Found at i:50293004 original size:40 final size:40
Alignment explanation
Indices: 50292808--50292990 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
50292798 GAATGATGTT
* * * *
50292808 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAAC
* * * *
50292848 CGGACTAAGAT-CCGAAAGCATTTGTGCGAGATACTA-ATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-AC
50292888 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-C
*
50292927 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
*
50292967 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
50292991 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
Found at i:50293012 original size:79 final size:79
Alignment explanation
Indices: 50292859--50293023 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
50292849 GGACTAAGAT
* * ** *
50292859 CCGAAAGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
50292924 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
50292938 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-C
* *
50293001 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
50293017 CCGAAGG
1 CCGAAGG
50293024 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:50301954 original size:43 final size:43
Alignment explanation
Indices: 50301889--50301972 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
50301879 AGTGATTGAT
* *
50301889 ATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAAAC
1 ATTGAAATGACAAAGATAAGAAATGAATATGACATGAGAAAAC
* *
50301932 ATTGAAATGACAAATATAAGAAATGATTATGACATGAGAAA
1 ATTGAAATGACAAAGATAAGAAATGAATATGACATGAGAAA
50301973 TGAGATATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.54, C:0.05, G:0.20, T:0.21
Consensus pattern (43 bp):
ATTGAAATGACAAAGATAAGAAATGAATATGACATGAGAAAAC
Found at i:50310767 original size:40 final size:40
Alignment explanation
Indices: 50310704--50310891 Score: 306
Period size: 40 Copynumber: 4.7 Consensus size: 40
50310694 ATTCGGATTG
50310704 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
50310743 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
50310783 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** * *
50310823 ATAACCGGGCTAAGTTTCGAAGGCAATTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
50310863 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
50310892 AGCAAGAAGT
Statistics
Matches: 137, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 13 0.09
40 124 0.91
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:50312943 original size:13 final size:13
Alignment explanation
Indices: 50312925--50312950 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50312915 TCCAAACCGA
50312925 GTTTCGAAAGAAG
1 GTTTCGAAAGAAG
50312938 GTTTCGAAAGAAG
1 GTTTCGAAAGAAG
50312951 TATATCAGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.31, T:0.23
Consensus pattern (13 bp):
GTTTCGAAAGAAG
Found at i:50316641 original size:40 final size:40
Alignment explanation
Indices: 50316520--50316633 Score: 176
Period size: 40 Copynumber: 2.9 Consensus size: 40
50316510 ATTCGGATTG
*
50316520 ATAATCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
50316559 ATTACCGGGCTAAGTCCCGAAGGCAATTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
50316599 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
50316634 AAGCTATATC
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 12 0.18
40 54 0.82
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:50323232 original size:44 final size:42
Alignment explanation
Indices: 50323169--50323324 Score: 156
Period size: 42 Copynumber: 3.7 Consensus size: 42
50323159 TGTGCTTTCG
* *
50323169 TGTAAGGCCACGTCTGGGACATTGGCATCGACTTATGATTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGA-TT-TGATTTACA
* *
50323213 TGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTT-CG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-ATTTGATTTACA
* * * *
50323255 TGTAAGACCCT-ACTGGGATAGTGGCATCGATATTTGA-TTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCG--ATTTGATTTACA
* *
50323297 TGTAAGACCATGTCTAGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
50323325 TGTATGATCT
Statistics
Matches: 92, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
41 16 0.17
42 29 0.32
43 17 0.18
44 29 0.32
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATTTGATTTACA
Found at i:50323289 original size:42 final size:40
Alignment explanation
Indices: 50323153--50323305 Score: 121
Period size: 42 Copynumber: 3.6 Consensus size: 40
50323143 CACATAAGAT
* * * *
50323153 TCGATATGTGCTTTCGTGTAAGGCCACGTCTGGGACATTGGCA
1 TCGATATTTGATTTCATGTAAGACC-C-TCTGGGACA-TGGCA
* *
50323196 TCGACT-TATGATTTACATGTAAGACCATGTCTGGGACATCGGCA
1 TCGA-TATTTGATTT-CATGTAAGACC--CTCTGGGACAT-GGCA
* *
50323240 TCG-TATTTGATTTCGTGTAAGACCCTACTGGGATAGTGGCA
1 TCGATATTTGATTTCATGTAAGACCCT-CTGGGACA-TGGCA
*
50323281 TCGATATTTGATTACATGTAAGACC
1 TCGATATTTGATTTCATGTAAGACC
50323306 ATGTCTAGGA
Statistics
Matches: 90, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
40 1 0.01
41 14 0.16
42 31 0.34
43 18 0.20
44 26 0.29
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (40 bp):
TCGATATTTGATTTCATGTAAGACCCTCTGGGACATGGCA
Found at i:50324599 original size:27 final size:27
Alignment explanation
Indices: 50324523--50324611 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
50324513 AATACAAATC
*
50324523 AGTCATTTTACGTTATAGGGGTAATAT
1 AGTCATTTTACCTTATAGGGGTAATAT
* * * *
50324550 AATCATTTTACCCTAT-GGTGGTATTTT
1 AGTCATTTTACCTTATAGG-GGTAATAT
* * *
50324577 GGTCATTTTACCTTATAAGGGTAAAAT
1 AGTCATTTTACCTTATAGGGGTAATAT
50324604 AGTCATTT
1 AGTCATTT
50324612 CAATACATTA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
26 2 0.04
27 44 0.94
28 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (27 bp):
AGTCATTTTACCTTATAGGGGTAATAT
Found at i:50343640 original size:17 final size:19
Alignment explanation
Indices: 50343618--50343664 Score: 64
Period size: 17 Copynumber: 2.6 Consensus size: 19
50343608 GTTTAAAAAC
*
50343618 TTTTTATTTATTA-TTTT-
1 TTTTTATTTATCACTTTTA
50343635 TTTTTATTT-TCACTTTTA
1 TTTTTATTTATCACTTTTA
50343653 TTTTTATTTATC
1 TTTTTATTTATC
50343665 TTATTTAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 2 0.08
17 13 0.50
18 9 0.35
19 2 0.08
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTATTTATCACTTTTA
Found at i:50350016 original size:37 final size:37
Alignment explanation
Indices: 50349957--50350063 Score: 187
Period size: 37 Copynumber: 2.9 Consensus size: 37
50349947 AGCTCAGACG
* *
50349957 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
50349994 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
50350031 TAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCG
50350064 AAATATATTT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:50350370 original size:48 final size:49
Alignment explanation
Indices: 50350211--50350396 Score: 243
Period size: 50 Copynumber: 3.8 Consensus size: 49
50350201 GCACATCGCC
* * *
50350211 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATGCATATCTCA-A
*
50350261 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCATA
1 TACATATTTCACATTAG-CCATTCAGCTTTACCACATATGCATATCTCA-A
* * *
50350311 TATATATTTCACATT-GACCATTCAACTTTACCATATATGCATATCTC-A
1 TACATATTTCACATTAG-CCATTCAGCTTTACCACATATGCATATCTCAA
*
50350359 TACATATTTCACATTAGCCATTCGGCTTTACCACATAT
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATAT
50350397 ATGCATGTTC
Statistics
Matches: 124, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
48 33 0.27
49 2 0.02
50 89 0.72
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCAGCTTTACCACATATGCATATCTCAA
Found at i:50350398 original size:50 final size:49
Alignment explanation
Indices: 50350211--50350496 Score: 222
Period size: 50 Copynumber: 5.9 Consensus size: 49
50350201 GCACATCGCC
*
50350211 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA--CATATCTCATA
1 TACATATTTCACA-TTGCCATTCGGCTTTACCACATATATGCATATCTC--A
* *
50350261 TATATATTTCACATTGACCATTCAGCTTTACCAC--ATATGCATATCTCATA
1 TACATATTTCACATTG-CCATTCGGCTTTACCACATATATGCATATCTC--A
* **
50350311 TATATATTTCACATTGACCATTCAACTTTA-C-CATATATGCATATCTCA
1 TACATATTTCACATTG-CCATTCGGCTTTACCACATATATGCATATCTCA
*
50350359 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATGT-TCA
1 TACATATTTCACATT-GCCATTCGGCTTTACCACATATATGCATATCTCA
** * * * *
50350408 T--AT-TCACCACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTC-
1 TACATAT-TTCACATT-GCCATTCGGCTTTACCACATATATGCATATCTCA
* * *
50350454 -ACAT-TCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
1 TACATAT-TTCACATT-GCCATTCGGCTTTACCACATATATGCAT
50350497 GTTCACATTC
Statistics
Matches: 207, Mismatches: 17, Indels: 27
0.82 0.07 0.11
Matches are distributed among these distances:
46 1 0.00
47 74 0.36
48 30 0.14
49 9 0.04
50 93 0.45
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (49 bp):
TACATATTTCACATTGCCATTCGGCTTTACCACATATATGCATATCTCA
Found at i:50350429 original size:47 final size:47
Alignment explanation
Indices: 50350367--50350560 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
50350357 CATACATATT
* * * *
50350367 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
50350414 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
50350461 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
50350508 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
50350555 TCACAT
1 TCACAT
50350561 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:50350487 original size:22 final size:22
Alignment explanation
Indices: 50350460--50350531 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
50350450 GCTCACATTC
50350460 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
50350482 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
50350506 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
50350529 ATC
1 ATC
50350532 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:50354678 original size:40 final size:40
Alignment explanation
Indices: 50354634--50354960 Score: 555
Period size: 40 Copynumber: 8.2 Consensus size: 40
50354624 CACGAATGCT
50354634 CATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATA
* *
50354674 CATCACTAGCACGAATGCTCTTTGGGGCTTAGTCCGGATA
1 CATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATA
*
50354714 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATA
50354754 CATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATA
*
50354794 CATCACTAGCACGAATGCTCTTCGGGACTTAGTCTGGATA
1 CATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATA
*
50354834 CATCACTAGCACGAATGCTGTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATA
* *
50354874 CATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATA
1 CATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATA
* * *
50354914 TATCACTAGCACGAATGCTCTTTGGGACTTAGCCCGGATA
1 CATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATA
*
50354954 TATCACT
1 CATCACT
50354961 CTCAATTCTC
Statistics
Matches: 272, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 272 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATA
Found at i:50356274 original size:37 final size:37
Alignment explanation
Indices: 50356224--50356334 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
50356214 CTTTAGCTCA
* *
50356224 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
50356261 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
50356298 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
50356335 AAATATATTT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:50356619 original size:50 final size:51
Alignment explanation
Indices: 50356482--50356623 Score: 188
Period size: 50 Copynumber: 2.9 Consensus size: 51
50356472 GCACATCGCC
* *
50356482 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA--CATATCTCATA
1 TACATATTTCACATTAGCCATTCGACTTTACCACATATATGCATATCTCA-A
* *
50356532 TATATATTTCACATT-GACCATTCAACTTTA-C-CATATATGCATATCTC-A
1 TACATATTTCACATTAG-CCATTCGACTTTACCACATATATGCATATCTCAA
50356580 TACATATTTCACATTAGCCATTCGACTTTACCACATATATGCAT
1 TACATATTTCACATTAGCCATTCGACTTTACCACATATATGCAT
50356624 GTTCATATTC
Statistics
Matches: 80, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
48 33 0.41
49 4 0.05
50 43 0.54
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (51 bp):
TACATATTTCACATTAGCCATTCGACTTTACCACATATATGCATATCTCAA
Found at i:50356650 original size:47 final size:47
Alignment explanation
Indices: 50356588--50356781 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
50356578 CATACATATT
* * * * *
50356588 TCACATTAGCCATTCGACTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
50356635 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
50356682 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
50356729 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
50356776 TCACAT
1 TCACAT
50356782 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:50356708 original size:22 final size:22
Alignment explanation
Indices: 50356681--50356752 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
50356671 GCTCACATTC
50356681 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
50356703 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
50356727 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
50356750 ATC
1 ATC
50356753 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:50366343 original size:51 final size:51
Alignment explanation
Indices: 50366283--50366384 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
50366273 AAGCCCTGTT
50366283 GTACACAAGTGATGATTAACCCTTTTTCTAGTTAGGCAATTTTTCAATTCA
1 GTACACAAGTGATGATTAACCCTTTTTCTAGTTAGGCAATTTTTCAATTCA
50366334 GTACACAAGTGATGATTAACCCTTTTTCTAGTTAGGCAATTTTTCAATTCA
1 GTACACAAGTGATGATTAACCCTTTTTCTAGTTAGGCAATTTTTCAATTCA
50366385 ATCTCGATTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (51 bp):
GTACACAAGTGATGATTAACCCTTTTTCTAGTTAGGCAATTTTTCAATTCA
Found at i:50377000 original size:18 final size:19
Alignment explanation
Indices: 50376960--50377001 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
50376950 AATAAGACCT
*
50376960 CTTT-GGATTTTATTTATA
1 CTTTGGGATTTTAATTATA
*
50376978 ATTTGGGATTTTAATT-TA
1 CTTTGGGATTTTAATTATA
50376996 CTTTGG
1 CTTTGG
50377002 TTATAATCGC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.21, C:0.05, G:0.17, T:0.57
Consensus pattern (19 bp):
CTTTGGGATTTTAATTATA
Found at i:50383956 original size:101 final size:101
Alignment explanation
Indices: 50383777--50384066 Score: 528
Period size: 101 Copynumber: 2.9 Consensus size: 101
50383767 CTTCTTAAAC
* *
50383777 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAATATAATAAACAATTCAAGTCA
1 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
*
50383842 TTAATCCACGCATATTGGTCGGCTACTTTCATCTTTT
66 TTAATCCATGCATATTGGTCGGCTACTTT-ATCTTTT
*
50383879 ATAATATATTAACATATATT-AAGTATACCATAATGCCATAAAACATAATAAATAATTCAATTCA
1 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
50383943 TTAATCCATGCATATTGGTCGGCTACTTTATCTTTT
66 TTAATCCATGCATATTGGTCGGCTACTTTATCTTTT
50383979 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
1 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
50384044 TTAATCCATGCATATTGGTCGGC
66 TTAATCCATGCATATTGGTCGGC
50384067 CGCTAATTCC
Statistics
Matches: 182, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
100 27 0.15
101 135 0.74
102 20 0.11
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (101 bp):
ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
TTAATCCATGCATATTGGTCGGCTACTTTATCTTTT
Found at i:50401017 original size:40 final size:40
Alignment explanation
Indices: 50400962--50401038 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
50400952 GAAAAAAAAA
50400962 ATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATT
1 ATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATT
* *
50401002 ATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 ATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
50401039 GTTACATCCG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (40 bp):
ATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATT
Found at i:50412514 original size:40 final size:40
Alignment explanation
Indices: 50412405--50412585 Score: 224
Period size: 40 Copynumber: 4.6 Consensus size: 40
50412395 TATTCGGATG
* * *
50412405 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
50412445 A-ATTCCAGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
50412484 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
50412524 ATAACCGGGCTAAGTCCTGAAGGCATTTGAGCAAGTAACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
50412564 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
50412586 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 46 0.37
40 77 0.63
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:50412536 original size:79 final size:80
Alignment explanation
Indices: 50412405--50412585 Score: 224
Period size: 79 Copynumber: 2.3 Consensus size: 80
50412395 TATTCGGATG
* * *
50412405 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTAATTCCAGGCTAAG-CCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAATACCAGGCTAAGTCCCGAAGGCA
* * *
50412469 TTTGTGCGAGTTACT
66 TTTGAGCAAGTAACT
* * *
50412484 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAACCGGGCTAAGTCCTGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAAT-ACCAGGCTAAGTCCCGAAGGC
50412548 ATTTGAGCAAGTAACT
65 ATTTGAGCAAGTAACT
* * *
50412564 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
50412586 TACTTGGTTT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
78 2 0.02
79 60 0.68
80 26 0.30
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAATACCAGGCTAAGTCCCGAAGGCA
TTTGAGCAAGTAACT
Found at i:50416782 original size:120 final size:118
Alignment explanation
Indices: 50416570--50416830 Score: 373
Period size: 120 Copynumber: 2.2 Consensus size: 118
50416560 TATTCGGATG
* * *
50416570 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTCAGCCTGAAGGCAT
1 ATAACC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCTGAAGGCAT
*
50416635 TTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CT
65 TTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCT
* *
50416689 ATAACCAGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCTGAAGGC
1 ATAACC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCTGAAGGC
*
50416753 ATTTGTGCGAGTTACTATAACCGGGCTAAGTCCTGAAGGCATTTGAGCAAGTAGCT
63 ATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCT
* * *
50416809 ATATCCGGCTAAATTCCGAAGG
1 ATAACCGGCTAAGTCCCGAAGG
50416831 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
118 2 0.02
119 60 0.47
120 65 0.51
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (118 bp):
ATAACCGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCTGAAGGCATT
TGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCT
Found at i:50416811 original size:40 final size:40
Alignment explanation
Indices: 50416570--50416797 Score: 361
Period size: 40 Copynumber: 5.7 Consensus size: 40
50416560 TATTCGGATG
* * *
50416570 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
* *
50416610 A-ATTCCGGGCTCAG-CCTGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
* *
50416649 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
*
50416689 ATAACCAGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
50416729 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
50416769 ATAACCGGGCTAAGTCCTGAAGGCATTTG
1 ATAACCGGGCTAAGTCCTGAAGGCATTTG
50416798 AGCAAGTAGC
Statistics
Matches: 172, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 33 0.19
40 139 0.81
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
Found at i:50426701 original size:32 final size:27
Alignment explanation
Indices: 50426668--50426722 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
50426658 CCAAATACTT
50426668 ATCTTATTTCACCGTATACTAAGCTCA
1 ATCTTATTTCACCGTATACTAAGCTCA
50426695 ATCTTATTTCACCGTATACTAAGCTCA
1 ATCTTATTTCACCGTATACTAAGCTCA
50426722 A
1 A
50426723 CTCCACATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.36
Consensus pattern (27 bp):
ATCTTATTTCACCGTATACTAAGCTCA
Found at i:50436479 original size:29 final size:29
Alignment explanation
Indices: 50436417--50436536 Score: 188
Period size: 29 Copynumber: 4.2 Consensus size: 29
50436407 CACATACAAA
* *
50436417 CATATGGCCCACTAGGCCC-AATCTCATT
1 CATATGGCCCATTAGGCCCAAATCACATT
50436445 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
* *
50436474 CGTATGGCCCATTAGGCCCAAATTACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
*
50436503 CATATGGCCCATTAGGCCCAAATCACATC
1 CATATGGCCCATTAGGCCCAAATCACATT
50436532 CATAT
1 CATAT
50436537 TCATGTGTTC
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 18 0.21
29 66 0.79
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACATT
Found at i:50442776 original size:28 final size:29
Alignment explanation
Indices: 50442739--50442805 Score: 100
Period size: 28 Copynumber: 2.3 Consensus size: 29
50442729 AAGTCTACAT
*
50442739 ACATACATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* *
50442767 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
50442796 ACATTCATAT
1 ACATTCATAT
50442806 TCATGCTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 21 0.62
29 13 0.38
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:50443061 original size:16 final size:16
Alignment explanation
Indices: 50443015--50443062 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
50443005 CAAACTTTTA
* *
50443015 GCTTTTTGGCATTTCA
1 GCTTTTCGGCATTTCG
* * *
50443031 ACTTTTCGACCTTTCG
1 GCTTTTCGGCATTTCG
50443047 GCTTTTCGGCATTTCG
1 GCTTTTCGGCATTTCG
50443063 AGATTTACCG
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.10, C:0.25, G:0.19, T:0.46
Consensus pattern (16 bp):
GCTTTTCGGCATTTCG
Found at i:50446377 original size:20 final size:20
Alignment explanation
Indices: 50446335--50446377 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
50446325 TTATTTCTGA
* * *
50446335 ATAAATTTTCATTTTCTACC
1 ATAAATTTTAAATTTCCACC
*
50446355 ATAAATTTTAAATTTCCAGC
1 ATAAATTTTAAATTTCCACC
50446375 ATA
1 ATA
50446378 TTCATCTATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.44
Consensus pattern (20 bp):
ATAAATTTTAAATTTCCACC
Found at i:50447918 original size:38 final size:38
Alignment explanation
Indices: 50447876--50447951 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
50447866 AGGAAAATAC
50447876 AACTTATATTAGTAGACAAACATAAACATGTCCTTAGT
1 AACTTATATTAGTAGACAAACATAAACATGTCCTTAGT
* *
50447914 AACTTATATTAGTAGACGAACCTAAACATGTCCTTAGT
1 AACTTATATTAGTAGACAAACATAAACATGTCCTTAGT
50447952 CTAATCGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (38 bp):
AACTTATATTAGTAGACAAACATAAACATGTCCTTAGT
Found at i:50452399 original size:41 final size:40
Alignment explanation
Indices: 50452342--50452421 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 40
50452332 TAGTTTGAGT
50452342 AAGGGAACAGATTGCAAATGTTCAGATTTGGACCCGAACCC
1 AAGGGAACAGATTGCAAATGTTCAGATTT-GACCCGAACCC
*
50452383 AAGGGAACAGATTGCAAATGTTCAGATTTGACCTGAACC
1 AAGGGAACAGATTGCAAATGTTCAGATTTGACCCGAACC
50452422 TGAATCATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 9 0.24
41 29 0.76
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (40 bp):
AAGGGAACAGATTGCAAATGTTCAGATTTGACCCGAACCC
Found at i:50461632 original size:17 final size:17
Alignment explanation
Indices: 50461610--50461642 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50461600 TTTCAGTAAA
50461610 TAAATAAATTTCTCAAT
1 TAAATAAATTTCTCAAT
*
50461627 TAAATAATTTTCTCAA
1 TAAATAAATTTCTCAA
50461643 CCCAATCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATAAATTTCTCAAT
Found at i:50462369 original size:6 final size:6
Alignment explanation
Indices: 50462358--50462384 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
50462348 TATTTTTTTA
50462358 TTTAAT TTTAAT TTTAAT TTTAAT TTT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTT
50462385 CTTTTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTAAT
Found at i:50467099 original size:40 final size:40
Alignment explanation
Indices: 50467044--50467172 Score: 170
Period size: 40 Copynumber: 3.2 Consensus size: 40
50467034 AATTATTGAA
* *
50467044 TGATTGCACTTACGTGCCGC-TATTTGTACTTCGATACCCT
1 TGATTGCACTTACGTGCC-CTTGTTTGTACTTCGGTACCCT
* * *
50467084 TGATTGCACTTACGTGCCCTTGTTTGTAATTTGGTGCCCT
1 TGATTGCACTTACGTGCCCTTGTTTGTACTTCGGTACCCT
* *
50467124 TGATTGCACTTATGTGCCCTTGTTTGTACTTCGGTACCCC
1 TGATTGCACTTACGTGCCCTTGTTTGTACTTCGGTACCCT
*
50467164 TGAATGCAC
1 TGATTGCAC
50467173 ATCAATTCCC
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 76 0.99
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.39
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCTTGTTTGTACTTCGGTACCCT
Found at i:50467103 original size:20 final size:20
Alignment explanation
Indices: 50467044--50467145 Score: 84
Period size: 20 Copynumber: 5.1 Consensus size: 20
50467034 AATTATTGAA
50467044 TGATTGCACTTACGTGCCGC-
1 TGATTGCACTTACGTGCC-CT
* *
50467064 T-ATTTGTACTT-CGATACCCT
1 TGA-TTGCACTTACG-TGCCCT
50467084 TGATTGCACTTACGTGCCCT
1 TGATTGCACTTACGTGCCCT
* * * **
50467104 TGTTTGTAATTTGGTGCCCT
1 TGATTGCACTTACGTGCCCT
*
50467124 TGATTGCACTTATGTGCCCT
1 TGATTGCACTTACGTGCCCT
50467144 TG
1 TG
50467146 TTTGTACTTC
Statistics
Matches: 63, Mismatches: 14, Indels: 10
0.72 0.16 0.11
Matches are distributed among these distances:
19 4 0.06
20 56 0.89
21 3 0.05
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.40
Consensus pattern (20 bp):
TGATTGCACTTACGTGCCCT
Found at i:50467965 original size:20 final size:20
Alignment explanation
Indices: 50467940--50467993 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
50467930 GTTTATGTTG
*
50467940 AGTAAATGGAATGTAAAGTA
1 AGTAAATGGAATGGAAAGTA
50467960 AGTAAATGGAATGGAAAGTA
1 AGTAAATGGAATGGAAAGTA
*
50467980 AGTAGATGGAATGG
1 AGTAAATGGAATGG
50467994 TTCATAGTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.22
Consensus pattern (20 bp):
AGTAAATGGAATGGAAAGTA
Found at i:50470564 original size:42 final size:42
Alignment explanation
Indices: 50470505--50470608 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
50470495 CAATAGGCAC
* *
50470505 GCTTAATATGCAAATCAAATCTAAGATCAACATAGTCTA-CAT
1 GCTTAACATGCAAATCAAATATAAGATCAACATAGTC-AGCAT
* * * * *
50470547 GCTTAACATGCAAATCAAATATCAGTTTATCATAGTCAGCTT
1 GCTTAACATGCAAATCAAATATAAGATCAACATAGTCAGCAT
50470589 GCTTAACATGCAAATCAAAT
1 GCTTAACATGCAAATCAAAT
50470609 GTCAATTAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 1 0.02
42 53 0.98
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (42 bp):
GCTTAACATGCAAATCAAATATAAGATCAACATAGTCAGCAT
Found at i:50470785 original size:153 final size:153
Alignment explanation
Indices: 50470599--50470906 Score: 433
Period size: 153 Copynumber: 2.0 Consensus size: 153
50470589 GCTTAACATG
* *
50470599 CAAATCAAATGTCAATTAATATAACAGTAGCATGATTAAAACATATA-A-ATATCATGCGTAATT
1 CAAATCAAATGTCAATTAATATAACAGTAGCATGATTAAAACATATATATATATCATGCATAATC
* * * * *
50470662 AATTTCACCATAAAATCACATGTAATAAGAATTGGTAA-ATACACATAATTTCACGTTAATCATT
66 AATTTCACCATAAAATCAC--GTAATAAGAATT-GAAATATACACATAATTCCACATTAATAACT
*
50470726 TAATCACATCATTTATAGCATACAAT
128 TAATCACATCATTTATAACATACAAT
*
50470752 CAAATCAAATGTCAATTAATATAATAGTAGCATGATTAAAACATATATATATATCATGCATAATC
1 CAAATCAAATGTCAATTAATATAACAGTAGCATGATTAAAACATATATATATATCATGCATAATC
** * * *
50470817 AATTTCGTCATAAAATCACGTCATGAGAATTGAAATATACACATCATTCCACATTAATAACTTAA
66 AATTTCACCATAAAATCACGTAATAAGAATTGAAATATACACATAATTCCACATTAATAACTTAA
*
50470882 TCACATCATTTATAATATACAAT
131 TCACATCATTTATAACATACAAT
50470905 CA
1 CA
50470907 CCAAAATAAT
Statistics
Matches: 137, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
152 3 0.02
153 103 0.75
154 1 0.01
155 30 0.22
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (153 bp):
CAAATCAAATGTCAATTAATATAACAGTAGCATGATTAAAACATATATATATATCATGCATAATC
AATTTCACCATAAAATCACGTAATAAGAATTGAAATATACACATAATTCCACATTAATAACTTAA
TCACATCATTTATAACATACAAT
Found at i:50474846 original size:18 final size:18
Alignment explanation
Indices: 50474823--50474959 Score: 116
Period size: 18 Copynumber: 7.3 Consensus size: 18
50474813 ATATTTATGT
*
50474823 ATTACGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
* * * *
50474841 ATTACGATATGATAT-TTA
1 ATTATG-TAAGTTATGTAA
*
50474859 TTTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
50474877 ATT-TGGTAAGTTATGTAA
1 ATTAT-GTAAGTTATGTAA
*
50474895 GTTATGTAAGTTATGATATGA
1 ATTATGTAAGTTATG-TA--A
*
50474916 TATTTATTTAAGTTATGTAA
1 -A-TTATGTAAGTTATGTAA
50474936 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
*
50474954 GTTATG
1 ATTATG
50474960 CATTAAAAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
17 7 0.07
18 62 0.65
19 10 0.10
20 1 0.01
21 1 0.01
22 2 0.02
23 13 0.14
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:50474874 original size:9 final size:9
Alignment explanation
Indices: 50474860--50474959 Score: 104
Period size: 9 Copynumber: 11.6 Consensus size: 9
50474850 TGATATTTAT
50474860 TTATGTAAG
1 TTATGTAAG
*
50474869 TTATGTAAA
1 TTATGTAAG
50474878 TT-TGGTAAG
1 TTAT-GTAAG
50474887 TTATGTAAG
1 TTATGTAAG
50474896 TTATGTAAG
1 TTATGTAAG
50474905 TTATG--A-
1 TTATGTAAG
*
50474911 -TATG-ATAT
1 TTATGTA-AG
*
50474919 TTATTTAAG
1 TTATGTAAG
*
50474928 TTATGTAAA
1 TTATGTAAG
50474937 TTATGTAAG
1 TTATGTAAG
50474946 TTATGTAAG
1 TTATGTAAG
50474955 TTATG
1 TTATG
50474960 CATTAAAAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
5 4 0.05
7 2 0.03
8 1 0.01
9 68 0.88
10 2 0.03
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:50474948 original size:59 final size:62
Alignment explanation
Indices: 50474828--50474959 Score: 200
Period size: 59 Copynumber: 2.2 Consensus size: 62
50474818 TATGTATTAC
50474828 GTAAGTTATGTAAATTACGATATGATATTTATTTATGTAAGTTATGTAAATTTGGTAAGTTAT
1 GTAAGTTATGTAAATTACGATATGATATTTA-TTATGTAAGTTATGTAAATTTGGTAAGTTAT
* *
50474891 GTAAGTTATGTAAGTTATGATATGATATTTA-T-T-TAAGTTATGTAAATTAT-GTAAGTTAT
1 GTAAGTTATGTAAATTACGATATGATATTTATTATGTAAGTTATGTAAATT-TGGTAAGTTAT
50474950 GTAAGTTATG
1 GTAAGTTATG
50474960 CATTAAAAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
59 34 0.52
60 2 0.03
61 1 0.02
63 29 0.44
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (62 bp):
GTAAGTTATGTAAATTACGATATGATATTTATTATGTAAGTTATGTAAATTTGGTAAGTTAT
Found at i:50477476 original size:27 final size:27
Alignment explanation
Indices: 50477445--50477514 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
50477435 ACGGCGACGC
*
50477445 AGCAGATGGTCGGGTCAACGACGATGT
1 AGCAGATGGTCGGGTCAACGACGAGGT
* *
50477472 AGCAGATGGTCGGGTCGACGGCGAGGT
1 AGCAGATGGTCGGGTCAACGACGAGGT
50477499 -GACAGATGGTCGGGTC
1 AG-CAGATGGTCGGGTC
50477515 CGGCGATGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
26 1 0.03
27 38 0.97
ACGTcount: A:0.21, C:0.19, G:0.43, T:0.17
Consensus pattern (27 bp):
AGCAGATGGTCGGGTCAACGACGAGGT
Found at i:50478290 original size:41 final size:41
Alignment explanation
Indices: 50478233--50478352 Score: 170
Period size: 41 Copynumber: 2.9 Consensus size: 41
50478223 TTTCTCATAT
* * *
50478233 ATAAATGCCGCTACTACTTGACCTTTTGTGGCGTTTTTCTC
1 ATAAACGCAGCTACTACTTGACCTTTTGCGGCGTTTTTCTC
* *
50478274 ATAAACGCAGCTACTACTTGACCTTTTACGGCATTTTTCTC
1 ATAAACGCAGCTACTACTTGACCTTTTGCGGCGTTTTTCTC
*
50478315 ATAAACGACA-CTACTGCTTGACCTTTTGCGGCGTTTTT
1 ATAAACG-CAGCTACTACTTGACCTTTTGCGGCGTTTTT
50478353 GGTCCAAACG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
41 68 0.97
42 2 0.03
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (41 bp):
ATAAACGCAGCTACTACTTGACCTTTTGCGGCGTTTTTCTC
Found at i:50485446 original size:28 final size:28
Alignment explanation
Indices: 50485385--50485449 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
50485375 TCAGTGTACG
**
50485385 AAATATTGAGAATGACACTTAATGTGTG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
50485413 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
50485441 AAATATTGA
1 AAATATTGA
50485450 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:50485566 original size:39 final size:39
Alignment explanation
Indices: 50485522--50485812 Score: 458
Period size: 39 Copynumber: 7.5 Consensus size: 39
50485512 GACTTTATAA
*
50485522 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
50485561 TGGTGTTATATCCGGGTTAAGTCCTGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
50485600 TGGTGTTATATCCGGGCTAAGTCTCGAAGGCATTCGTAC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
50485639 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
50485678 TAGTGTTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
50485717 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
50485756 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
50485795 TGGTATTATATCCGGGCT
1 TGGTGTTATATCCGGGCT
50485813 TAAAGTCCTG
Statistics
Matches: 231, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 220 0.95
40 11 0.05
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.31
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:50491682 original size:47 final size:47
Alignment explanation
Indices: 50491612--50491741 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
50491602 GTGCGAGTAA
* * ** *
50491612 TACCTTAATTTGGCTAC-AGGCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTAATTTGGCTACGA-GCCATGGTATAGGTACTCCGAGAGAAGT
* *
50491659 TACCTTGATTTGGCTACGAGCCATGGTATAGGTACTCCGAGATAAGT
1 TACCTTAATTTGGCTACGAGCCATGGTATAGGTACTCCGAGAGAAGT
*
50491706 TACCTTAATTTGGCTACGGGCCATGGTATAGGTACT
1 TACCTTAATTTGGCTACGAGCCATGGTATAGGTACT
50491742 TACCGATTGA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 72 0.99
48 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (47 bp):
TACCTTAATTTGGCTACGAGCCATGGTATAGGTACTCCGAGAGAAGT
Done.