Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 135 of 352
Found at i:43617545 original size:6 final size:7
Alignment explanation
Indices: 43617529--43617554 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
43617519 TTTGTCAATC
43617529 AAAAAGA
1 AAAAAGA
43617536 AAAAAGA
1 AAAAAGA
43617543 AAAAAGA
1 AAAAAGA
43617550 AAAAA
1 AAAAA
43617555 ATTACCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:43620624 original size:72 final size:72
Alignment explanation
Indices: 43620547--43620687 Score: 187
Period size: 72 Copynumber: 2.0 Consensus size: 72
43620537 TTTTTTTTTA
** *
43620547 AAAACGCCGGTACTC-CCTAAAAACCCTATAAAAACGACAG-CGTTTTCGTTAAACTGCTATGTT
1 AAAACGCCACTACTCTCCTAAAAACCCAATAAAAACGAC-GCCGTTTTCGTT-AACTGCTATGTT
43620610 TTTTGCTTT
64 TTTTGCTTT
* * * *
43620619 AAAACGCCACTACTCTCCTAAATATCCAATTAAAACGACGCCGTTTTCGTTAATTGCTATGTTTT
1 AAAACGCCACTACTCTCCTAAAAACCCAATAAAAACGACGCCGTTTTCGTTAACTGCTATGTTTT
43620684 TTGC
66 TTGC
43620688 GGCGTTTTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
72 31 0.52
73 29 0.48
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (72 bp):
AAAACGCCACTACTCTCCTAAAAACCCAATAAAAACGACGCCGTTTTCGTTAACTGCTATGTTTT
TTGCTTT
Found at i:43621145 original size:14 final size:14
Alignment explanation
Indices: 43621126--43621155 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43621116 TGAACACTTA
43621126 AAACCTTAAAACCT
1 AAACCTTAAAACCT
*
43621140 AAACCTTAAATCCT
1 AAACCTTAAAACCT
43621154 AA
1 AA
43621156 TCCCCAAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (14 bp):
AAACCTTAAAACCT
Found at i:43621590 original size:41 final size:42
Alignment explanation
Indices: 43621508--43621604 Score: 121
Period size: 41 Copynumber: 2.4 Consensus size: 42
43621498 GTTATATGAC
43621508 TTTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTTTGT
1 TTTTAGCGGCGTTTTTTACCAAAAGCGCCGCTAATGCTTTGT
* * * *
43621548 TTTTATCGGTGTTTTTTACTAAAA-CGCCGCTATTG-TTCTGT
1 TTTTAGCGGCGTTTTTTACCAAAAGCGCCGCTAATGCTT-TGT
43621589 TTTTAGCGGCGTTTTT
1 TTTTAGCGGCGTTTTT
43621605 CGTAAGACAC
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
40 11 0.23
41 27 0.56
42 10 0.21
ACGTcount: A:0.16, C:0.19, G:0.21, T:0.44
Consensus pattern (42 bp):
TTTTAGCGGCGTTTTTTACCAAAAGCGCCGCTAATGCTTTGT
Found at i:43627405 original size:26 final size:26
Alignment explanation
Indices: 43627375--43627434 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
43627365 TCCCTTTGAA
* * *
43627375 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
43627401 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
43627429 CCATTC
1 TCATTC
43627435 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:43627413 original size:28 final size:28
Alignment explanation
Indices: 43627382--43627460 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
43627372 GAATCATTCG
* *
43627382 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
43627410 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* * *
43627438 ATATTTCGTACACTGAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
43627461 ATTTGATTGC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.34
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:43632454 original size:28 final size:28
Alignment explanation
Indices: 43632411--43632630 Score: 142
Period size: 28 Copynumber: 7.8 Consensus size: 28
43632401 TGCCCCAACA
* * *
43632411 ACCGATCTTGCACACACAGTGCTCGGTT
1 ACCGAACTCGCACACACAGTGCTCGATT
* * **
43632439 ACAGAACTCGCACACACAGTGCCTCAACA
1 ACCGAACTCGCACACACAGTG-CTCGATT
* * * *
43632468 ACCGATCTCGCATACACAGTGCTTGGTT
1 ACCGAACTCGCACACACAGTGCTCGATT
* * **
43632496 ACGGAACTCGCACACACAGTGCCTCAAAA
1 ACCGAACTCGCACACACAGTG-CTCGATT
* *
43632525 ACCGATCTCGCACACACAATGCTCGATT
1 ACCGAACTCGCACACACAGTGCTCGATT
* * **
43632553 A-CGAAACTCGCACACACAATGCCTCAACA
1 ACCG-AACTCGCACACACAGTG-CTCGATT
*
43632582 ACC-ATCTCGCACACACAGTGCTC-AGTT
1 ACCGAACTCGCACACACAGTGCTCGA-TT
* *
43632609 A-CGAAACTCACACATACAGTGC
1 ACCG-AACTCGCACACACAGTGC
43632631 CTATGTTCAC
Statistics
Matches: 144, Mismatches: 40, Indels: 16
0.72 0.20 0.08
Matches are distributed among these distances:
26 2 0.01
27 6 0.04
28 89 0.62
29 46 0.32
30 1 0.01
ACGTcount: A:0.32, C:0.35, G:0.16, T:0.18
Consensus pattern (28 bp):
ACCGAACTCGCACACACAGTGCTCGATT
Found at i:43632485 original size:57 final size:57
Alignment explanation
Indices: 43632390--43632632 Score: 337
Period size: 57 Copynumber: 4.2 Consensus size: 57
43632380 GATCTCATTT
* *
43632390 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTCGGTTAC-AGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGA-AACTCG
* * *
43632449 CACACACAGTGCCTCAACAACCGATCTCGCATACACAGTGCTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
* * *
43632506 CACACACAGTGCCTCAAAAACCGATCTCGCACACACAATGCTCGATTACGAAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
* * *
43632563 CACACACAATGCCTCAACAACC-ATCTCGCACACACAGTGCTCAGTTACGAAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
*
43632619 CACATACAGTGCCT
1 CACACACAGTGCCT
43632633 ATGTTCACTT
Statistics
Matches: 164, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
56 42 0.26
57 115 0.70
59 7 0.04
ACGTcount: A:0.32, C:0.35, G:0.15, T:0.18
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
Found at i:43634502 original size:26 final size:26
Alignment explanation
Indices: 43634473--43634532 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
43634463 TCCCTTTGAA
* * *
43634473 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
43634499 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
43634527 CCATTC
1 TCATTC
43634533 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:43634518 original size:28 final size:28
Alignment explanation
Indices: 43634487--43634558 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
43634477 TCGATATTTT
*
43634487 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
43634515 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
43634543 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
43634559 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:43638358 original size:130 final size:130
Alignment explanation
Indices: 43638125--43638380 Score: 404
Period size: 130 Copynumber: 2.0 Consensus size: 130
43638115 CACTCAAAAA
* * *
43638125 GACCACTTACCTCTGTGAAAACTGAAAGAATGAAACTACATCACTGAAGCAACATATAAGCAACA
1 GACCACTTACCTCTGTGAAAACTGAAAGAATAAAACTACATCACTGAAACAACATACAAGCAACA
* * * **
43638190 GTTACCGAGATGTAACTGGCAATAACAAGGGATGACAAAAGAGATGTAAGAAGAAGAACACTAGT
66 GTTACCAAGATGTAACTAGCAATAACAAGGGACGACAAAAGAGATAAAAGAAGAAGAACACTAGT
* * *
43638255 GACCACTTACCTTTGTGGAAACTGAAAGAATAAAACTACATCACTGAAACAACGTACAAGCAACA
1 GACCACTTACCTCTGTGAAAACTGAAAGAATAAAACTACATCACTGAAACAACATACAAGCAACA
*
43638320 GTTACCAAGATGTAACTAGCAATGACAAGGGACGACAAAAGAGATAAAAGAAGAAGAACAC
66 GTTACCAAGATGTAACTAGCAATAACAAGGGACGACAAAAGAGATAAAAGAAGAAGAACAC
43638381 CAGTAGCAAT
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
130 114 1.00
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.16
Consensus pattern (130 bp):
GACCACTTACCTCTGTGAAAACTGAAAGAATAAAACTACATCACTGAAACAACATACAAGCAACA
GTTACCAAGATGTAACTAGCAATAACAAGGGACGACAAAAGAGATAAAAGAAGAAGAACACTAGT
Found at i:43638404 original size:130 final size:130
Alignment explanation
Indices: 43638143--43638419 Score: 358
Period size: 130 Copynumber: 2.1 Consensus size: 130
43638133 ACCTCTGTGA
* * * * *
43638143 AAACTGAAAGAATGAAACTACATCACTGAAGCAACATATAAGCAACAGTTACCGAGATGTAACTG
1 AAACTGAAAGAATAAAACTACATCACTGAAACAACATACAAGCAACAGTTACCAAGATGTAACTA
* ** * * *** *
43638208 GCAATAACAAGGGATGACAAAAGAGATGTAAGAAGAAGAACACTAGTGACCACTTACCTTTGTGG
66 GCAATAACAAGGGACGACAAAAGAGATAAAAGAAGAAGAACACCAGTGACCAATTACAGCTATGG
*
43638273 AAACTGAAAGAATAAAACTACATCACTGAAACAACGTACAAGCAACAGTTACCAAGATGTAACTA
1 AAACTGAAAGAATAAAACTACATCACTGAAACAACATACAAGCAACAGTTACCAAGATGTAACTA
* * *
43638338 GCAATGACAAGGGACGACAAAAGAGATAAAAGAAGAAGAACACCAGT-AGCAATTGCAAGCTATG
66 GCAATAACAAGGGACGACAAAAGAGATAAAAGAAGAAGAACACCAGTGACCAATTAC-AGCTATG
43638402 G
130 G
* *
43638403 AAACCGAAAGAAAAAAA
1 AAACTGAAAGAATAAAA
43638420 ATAGAAGAAC
Statistics
Matches: 126, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
129 6 0.05
130 120 0.95
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.15
Consensus pattern (130 bp):
AAACTGAAAGAATAAAACTACATCACTGAAACAACATACAAGCAACAGTTACCAAGATGTAACTA
GCAATAACAAGGGACGACAAAAGAGATAAAAGAAGAAGAACACCAGTGACCAATTACAGCTATGG
Found at i:43641603 original size:13 final size:13
Alignment explanation
Indices: 43641560--43641612 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
43641550 CATGGAATGG
43641560 AAATTTTA-TTTT
1 AAATTTTAGTTTT
*
43641572 --ATTTTACTTATT
1 AAATTTTAGTT-TT
43641584 AAAATTTTAGTTTT
1 -AAATTTTAGTTTT
43641598 AAATTTTAGTTTT
1 AAATTTTAGTTTT
43641611 AA
1 AA
43641613 TAATTCACAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
10 6 0.17
11 2 0.06
12 2 0.06
13 15 0.43
14 2 0.06
15 8 0.23
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (13 bp):
AAATTTTAGTTTT
Found at i:43641841 original size:13 final size:13
Alignment explanation
Indices: 43641823--43641875 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
43641813 CATAGAATTA
43641823 TTAAAACTAAAAT
1 TTAAAACTAAAAT
43641836 TTAAAACTAAAATT
1 TTAAAACTAAAA-T
*
43641850 TTAATAAGTAAAA-
1 TTAA-AACTAAAAT
43641863 -TAAAA-TAAAAT
1 TTAAAACTAAAAT
43641874 TT
1 TT
43641876 CCATTCCATG
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
10 5 0.14
11 2 0.06
12 4 0.11
13 12 0.34
14 5 0.14
15 7 0.20
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (13 bp):
TTAAAACTAAAAT
Found at i:43641863 original size:15 final size:14
Alignment explanation
Indices: 43641818--43641863 Score: 58
Period size: 13 Copynumber: 3.2 Consensus size: 14
43641808 ACAAGCATAG
43641818 AATTATTAAAACTAA
1 AATT-TTAAAACTAA
43641833 AA-TTTAAAACTAA
1 AATTTTAAAACTAA
*
43641846 AATTTTAATAAGTAA
1 AATTTTAA-AACTAA
43641861 AAT
1 AAT
43641864 AAAATAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 12 0.43
14 6 0.21
15 10 0.36
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (14 bp):
AATTTTAAAACTAA
Found at i:43643402 original size:12 final size:11
Alignment explanation
Indices: 43643367--43643405 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
43643357 TATAAATTTA
43643367 AATTTAAAAAT
1 AATTTAAAAAT
* *
43643378 AATGTAGAAAT
1 AATTTAAAAAT
43643389 AATTATAAAAAT
1 AATT-TAAAAAT
43643401 AATTT
1 AATTT
43643406 TTATATAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (11 bp):
AATTTAAAAAT
Found at i:43651418 original size:47 final size:47
Alignment explanation
Indices: 43651304--43651473 Score: 169
Period size: 45 Copynumber: 3.7 Consensus size: 47
43651294 GCCCCTAAGT
* * * *
43651304 GAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCC--AAGC
43651350 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATCTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATC-CAAGC
* *
43651397 GAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCATAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA-AGC
43651442 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
43651474 TCAACCATCC
Statistics
Matches: 105, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 2 0.02
45 29 0.28
46 27 0.26
47 29 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCAAGC
Found at i:43651473 original size:92 final size:93
Alignment explanation
Indices: 43651304--43651473 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
43651294 GCCCCTAAGT
* *
43651304 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43651369 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
43651397 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43651461 CGAGTTCGGATGC
66 CGAGTTCGGATGC
43651474 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 35 0.47
93 39 0.53
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43651925 original size:30 final size:30
Alignment explanation
Indices: 43651891--43651950 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
43651881 ATTTAATACG
43651891 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
43651921 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
43651951 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:43658965 original size:91 final size:92
Alignment explanation
Indices: 43658856--43659023 Score: 302
Period size: 91 Copynumber: 1.8 Consensus size: 92
43658846 GCCCCTAAGT
* *
43658856 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTC-GACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
43658920 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
43658947 GAACTCGGACTCAACTCAACGAGTTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
43659012 GAGTTCGGATGC
66 GAGTTCGGATGC
43659024 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 48 0.66
92 25 0.34
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43659011 original size:45 final size:45
Alignment explanation
Indices: 43658851--43659018 Score: 193
Period size: 45 Copynumber: 3.7 Consensus size: 45
43658841 AACCCGCCCC
* * *
43658851 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGACATTCGCATCCA
*
43658896 TAAGTGAACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA---C-A-TTCGCATCCA
* *
43658943 TCA-CGAACTCGGACTCAACTCAACGAGTTCGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGACATTCGCATCCA
43658987 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
43659019 GATGCTCAAC
Statistics
Matches: 103, Mismatches: 9, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
43 2 0.02
44 20 0.19
45 39 0.38
46 8 0.08
47 21 0.20
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGACATTCGCATCCA
Found at i:43659475 original size:30 final size:30
Alignment explanation
Indices: 43659441--43659500 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
43659431 ATTTAATACG
43659441 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
43659471 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
43659501 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:43659821 original size:33 final size:33
Alignment explanation
Indices: 43659779--43659841 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
43659769 TTATTGCTAA
43659779 TAAGCTTAATCGAGCTACCGGGATTCCAAAACG
1 TAAGCTTAATCGAGCTACCGGGATTCCAAAACG
43659812 TAAGCTTAATCGAGCTACCGGGATTCCAAA
1 TAAGCTTAATCGAGCTACCGGGATTCCAAA
43659842 CAAACCCTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (33 bp):
TAAGCTTAATCGAGCTACCGGGATTCCAAAACG
Found at i:43669054 original size:38 final size:40
Alignment explanation
Indices: 43668990--43669064 Score: 109
Period size: 38 Copynumber: 1.9 Consensus size: 40
43668980 ATTTGATGTG
* *
43668990 TATCCGGGCTTAAAGACCTGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGTAAAA
*
43669030 TATCCGGG-TTAAA-TCCCGCAGGCTTCATGCTGGTA
1 TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGTA
43669065 TTATATTCGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 19 0.59
39 5 0.16
40 8 0.25
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.27
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGTAAAA
Found at i:43669231 original size:43 final size:43
Alignment explanation
Indices: 43669047--43669235 Score: 249
Period size: 43 Copynumber: 4.4 Consensus size: 43
43669037 GTTAAATCCC
* *
43669047 GCAGGCTTCATGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * * *
43669088 GTAGGCTTCGTACCGGTGATGTGTATTCGGGCCTTTGTGCCTA
1 GCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
43669131 GCAGGCTTCATAG-CGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCAT-GCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
43669174 GCAGGCTTCGTGCCGGTGATATGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
43669217 GTAGGCATAATGCCGGTGA
1 GCAGGCTTCATGCCGGTGA
43669236 AATGATATGT
Statistics
Matches: 128, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
41 13 0.10
42 3 0.02
43 112 0.88
ACGTcount: A:0.14, C:0.23, G:0.32, T:0.31
Consensus pattern (43 bp):
GCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:43746445 original size:36 final size:38
Alignment explanation
Indices: 43746390--43746596 Score: 120
Period size: 40 Copynumber: 5.4 Consensus size: 38
43746380 AATCAAGCAT
** *
43746390 CTTCGGGGTTTAG-CCGGATATAACCACTCGCACAAGC
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCACAAGC
*** * *
43746427 CTTCGGG-CTTA-CCCGGATATGGTCACTAGCATAATC
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCACAAGC
** *
43746463 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCAC-AA-GC
* * ** *
43746503 CTTC-GGATCTTAG-TCGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAACCAC-TAGCAC--AAGC
** * *
43746543 CTTC-GGACTTAGCCCGGATATAGTCGCTTAGCACAAAAC
1 CTTCGGGACTTAGCCCGGATATAACCAC-TAGCAC-AAGC
43746582 CTTCGGGACTTAGCC
1 CTTCGGGACTTAGCC
43746597 GATATCATTC
Statistics
Matches: 144, Mismatches: 16, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
36 28 0.19
37 11 0.08
38 18 0.12
39 30 0.21
40 54 0.38
41 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (38 bp):
CTTCGGGACTTAGCCCGGATATAACCACTAGCACAAGC
Found at i:43746535 original size:40 final size:39
Alignment explanation
Indices: 43746419--43746596 Score: 197
Period size: 40 Copynumber: 4.6 Consensus size: 39
43746409 ATAACCACTC
* * *
43746419 GCAC-AAGCCTTCGGGCTTA-CCCGGATATGGTCAC-TA
1 GCACAAAGCCTTCGGACTTAGCCCGGATATAGTCGCTTA
* *
43746455 GCA-TAATCCTTCGGGACTTAGCCCGGATATAGTCGC-TA
1 GCACAAAGCCTTC-GGACTTAGCCCGGATATAGTCGCTTA
* *
43746493 GCACAAATGCCTTCGGATCTTAG-TCGGATGTAGTCGCTTA
1 GCACAAA-GCCTTCGGA-CTTAGCCCGGATATAGTCGCTTA
43746533 GCACAAAAGCCTTCGGACTTAGCCCGGATATAGTCGCTTA
1 GCAC-AAAGCCTTCGGACTTAGCCCGGATATAGTCGCTTA
*
43746573 GCACAAAACCTTCGGGACTTAGCC
1 GCACAAAGCCTTC-GGACTTAGCC
43746597 GATATCATTC
Statistics
Matches: 121, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
36 10 0.08
37 6 0.05
38 18 0.15
39 30 0.25
40 54 0.45
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
GCACAAAGCCTTCGGACTTAGCCCGGATATAGTCGCTTA
Found at i:43754472 original size:39 final size:40
Alignment explanation
Indices: 43754429--43754637 Score: 136
Period size: 41 Copynumber: 5.2 Consensus size: 40
43754419 CGAGGTTTAG
* *
43754429 CCGGATATAACCACTCGCACAAG-GCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAGTGCCTTCGGGACTTAAC
*** * *
43754468 CCGGATATGGTCACTAGCATAAGTGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACAAGTGCCTTCGGGACTTAAC
** * * **
43754508 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCACAAGTGCCTTCGGGA-CTTAAC
* ** * ** *
43754548 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCACAAGTGCCTTCGGGACTTAAC
** * * *
43754589 CCGGATATAGTCGCTTAGCACAAAAT-CCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCAC-AAGTGCCTTCGGGACTTAAC
43754630 CCGGATAT
1 CCGGATAT
43754638 CATTCGAGTA
Statistics
Matches: 148, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
39 21 0.14
40 58 0.39
41 63 0.43
42 6 0.04
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAGTGCCTTCGGGACTTAAC
Found at i:43754499 original size:40 final size:41
Alignment explanation
Indices: 43754452--43754637 Score: 245
Period size: 41 Copynumber: 4.6 Consensus size: 41
43754442 CTCGCACAAG
* * * * * *
43754452 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAGT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAT
43754492 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAT
* * *
43754532 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAT
43754573 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCAC-AAAT
43754615 -CCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
43754638 CATTCGAGTA
Statistics
Matches: 130, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 58 0.45
41 63 0.48
42 6 0.05
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAT
Found at i:43761969 original size:39 final size:39
Alignment explanation
Indices: 43761915--43762000 Score: 127
Period size: 39 Copynumber: 2.2 Consensus size: 39
43761905 TTTAGTTATT
* * *
43761915 TTAGTTTGTGTCTTTAATTATGTCATAATTTGAGCATCA
1 TTAGTATGAGTCTTTAATTATGTCATAATTTGAACATCA
*
43761954 TTAGTATGAGTCTTTAATTATGTCATAGTTTGAACATCA
1 TTAGTATGAGTCTTTAATTATGTCATAATTTGAACATCA
*
43761993 TTAATATG
1 TTAGTATG
43762001 TGTTCTGCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (39 bp):
TTAGTATGAGTCTTTAATTATGTCATAATTTGAACATCA
Found at i:43762126 original size:26 final size:26
Alignment explanation
Indices: 43762090--43762143 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
43762080 TGTAACTCCT
43762090 ATGTTAGTTAAAGTTTGCATCATTAA
1 ATGTTAGTTAAAGTTTGCATCATTAA
43762116 ATGTTAGTTAAAGTTTGCATCATTAA
1 ATGTTAGTTAAAGTTTGCATCATTAA
43762142 AT
1 AT
43762144 TAAGTCATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (26 bp):
ATGTTAGTTAAAGTTTGCATCATTAA
Found at i:43768161 original size:25 final size:25
Alignment explanation
Indices: 43768125--43768174 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
43768115 TTGTAAATCA
43768125 GGAAAATATCTTTAGA-AATTTTCT
1 GGAAAATATCTTTAGAGAATTTTCT
*
43768149 GGAATAATCTCTTTAGAGAATTTTCT
1 GGAA-AATATCTTTAGAGAATTTTCT
43768175 CTCTACAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 11 0.48
26 8 0.35
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (25 bp):
GGAAAATATCTTTAGAGAATTTTCT
Found at i:43772289 original size:27 final size:27
Alignment explanation
Indices: 43772258--43772311 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
43772248 AAGAGTCGAA
43772258 GAGAAATAGATTTTGATCCTGATTGAT
1 GAGAAATAGATTTTGATCCTGATTGAT
*
43772285 GAGAAATGGATTTTGATCCTGATTGAT
1 GAGAAATAGATTTTGATCCTGATTGAT
43772312 CGCAAAATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (27 bp):
GAGAAATAGATTTTGATCCTGATTGAT
Found at i:43779933 original size:10 final size:9
Alignment explanation
Indices: 43779918--43779979 Score: 54
Period size: 10 Copynumber: 6.7 Consensus size: 9
43779908 CTCACTTAAT
43779918 AAAAATTATA
1 AAAAATT-TA
43779928 AAAAATTT-
1 AAAAATTTA
* *
43779936 TAAAATTTT
1 AAAAATTTA
*
43779945 AAAATTTTA
1 AAAAATTTA
43779954 AAAAATTCTA
1 AAAAATT-TA
*
43779964 AAAAATATA
1 AAAAATTTA
43779973 TAAAAAT
1 -AAAAAT
43779980 GTTGAAATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
8 7 0.16
9 15 0.35
10 21 0.49
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (9 bp):
AAAAATTTA
Found at i:43779966 original size:8 final size:8
Alignment explanation
Indices: 43779929--43779956 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
43779919 AAAATTATAA
43779929 AAAATTTT
1 AAAATTTT
43779937 AAAATTTT
1 AAAATTTT
43779945 AAAATTTT
1 AAAATTTT
43779953 AAAA
1 AAAA
43779957 AATTCTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
AAAATTTT
Found at i:43786023 original size:48 final size:48
Alignment explanation
Indices: 43785961--43786530 Score: 530
Period size: 48 Copynumber: 11.9 Consensus size: 48
43785951 GATATTTGGG
* * * *
43785961 TGATATGTGTGCCAGTGTAAGACCTTGTCTGGGACATGACATCGGCCA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * **
43786009 TGATATGAGAGCCAGT-TAAGACCATGTTTGGAACATGGCATCGGTGA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * *
43786056 TGTTGTGAGAGCCGGTGTAAGACCATGTCTGGGACATGGCATC-GACA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * *
43786103 TTGATAT-ATGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCA
1 -TGATATGA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * * *
43786152 -CATTATGAGAGCCAATGTAAGGCCATGTCTAGGACATGACATC-GACA
1 TGA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * * *
43786199 TTGAGACGAGAGCTAGTGTAAGACCATGTCTAGGACATGGTATCAGCCA
1 -TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * *
43786248 TGATATGAGAGCCATTGTAAGACCATGTTTGGAACATGGTATCGGCGA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * *
43786296 TGTTGTGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAG-CA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * *
43786343 TTGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGACACA
1 -TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGC-CA
* ***
43786394 T--TATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATC-AATA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * *
43786439 TTGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-
1 -TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * *
43786487 TCGACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC
1 T-GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
43786531 AGCAATTTAC
Statistics
Matches: 421, Mismatches: 83, Indels: 36
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.00
46 2 0.00
47 47 0.11
48 360 0.86
49 8 0.02
50 1 0.00
51 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
Found at i:43791804 original size:26 final size:26
Alignment explanation
Indices: 43791764--43791871 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
43791754 TAGTACAAAT
43791764 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
43791790 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
43791816 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
43791842 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
43791868 TGAT
1 TGAT
43791872 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:43793534 original size:27 final size:27
Alignment explanation
Indices: 43793494--43793661 Score: 173
Period size: 27 Copynumber: 6.2 Consensus size: 27
43793484 AGGAAGCGTC
*
43793494 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* * * *
43793521 CTGGTGGCTTTGCCAC-TTATATTTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* ** *
43793548 CTGGTGGCTATGCCACGGTTATTTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
43793575 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
43793602 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
*
43793629 CTGGTGGCTCTACCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
43793656 CTGGTG
1 CTGGTG
43793662 ACTTCGTCAC
Statistics
Matches: 123, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
26 8 0.07
27 113 0.92
28 2 0.02
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:43793576 original size:54 final size:54
Alignment explanation
Indices: 43793494--43793661 Score: 232
Period size: 54 Copynumber: 3.1 Consensus size: 54
43793484 AGGAAGCGTC
* * *
43793494 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACTTATATTTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
** *
43793548 CTGGTGGCTATGCCACGGTTATTTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
43793602 CTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGGCTCTACCACA-ATATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGT-T
43793656 CTGGTG
1 CTGGTG
43793662 ACTTCGTCAC
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
53 13 0.13
54 88 0.87
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:43793658 original size:81 final size:81
Alignment explanation
Indices: 43793494--43793661 Score: 198
Period size: 81 Copynumber: 2.1 Consensus size: 81
43793484 AGGAAGCGTC
* * *
43793494 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACTTATATTTGTTCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACTAATATCTGTTCTGGTGGCTAT
* ** *
43793559 GCCACGGTTATTTGAT
66 ACCACGAATATCTGAT
* *
43793575 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCAC-AATATCTGTATCTGGTGGCT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACTAATATCTGT-TCTGGTGGCT
*
43793638 CTACCAC-AATATCTGTAT
64 ATACCACGAATATCTG-AT
43793656 CTGGTG
1 CTGGTG
43793662 ACTTCGTCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
80 14 0.19
81 60 0.81
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.37
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACTAATATCTGTTCTGGTGGCTAT
ACCACGAATATCTGAT
Found at i:43793672 original size:27 final size:26
Alignment explanation
Indices: 43793573--43793679 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 26
43793563 CGGTTATTTG
*
43793573 ATCTGGTGGCTCTGCCACATATATCTGT
1 ATCTGGTGGCTC-GTCACA-ATATCTGT
*
43793601 -TCTGGTGGCTCTGCCACAATATCTGT
1 ATCTGGTGGCTC-GTCACAATATCTGT
43793627 ATCTGGTGGCTC-TACCACAATATCTGT
1 ATCTGGTGGCTCGT--CACAATATCTGT
*
43793654 ATCTGGTGACTTCGTCACAATATCTG
1 ATCTGGTGGC-TCGTCACAATATCTG
43793680 GCAGCCTCAC
Statistics
Matches: 72, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
26 8 0.11
27 61 0.85
28 2 0.03
29 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (26 bp):
ATCTGGTGGCTCGTCACAATATCTGT
Found at i:43796276 original size:15 final size:15
Alignment explanation
Indices: 43796244--43796272 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43796234 TTTTTCTGTG
43796244 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
43796259 TTTATT-TGTGTGAA
1 TTTATTATGTGTGAA
43796273 ATTTTCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:43809714 original size:115 final size:116
Alignment explanation
Indices: 43809497--43809730 Score: 409
Period size: 115 Copynumber: 2.0 Consensus size: 116
43809487 AGAAAATGAA
*
43809497 TCATGGTTGTTAAACAAACAACTTTTGTGAAGTAGTTTTCATGAAAACCCTAACTAAAGACCATT
1 TCATGGTTGTTAAACAAACAACTTTTGTGAAATAGTTTTCATGAAAACCC--ACTAAAGACCATT
43809562 TTGCATAAGTTATAAATTCTGGGGTAAATGTGTGAAATGATGGGAATTGTGGGC
64 TTGCATAAGTTATAAATTCTGGGGTAAATGTGTGAAATGATGGGAA-TGTGGGC
*
43809616 TCATGGTTGTTAAACAAACAACTTTTGTGAAATAGTTTTCATGAAAA-CC-CTAAGGACCATTTT
1 TCATGGTTGTTAAACAAACAACTTTTGTGAAATAGTTTTCATGAAAACCCACTAAAGACCATTTT
43809679 GCATAAGTTATAAATTCTGGGGTAAATGTGTGAAATGATGGGAATGTGGGC
66 GCATAAGTTATAAATTCTGGGGTAAATGTGTGAAATGATGGGAATGTGGGC
43809730 T
1 T
43809731 GCTTCTAGTA
Statistics
Matches: 113, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
114 8 0.07
115 57 0.50
118 2 0.02
119 46 0.41
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (116 bp):
TCATGGTTGTTAAACAAACAACTTTTGTGAAATAGTTTTCATGAAAACCCACTAAAGACCATTTT
GCATAAGTTATAAATTCTGGGGTAAATGTGTGAAATGATGGGAATGTGGGC
Found at i:43810263 original size:48 final size:48
Alignment explanation
Indices: 43810191--43810747 Score: 554
Period size: 48 Copynumber: 11.6 Consensus size: 48
43810181 TATGTGTGCC
* * *
43810191 AGTGTAAGACCTTATCTGGGACATGGCATCGACCACGATATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATGATATGAGAGCT
* * * * * * *
43810239 AGTGTAAGACCATGTTTGGAACATGGCATCGGCGATGTTGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATGATATGAGAGCT
* * *
43810287 AGTGTAAGACCATGTCTGGGACATGGCATC-AGCATTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCA-TGATATGAGAGCT
* *
43810335 AGTGTAAGACCATGTCTGGGACATGGCATC-AGCCA-CATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CCATGA-TATGAGAGCT
** * *
43810383 AGTGTAAGACCATGTCTGGGACATGGCATC-AGGATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCA-TGATATGAGAGCT
** * * * *
43810431 AGTGTAAGACCATGTAAGGGACACGACATCGACCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATGATATGAGAGCT
* * * * *
43810479 AGTGTAAGACCATGTTTGGAACATGGCATCGACGATGTTGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATGATATGAGAGCT
* * * *
43810527 AGCGTAAGACCATGTCTGGGACATGGCATC-AGCATTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCA-TGATATGAGAGCT
* * * * *
43810575 AGTGTAAGATCATGTTTGGGACATGGCATCAACCA-CATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATGA-TATGAGAGCT
* * *
43810623 AGTGTAAGACCATGTCTAGGACATGGCATCGA-CATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCA-TGATATGAGAGCT
* * * *
43810671 AGTGTAAGACTATGTCTGGGACATGGCATCGACC-TCGACATGCGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCAT-GATATGAGAGCT
* *
43810719 AGTGTAAGACCATGTTTGGAACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
43810748 ATCCTCTTGT
Statistics
Matches: 411, Mismatches: 85, Indels: 26
0.79 0.16 0.05
Matches are distributed among these distances:
47 9 0.02
48 392 0.95
49 10 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCATGATATGAGAGCT
Found at i:43821361 original size:37 final size:37
Alignment explanation
Indices: 43821300--43821378 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
43821290 TTATTACGAA
* *
43821300 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
* *
43821337 GTCTTACCCGGACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCT-CCACACGAAGTCATCGG
43821374 GTCTT
1 GTCTT
43821379 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
Found at i:43821575 original size:47 final size:47
Alignment explanation
Indices: 43821497--43822209 Score: 1192
Period size: 47 Copynumber: 15.1 Consensus size: 47
43821487 CCCTTCGGGA
* * * * * * *
43821497 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
43821544 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43821591 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43821638 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43821685 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43821732 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43821779 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43821826 CTTATTACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43821873 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43821920 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43821969 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43822016 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43822063 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43822110 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43822159 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43822206 CTTA
1 CTTA
43822210 CTATCATTTC
Statistics
Matches: 637, Mismatches: 25, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
47 545 0.86
49 92 0.14
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43821969 original size:190 final size:190
Alignment explanation
Indices: 43821552--43822209 Score: 1230
Period size: 190 Copynumber: 3.5 Consensus size: 190
43821542 GCCCCGTCAC
43821552 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
* *
43821617 TCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCCATTA
66 TCATCACATCGGCCATTAGGCCTTATTACACATATACACTTTCACATTCATCACATCGGCTATTA
* *
43821682 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--
131 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
43821740 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
*
43821805 TCATCACATCGGCTATTAGGCCTTATTACACATATACACTTTCACATTCATCACATCGGCTATTA
66 TCATCACATCGGCCATTAGGCCTTATTACACATATACACTTTCACATTCATCACATCGGCTATTA
43821870 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
131 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
43821930 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
* *
43821995 TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
66 TCATCACATCGGCCATTAGGCCTTATTACACATATACACTTTCACATTCATCACATCGGCTATTA
43822060 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
131 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
43822120 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
43822185 TCATCACATCGGCCATTAGGCCTTA
66 TCATCACATCGGCCATTAGGCCTTA
43822210 CTATCATTTC
Statistics
Matches: 459, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
188 182 0.40
190 277 0.60
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (190 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
TCATCACATCGGCCATTAGGCCTTATTACACATATACACTTTCACATTCATCACATCGGCTATTA
GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
Found at i:43828027 original size:11 final size:12
Alignment explanation
Indices: 43828005--43828038 Score: 61
Period size: 11 Copynumber: 2.9 Consensus size: 12
43827995 TAGGTTTCCA
43828005 AAAATAGAAATG
1 AAAATAGAAATG
43828017 AAAAT-GAAATG
1 AAAATAGAAATG
43828028 AAAATAGAAAT
1 AAAATAGAAAT
43828039 TTATAATCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.18
Consensus pattern (12 bp):
AAAATAGAAATG
Found at i:43828219 original size:26 final size:26
Alignment explanation
Indices: 43828182--43828239 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
43828172 TTTTTTTCAC
* *
43828182 AATTTTAGTAGGGGAAAAATCATCAA
1 AATTTTACTAGGGGAAAAAGCATCAA
* *
43828208 AATTTTACTAGGGGTAAAAGCGTCAA
1 AATTTTACTAGGGGAAAAAGCATCAA
43828234 AATTTT
1 AATTTT
43828240 GCTTGGGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (26 bp):
AATTTTACTAGGGGAAAAAGCATCAA
Found at i:43845838 original size:21 final size:22
Alignment explanation
Indices: 43845814--43845856 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
43845804 CCTATTCTGA
* *
43845814 TTTAGAAAAATCATTAA-AAAT
1 TTTACAAAAATAATTAAGAAAT
43845835 TTTACAAAAATAATTAAGAAAT
1 TTTACAAAAATAATTAAGAAAT
43845857 ATAGTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (22 bp):
TTTACAAAAATAATTAAGAAAT
Found at i:43852251 original size:22 final size:22
Alignment explanation
Indices: 43852223--43852267 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
43852213 ATTGGAAGTT
43852223 AGAAAAATTGTTGAGGATAAGC
1 AGAAAAATTGTTGAGGATAAGC
43852245 AGAAAAATTGTTGAGGATAAGC
1 AGAAAAATTGTTGAGGATAAGC
43852267 A
1 A
43852268 ATGAATGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.27, T:0.22
Consensus pattern (22 bp):
AGAAAAATTGTTGAGGATAAGC
Found at i:43857590 original size:46 final size:45
Alignment explanation
Indices: 43857533--43857703 Score: 164
Period size: 46 Copynumber: 3.7 Consensus size: 45
43857523 CACTCTCATA
*
43857533 GCCGATGCATGTCCTAGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTCGAG
* * * * *
43857579 GCCGATGCATGTCCCAGATATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTCGTCTCGAG
** * * * *
43857625 GCTAATGCCATGTCCTAGACATGATCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTGGCT-TCGT-CTCGAG
*
43857673 GCCGATGCATGTCCCAGACATTTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
43857704 AGCTGACAAT
Statistics
Matches: 99, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
46 52 0.53
47 27 0.27
48 19 0.19
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTCGAG
Found at i:43864764 original size:46 final size:43
Alignment explanation
Indices: 43864660--43864869 Score: 181
Period size: 46 Copynumber: 4.6 Consensus size: 43
43864650 TATCTGTGTT
*
43864660 GATGCCATGTCCCAGACATAGTCTTACACTGACACTCTCATTGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACACTCTCATGGCC
*
43864705 GATGCATGTCCCAGACATGTCTTACACTGGCTTACTTCTCGA-GGCC
1 GATGCATGTCCCAGACATGTCTTACACTGAC--AC-TCTC-ATGGCC
* * *
43864751 GATGCATGCCCCAGACATGTCTTACACTAGCACTCGTCTCAAT-GCT
1 GATGCATGTCCCAGACATGTCTTACACT-G-ACAC-TCTC-ATGGCC
* * * *
43864797 AATGACATGTCCCAGACATGGTCTTACACTAACTCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACACTC-TCA--TGGCC
*
43864845 GATGCATGTCCCATACATGTCTTAC
1 GATGCATGTCCCAGACATGTCTTAC
43864870 TCTAGCTCAC
Statistics
Matches: 137, Mismatches: 15, Indels: 25
0.77 0.08 0.14
Matches are distributed among these distances:
43 12 0.09
44 14 0.10
45 9 0.07
46 57 0.42
47 29 0.21
48 16 0.12
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (43 bp):
GATGCATGTCCCAGACATGTCTTACACTGACACTCTCATGGCC
Found at i:43864845 original size:94 final size:91
Alignment explanation
Indices: 43864606--43864875 Score: 253
Period size: 94 Copynumber: 2.9 Consensus size: 91
43864596 TGGGTGCAGG
* * **
43864606 TGCTGATGCCATGTCCCATACATGGTCTTACAC-AAGCTCTAGCATATCTGTGTTGATGCCATGT
1 TGCTGATG-CATGTCCCAGACATGGTCTTACACTAA-CTCT--CATATGTG-GCCGATG-CATGT
*
43864670 CCCAGACATAGTCTTACACT-G-ACACTCTCAT
60 CCCAGACAT-GTCTTACACTAGCACACTCTCAA
* ** * * * *
43864701 TGCCGATGCATGTCCCAGACAT-GTCTTACACTGGCT-TACTTCTCGAGGCCGATGCATGCCCCA
1 TGCTGATGCATGTCCCAGACATGGTCTTACACTAACTCT-CATAT-GTGGCCGATGCATGTCCCA
*
43864764 GACATGTCTTACACTAGCACTCGTCTCAA
64 GACATGTCTTACACTAGCACAC-TCTCAA
*
43864793 TGCTAATGACATGTCCCAGACATGGTCTTACACTAACTCTCATAATGTGGCCGATGCATGTCCCA
1 TGCTGATG-CATGTCCCAGACATGGTCTTACACTAACTCTCAT-ATGTGGCCGATGCATGTCCCA
* *
43864858 TACATGTCTTACTCTAGC
64 GACATGTCTTACACTAGC
43864876 TCACAATAAC
Statistics
Matches: 142, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
89 10 0.07
90 14 0.10
91 11 0.08
92 13 0.09
93 25 0.18
94 60 0.42
95 9 0.06
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (91 bp):
TGCTGATGCATGTCCCAGACATGGTCTTACACTAACTCTCATATGTGGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCACACTCTCAA
Found at i:43879145 original size:25 final size:24
Alignment explanation
Indices: 43879123--43879235 Score: 61
Period size: 25 Copynumber: 4.6 Consensus size: 24
43879113 CAGCTCGTGA
43879123 GAGCTTACCAATTCTTAACTCGTAG
1 GAGCTTACCAATTC-TAACTCGTAG
* * *
43879148 GAGCTTACCGATTGC-AGCTCAT-G
1 GAGCTTACCAATT-CTAACTCGTAG
* * *
43879171 AGAGCTTACCGATTCTCAATTCGTAT
1 -GAGCTTACCAATTCT-AACTCGTAG
* *
43879197 GAGCTTACTAATT-TACAGCTCGTAA
1 GAGCTTACCAATTCTA-A-CTCGTAG
* *
43879222 GAGCATACCGATTC
1 GAGCTTACCAATTC
43879236 ATGGCTTATT
Statistics
Matches: 66, Mismatches: 14, Indels: 15
0.69 0.15 0.16
Matches are distributed among these distances:
23 3 0.05
24 20 0.30
25 42 0.64
26 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (24 bp):
GAGCTTACCAATTCTAACTCGTAG
Found at i:43879175 original size:49 final size:49
Alignment explanation
Indices: 43879103--43879204 Score: 150
Period size: 49 Copynumber: 2.1 Consensus size: 49
43879093 TCATTAGGGA
* *
43879103 TTACCCATTGCAGCTCGTGAGAGCTTACCAATTCTTAACTCGTAGGAGC
1 TTACCCATTGCAGCTCATGAGAGCTTACCAATTCTCAACTCGTAGGAGC
* * * *
43879152 TTACCGATTGCAGCTCATGAGAGCTTACCGATTCTCAATTCGTATGAGC
1 TTACCCATTGCAGCTCATGAGAGCTTACCAATTCTCAACTCGTAGGAGC
43879201 TTAC
1 TTAC
43879205 TAATTTACAG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (49 bp):
TTACCCATTGCAGCTCATGAGAGCTTACCAATTCTCAACTCGTAGGAGC
Found at i:43879180 original size:24 final size:24
Alignment explanation
Indices: 43879103--43879184 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 24
43879093 TCATTAGGGA
*
43879103 TTACCCATTGCAGCTCGTGAGAGC
1 TTACCGATTGCAGCTCGTGAGAGC
* *
43879127 TTACCAATT-CTTAACTCGT-AGGAGC
1 TTACCGATTGC--AGCTCGTGA-GAGC
*
43879152 TTACCGATTGCAGCTCATGAGAGC
1 TTACCGATTGCAGCTCGTGAGAGC
43879176 TTACCGATT
1 TTACCGATT
43879185 CTCAATTCGT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
23 1 0.02
24 27 0.56
25 19 0.40
26 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (24 bp):
TTACCGATTGCAGCTCGTGAGAGC
Found at i:43886939 original size:49 final size:49
Alignment explanation
Indices: 43886864--43886996 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 49
43886854 GTCATTGGGA
* * *
43886864 TTACCGATTGCAACTCATGAGAGCTTACCAATTTTCAGA-TAGTATGAGC
1 TTACCGATTGCAGCTCGTGAGAGCTTACCAATTCTCA-ACTAGTATGAGC
* ** *
43886913 TTACCGATTGCAGCTCGTGAGGGCTTACTGATTCTCAACTCGTATGAGC
1 TTACCGATTGCAGCTCGTGAGAGCTTACCAATTCTCAACTAGTATGAGC
* * *
43886962 TTACCGATTTACAGCTTGTGAGAGCATACCAATTC
1 TTACCGA-TTGCAGCTCGTGAGAGCTTACCAATTC
43886997 ATGTCTCGTT
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
48 1 0.01
49 47 0.68
50 21 0.30
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (49 bp):
TTACCGATTGCAGCTCGTGAGAGCTTACCAATTCTCAACTAGTATGAGC
Found at i:43886986 original size:25 final size:24
Alignment explanation
Indices: 43886864--43886991 Score: 89
Period size: 25 Copynumber: 5.2 Consensus size: 24
43886854 GTCATTGGGA
* * *
43886864 TTACCGATTGCAACTCATGAGAGC
1 TTACCGATTTCAGCTCGTGAGAGC
* * *
43886888 TTACCAATTTTCAGATAGT-ATGAGC
1 TTACCGA-TTTCAGCTCGTGA-GAGC
* *
43886913 TTACCGATTGCAGCTCGTGAGGGC
1 TTACCGATTTCAGCTCGTGAGAGC
* *
43886937 TTACTGATTCTCAACTCGT-ATGAGC
1 TTACCGATT-TCAGCTCGTGA-GAGC
*
43886962 TTACCGATTTACAGCTTGTGAGAGC
1 TTACCGATTT-CAGCTCGTGAGAGC
*
43886987 ATACC
1 TTACC
43886992 AATTCATGTC
Statistics
Matches: 78, Mismatches: 19, Indels: 13
0.71 0.17 0.12
Matches are distributed among these distances:
24 28 0.36
25 49 0.63
26 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (24 bp):
TTACCGATTTCAGCTCGTGAGAGC
Found at i:43898003 original size:22 final size:22
Alignment explanation
Indices: 43897978--43898027 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
43897968 CTCACAAGCT
43897978 CGTGTGGACCAAGGGACACGCC
1 CGTGTGGACCAAGGGACACGCC
** *
43898000 CGTGT-GACCCTGGGACATGCC
1 CGTGTGGACCAAGGGACACGCC
43898021 CGTGTGG
1 CGTGTGG
43898028 GAGGCCGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.16, C:0.30, G:0.38, T:0.16
Consensus pattern (22 bp):
CGTGTGGACCAAGGGACACGCC
Found at i:43899861 original size:20 final size:20
Alignment explanation
Indices: 43899823--43899867 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
43899813 AGCACTTGTA
43899823 TTCATAAATTTTCAGAACTT
1 TTCATAAATTTTCAGAACTT
*
43899843 TTCATCAAATTTT-ATAACTT
1 TTCAT-AAATTTTCAGAACTT
43899863 TTCAT
1 TTCAT
43899868 TTTAGTCCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAATTTTCAGAACTT
Found at i:43911593 original size:15 final size:17
Alignment explanation
Indices: 43911567--43911600 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
43911557 TATTTAATTA
43911567 TTTATCATCTTTT-AAT
1 TTTATCATCTTTTCAAT
43911583 TTTATCA-CTTTTCAAT
1 TTTATCATCTTTTCAAT
43911599 TT
1 TT
43911601 AGTCTTTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATCATCTTTTCAAT
Found at i:43912015 original size:14 final size:14
Alignment explanation
Indices: 43911996--43912024 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
43911986 CATCTATGGT
43911996 CTTATACCATATAC
1 CTTATACCATATAC
43912010 CTTATACCATATAC
1 CTTATACCATATAC
43912024 C
1 C
43912025 ATGCTACCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (14 bp):
CTTATACCATATAC
Found at i:43915879 original size:28 final size:28
Alignment explanation
Indices: 43915848--43915913 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
43915838 CCATCACAGA
* *
43915848 AACAGTATCAGGTGGGCCTTAGCCCAAT
1 AACAGAATCAGGTGGGCCTAAGCCCAAT
* *
43915876 AACAGAACCAAGTGGGCCTAAGCCCAAT
1 AACAGAATCAGGTGGGCCTAAGCCCAAT
43915904 -ACAGAATCAG
1 AACAGAATCAG
43915914 TATCAGATGC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 8 0.25
28 24 0.75
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (28 bp):
AACAGAATCAGGTGGGCCTAAGCCCAAT
Found at i:43916341 original size:27 final size:27
Alignment explanation
Indices: 43916309--43916369 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
43916299 GGGCATACTC
*
43916309 GTCATTCTAACA-TACAGGGGTATTACG
1 GTCATT-TAACACTACAAGGGTATTACG
* *
43916336 GTCATTTTACACTACAAGGGTATTTCG
1 GTCATTTAACACTACAAGGGTATTACG
*
43916363 GTGATTT
1 GTCATTT
43916370 TACAAACTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.14
27 25 0.86
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (27 bp):
GTCATTTAACACTACAAGGGTATTACG
Found at i:43916370 original size:27 final size:27
Alignment explanation
Indices: 43916321--43916373 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
43916311 CATTCTAACA
*
43916321 TACAGGGGTATTACGGTCATTTTACAC
1 TACAAGGGTATTACGGTCATTTTACAC
* *
43916348 TACAAGGGTATTTCGGTGATTTTACA
1 TACAAGGGTATTACGGTCATTTTACA
43916374 AACTGGGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (27 bp):
TACAAGGGTATTACGGTCATTTTACAC
Found at i:43918065 original size:28 final size:28
Alignment explanation
Indices: 43918033--43918102 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
43918023 TATGGTACTC
*
43918033 AGTGTACGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
* *
43918061 AGTGTGTGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
43918089 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
43918103 CGAATGATTC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:43918561 original size:127 final size:127
Alignment explanation
Indices: 43918335--43918589 Score: 510
Period size: 127 Copynumber: 2.0 Consensus size: 127
43918325 CCTTGTGTTA
43918335 AATCGGCAATTGAATTTGTTCAATGCATTAAGTTGGCCAGGTATGTGATATATTCTTATGCATGT
1 AATCGGCAATTGAATTTGTTCAATGCATTAAGTTGGCCAGGTATGTGATATATTCTTATGCATGT
43918400 TAGATCGATTGGAATTGAATCATGAGTGTGAAATGAGAAGCATAGGTGAAAATGCCTATGTC
66 TAGATCGATTGGAATTGAATCATGAGTGTGAAATGAGAAGCATAGGTGAAAATGCCTATGTC
43918462 AATCGGCAATTGAATTTGTTCAATGCATTAAGTTGGCCAGGTATGTGATATATTCTTATGCATGT
1 AATCGGCAATTGAATTTGTTCAATGCATTAAGTTGGCCAGGTATGTGATATATTCTTATGCATGT
43918527 TAGATCGATTGGAATTGAATCATGAGTGTGAAATGAGAAGCATAGGTGAAAATGCCTATGTC
66 TAGATCGATTGGAATTGAATCATGAGTGTGAAATGAGAAGCATAGGTGAAAATGCCTATGTC
43918589 A
1 A
43918590 TATATGTGAG
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 128 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (127 bp):
AATCGGCAATTGAATTTGTTCAATGCATTAAGTTGGCCAGGTATGTGATATATTCTTATGCATGT
TAGATCGATTGGAATTGAATCATGAGTGTGAAATGAGAAGCATAGGTGAAAATGCCTATGTC
Found at i:43920272 original size:29 final size:28
Alignment explanation
Indices: 43920233--43920503 Score: 154
Period size: 29 Copynumber: 9.4 Consensus size: 28
43920223 CCGTAACCGA
43920233 GCACTGTGTGTGCAAGATCGATTGTTGAG
1 GCACTGTGTGTGCAAGATCG-TTGTTGAG
*** ****
43920262 GCACTGTGTGTGCGATTTTCGTAACCGA-
1 GCACTGTGTGTGC-AAGATCGTTGTTGAG
*
43920290 GCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCAAGATC-GTTGTTGAG
* **** *
43920319 GCACTGTGTGTGCAAGTTCCG-TAACCAA
1 GCACTGTGTGTGCAAGAT-CGTTGTTGAG
*
43920347 GCACTGTGTGTGCAAGATATGTTGTTGAG
1 GCACTGTGTGTGCAAGAT-CGTTGTTGAG
* * ** *
43920376 GCACTGTGTGTGCGAGTTCCGTAATCGA-
1 GCACTGTGTGTGCAAGAT-CGTTGTTGAG
*
43920404 GCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCAAGATC-GTTGTTGAG
* * **** *
43920433 GCACTGTGTGTGCGAGTTCCG-TAACCAA
1 GCACTGTGTGTGCAAGAT-CGTTGTTGAG
*
43920461 GCACTGTGTGTGCAAGATCGGTTGTTGGG
1 GCACTGTGTGTGCAAGATC-GTTGTTGAG
43920490 GCACTAAGTGTGTG
1 GCACT--GTGTGTG
43920504 AAATGAGATC
Statistics
Matches: 175, Mismatches: 55, Indels: 22
0.69 0.22 0.09
Matches are distributed among these distances:
27 4 0.02
28 78 0.45
29 80 0.46
30 6 0.03
31 7 0.04
ACGTcount: A:0.18, C:0.17, G:0.34, T:0.30
Consensus pattern (28 bp):
GCACTGTGTGTGCAAGATCGTTGTTGAG
Found at i:43920272 original size:57 final size:57
Alignment explanation
Indices: 43920203--43920503 Score: 467
Period size: 57 Copynumber: 5.2 Consensus size: 57
43920193 AAGTGAACAT
* *
43920203 AGGCACTGTGTGTGTGAGTTCCGTAACCGAGCACTGTGTGTGCAAGATCGATTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCAAGATCGGTTGTTG
* * *
43920260 AGGCACTGTGTGTGCGATTTTCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCAAGATCGGTTGTTG
* * **
43920317 AGGCACTGTGTGTGCAAGTTCCGTAACCAAGCACTGTGTGTGCAAGATATGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCAAGATCGGTTGTTG
* *
43920374 AGGCACTGTGTGTGCGAGTTCCGTAATCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCAAGATCGGTTGTTG
*
43920431 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCAAGATCGGTTGTTG
*
43920488 GGGCACTAAGTGTGTG
1 AGGCACT--GTGTGTG
43920504 AAATGAGATC
Statistics
Matches: 220, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
57 213 0.97
59 7 0.03
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.30
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCAAGATCGGTTGTTG
Found at i:43925462 original size:28 final size:28
Alignment explanation
Indices: 43925401--43925462 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
43925391 TCAGTTTACG
*
43925401 AAATATTGAGAATGACACTTAGTGTGCG
1 AAATATTGAGAATGACACTTAGTGTGCA
*
43925429 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAGTGTGCA
43925457 AAATAT
1 AAATAT
43925463 CGAATGATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAGTGTGCA
Found at i:43925921 original size:127 final size:127
Alignment explanation
Indices: 43925695--43925949 Score: 510
Period size: 127 Copynumber: 2.0 Consensus size: 127
43925685 CCTTGTGTTA
43925695 AATCGGCAATTGAATTTGTTCAATGCATTAAGTTGGCCAGGTATGTGATATATTCTTATGCATGT
1 AATCGGCAATTGAATTTGTTCAATGCATTAAGTTGGCCAGGTATGTGATATATTCTTATGCATGT
43925760 TAGATCGATTGGAATTGAATCATGAGTGTGAAATGAGAAGCATAGGTGAAAATGCCTATGTC
66 TAGATCGATTGGAATTGAATCATGAGTGTGAAATGAGAAGCATAGGTGAAAATGCCTATGTC
43925822 AATCGGCAATTGAATTTGTTCAATGCATTAAGTTGGCCAGGTATGTGATATATTCTTATGCATGT
1 AATCGGCAATTGAATTTGTTCAATGCATTAAGTTGGCCAGGTATGTGATATATTCTTATGCATGT
43925887 TAGATCGATTGGAATTGAATCATGAGTGTGAAATGAGAAGCATAGGTGAAAATGCCTATGTC
66 TAGATCGATTGGAATTGAATCATGAGTGTGAAATGAGAAGCATAGGTGAAAATGCCTATGTC
43925949 A
1 A
43925950 TATATGTGAG
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 128 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (127 bp):
AATCGGCAATTGAATTTGTTCAATGCATTAAGTTGGCCAGGTATGTGATATATTCTTATGCATGT
TAGATCGATTGGAATTGAATCATGAGTGTGAAATGAGAAGCATAGGTGAAAATGCCTATGTC
Found at i:43933535 original size:104 final size:105
Alignment explanation
Indices: 43933355--43933622 Score: 423
Period size: 104 Copynumber: 2.6 Consensus size: 105
43933345 TAACCGTTAT
* * **
43933355 TGGTGGATCTCGCACTTAGCATCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
43933420 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAACAACCCCCTTTTCACATTTCAAAGATA
*
43933459 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
43933524 AATCAGCACATAACAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAACAACCCCCTTTTCACATTTCAAAGATA
* * **
43933564 TGGTGGATCA-CGCACATAGCACCACCAATGAATCAGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
43933623 TTATATACAA
Statistics
Matches: 151, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
104 80 0.53
105 70 0.46
106 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (105 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAACAACCCCCTTTTCACATTTCAAAGATA
Found at i:43933983 original size:29 final size:29
Alignment explanation
Indices: 43933950--43934013 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
43933940 TAATCCACCA
43933950 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
43933979 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
43934009 CCCAA
1 CCCAA
43934014 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:43933987 original size:30 final size:30
Alignment explanation
Indices: 43933957--43934013 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
43933947 CCACCCAACT
43933957 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
43933986 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
43934014 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:43936014 original size:17 final size:16
Alignment explanation
Indices: 43936006--43936055 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
43935996 TTCATTTAAT
43936006 TATAATATTAATATAA
1 TATAATATTAATATAA
*
43936022 TATAATAATAATATAA
1 TATAATATTAATATAA
43936038 TATAATA-TAATATAA
1 TATAATATTAATATAA
43936053 TAT
1 TAT
43936056 TATTTTCTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 11 0.33
16 22 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAATATTAATATAA
Found at i:43936024 original size:5 final size:5
Alignment explanation
Indices: 43936006--43936055 Score: 82
Period size: 5 Copynumber: 9.6 Consensus size: 5
43935996 TTCATTTAAT
43936006 TATAA TATTAA TATAA TATAA TAATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TA-TAA TATAA TATAA T-ATAA TATAA TATAA TATAA TATAA TAT
43936056 TATTTTCTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 33 0.77
6 10 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:43937146 original size:85 final size:85
Alignment explanation
Indices: 43937003--43937173 Score: 306
Period size: 85 Copynumber: 2.0 Consensus size: 85
43936993 TGTAACTTAA
**
43937003 ACCATCAACATATAAACTATTAACATAACAAACTTTATATACCAATATCTTGATCTATACTCAAC
1 ACCATCAACATATAAACTATTAACATAACAAACTTTATATACCAATATCTCAATCTATACTCAAC
*
43937068 CTTTTTTATTAAAATTAGGT
66 CTTTTTGATTAAAATTAGGT
*
43937088 ACCATTAACATATAAACTATTAACATAACAAACTTTATATACCAATATCTCAATCTATACTCAAC
1 ACCATCAACATATAAACTATTAACATAACAAACTTTATATACCAATATCTCAATCTATACTCAAC
43937153 CTTTTTGATTAAAATTAGGT
66 CTTTTTGATTAAAATTAGGT
43937173 A
1 A
43937174 TGTTCATCTA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.36
Consensus pattern (85 bp):
ACCATCAACATATAAACTATTAACATAACAAACTTTATATACCAATATCTCAATCTATACTCAAC
CTTTTTGATTAAAATTAGGT
Found at i:43946881 original size:99 final size:100
Alignment explanation
Indices: 43946703--43946940 Score: 320
Period size: 99 Copynumber: 2.4 Consensus size: 100
43946693 TAGTCAAAGC
* * * ** *
43946703 TATCTGGTACGCATAGTAGCCTGCA-TATAGTACTACACATGCAACCAATTATCTGGTACACGTA
1 TATCCGGTACACATAGTAGCCTGCACT-TAGTACTACACACGCAACCAACCATCTGATACACGTA
43946767 GTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
65 GTAGCCTGCACTTAGTACTACACACGTGATCACAAT
* **
43946801 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCAACC-AACCATCTGATACACGTA
*
43946866 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
65 GTAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * *
43946902 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
43946941 TGCGACCTCA
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
98 38 0.31
99 45 0.37
100 1 0.01
101 38 0.31
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (100 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCAACCAACCATCTGATACACGTAG
TAGCCTGCACTTAGTACTACACACGTGATCACAAT
Found at i:43946883 original size:50 final size:49
Alignment explanation
Indices: 43946703--43946940 Score: 307
Period size: 49 Copynumber: 4.8 Consensus size: 49
43946693 TAGTCAAAGC
* * * **
43946703 TATCTGGTACGCATAGTAGCCTGCA-TATAGTACTACACATGCAACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACT-TAGTACTACACACGTGACCAAT
43946752 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
43946801 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * *
43946851 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * * *
43946902 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
43946941 TGCGACCTCA
Statistics
Matches: 167, Mismatches: 18, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
49 87 0.52
50 44 0.26
51 35 0.21
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:43947279 original size:14 final size:16
Alignment explanation
Indices: 43947249--43947286 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
43947239 ATTTACGTAA
43947249 CATATATCACATATTT
1 CATATATCACATATTT
43947265 CATATATCAC-T-TTT
1 CATATATCACATATTT
*
43947279 CATGTATC
1 CATATATC
43947287 TTCATTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
15 1 0.05
16 10 0.48
ACGTcount: A:0.32, C:0.21, G:0.03, T:0.45
Consensus pattern (16 bp):
CATATATCACATATTT
Found at i:43955060 original size:25 final size:24
Alignment explanation
Indices: 43955019--43955101 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 24
43955009 CCTTGCAATA
* *
43955019 CACCTCACAATCTCACCTCGTTGTAC
1 CACCTCACAA-CACACCTC-TAGTAC
* *
43955045 CACCTCGCAACACACCTCACAGTAC
1 CACCTCACAACACACCTC-TAGTAC
*
43955070 CACCTCACAACACACCTCTCGCTAC
1 CACCTCACAACACACCTCTAG-TAC
43955095 CACCTCA
1 CACCTCA
43955102 TGATCTCTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
24 1 0.02
25 38 0.79
26 9 0.19
ACGTcount: A:0.28, C:0.48, G:0.06, T:0.18
Consensus pattern (24 bp):
CACCTCACAACACACCTCTAGTAC
Found at i:43955608 original size:29 final size:31
Alignment explanation
Indices: 43955560--43955623 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
43955550 TTTATAGTTA
*
43955560 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
43955591 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
43955620 TTTA
1 TTTA
43955624 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:43955612 original size:8 final size:8
Alignment explanation
Indices: 43955601--43955625 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
43955591 TTTAATAAGA
43955601 TATTTTAT
1 TATTTTAT
43955609 TATTTTAT
1 TATTTTAT
43955617 TATTTTAT
1 TATTTTAT
43955625 T
1 T
43955626 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:43960411 original size:21 final size:22
Alignment explanation
Indices: 43960378--43960418 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
43960368 TTCATTTATG
*
43960378 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
43960399 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
43960419 CAATACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:43960706 original size:40 final size:39
Alignment explanation
Indices: 43960595--43960706 Score: 100
Period size: 40 Copynumber: 2.8 Consensus size: 39
43960585 CCTGTATCTC
* * * *
43960595 ACACCGGCACAAGGCCTGCTAGATTCAAAGTCTGATTTTAT
1 ACACCAGCACAAGG-CTGCTAG-GTCAAAGCCTGATTTAAT
* *
43960636 ACACCAGCAATAAGCCTGCTAGG-CATAAGCCTGATTTAAT
1 ACACCAGC-ACAAGGCTGCTAGGTCA-AAGCCTGATTTAAT
* *
43960676 TCACCAGCACAAGGCTTCTAGGCTCAAAGCC
1 ACACCAGCACAAGGCTGCTAGG-TCAAAGCC
43960707 CGAATATCAC
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
39 13 0.23
40 24 0.42
41 16 0.28
42 4 0.07
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (39 bp):
ACACCAGCACAAGGCTGCTAGGTCAAAGCCTGATTTAAT
Found at i:43960867 original size:28 final size:28
Alignment explanation
Indices: 43960834--43960896 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
43960824 TCGACATTTT
43960834 GCACACTAAGTGTCATTCTAAATATCTC
1 GCACACTAAGTGTCATTCTAAATATCTC
* *
43960862 GCACACTAAGTGTCATTCTCAATATTTC
1 GCACACTAAGTGTCATTCTAAATATCTC
*
43960890 GTACACT
1 GCACACT
43960897 GAGTCCCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.33
Consensus pattern (28 bp):
GCACACTAAGTGTCATTCTAAATATCTC
Found at i:43965312 original size:96 final size:95
Alignment explanation
Indices: 43965180--43965841 Score: 1060
Period size: 96 Copynumber: 6.9 Consensus size: 95
43965170 TTAGGATTCT
* *
43965180 ATGTGATGGATGTGAACA-TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
43965244 GTG-TATATATGTGATAAGGCCGAATGGCCA
65 GTGATATATATGTGATAAGGCCTAATGGCCG
43965274 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
43965339 AGTGTATATATATGTGATAAGGCCTAATGGCCG
64 AGTG-ATATATATGTGATAAGGCCTAATGGCCG
* *
43965372 ATATGATGAATGTGAAAGTGTATATATATGTGATAAGGACTAATGGCCAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
43965437 AGTGTATATATATGTGATAAGGCCTAATGGCCG
64 AGTG-ATATATATGTGATAAGGCCTAATGGCCG
*
43965470 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
43965535 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TG-ATATATATGTGATAAGGCCTAATGGCCG
* *
43965566 ATATGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATATGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
43965631 AGTGTATATATATGTGATAAGGCCTAATGGCCG
64 AGTG-ATATATATGTGATAAGGCCTAATGGCCG
* *
43965664 ATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
43965729 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TG-ATATATATGTGATAAGGCCTAATGGCCG
* * *
43965760 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAGG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
*
43965825 TG-TATAAATGTGATAAG
66 TGATATATATGTGATAAG
43965842 TCCCGAAGGG
Statistics
Matches: 541, Mismatches: 20, Indels: 14
0.94 0.03 0.02
Matches are distributed among these distances:
93 1 0.00
94 31 0.06
96 275 0.51
98 234 0.43
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (95 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
TGATATATATGTGATAAGGCCTAATGGCCG
Found at i:43965319 original size:49 final size:49
Alignment explanation
Indices: 43965180--43965841 Score: 1071
Period size: 49 Copynumber: 13.8 Consensus size: 49
43965170 TTAGGATTCT
*
43965180 ATGTGATGGATGTGAACA-TG--TATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
43965227 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
43965274 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
43965323 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * *
43965372 ATATGATGAATGTGAAAGTGTATATATATGTGATAAGGACTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
43965421 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
43965470 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
43965517 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
43965566 ATATGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
43965615 ATATGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * *
43965664 ATATGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
43965711 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
43965760 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
43965807 ATGTGATGAATGTGAAGGTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
43965842 TCCCGAAGGG
Statistics
Matches: 581, Mismatches: 25, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 206 0.35
48 1 0.00
49 373 0.64
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
Found at i:43965433 original size:194 final size:193
Alignment explanation
Indices: 43965200--43965841 Score: 1112
Period size: 194 Copynumber: 3.3 Consensus size: 193
43965190 TGTGAACATG
*
43965200 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGC
* * *
43965264 CGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGA
66 CTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGA
43965329 TGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTA
129 TGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTA
*
43965394 TATATATGTGATAAGGACTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGG
43965459 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
65 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
43965524 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTA
130 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTA
*
43965588 TATATATGTGATAAGGCCTAATGGCCAATATGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGG
*
43965653 CCTAATGGCCGATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
65 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
*
43965718 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
130 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTA
* * * *
43965780 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAGGTG-TATAAATGTGATAAG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAG
43965842 TCCCGAAGGG
Statistics
Matches: 432, Mismatches: 14, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
190 14 0.03
192 43 0.10
194 330 0.76
196 45 0.10
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (193 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGC
CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTA
Found at i:43965966 original size:37 final size:37
Alignment explanation
Indices: 43965915--43966030 Score: 196
Period size: 37 Copynumber: 3.1 Consensus size: 37
43965905 TATTATCACT
43965915 GATTAATGTCCGGGTAAGACCCGATGACTACGTGTGGA
1 GATT-ATGTCCGGGTAAGACCCGATGACTACGTGTGGA
43965953 GATTATGTCCGGGTAAGACCCGATGACTACGTGTGGA
1 GATTATGTCCGGGTAAGACCCGATGACTACGTGTGGA
* * *
43965990 GATTTTGTCCGGGTAAGACCCGATAACTTCGTGTGGA
1 GATTATGTCCGGGTAAGACCCGATGACTACGTGTGGA
43966027 GATT
1 GATT
43966031 TCGTCTGAGC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
37 71 0.95
38 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
GATTATGTCCGGGTAAGACCCGATGACTACGTGTGGA
Found at i:43967403 original size:25 final size:25
Alignment explanation
Indices: 43967374--43967421 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43967364 TTATAATATG
** *
43967374 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
43967399 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
43967422 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:43967627 original size:25 final size:26
Alignment explanation
Indices: 43967554--43967625 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
43967544 GAGGAAGTGC
* *
43967554 AAAAGGGC-TTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTATCA
43967579 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTTGCCCCAGTTTATCA
*
43967605 AAAAGGGCTTTTGCCTCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
43967626 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
25 8 0.19
26 35 0.81
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTATCA
Found at i:43967638 original size:25 final size:26
Alignment explanation
Indices: 43967553--43967638 Score: 92
Period size: 26 Copynumber: 3.4 Consensus size: 26
43967543 GGAGGAAGTG
*
43967553 CAAAAG-GGC-TTTGCCCCAGTTTAC
1 CAAAAGAGGCTTTTGCCCCAGTTTAT
43967577 CGAAAAG-GGCTTTTGCCCCAGTTTAT
1 C-AAAAGAGGCTTTTGCCCCAGTTTAT
*
43967603 CAAAA-AGGGCTTTTGCCTCAG-TTAT
1 CAAAAGA-GGCTTTTGCCCCAGTTTAT
*
43967628 TAAAAGAGGCT
1 CAAAAGAGGCT
43967639 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
24 1 0.02
25 24 0.44
26 29 0.54
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (26 bp):
CAAAAGAGGCTTTTGCCCCAGTTTAT
Found at i:43967883 original size:31 final size:31
Alignment explanation
Indices: 43967845--43967928 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
43967835 TTGTTACAGT
*
43967845 AAAGGCTTCGACCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
43967876 AAAGGCTTCGGCCCAGTGATATGAGTAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
43967907 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
43967929 CTGAGATTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:43972827 original size:40 final size:40
Alignment explanation
Indices: 43972783--43973009 Score: 370
Period size: 40 Copynumber: 5.7 Consensus size: 40
43972773 GCTACTTGCT
*
43972783 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
43972823 CAAATGCCTTC-GGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
43972862 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
43972902 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
43972942 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
43972981 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
43973010 CATCCGAATA
Statistics
Matches: 175, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
38 1 0.01
39 71 0.41
40 102 0.58
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:43972881 original size:79 final size:80
Alignment explanation
Indices: 43972750--43973005 Score: 380
Period size: 79 Copynumber: 3.2 Consensus size: 80
43972740 AAACCAAGTA
* * * *
43972750 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
43972813 GTAACTCACACAAATG
65 GTAACTCACACAAATG
43972829 CCTTC-GGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
*
43972893 TAACTCGCACAAATG
66 TAACTCACACAAATG
*
43972908 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG-AATTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TA
*
43972971 GTCACT-AGCACAAATG
65 GTAACTCA-CACAAATG
43972987 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
43973006 TTATCATCCG
Statistics
Matches: 164, Mismatches: 8, Indels: 10
0.90 0.04 0.05
Matches are distributed among these distances:
78 8 0.05
79 114 0.70
80 42 0.26
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCACACAAATG
Found at i:43972982 original size:119 final size:119
Alignment explanation
Indices: 43972783--43973009 Score: 393
Period size: 119 Copynumber: 1.9 Consensus size: 119
43972773 GCTACTTGCT
*
43972783 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGACTTAGCCCGGA
*
43972848 TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
66 TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
43972902 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGACTTAGCCCGGA
*
43972967 -ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
66 TA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
43973010 CATCCGAATA
Statistics
Matches: 102, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
118 1 0.01
119 101 0.99
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGACTTAGCCCGGA
TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:43980957 original size:40 final size:40
Alignment explanation
Indices: 43980913--43981138 Score: 370
Period size: 40 Copynumber: 5.7 Consensus size: 40
43980903 GCTACTTGCT
43980913 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
43980953 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
43980993 C-AATGCCTTC-GGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
43981031 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
43981071 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
43981110 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
43981139 CATCCGAATA
Statistics
Matches: 174, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
38 29 0.17
39 52 0.30
40 92 0.53
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:43981026 original size:78 final size:79
Alignment explanation
Indices: 43980880--43981134 Score: 383
Period size: 79 Copynumber: 3.2 Consensus size: 79
43980870 AAACCAAGTA
* * * *
43980880 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTC-GGACTTAGCCCGGTTATA
43980943 GTAACTCGCACAAATG
64 GTAACTCGCACAAATG
43980959 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATGCCTTCGGACTTAGCCCGGTTATAGT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGTTATAGT
43981023 AACTCGCACAAATG
66 AACTCGCACAAATG
* *
43981037 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGG-AATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGTTA-TAG
* *
43981101 TCACTAGCACAAATG
65 TAACTCGCACAAATG
43981116 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
43981135 TTATCATCCG
Statistics
Matches: 164, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
78 70 0.43
79 78 0.48
80 16 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGTTATAGT
AACTCGCACAAATG
Found at i:43985303 original size:17 final size:17
Alignment explanation
Indices: 43985264--43985306 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
43985254 CTTATCAAGA
*
43985264 TAAATATTAGATTATAT
1 TAAATATTAGAATATAT
*
43985281 TTAATATTA-AATATAT
1 TAAATATTAGAATATAT
43985297 TAAAATATTA
1 T-AAATATTA
43985307 TTATTTTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
TAAATATTAGAATATAT
Found at i:43985574 original size:16 final size:17
Alignment explanation
Indices: 43985536--43985577 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
43985526 ATTTATAAGA
* *
43985536 TAAATATTTAATTTAAT
1 TAAATATTAAATCTAAT
*
43985553 TTAATATTAAATCT-AT
1 TAAATATTAAATCTAAT
43985569 TAAATATTA
1 TAAATATTA
43985578 TTATTTTTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATATTAAATCTAAT
Found at i:43986007 original size:9 final size:9
Alignment explanation
Indices: 43985993--43986017 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
43985983 TCATATTGAT
43985993 TTTAATTAA
1 TTTAATTAA
43986002 TTTAATTAA
1 TTTAATTAA
43986011 TTTAATT
1 TTTAATT
43986018 TTACTTGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTAATTAA
Found at i:43987987 original size:26 final size:26
Alignment explanation
Indices: 43987948--43988470 Score: 301
Period size: 26 Copynumber: 20.1 Consensus size: 26
43987938 TTTAATTAAT
* * **
43987948 AGCTCGCACACATGCATTGTAATAAC
1 AGCTCACATACATGCAAGGTAATAAC
*
43987974 ATCTCACATACATGCAAGGTAATAAC
1 AGCTCACATACATGCAAGGTAATAAC
43988000 AGCTCACATACATGCAAGGTAATAAC
1 AGCTCACATACATGCAAGGTAATAAC
* * *
43988026 AGCTCGCACACATGCATGGTAATAAC
1 AGCTCACATACATGCAAGGTAATAAC
* * *
43988052 ATCTCATATACATGCAAGGTAATAAA
1 AGCTCACATACATGCAAGGTAATAAC
** ** * ** *
43988078 AATTTGCACACATGCATCGTAATAAT
1 AGCTCACATACATGCAAGGTAATAAC
* * *
43988104 AGCTCACACACATGTATGGTAATAAC
1 AGCTCACATACATGCAAGGTAATAAC
* *
43988130 AGCTCATACACATGCAAGGTAATAAC
1 AGCTCACATACATGCAAGGTAATAAC
* * *
43988156 AGCTCGCACACATGCATAGG-AATAAT
1 AGCTCACATACATGCA-AGGTAATAAC
** *
43988182 AGCTTGCATTCATGCAAGGTAATAAC
1 AGCTCACATACATGCAAGGTAATAAC
* * *
43988208 AACTCGCATACATGCAAGGTAATAAT
1 AGCTCACATACATGCAAGGTAATAAC
* * *
43988234 AGCTCAC-GACATGCATA-ATAATAAT
1 AGCTCACATACATGCA-AGGTAATAAC
* * *
43988259 AACAT-ACATTCATGCAAGGTAATAAT
1 AGC-TCACATACATGCAAGGTAATAAC
* * *
43988285 AACTCGA-ACACATGTGTAAGGTAATAAC
1 AGCTC-ACATACA--TGCAAGGTAATAAC
* * * *
43988313 AACTCGA-ACACATGCATGATAATAAC
1 AGCTC-ACATACATGCAAGGTAATAAC
* * ** *
43988339 AACTCACATACAAGTGAGGTAATAAT
1 AGCTCACATACATGCAAGGTAATAAC
** *
43988365 AGCTTGCACACATGCATA-GTAATAAC
1 AGCTCACATACATGCA-AGGTAATAAC
** * * *
43988391 AAAATGCA-A-ACATGCATGTTAATAAT
1 -AGCT-CACATACATGCAAGGTAATAAC
* *
43988417 AGCTCGCATACATGCATGGTAAT-AC
1 AGCTCACATACATGCAAGGTAATAAC
* * *
43988442 TAGCTCGCACACATGCATGGTAATAAC
1 -AGCTCACATACATGCAAGGTAATAAC
43988469 AG
1 AG
43988471 TTAGCATACC
Statistics
Matches: 390, Mismatches: 88, Indels: 38
0.76 0.17 0.07
Matches are distributed among these distances:
24 1 0.00
25 28 0.07
26 327 0.84
27 10 0.03
28 24 0.06
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (26 bp):
AGCTCACATACATGCAAGGTAATAAC
Found at i:43988004 original size:52 final size:52
Alignment explanation
Indices: 43987948--43988470 Score: 342
Period size: 52 Copynumber: 10.0 Consensus size: 52
43987938 TTTAATTAAT
* * *
43987948 AGCTCGCACACATGCATTGTAATAACATCTCACATACATGCAAGGTAATAAC
1 AGCTCGCACACATGCATGGTAATAACAGCTCACACACATGCAAGGTAATAAC
* * * * *
43988000 AGCTCACATACATGCAAGGTAATAACAGCTCGCACACATGCATGGTAATAAC
1 AGCTCGCACACATGCATGGTAATAACAGCTCACACACATGCAAGGTAATAAC
* ** * * * ** ** ** *
43988052 ATCTCATATACATGCAAGGTAATAAAAATTTGCACACATGCATCGTAATAAT
1 AGCTCGCACACATGCATGGTAATAACAGCTCACACACATGCAAGGTAATAAC
* * *
43988104 AGCTCACACACATGTATGGTAATAACAGCTCATACACATGCAAGGTAATAAC
1 AGCTCGCACACATGCATGGTAATAACAGCTCACACACATGCAAGGTAATAAC
* ** **
43988156 AGCTCGCACACATGCATAGG-AATAATAGCTTGCATTCATGCAAGGTAATAAC
1 AGCTCGCACACATGCAT-GGTAATAACAGCTCACACACATGCAAGGTAATAAC
* * * * * * *
43988208 AACTCGCATACATGCAAGGTAATAATAGCTCAC-GACATGCATA-ATAATAAT
1 AGCTCGCACACATGCATGGTAATAACAGCTCACACACATGCA-AGGTAATAAC
* * ** * * * *
43988259 AACAT-ACATTCATGCAAGGTAATAATAACTCGA-ACACATGTGTAAGGTAATAAC
1 AGC-TCGCACACATGCATGGTAATAACAGCTC-ACACACA--TGCAAGGTAATAAC
* * * * * * ** *
43988313 AACTCGAACACATGCATGATAATAACAACTCACATACAAGTGAGGTAATAAT
1 AGCTCGCACACATGCATGGTAATAACAGCTCACACACATGCAAGGTAATAAC
* * ** * * *
43988365 AGCTTGCACACATGCATAGTAATAACAAAATGCA-A-ACATGCATGTTAATAAT
1 AGCTCGCACACATGCATGGTAATAAC-AGCT-CACACACATGCAAGGTAATAAC
* * *
43988417 AGCTCGCATACATGCATGGTAAT-ACTAGCTCGCACACATGCATGGTAATAAC
1 AGCTCGCACACATGCATGGTAATAAC-AGCTCACACACATGCAAGGTAATAAC
43988469 AG
1 AG
43988471 TTAGCATACC
Statistics
Matches: 371, Mismatches: 85, Indels: 30
0.76 0.17 0.06
Matches are distributed among these distances:
50 1 0.00
51 45 0.12
52 279 0.75
53 9 0.02
54 37 0.10
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (52 bp):
AGCTCGCACACATGCATGGTAATAACAGCTCACACACATGCAAGGTAATAAC
Found at i:43988037 original size:78 final size:78
Alignment explanation
Indices: 43987944--43988248 Score: 362
Period size: 78 Copynumber: 3.9 Consensus size: 78
43987934 TACTTTTAAT
* *
43987944 TAATAGCTCGCACACATGCATTGTAATAACATCTCACATACATGCAAGGTAATAACAGCTCACAT
1 TAATAGCTCGCACACATGCATGGTAATAACATCTCACATACATGCAAGGTAATAACAGCTCACAC
43988009 ACATGCAAGGTAA
66 ACATGCAAGGTAA
* * * ** **
43988022 TAACAGCTCGCACACATGCATGGTAATAACATCTCATATACATGCAAGGTAATAAAAATTTGCAC
1 TAATAGCTCGCACACATGCATGGTAATAACATCTCACATACATGCAAGGTAATAACAGCTCACAC
**
43988087 ACATGCATCGTAA
66 ACATGCAAGGTAA
* * * * * *
43988100 TAATAGCTCACACACATGTATGGTAATAACAGCTCATACACATGCAAGGTAATAACAGCTCGCAC
1 TAATAGCTCGCACACATGCATGGTAATAACATCTCACATACATGCAAGGTAATAACAGCTCACAC
43988165 ACATGCATAGG-AA
66 ACATGCA-AGGTAA
* ** * * * * *
43988178 TAATAGCTTGCATTCATGCAAGGTAATAACAACTCGCATACATGCAAGGTAATAATAGCTCAC-G
1 TAATAGCTCGCACACATGCATGGTAATAACATCTCACATACATGCAAGGTAATAACAGCTCACAC
43988242 ACATGCA
66 ACATGCA
43988249 TAATAATAAT
Statistics
Matches: 191, Mismatches: 35, Indels: 3
0.83 0.15 0.01
Matches are distributed among these distances:
77 7 0.04
78 183 0.96
79 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.23
Consensus pattern (78 bp):
TAATAGCTCGCACACATGCATGGTAATAACATCTCACATACATGCAAGGTAATAACAGCTCACAC
ACATGCAAGGTAA
Found at i:43994459 original size:44 final size:46
Alignment explanation
Indices: 43994404--43994500 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 46
43994394 ATTACAACAT
* *
43994404 CATTCCATTCAACCAAACACA-AGAA-TA-TCATTATAGTTCTATTC
1 CATTACATTCAACCAAACA-ATAGAATTACTCATTATAGCTCTATTC
* *
43994448 CATTACATTCAACCAAACAATTGAATTACTGATTATAGCTCTATTC
1 CATTACATTCAACCAAACAATAGAATTACTCATTATAGCTCTATTC
43994494 CATTACA
1 CATTACA
43994501 GCTCTATTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
43 1 0.02
44 21 0.46
45 2 0.04
46 22 0.48
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (46 bp):
CATTACATTCAACCAAACAATAGAATTACTCATTATAGCTCTATTC
Found at i:43994503 original size:16 final size:16
Alignment explanation
Indices: 43994479--43994580 Score: 141
Period size: 16 Copynumber: 6.4 Consensus size: 16
43994469 TGAATTACTG
* *
43994479 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCT
43994495 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCT
*
43994511 ATTACAACTCTATTCT
1 ATTACAGCTCTATTCT
*
43994527 ATTACAGCTATATTCT
1 ATTACAGCTCTATTCT
* *
43994543 GTTACAACTCTATTCT
1 ATTACAGCTCTATTCT
*
43994559 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCT
43994575 ATTACA
1 ATTACA
43994581 ATGAACCAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 75 1.00
ACGTcount: A:0.28, C:0.25, G:0.05, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCT
Found at i:43994531 original size:32 final size:32
Alignment explanation
Indices: 43994486--43994581 Score: 156
Period size: 32 Copynumber: 3.0 Consensus size: 32
43994476 CTGATTATAG
*
43994486 CTCTATTCCATTACAGCTCTATTCTATTACAA
1 CTCTATTCTATTACAGCTCTATTCTATTACAA
* *
43994518 CTCTATTCTATTACAGCTATATTCTGTTACAA
1 CTCTATTCTATTACAGCTCTATTCTATTACAA
*
43994550 CTCTATTCTATTACAGCTCTATTCCATTACAA
1 CTCTATTCTATTACAGCTCTATTCTATTACAA
43994582 TGAACCAAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.28, C:0.26, G:0.04, T:0.42
Consensus pattern (32 bp):
CTCTATTCTATTACAGCTCTATTCTATTACAA
Found at i:43999824 original size:2 final size:2
Alignment explanation
Indices: 43999817--43999861 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
43999807 GTGAGTGTTT
43999817 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43999859 TA T
1 TA T
43999862 TTTTAATTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:44001590 original size:5 final size:5
Alignment explanation
Indices: 44001580--44001605 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
44001570 GACAAGAAGG
44001580 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
44001606 AAGGGCCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:44005069 original size:5 final size:5
Alignment explanation
Indices: 44005059--44005107 Score: 98
Period size: 5 Copynumber: 9.8 Consensus size: 5
44005049 AATGGACATG
44005059 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
44005108 TATTCTAGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:44007143 original size:17 final size:19
Alignment explanation
Indices: 44007101--44007144 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
44007091 ATGAAATTTT
*
44007101 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
44007120 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
44007138 AA-TATTA
1 AATTATTA
44007145 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:44007245 original size:3 final size:3
Alignment explanation
Indices: 44007237--44007267 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
44007227 TATTTATAAA
*
44007237 ATT ATT ATT ATT ATA ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
44007268 GATAGGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:44007254 original size:15 final size:15
Alignment explanation
Indices: 44007236--44007265 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
44007226 ATATTTATAA
44007236 AATTATTATTATTAT
1 AATTATTATTATTAT
44007251 AATTATTATTATTAT
1 AATTATTATTATTAT
44007266 TAGATAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:44017826 original size:92 final size:93
Alignment explanation
Indices: 44017657--44017827 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
44017647 GGATGGTTGA
* *
44017657 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44017722 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
44017750 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44017814 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
44017828 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 41 0.55
93 34 0.45
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:44019200 original size:40 final size:40
Alignment explanation
Indices: 44019145--44019267 Score: 176
Period size: 40 Copynumber: 3.1 Consensus size: 40
44019135 GCTGCGTTAC
*
44019145 AGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCG
1 AGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
* * *
44019185 AGTTACCAAATCCGGGCTAAGTCCCGAAGGCATTGGTGCC
1 AGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
* *
44019225 AGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAGCG
1 AGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
44019265 AGT
1 AGT
44019268 AGCTATATCC
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 71 0.97
41 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
AGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
Found at i:44024140 original size:44 final size:46
Alignment explanation
Indices: 44024030--44024144 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 46
44024020 GATTCCCGAA
* **
44024030 ATAATGCCATAGTATATTTCAACTATGATCTTGATCATTTTTCGAT
1 ATAATGCCATAGTATATTTCAACTAGGATCTTGATCACGTTTCGAT
* * * * *
44024076 ATAATGCCGTAGTATCTTTCAACTAGGGTCTT-A-CCCGTTTCGGT
1 ATAATGCCATAGTATATTTCAACTAGGATCTTGATCACGTTTCGAT
* *
44024120 TTAATGCCATAGTGTATTTCAACTA
1 ATAATGCCATAGTATATTTCAACTA
44024145 TGGTTTTTTT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 28 0.49
45 1 0.02
46 28 0.49
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (46 bp):
ATAATGCCATAGTATATTTCAACTAGGATCTTGATCACGTTTCGAT
Found at i:44027760 original size:24 final size:22
Alignment explanation
Indices: 44027732--44027778 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
44027722 CATCGACTTT
*
44027732 ATAATATTTAGATTTACAGTTTAA
1 ATAATATATAGATTTA-A-TTTAA
*
44027756 ATAATATATAGCTTTAATTTAA
1 ATAATATATAGATTTAATTTAA
44027778 A
1 A
44027779 AACTTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 1 0.05
24 14 0.67
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (22 bp):
ATAATATATAGATTTAATTTAA
Found at i:44032800 original size:16 final size:15
Alignment explanation
Indices: 44032759--44032806 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
44032749 AAGCTAATTG
* *
44032759 TAAAATAAATAAATA
1 TAAAAAAAATAAAAA
*
44032774 TATAAAAAATAAAAA
1 TAAAAAAAATAAAAA
44032789 TAAAACAAAATAAAAA
1 TAAAA-AAAATAAAAA
44032805 TA
1 TA
44032807 TTAAATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAAAAAAATAAAAA
Done.