Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 220 of 295
Found at i:75734044 original size:66 final size:65
Alignment explanation
Indices: 75733938--75734070 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 65
75733928 CGAGAGTGTG
* *
75733938 TTCTTTGATTAACTGCCTTATGGGTACTCTTGAATAAGAATTGGCAGGTAATTGAATCAGTACAC
1 TTCTTTGATTAAATGCCTTATGGGTACTCTTGAATAAGAATTGGCAGGTAATTGAATCA-CACAC
75734003 C
65 C
*
75734004 TTCTTTGATTAAATGCCTTATGGGTACTCTTGAATAAGAATTGGCGGGTAATTGAATCACACACC
1 TTCTTTGATTAAATGCCTTATGGGTACTCTTGAATAAGAATTGGCAGGTAATTGAATCACACACC
75734069 TT
1 TT
75734071 GCGTGAACTA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
65 7 0.11
66 57 0.89
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (65 bp):
TTCTTTGATTAAATGCCTTATGGGTACTCTTGAATAAGAATTGGCAGGTAATTGAATCACACACC
Found at i:75738037 original size:26 final size:26
Alignment explanation
Indices: 75738004--75738054 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
75737994 AAAAGTCTAA
75738004 AAATATTTGATGTCACAGAAAGACTG
1 AAATATTTGATGTCACAGAAAGACTG
*
75738030 AAATATTTGATGTCATAGAAAGACT
1 AAATATTTGATGTCACAGAAAGACT
75738055 TGAATTTACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (26 bp):
AAATATTTGATGTCACAGAAAGACTG
Found at i:75742332 original size:28 final size:28
Alignment explanation
Indices: 75742300--75742383 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
75742290 AACTTCGATC
75742300 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
75742328 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
75742350 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
75742378 ACGTGT
1 ACGTGT
75742384 ATCAGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:75742373 original size:50 final size:49
Alignment explanation
Indices: 75742196--75742441 Score: 276
Period size: 49 Copynumber: 5.0 Consensus size: 49
75742186 TCTATTGTGA
* * * *
75742196 GGTCATGTGTGTAGTACTAAGTGTAGGCTAGTACGTGTACCGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
75742245 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * **
75742295 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
75742345 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * * * *
75742395 GGTCGCATGAGTAGTACTAAGTGCAAGCAACTATGCGTACCAGATAA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
75742442 CTTTGGCTAC
Statistics
Matches: 166, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 78 0.47
50 50 0.30
51 38 0.23
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:75747816 original size:43 final size:43
Alignment explanation
Indices: 75747711--75747829 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 43
75747701 GAAGTCCAAA
* * * *
75747711 CTCGTTGAGTGGTCCATGTTC-GTAAGGTATG-TAGCATCCGAG
1 CTCGTTGAGTGGTCCAAGTTCATTATGG-ATGCGAGCATCCGAG
** * **
75747753 CTCGTTGAAAGATCTGAGTTCATTATGGATGCGAGCATCCGAG
1 CTCGTTGAGTGGTCCAAGTTCATTATGGATGCGAGCATCCGAG
*
75747796 CTCGTTGAGTGGTCCAAGTTCATGATGGATGCGA
1 CTCGTTGAGTGGTCCAAGTTCATTATGGATGCGA
75747830 TTCATGTAAC
Statistics
Matches: 60, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
42 18 0.30
43 42 0.70
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.29
Consensus pattern (43 bp):
CTCGTTGAGTGGTCCAAGTTCATTATGGATGCGAGCATCCGAG
Found at i:75757648 original size:25 final size:25
Alignment explanation
Indices: 75757614--75757666 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
75757604 TGCTTAAGAG
75757614 ATTACAACTCAATTATACAAAATAT
1 ATTACAACTCAATTATACAAAATAT
75757639 ATTACAACTCAATTATACAAAATAT
1 ATTACAACTCAATTATACAAAATAT
75757664 ATT
1 ATT
75757667 TACATATCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (25 bp):
ATTACAACTCAATTATACAAAATAT
Found at i:75758326 original size:6 final size:6
Alignment explanation
Indices: 75758317--75758341 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
75758307 CCAATACATT
75758317 ATATAC ATATAC ATATAC ATATAC A
1 ATATAC ATATAC ATATAC ATATAC A
75758342 AATGCCGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAC
Found at i:75759479 original size:41 final size:43
Alignment explanation
Indices: 75759384--75759544 Score: 125
Period size: 41 Copynumber: 3.7 Consensus size: 43
75759374 ATATCAAACA
* * * * *
75759384 ATGCCAACGTCCCAGACGTGGTCTTACATGCTATCTCAT--ATCG
1 ATGCCAATGTCCCAGACG-GGTCTTACACG-AACCACATACATCG
* * * *
75759427 ATGCCATTGTCCTAGACAGGGTCTTACACGAATCA-A-ATA-CG
1 ATGCCAATGTCCCAGAC-GGGTCTTACACGAACCACATACATCG
* *
75759468 ATGCCAATGTCCCAGACTTGGTCTTACATGTAACCACATACATCG
1 ATGCCAATGTCCCAGAC-GGGTCTTACACG-AACCACATACATCG
*
75759513 ATGCCAACGTCCCAGACGTGGTCTTACACGAA
1 ATGCCAATGTCCCAGACG-GGTCTTACACGAA
75759545 AACACATATC
Statistics
Matches: 94, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
41 28 0.30
42 8 0.09
43 25 0.27
44 5 0.05
45 28 0.30
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGGGTCTTACACGAACCACATACATCG
Found at i:75759525 original size:45 final size:44
Alignment explanation
Indices: 75759384--75759540 Score: 164
Period size: 45 Copynumber: 3.6 Consensus size: 44
75759374 ATATCAAACA
*
75759384 ATGCCAACGTCCCAGACGTGGTCTTACATGCT-ATCTCAT-ATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG-TAATCACATAATCG
** * * *
75759427 ATGCCATTGTCCTAGACAG-GGTCTTACACG-AATCAAAT-A-CG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCACATAATCG
* * *
75759468 ATGCCAATGTCCCAGACTTGGTCTTACATGTAACCACATACATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATA-ATCG
75759513 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
75759541 CGAAAACACA
Statistics
Matches: 93, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 27 0.29
42 12 0.13
43 24 0.26
44 2 0.02
45 28 0.30
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATAATCG
Found at i:75759740 original size:23 final size:24
Alignment explanation
Indices: 75759705--75759750 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
75759695 ATTATACATT
*
75759705 TCAACATATATAAC-TCGTATTTAA
1 TCAACATAAATAACATC-TATTTAA
75759729 TCAA-ATAAATAACATCTATTTA
1 TCAACATAAATAACATCTATTTA
75759751 CTTATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (24 bp):
TCAACATAAATAACATCTATTTAA
Found at i:75760154 original size:15 final size:15
Alignment explanation
Indices: 75760131--75760161 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
75760121 TCAAAAATTC
75760131 CAATACAAAACATAT
1 CAATACAAAACATAT
*
75760146 CAATCCAAAACATAT
1 CAATACAAAACATAT
75760161 C
1 C
75760162 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:75768041 original size:27 final size:26
Alignment explanation
Indices: 75768011--75768070 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
75768001 TGTACTGGTG
*
75768011 GCTTTGCCACATATACTGTTACTAGCA
1 GCTTTGCCACAT-TACTGATACTAGCA
*** *
75768038 GCTTTGTTGCATTACTGATACTGGCA
1 GCTTTGCCACATTACTGATACTAGCA
75768064 GCTTTGC
1 GCTTTGC
75768071 TGCGATATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (26 bp):
GCTTTGCCACATTACTGATACTAGCA
Found at i:75768085 original size:26 final size:26
Alignment explanation
Indices: 75768056--75768105 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
75768046 GCATTACTGA
75768056 TACTGGCAGCTTTGCTGCGATATTAT
1 TACTGGCAGCTTTGCTGCGATATTAT
*
75768082 TACTGGCAGTTTTGCTGCGATATT
1 TACTGGCAGCTTTGCTGCGATATT
75768106 GGTGTGTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGATATTAT
Found at i:75768959 original size:15 final size:15
Alignment explanation
Indices: 75768936--75768966 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
75768926 TCAAAAATTC
75768936 CAATACAAAACATAT
1 CAATACAAAACATAT
*
75768951 CAATCCAAAACATAT
1 CAATACAAAACATAT
75768966 C
1 C
75768967 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:75771208 original size:46 final size:47
Alignment explanation
Indices: 75771063--75771283 Score: 188
Period size: 47 Copynumber: 4.7 Consensus size: 47
75771053 CACTTGCGTG
* * *
75771063 AGCCAGTGTAAGA-CATGTCTGGGACATGC-TCAGC-C-ACATTATGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCTCGAGATGAT-A
* * **
75771107 GAGCCAGTGTAAGACCATGTCCGGGACATGCATTGGCCTCGA-AACATA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGCATCGG-CTCGAGATGATA
75771155 AGCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATGAT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCT-CGAGATGATA
* * * * * * *
75771201 AGTCAGTGTAAGACCATGTCTAGGATAAGGCATCGACTTGAGATG-TG
1 AGCCAGTGTAAGACCATGTCTGGGA-CATGCATCGGCTCGAGATGATA
* *
75771248 AGCCAGTGTAAGACCGTGTTTGGGACATGGCATCGG
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGG
75771284 TATCTTACCA
Statistics
Matches: 143, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
45 15 0.10
46 51 0.36
47 61 0.43
48 11 0.08
49 4 0.03
50 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCTCGAGATGATA
Found at i:75771259 original size:93 final size:93
Alignment explanation
Indices: 75771059--75771283 Score: 231
Period size: 93 Copynumber: 2.4 Consensus size: 93
75771049 GGGTCACTTG
* *
75771059 CGTGAGCCAGTGTAAGACATGTCTGGGACATGC-TCAGCCACATTATGAGAGCCAGTGTAAGACC
1 CGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACC
* * * * *
75771123 ATGTCCGGGACATGCATTGGCCTCGAAA
66 ATGTCCAGGAAAGGCATTCGACTCGAAA
* * * * *
75771151 CATAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGAC
1 CGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGCCAGTGTAAGAC
* * *
75771215 CATGTCTAGGATAAGGCA-TCGACTTGAGA
65 CATGTCCAGGA-AAGGCATTCGACTCGAAA
* * *
75771244 TGTGAGCCAGTGTAAGACCGTGTTTGGGACATGGCATCGG
1 CGTGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
75771284 TATCTTACCA
Statistics
Matches: 108, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
92 31 0.29
93 53 0.49
94 17 0.16
95 7 0.06
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (93 bp):
CGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACC
ATGTCCAGGAAAGGCATTCGACTCGAAA
Found at i:75772930 original size:23 final size:23
Alignment explanation
Indices: 75772904--75772962 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
75772894 GTCTTCATAG
**
75772904 AATATGCCATAAAGGTATCACAA
1 AATATGCCATAAAGACATCACAA
** * *
75772927 AATACACCATAACGACATCACAG
1 AATATGCCATAAAGACATCACAA
75772950 AATATGCCATAAA
1 AATATGCCATAAA
75772963 TGCTTCATCG
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.49, C:0.22, G:0.10, T:0.19
Consensus pattern (23 bp):
AATATGCCATAAAGACATCACAA
Found at i:75779855 original size:27 final size:27
Alignment explanation
Indices: 75779825--75780025 Score: 251
Period size: 27 Copynumber: 7.4 Consensus size: 27
75779815 TGAGTCCGCT
* * * *
75779825 CACTCAGTGCTATATAATCAACTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* *
75779852 CACTTAGTGCTACGTAATCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
75779879 CACTTAGTGCTACATAGTCAAACTCGCA
1 CACTTAGTGCTACATAGTCAAA-TCGCA
** * *
75779907 CACTTAGTGCCGCATGGTCAATTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* **
75779934 CACTTAGTGC-ATCATATTCATTTCGCA
1 CACTTAGTGCTA-CATAGTCAAATCGCA
*
75779961 CACTTAGTGCAACATAGTCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
75779988 CACTTAGTGCTACATAGTCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
75780015 CACTTAGTGCT
1 CACTTAGTGCT
75780026 GTACAATTTA
Statistics
Matches: 153, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 129 0.84
28 24 0.16
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (27 bp):
CACTTAGTGCTACATAGTCAAATCGCA
Found at i:75787912 original size:27 final size:27
Alignment explanation
Indices: 75787882--75788050 Score: 169
Period size: 27 Copynumber: 6.2 Consensus size: 27
75787872 TGAGTCCGCT
* *
75787882 CACTCAGTGCTATATAATCAACTCGCA
1 CACTTAGTGCTACATAATCAACTCGCA
* *
75787909 CACTTAGTGCTACGTAATCAAATCGCA
1 CACTTAGTGCTACATAATCAACTCGCA
*
75787936 CACTTAGTGCTACATAGTCAAACTCGCA
1 CACTTAGTGCTACATAATC-AACTCGCA
** ** *
75787964 CACTTAGTGCCGCATGGTCAATTCGCA
1 CACTTAGTGCTACATAATCAACTCGCA
* **
75787991 CACTTAGTGC-ATCATATTCATTTCGCA
1 CACTTAGTGCTA-CATAATCAACTCGCA
* * *
75788018 CACTTAGTGCAACATAGTCAAATCGCA
1 CACTTAGTGCTACATAATCAACTCGCA
75788045 CACTTA
1 CACTTA
75788051 ATTCAAATCG
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
27 97 0.80
28 24 0.20
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CACTTAGTGCTACATAATCAACTCGCA
Found at i:75788024 original size:82 final size:81
Alignment explanation
Indices: 75787899--75788050 Score: 225
Period size: 82 Copynumber: 1.9 Consensus size: 81
75787889 TGCTATATAA
* *
75787899 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
75787964 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
75787981 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
75788045 CACTTA
65 CACTTA
75788051 ATTCAAATCG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 12 0.19
82 51 0.81
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:75793516 original size:17 final size:17
Alignment explanation
Indices: 75793494--75793530 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
75793484 CTCAGTAAGT
75793494 CATAAGCTATGCACTAC
1 CATAAGCTATGCACTAC
75793511 CATAAGCTATGCACTAC
1 CATAAGCTATGCACTAC
75793528 CAT
1 CAT
75793531 CCATCAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.30, G:0.11, T:0.24
Consensus pattern (17 bp):
CATAAGCTATGCACTAC
Found at i:75793967 original size:27 final size:27
Alignment explanation
Indices: 75793937--75794114 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
75793927 ATATTGAGTC
* *
75793937 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
75793964 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
75793991 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
75794019 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
**
75794046 CGCACACTTAGTGCATCACAT--TCATTT
1 CGCACACTTAGTGC-T-ACATAATCAACT
* * *
75794073 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
75794100 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
75794115 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
25 4 0.03
27 98 0.77
28 23 0.18
29 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:75799851 original size:40 final size:40
Alignment explanation
Indices: 75799792--75800016 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
75799782 CGGATATAAC
* * *
75799792 CACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGGT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
* * *
75799831 CACTAGCATAAATGCCTTCGGGTCTTAGCCCGG-ATATAG-
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
75799870 CAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 C-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
75799911 AACTCGCACCAATGCCTTC-GGACTTAGCCCGGAATTAGT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
75799950 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAAT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
75799990 CACTAGCACAAATGTCTTCGGGACTTA
1 CACTCGCACAAATGCCTTCGGGACTTA
75800017 ACCCCGTTAG
Statistics
Matches: 167, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
39 46 0.28
40 119 0.71
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
Found at i:75799941 original size:79 final size:80
Alignment explanation
Indices: 75799768--75800016 Score: 310
Period size: 79 Copynumber: 3.1 Consensus size: 80
75799758 ACCCAAGTAT
* * * * * * *
75799768 CTTCGAGATTTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGG
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAG
*
75799830 TCACTAGCATAAATGC
65 TCACTAGCACAAATGC
*
75799846 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* * *
75799911 AACTCGCACCAATGC
66 CACTAGCACAAATGC
* *
75799926 CTTC-GGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAA
1 CTTCGGGACTTAGCCCGGATA-TAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
*
75799989 TCACTAGCACAAATGT
65 TCACTAGCACAAATGC
75800005 CTTCGGGACTTA
1 CTTCGGGACTTA
75800017 ACCCCGTTAG
Statistics
Matches: 147, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
78 11 0.07
79 88 0.60
80 46 0.31
81 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
CACTAGCACAAATGC
Found at i:75799999 original size:119 final size:119
Alignment explanation
Indices: 75799793--75800016 Score: 294
Period size: 119 Copynumber: 1.9 Consensus size: 119
75799783 GGATATAACC
* * * * *
75799793 ACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGTCTTA
1 ACTCGCACAAGGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTA
*
75799858 GCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
66 GCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
75799912 ACTCGCACCAATGCCTTC-GGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACT
1 ACTCGCA-CAAGGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGACT
* *
75799975 TAGCCCGGA-ATTAATC-ACTAGCACAAATGTCTTCGGGACTTA
64 TAGCCCGGATA-T-AGCAACTAGCACAAATGCCTTCGGGACTTA
75800017 ACCCCGTTAG
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
118 2 0.02
119 78 0.86
120 11 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (119 bp):
ACTCGCACAAGGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTA
GCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:75813948 original size:16 final size:15
Alignment explanation
Indices: 75813927--75813980 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
75813917 AAATAAAACT
*
75813927 TATTTTGTAAAAAAA
1 TATTTTTTAAAAAAA
75813942 TATTTTTTAAAAAAA
1 TATTTTTTAAAAAAA
* * *
75813957 CATTTTTATTAAGAAA
1 TATTTTT-TAAAAAAA
75813973 TATTTTTT
1 TATTTTTT
75813981 TTATTTCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
15 21 0.64
16 12 0.36
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (15 bp):
TATTTTTTAAAAAAA
Found at i:75818016 original size:2 final size:2
Alignment explanation
Indices: 75818011--75818045 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
75818001 AATTATTTTC
75818011 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
75818046 CTTTACTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:75818669 original size:19 final size:19
Alignment explanation
Indices: 75818632--75818670 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
75818622 TGGTAGTCTA
*
75818632 TTATTGGCTAGAATTTTTT
1 TTATTGGCTAGAATATTTT
* *
75818651 TTATTGGGTATAATATTTT
1 TTATTGGCTAGAATATTTT
75818670 T
1 T
75818671 GTGAAAAATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.59
Consensus pattern (19 bp):
TTATTGGCTAGAATATTTT
Found at i:75819035 original size:21 final size:21
Alignment explanation
Indices: 75818989--75819035 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
75818979 TTTCAATTAT
*
75818989 ATTTATTATTAACAAAATTTA
1 ATTTATTATTAACAAAATATA
* *
75819010 GTTTATTTTTAA-AAATATATA
1 ATTTATTATTAACAAA-ATATA
75819031 ATTTA
1 ATTTA
75819036 ACTTATTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTTATTATTAACAAAATATA
Found at i:75819082 original size:25 final size:24
Alignment explanation
Indices: 75819039--75819086 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
75819029 TAATTTAACT
*
75819039 TATTTATTTTTAAGTAATAATAATG
1 TATTTATTTTTAAATAAT-ATAATG
75819064 TATTTA-TTTTAAATAAATATAAT
1 TATTTATTTTTAAAT-AATATAAT
75819087 ATAATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (24 bp):
TATTTATTTTTAAATAATATAATG
Found at i:75819106 original size:29 final size:30
Alignment explanation
Indices: 75819053--75819112 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
75819043 TATTTTTAAG
* * *
75819053 TAATAATAATGTATTTATTTTAAATAAATA
1 TAATAATAATATATTTATCTCAAATAAATA
*
75819083 TAAT-ATAATATATTTATCTCAAATATATA
1 TAATAATAATATATTTATCTCAAATAAATA
75819112 T
1 T
75819113 GATTATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (30 bp):
TAATAATAATATATTTATCTCAAATAAATA
Found at i:75832605 original size:6 final size:6
Alignment explanation
Indices: 75832596--75832632 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
75832586 TGTTGGTTTG
75832596 GTTGCT GTTGCT GTTGCT GTTGCT GTTGCT GTTGCT G
1 GTTGCT GTTGCT GTTGCT GTTGCT GTTGCT GTTGCT G
75832633 CGGCGGCGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.16, G:0.35, T:0.49
Consensus pattern (6 bp):
GTTGCT
Found at i:75832907 original size:15 final size:15
Alignment explanation
Indices: 75832889--75832927 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
75832879 AAGAAATTGT
75832889 TGTTGTTGTTGCTGC
1 TGTTGTTGTTGCTGC
*
75832904 TGTTGTTTTTGCTGC
1 TGTTGTTGTTGCTGC
*
75832919 TGTTTTTGT
1 TGTTGTTGT
75832928 AAGAGAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.00, C:0.10, G:0.28, T:0.62
Consensus pattern (15 bp):
TGTTGTTGTTGCTGC
Found at i:75836772 original size:56 final size:57
Alignment explanation
Indices: 75836684--75836822 Score: 174
Period size: 56 Copynumber: 2.5 Consensus size: 57
75836674 TATCATACAG
* * * **
75836684 CAGGATTACCAGTCTAGGCTAAATCCTGTCTGT-AACATATGCTC-TAAGAGCTTTGT
1 CAGGATTACCAGTCCAGGCTAAATCCTGTCTGTGAA-AAATACTCTTAAGAGCTTAAT
* * *
75836740 CAGGATTACTAGTCCAGGCTAAATTCTTTCTGTGAAAAATACTCTTAAGAGCTTAAT
1 CAGGATTACCAGTCCAGGCTAAATCCTGTCTGTGAAAAATACTCTTAAGAGCTTAAT
*
75836797 CTGGATTACCAGTCCAGGCTAAATCC
1 CAGGATTACCAGTCCAGGCTAAATCC
75836823 AGACTTTAAC
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
56 35 0.50
57 35 0.50
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (57 bp):
CAGGATTACCAGTCCAGGCTAAATCCTGTCTGTGAAAAATACTCTTAAGAGCTTAAT
Found at i:75837423 original size:2 final size:2
Alignment explanation
Indices: 75837411--75837446 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
75837401 ATGAATATTC
* *
75837411 AT AT GT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75837447 TCCTCTTCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:75840584 original size:3 final size:3
Alignment explanation
Indices: 75840578--75840618 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
75840568 TCTTCTTCTT
*
75840578 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
75840619 TTGTTTAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:75859934 original size:37 final size:36
Alignment explanation
Indices: 75859876--75859945 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
75859866 TAATTTAATA
* *
75859876 TTAATTTAATAAAATATTATTAAGATAAGTATTAAAT
1 TTAATTTAATAAAATACTATTAAAATAA-TATTAAAT
*
75859913 TTAATTTAATATTAA-ACTATTAAAATAATATTA
1 TTAATTTAATA-AAATACTATTAAAATAATATTA
75859946 TTTTTGGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 5 0.17
37 22 0.76
38 2 0.07
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (36 bp):
TTAATTTAATAAAATACTATTAAAATAATATTAAAT
Found at i:75867478 original size:40 final size:40
Alignment explanation
Indices: 75867405--75867518 Score: 117
Period size: 40 Copynumber: 2.9 Consensus size: 40
75867395 AACACACTAG
* **
75867405 TTTGGCACCCAGTGCCTCATCGGATAATTCGAAGTAATGA
1 TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAATGA
* * *
75867445 TTTGACACCTAGTGTCTCATCGGCTAAACCGAAGTAA--A
1 TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAATGA
* * *
75867483 -TTGGCACCCAGTGCCTCATCGAATTAATCCGAAGTA
1 TTTGACACCCAGTGCCTCATCGGA-TAAACCGAAGTA
75867519 GTAAATTAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
37 18 0.30
38 12 0.20
40 31 0.51
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAATGA
Found at i:75884459 original size:10 final size:9
Alignment explanation
Indices: 75884427--75884461 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
75884417 AATTTTTTAA
*
75884427 TTAAACAAT
1 TTAAAAAAT
75884436 TTAAAAAAT
1 TTAAAAAAT
75884445 TTAAAAAAT
1 TTAAAAAAT
75884454 TATAAAAA
1 T-TAAAAA
75884462 GTATTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 18 0.75
10 6 0.25
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (9 bp):
TTAAAAAAT
Found at i:75886237 original size:34 final size:34
Alignment explanation
Indices: 75886194--75886266 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
75886184 TTGTGACCAG
75886194 CACTAGTTGGATAAACCGATGATTGTGAGCCCAA
1 CACTAGTTGGATAAACCGATGATTGTGAGCCCAA
* *
75886228 CACTAGTTGGATAAACCGATGATTGTGTGCCCAG
1 CACTAGTTGGATAAACCGATGATTGTGAGCCCAA
75886262 CACTA
1 CACTA
75886267 TTCAGACAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (34 bp):
CACTAGTTGGATAAACCGATGATTGTGAGCCCAA
Found at i:75890820 original size:15 final size:15
Alignment explanation
Indices: 75890802--75890832 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
75890792 TGATATGCAT
75890802 ATAATATATATACAC
1 ATAATATATATACAC
75890817 ATAATATATATACAC
1 ATAATATATATACAC
75890832 A
1 A
75890833 ATTATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAATATATATACAC
Found at i:75891225 original size:58 final size:58
Alignment explanation
Indices: 75891157--75891273 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
75891147 ATATAATTCA
* *
75891157 TCATGAATAAAGACAAAAGATGATAATTCTATATATATTCAACCAAAAACAGAAAATT
1 TCATGAATAAAGACAAAACATGATAATTCCATATATATTCAACCAAAAACAGAAAATT
*
75891215 TCATGAATAAAGACAAAACATGATAATTCCATATATATTCAACCACAAACAGAAAATT
1 TCATGAATAAAGACAAAACATGATAATTCCATATATATTCAACCAAAAACAGAAAATT
75891273 T
1 T
75891274 AAAACAAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.52, C:0.15, G:0.08, T:0.26
Consensus pattern (58 bp):
TCATGAATAAAGACAAAACATGATAATTCCATATATATTCAACCAAAAACAGAAAATT
Found at i:75891504 original size:4 final size:4
Alignment explanation
Indices: 75891495--75891524 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
75891485 TCAATTGATT
75891495 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
75891525 CTTCATCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:75893164 original size:24 final size:23
Alignment explanation
Indices: 75893113--75893165 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
75893103 TTTCCCTTAC
*
75893113 ATATT-ATAATTATCCTATTATA
1 ATATTAATAATTAACCTATTATA
75893135 ATTATTAATAATATAACCTA-TATA
1 A-TATTAATAAT-TAACCTATTATA
75893159 TATATTA
1 -ATATTA
75893166 TTCTCATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 1 0.04
23 4 0.15
24 14 0.54
25 7 0.27
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATTAATAATTAACCTATTATA
Found at i:75893553 original size:13 final size:14
Alignment explanation
Indices: 75893535--75893564 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
75893525 GAAAGTGCAA
75893535 AAAATAAA-AAAAT
1 AAAATAAATAAAAT
75893548 AAAATAAATAAAAT
1 AAAATAAATAAAAT
75893562 AAA
1 AAA
75893565 GATCACATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:75893556 original size:9 final size:9
Alignment explanation
Indices: 75893536--75893564 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
75893526 AAAGTGCAAA
75893536 AAATAAAA-
1 AAATAAAAT
75893544 AAATAAAAT
1 AAATAAAAT
75893553 AAATAAAAT
1 AAATAAAAT
75893562 AAA
1 AAA
75893565 GATCACATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (9 bp):
AAATAAAAT
Found at i:75894682 original size:96 final size:96
Alignment explanation
Indices: 75894518--75894709 Score: 359
Period size: 96 Copynumber: 2.0 Consensus size: 96
75894508 GAACTGCTTT
*
75894518 CCAGTGTTCTTTACAGGGATTTCCCATGTATCTGCTAACTGCACTGACTGCATATGATAAATCTG
1 CCAGTGTTCTTTACAGGGATTTCCCATGTATCTGCTAACTGCACTGACTACATATGATAAATCTG
75894583 GACATGAACAAACCATAGCATACATGAGATA
66 GACATGAACAAACCATAGCATACATGAGATA
75894614 CCAGTGTTCTTTACAGGGA-TTCACCATGTATCTGCTAACTGCACTGACTACATATGATAAATCT
1 CCAGTGTTCTTTACAGGGATTTC-CCATGTATCTGCTAACTGCACTGACTACATATGATAAATCT
75894678 GGACATGAACAAACCATAGCATACATGAGATA
65 GGACATGAACAAACCATAGCATACATGAGATA
75894710 TCCCACTGCA
Statistics
Matches: 94, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
95 3 0.03
96 91 0.97
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (96 bp):
CCAGTGTTCTTTACAGGGATTTCCCATGTATCTGCTAACTGCACTGACTACATATGATAAATCTG
GACATGAACAAACCATAGCATACATGAGATA
Found at i:75898086 original size:5 final size:5
Alignment explanation
Indices: 75898076--75898103 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
75898066 CAATTTATGA
75898076 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
75898104 GAACACAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:75899901 original size:31 final size:31
Alignment explanation
Indices: 75899824--75899885 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
75899814 GTTACAAAAT
* *
75899824 AGTCATTAAACTATTCGAAAGTTTTCATTTA
1 AGTCATTAAATTATTCAAAAGTTTTCATTTA
*
75899855 AGTCATTAAATTATTCAAAAGTTTTTATTTA
1 AGTCATTAAATTATTCAAAAGTTTTCATTTA
75899886 CATCATTGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (31 bp):
AGTCATTAAATTATTCAAAAGTTTTCATTTA
Found at i:75903949 original size:19 final size:20
Alignment explanation
Indices: 75903907--75903950 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
75903897 TTTTTAAGGT
* *
75903907 TAAAATGATAAATAGGTAAT
1 TAAAATGATAAATAAGTAAA
*
75903927 TAAAATGA-AATTAAGTAAA
1 TAAAATGATAAATAAGTAAA
75903946 TAAAA
1 TAAAA
75903951 ATAGAAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.27
Consensus pattern (20 bp):
TAAAATGATAAATAAGTAAA
Found at i:75904745 original size:38 final size:38
Alignment explanation
Indices: 75904702--75904780 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
75904692 TGAATCATGA
*
75904702 TGTTATTCTGGCCTT-GTGCCTAGCAGGCTTAGTGCCAG
1 TGTTATTCAGG-CTTAGTGCCTAGCAGGCTTAGTGCCAG
* *
75904740 TGTTATTCAGGCTTAGTGCCTAGCAGGCTTATTGCCGG
1 TGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCAG
75904778 TGT
1 TGT
75904781 AATAAAGGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 3 0.08
38 34 0.92
ACGTcount: A:0.14, C:0.22, G:0.29, T:0.35
Consensus pattern (38 bp):
TGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCAG
Found at i:75905489 original size:12 final size:12
Alignment explanation
Indices: 75905461--75905502 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
75905451 AACCACATGC
*
75905461 CCGTGTGACCAGT
1 CCGTGTG-CCAGG
75905474 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
75905486 CCGTGTGCTAGG
1 CCGTGTGCCAGG
75905498 CCGTG
1 CCGTG
75905503 CCAAACCTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 20 0.74
13 7 0.26
ACGTcount: A:0.10, C:0.31, G:0.38, T:0.21
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:75906127 original size:50 final size:50
Alignment explanation
Indices: 75906057--75906155 Score: 162
Period size: 50 Copynumber: 2.0 Consensus size: 50
75906047 ATGAGTAAAA
* *
75906057 CATGTCAAATTCAAAACAAATCATATGGGTAAAATCATAATACACCCATC
1 CATGCCAAAGTCAAAACAAATCATATGGGTAAAATCATAATACACCCATC
* *
75906107 CATGCCAAAGTCAAACCAAATCATATGGTTAAAATCATAATACACCCAT
1 CATGCCAAAGTCAAAACAAATCATATGGGTAAAATCATAATACACCCAT
75906156 TATCATTTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.23
Consensus pattern (50 bp):
CATGCCAAAGTCAAAACAAATCATATGGGTAAAATCATAATACACCCATC
Found at i:75909942 original size:14 final size:14
Alignment explanation
Indices: 75909923--75910154 Score: 92
Period size: 14 Copynumber: 16.6 Consensus size: 14
75909913 TAATGAAGTG
*
75909923 AATTCATTGATGCA
1 AATTCATAGATGCA
*
75909937 AATTCATAGATACA
1 AATTCATAGATGCA
* *
75909951 GATTCATAGATGCG
1 AATTCATAGATGCA
** *
75909965 AATTCATACTTGCG
1 AATTCATAGATGCA
** * **
75909979 GGTTCATAGTTATA
1 AATTCATAGATGCA
* *
75909993 GATTCATAGATGCG
1 AATTCATAGATGCA
*
75910007 AATTCATAGATACA
1 AATTCATAGATGCA
* **
75910021 GATTCATAGATGTG
1 AATTCATAGATGCA
* *
75910035 AATTCATACG-TACG
1 AATTCATA-GATGCA
* **
75910049 GATTCATAGATGTG
1 AATTCATAGATGCA
* * *
75910063 AATTTATACG-TACG
1 AATTCATA-GATGCA
* **
75910077 GATTCATAGATGTG
1 AATTCATAGATGCA
* *
75910091 GATTCATAGATACA
1 AATTCATAGATGCA
*
75910105 GATTCATAGATGCA
1 AATTCATAGATGCA
* *
75910119 AATTCATATATGTA
1 AATTCATAGATGCA
* *
75910133 GATTTATAGATG-A
1 AATTCATAGATGCA
75910146 GAATTCATA
1 -AATTCATA
75910155 CATGAGGATG
Statistics
Matches: 161, Mismatches: 52, Indels: 10
0.72 0.23 0.04
Matches are distributed among these distances:
13 3 0.02
14 156 0.97
15 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.34
Consensus pattern (14 bp):
AATTCATAGATGCA
Found at i:75909969 original size:42 final size:42
Alignment explanation
Indices: 75909922--75910311 Score: 188
Period size: 42 Copynumber: 9.3 Consensus size: 42
75909912 CTAATGAAGT
* *
75909922 GAATTCATTGATGCAAATTCATAGATACAGATTCATAGATGC
1 GAATTCATAGATGCAGATTCATAGATACAGATTCATAGATGC
** * * * *
75909964 GAATTCATACTTGCGGGTTCATAGTTATAGATTCATAGATGC
1 GAATTCATAGATGCAGATTCATAGATACAGATTCATAGATGC
* ** *
75910006 GAATTCATAGATACAGATTCATAGAT-GTGAATTCATACG-TAC
1 GAATTCATAGATGCAGATTCATAGATACAG-ATTCATA-GATGC
* * * * *
75910048 GGATTCATAGATG-TGAATTTATACG-TACGGATTCATAGATGT
1 GAATTCATAGATGCAG-ATTCATA-GATACAGATTCATAGATGC
* * * * *
75910090 GGATTCATAGATACAGATTCATAGATGCAAATTCATATATG-
1 GAATTCATAGATGCAGATTCATAGATACAGATTCATAGATGC
* * * * * *
75910131 TAGATTTATAGATG-AGAATTCATACATGA-GGATGCATAGATGT
1 GA-ATTCATAGATGCAG-ATTCATAGAT-ACAGATTCATAGATGC
* * * * ** *
75910174 GGACTCATAGATACAGATTAATAGATATGGATTCATACA--C
1 GAATTCATAGATGCAGATTCATAGATACAGATTCATAGATGC
**** *
75910214 GTAGATTCATAGATGCAGATTCATAGACGTGGATTCATAGATGT
1 G-A-ATTCATAGATGCAGATTCATAGATACAGATTCATAGATGC
* * * * *** *
75910258 AAATTCCTACATGCTGATTCATAGATGTGGAATCATAGATG-
1 GAATTCATAGATGCAGATTCATAGATACAGATTCATAGATGC
75910299 GAAGTTCATAGAT
1 GAA-TTCATAGAT
75910312 ACAAATTATC
Statistics
Matches: 260, Mismatches: 69, Indels: 38
0.71 0.19 0.10
Matches are distributed among these distances:
40 1 0.00
41 9 0.03
42 243 0.93
43 7 0.03
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (42 bp):
GAATTCATAGATGCAGATTCATAGATACAGATTCATAGATGC
Found at i:75909997 original size:28 final size:28
Alignment explanation
Indices: 75909952--75910154 Score: 133
Period size: 28 Copynumber: 7.2 Consensus size: 28
75909942 ATAGATACAG
* * *
75909952 ATTCATAGATGC-GAATTCATACTTGCGG
1 ATTCATAGATACAG-ATTCATACATGCGA
* * * *
75909980 GTTCATAGTTATAGATTCATAGATGCGA
1 ATTCATAGATACAGATTCATACATGCGA
* *
75910008 ATTCATAGATACAGATTCATAGATGTGA
1 ATTCATAGATACAGATTCATACATGCGA
* * *
75910036 ATTCATACG-TACGGATTCATAGATGTGA
1 ATTCATA-GATACAGATTCATACATGCGA
* * * * *
75910064 ATTTATACG-TACGGATTCATAGATGTGG
1 ATTCATA-GATACAGATTCATACATGCGA
* *
75910092 ATTCATAGATACAGATTCATAGATGCAA
1 ATTCATAGATACAGATTCATACATGCGA
* ** * * *
75910120 ATTCATATATGTAGATTTATAGATGAGA
1 ATTCATAGATACAGATTCATACATGCGA
75910148 ATTCATA
1 ATTCATA
75910155 CATGAGGATG
Statistics
Matches: 147, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
27 1 0.01
28 144 0.98
29 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (28 bp):
ATTCATAGATACAGATTCATACATGCGA
Found at i:75910026 original size:56 final size:54
Alignment explanation
Indices: 75909938--75910257 Score: 195
Period size: 56 Copynumber: 5.7 Consensus size: 54
75909928 ATTGATGCAA
* * ** * * *
75909938 ATTCATAGATAC-AGATTCATAGATGCGAATTCATACTTGCGGGTTCATAGTTATAG
1 ATTCATAGATGCGA-ATTCATAGATACG-ATTCATAGATGTGGATTCATAG-TACAG
* *
75909994 ATTCATAGATGCGAATTCATAGATACAGATTCATAGATGTGAATTCATACGTACGG
1 ATTCATAGATGCGAATTCATAGATAC-GATTCATAGATGTGGATTCATA-GTACAG
* *
75910050 ATTCATAGATGTGAATTTATACG-TACGGATTCATAGATGTGGATTCATAGATACAG
1 ATTCATAGATGCGAATTCATA-GATAC-GATTCATAGATGTGGATTCATAG-TACAG
* * * * * * *
75910106 ATTCATAGATGCAAATTCATATATGTA-GATTTATAGATGAGAATTCATACATGA-GG
1 ATTCATAGATGCGAATTCATAGA--TACGATTCATAGATGTGGATTCATA-GT-ACAG
* * * * * * *
75910162 ATGCATAGATGTGGACTCATAGATACAGATTAATAGATATGGATTCATA-CACGTAG
1 ATTCATAGATGCGAATTCATAGATAC-GATTCATAGATGTGGATTCATAGTAC--AG
*
75910218 ATTCATAGATGC-AGATTCATAGACGT-GGATTCATAGATGT
1 ATTCATAGATGCGA-ATTCATAGA--TACGATTCATAGATGT
75910258 AAATTCCTAC
Statistics
Matches: 204, Mismatches: 42, Indels: 36
0.72 0.15 0.13
Matches are distributed among these distances:
53 1 0.00
54 2 0.01
55 1 0.00
56 192 0.94
57 5 0.02
58 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (54 bp):
ATTCATAGATGCGAATTCATAGATACGATTCATAGATGTGGATTCATAGTACAG
Found at i:75910081 original size:84 final size:84
Alignment explanation
Indices: 75909993--75910294 Score: 301
Period size: 84 Copynumber: 3.6 Consensus size: 84
75909983 CATAGTTATA
* *
75909993 GATTCATAGATGCGAATTCATAGATACAGATTCATAGATGTGAATTCATACGTACG-GATTCATA
1 GATTCATAGATGTGGATTCATAGATACAGATTCATAGATGTGAATTCATAC-TACGAGATTCATA
* * *
75910057 GATGTGAATTTATACGT-ACG
65 GATGAGAATTCATACATGA-G
** * *
75910077 GATTCATAGATGTGGATTCATAGATACAGATTCATAGATGCAAATTCATA-TATGTAGATTTATA
1 GATTCATAGATGTGGATTCATAGATACAGATTCATAGATGTGAATTCATACTACG-AGATTCATA
75910141 GATGAGAATTCATACATGAG
65 GATGAGAATTCATACATGAG
* * * * *
75910161 GATGCATAGATGTGGACTCATAGATACAGATTAATAGATATGGATTCATAC-ACGTAGATTCATA
1 GATTCATAGATGTGGATTCATAGATACAGATTCATAGATGTGAATTCATACTACG-AGATTCATA
* * *
75910225 GATGCAG-ATTCATAGACGTG
65 GATG-AGAATTCATACATGAG
** * * * *
75910245 GATTCATAGATGTAAATTCCTACATGCTGATTCATAGATGTGGAA-TCATA
1 GATTCATAGATGTGGATTCATAGATACAGATTCATAGATGT-GAATTCATA
75910295 GATGGAAGTT
Statistics
Matches: 180, Mismatches: 32, Indels: 12
0.80 0.14 0.05
Matches are distributed among these distances:
82 3 0.02
84 172 0.96
85 5 0.03
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (84 bp):
GATTCATAGATGTGGATTCATAGATACAGATTCATAGATGTGAATTCATACTACGAGATTCATAG
ATGAGAATTCATACATGAG
Found at i:75910169 original size:28 final size:28
Alignment explanation
Indices: 75909993--75910294 Score: 218
Period size: 28 Copynumber: 10.8 Consensus size: 28
75909983 CATAGTTATA
* * *
75909993 GATTCATAGATGCGAATTCATAGATACA
1 GATTCATAGATGTGAATTCATACATACG
*
75910021 GATTCATAGATGTGAATTCATACGTACG
1 GATTCATAGATGTGAATTCATACATACG
* *
75910049 GATTCATAGATGTGAATTTATACGTACG
1 GATTCATAGATGTGAATTCATACATACG
* * *
75910077 GATTCATAGATGTGGATTCATAGATACA
1 GATTCATAGATGTGAATTCATACATACG
** * ***
75910105 GATTCATAGATGCAAATTCATATATGTA
1 GATTCATAGATGTGAATTCATACATACG
* *
75910133 GATTTATAGATGAGAATTCATACATGA-G
1 GATTCATAGATGTGAATTCATACAT-ACG
* * * * *
75910161 GATGCATAGATGTGGACTCATAGATACA
1 GATTCATAGATGTGAATTCATACATACG
* * *
75910189 GATTAATAGATATGGATTCATAC--ACG
1 GATTCATAGATGTGAATTCATACATACG
* * ***
75910215 TAGATTCATAGATG-CAGATTCATAGACGTG
1 --GATTCATAGATGTGA-ATTCATACATACG
* * * *
75910245 GATTCATAGATGTAAATTCCTACATGCT
1 GATTCATAGATGTGAATTCATACATACG
75910273 GATTCATAGATGTGGAA-TCATA
1 GATTCATAGATGT-GAATTCATA
75910295 GATGGAAGTT
Statistics
Matches: 215, Mismatches: 50, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
26 2 0.01
27 1 0.00
28 208 0.97
29 3 0.01
30 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (28 bp):
GATTCATAGATGTGAATTCATACATACG
Found at i:75910182 original size:14 final size:14
Alignment explanation
Indices: 75909981--75910311 Score: 171
Period size: 14 Copynumber: 23.6 Consensus size: 14
75909971 TACTTGCGGG
* *
75909981 TTCATAGTTATAGA
1 TTCATAGATGTAGA
*
75909995 TTCATAGATG-CGAA
1 TTCATAGATGTAG-A
**
75910009 TTCATAGATACAGA
1 TTCATAGATGTAGA
75910023 TTCATAGATGT-GAA
1 TTCATAGATGTAG-A
*
75910037 TTCAT--ACGTACGGA
1 TTCATAGATGTA--GA
75910051 TTCATAGATGT-GAA
1 TTCATAGATGTAG-A
* *
75910065 TT--TATACGTACGGA
1 TTCATAGATGTA--GA
*
75910079 TTCATAGATGTGGA
1 TTCATAGATGTAGA
**
75910093 TTCATAGATACAGA
1 TTCATAGATGTAGA
* *
75910107 TTCATAGATGCAAA
1 TTCATAGATGTAGA
*
75910121 TTCATATATGTAGA
1 TTCATAGATGTAGA
*
75910135 TTTATAGATG-AGAA
1 TTCATAGATGTAG-A
*
75910149 TTCATACATG-AGGA
1 TTCATAGATGTA-GA
* *
75910163 TGCATAGATGTGGA
1 TTCATAGATGTAGA
* **
75910177 CTCATAGATACAGA
1 TTCATAGATGTAGA
* * *
75910191 TTAATAGATATGGA
1 TTCATAGATGTAGA
* *
75910205 TTCATACACGTAGA
1 TTCATAGATGTAGA
*
75910219 TTCATAGATGCAGA
1 TTCATAGATGTAGA
* *
75910233 TTCATAGACGTGGA
1 TTCATAGATGTAGA
*
75910247 TTCATAGATGTAAA
1 TTCATAGATGTAGA
* *
75910261 TTCCTACATGCT-GA
1 TTCATAGATG-TAGA
*
75910275 TTCATAGATGTGGA
1 TTCATAGATGTAGA
* *
75910289 ATCATAGATGGA-A
1 TTCATAGATGTAGA
75910302 GTTCATAGAT
1 -TTCATAGAT
75910312 ACAAATTATC
Statistics
Matches: 236, Mismatches: 61, Indels: 40
0.70 0.18 0.12
Matches are distributed among these distances:
12 8 0.03
13 7 0.03
14 208 0.88
15 5 0.02
16 8 0.03
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (14 bp):
TTCATAGATGTAGA
Found at i:75913099 original size:22 final size:22
Alignment explanation
Indices: 75913073--75913147 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 22
75913063 AGTCGAAACG
75913073 GTAAGCTCTATCGAGCTGAACA
1 GTAAGCTCTATCGAGCTGAACA
** *
75913095 GTAAGCTCTATTAAGCTGAACT
1 GTAAGCTCTATCGAGCTGAACA
* *
75913117 GTAAGCTC-ATACGAGCTAAAACG
1 GTAAGCTCTAT-CGAGCT-GAACA
75913140 GTAAGCTC
1 GTAAGCTC
75913148 CAATGAGCTG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
21 2 0.05
22 31 0.70
23 11 0.25
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (22 bp):
GTAAGCTCTATCGAGCTGAACA
Found at i:75913158 original size:45 final size:44
Alignment explanation
Indices: 75913073--75913159 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 44
75913063 AGTCGAAACG
* * *
75913073 GTAAGCTCTATCGAGCTGAACAGTAAGCTCTATTAAGCTGAACT
1 GTAAGCTCTATCGAGCTAAACAGTAAGCTCCAATAAGCTGAACT
* *
75913117 GTAAGCTC-ATACGAGCTAAAACGGTAAGCTCCAATGAGCTGAA
1 GTAAGCTCTAT-CGAGCT-AAACAGTAAGCTCCAATAAGCTGAA
75913160 AAAAGTAAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
43 2 0.06
44 14 0.39
45 20 0.56
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (44 bp):
GTAAGCTCTATCGAGCTAAACAGTAAGCTCCAATAAGCTGAACT
Found at i:75918025 original size:41 final size:40
Alignment explanation
Indices: 75917898--75918042 Score: 177
Period size: 40 Copynumber: 3.6 Consensus size: 40
75917888 CTCGCACAAG
* * * * *
75917898 GCCTTCGGGTCTTAACCTGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCTGGATATAGTCGCTAGCACAAAT
*
75917938 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCTGGATATAGTCGCTAGCACAAAT
* *
75917978 GCCTTC-GGATCTTAGTCTGGATGTAGTCGCTTAGCACGAAA-
1 GCCTTCGGGA-CTTAGCCTGGATATAGTCGC-TAGCAC-AAAT
75918019 GCCTTCGGGACTTAGCCTGGATAT
1 GCCTTCGGGACTTAGCCTGGATAT
75918043 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
39 3 0.03
40 57 0.63
41 24 0.27
42 6 0.07
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCTGGATATAGTCGCTAGCACAAAT
Found at i:75923940 original size:41 final size:40
Alignment explanation
Indices: 75923813--75923957 Score: 177
Period size: 40 Copynumber: 3.6 Consensus size: 40
75923803 CTCGCACAAG
* * * * *
75923813 GCCTTCGGGTCTTAACCTGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCTGGATATAGTCGCTAGCACAAAT
*
75923853 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCTGGATATAGTCGCTAGCACAAAT
* *
75923893 GCCTTC-GGATCTTAGTCTGGATGTAGTCGCTTAGCACGAAA-
1 GCCTTCGGGA-CTTAGCCTGGATATAGTCGC-TAGCAC-AAAT
75923934 GCCTTCGGGACTTAGCCTGGATAT
1 GCCTTCGGGACTTAGCCTGGATAT
75923958 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
39 3 0.03
40 57 0.63
41 24 0.27
42 6 0.07
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCTGGATATAGTCGCTAGCACAAAT
Found at i:75925452 original size:27 final size:27
Alignment explanation
Indices: 75925422--75925622 Score: 251
Period size: 27 Copynumber: 7.4 Consensus size: 27
75925412 TGAGTCCGCT
* * * *
75925422 CACTCAGTGCTATATAATCAACTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* *
75925449 CACTTAGTGCTACGTAATCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
75925476 CACTTAGTGCTACATAGTCAAACTCGCA
1 CACTTAGTGCTACATAGTCAAA-TCGCA
** * *
75925504 CACTTAGTGCCGCATGGTCAATTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* **
75925531 CACTTAGTGC-ATCATATTCATTTCGCA
1 CACTTAGTGCTA-CATAGTCAAATCGCA
*
75925558 CACTTAGTGCAACATAGTCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
75925585 CACTTAGTGCTACATAGTCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
75925612 CACTTAGTGCT
1 CACTTAGTGCT
75925623 GTACAATTTA
Statistics
Matches: 153, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 129 0.84
28 24 0.16
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (27 bp):
CACTTAGTGCTACATAGTCAAATCGCA
Found at i:75933521 original size:27 final size:27
Alignment explanation
Indices: 75933491--75933695 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
75933481 ATATTGAGTC
* * * *
75933491 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
75933518 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
75933545 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
75933573 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
75933600 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
75933627 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
75933654 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
75933681 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
75933696 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:75939519 original size:27 final size:27
Alignment explanation
Indices: 75939405--75939547 Score: 146
Period size: 27 Copynumber: 5.3 Consensus size: 27
75939395 CCTTATGTGA
* * *
75939405 TAAAATAACCGAAATA-CCCTCATAGGG
1 TAAAATGATCGAAATACCCCT-GTAGGG
* *
75939432 TAAAATGACCGAAATACCCCTATAGGG
1 TAAAATGATCGAAATACCCCTGTAGGG
* *
75939459 TAGAATAATCGAAATACCCCTGTAGGG
1 TAAAATGATCGAAATACCCCTGTAGGG
* *
75939486 TAGAATGATCGAAACACCCCTGTAGGG
1 TAAAATGATCGAAATACCCCTGTAGGG
* * *
75939513 TAAAATGA-CTGTAATACCCCGGTAAGG
1 TAAAATGATC-GAAATACCCCTGTAGGG
75939540 TAAAATGA
1 TAAAATGA
75939548 CAGATTTGTT
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 97 0.95
28 4 0.04
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCCTGTAGGG
Found at i:75939626 original size:23 final size:23
Alignment explanation
Indices: 75939583--75939632 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
75939573 CTATATTTGA
75939583 GCATGCCATGTTATATGTATGTT
1 GCATGCCATGTTATATGTATGTT
75939606 GCAT-CCATGTATAATAT-TATGTT
1 GCATGCCATGT-T-ATATGTATGTT
75939629 GCAT
1 GCAT
75939633 TGCATGGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 15 0.60
24 4 0.16
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (23 bp):
GCATGCCATGTTATATGTATGTT
Found at i:75939914 original size:18 final size:18
Alignment explanation
Indices: 75939891--75939949 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
75939881 CTTCCTTGCA
75939891 TACTGCACTAATTACTGT
1 TACTGCACTAATTACTGT
* * *
75939909 TACTGCATTGATCA-TGGT
1 TACTGCACTAATTACT-GT
*
75939927 TACTGCAGTAATTACTGT
1 TACTGCACTAATTACTGT
75939945 TACTG
1 TACTG
75939950 AAATGGGCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 1 0.03
18 31 0.94
19 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (18 bp):
TACTGCACTAATTACTGT
Found at i:75942798 original size:51 final size:51
Alignment explanation
Indices: 75942715--75942822 Score: 121
Period size: 51 Copynumber: 2.1 Consensus size: 51
75942705 AGATGCCCGT
* * *
75942715 TGGCCTACACATAGTACCACCCTTGTAGTCAAAGCTACCTTCTT-CACAAAG
1 TGGCCTACACATAGTACCACACTTATAGTCAAAGCCACC-TCTTACACAAAG
* * * *
75942766 TGGCCTTCATATAGTACCACACTTAT-GATCAAAGCCATCTCTTACACATAG
1 TGGCCTACACATAGTACCACACTTATAG-TCAAAGCCACCTCTTACACAAAG
75942817 TGGCCT
1 TGGCCT
75942823 GCACTTAGCA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
50 5 0.10
51 43 0.90
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.28
Consensus pattern (51 bp):
TGGCCTACACATAGTACCACACTTATAGTCAAAGCCACCTCTTACACAAAG
Found at i:75942846 original size:51 final size:50
Alignment explanation
Indices: 75942777--75942946 Score: 153
Period size: 51 Copynumber: 3.3 Consensus size: 50
75942767 GGCCTTCATA
* * * *
75942777 TAGTACCACACTTATGATCAAAGCCATCTCTTACACATAGTGGCCTGCACT
1 TAGTACTACACATGTGATCAAAGCCATCT-TTACACATAGTAGCCTGCACT
* * * ** *
75942828 TAGCACTACACATGTGATCGAAGCTATCAAGTACGCATAGTAGCCTGCACT
1 TAGTACTACACATGTGATCAAAGCCATC-TTTACACATAGTAGCCTGCACT
* * * * *
75942879 TAATACTACACACGTGACCTAAAACCAT-TTTAAACACATAGTAGCCTGCACA
1 TAGTACTACACATGTGATC-AAAGCCATCTTT--ACACATAGTAGCCTGCACT
75942931 TAGTACTACACATGTG
1 TAGTACTACACATGTG
75942947 TTCTTACGAT
Statistics
Matches: 92, Mismatches: 23, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
50 1 0.01
51 55 0.60
52 36 0.39
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (50 bp):
TAGTACTACACATGTGATCAAAGCCATCTTTACACATAGTAGCCTGCACT
Found at i:75963598 original size:13 final size:14
Alignment explanation
Indices: 75963582--75963613 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
75963572 AATTACAAAC
75963582 TAAAATAC-ATGAG
1 TAAAATACAATGAG
75963595 T-AAATACAATGAG
1 TAAAATACAATGAG
75963608 TAAAAT
1 TAAAAT
75963614 TCATATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.35
13 7 0.41
14 4 0.24
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (14 bp):
TAAAATACAATGAG
Found at i:75967185 original size:27 final size:26
Alignment explanation
Indices: 75967109--75967228 Score: 152
Period size: 27 Copynumber: 4.6 Consensus size: 26
75967099 TTGGGGCTTT
* **
75967109 ACAAAGGCATTCCTTTCATATTCCGCC
1 ACAAAGGC-TTTCTTTCATATTATGCC
*
75967136 ACAAAGGCTTTCTTTCATGTTATGCC
1 ACAAAGGCTTTCTTTCATATTATGCC
75967162 ACAAAGGCTTTTCTTTCATATTATGCC
1 ACAAAGGC-TTTCTTTCATATTATGCC
* * *
75967189 ACAAATGCTTTCTTTCA-AGTATACC
1 ACAAAGGCTTTCTTTCATATTATGCC
75967214 ACAAAGGCTTTCTTT
1 ACAAAGGCTTTCTTT
75967229 ATTTGTCATG
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
25 20 0.24
26 31 0.37
27 32 0.39
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.37
Consensus pattern (26 bp):
ACAAAGGCTTTCTTTCATATTATGCC
Found at i:75967190 original size:53 final size:51
Alignment explanation
Indices: 75967109--75967228 Score: 159
Period size: 53 Copynumber: 2.3 Consensus size: 51
75967099 TTGGGGCTTT
* * * *
75967109 ACAAAGGCATTCCTTTCATATTCCGCCACAAAGGCTTTCTTTCATGTTATGCC
1 ACAAAGGC-TTTCTTTCATATTACGCCACAAAGGCTTTCTTTCAAG-TATACC
* *
75967162 ACAAAGGCTTTTCTTTCATATTATGCCACAAATGCTTTCTTTCAAGTATACC
1 ACAAAGGC-TTTCTTTCATATTACGCCACAAAGGCTTTCTTTCAAGTATACC
75967214 ACAAAGGCTTTCTTT
1 ACAAAGGCTTTCTTT
75967229 ATTTGTCATG
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 7 0.12
52 13 0.22
53 40 0.67
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.37
Consensus pattern (51 bp):
ACAAAGGCTTTCTTTCATATTACGCCACAAAGGCTTTCTTTCAAGTATACC
Found at i:75971440 original size:22 final size:22
Alignment explanation
Indices: 75971410--75971457 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
75971400 AGCTTACCGT
*
75971410 TTCAACTCG-TATGAGCTTGTTG
1 TTCAACTCGATA-GAGCTTATTG
*
75971432 TTCAGCTCGATAGAGCTTATTG
1 TTCAACTCGATAGAGCTTATTG
75971454 TTCA
1 TTCA
75971458 TCAGCTCAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (22 bp):
TTCAACTCGATAGAGCTTATTG
Found at i:75994057 original size:22 final size:22
Alignment explanation
Indices: 75994031--75994098 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 22
75994021 TCACTGTTTT
75994031 AGCTCG-TATGAGCTTACTATTC
1 AGCTCGATA-GAGCTTACTATTC
75994053 AGCTCGATAGAGCTTACCGT-TTC
1 AGCTCGATAGAGCTTA-C-TATTC
*
75994076 AGCTCAATAGAGCTTACTATTC
1 AGCTCGATAGAGCTTACTATTC
75994098 A
1 A
75994099 TCAGCTTAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
21 1 0.02
22 18 0.44
23 21 0.51
24 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (22 bp):
AGCTCGATAGAGCTTACTATTC
Found at i:75994080 original size:23 final size:23
Alignment explanation
Indices: 75993982--75994092 Score: 77
Period size: 23 Copynumber: 4.8 Consensus size: 23
75993972 TACCGATATA
* * *
75993982 TCAGCTTGAAAGAGCTTACTGTTT
1 TCAGCTCGATAGAGCTTACCG-TT
* * * *
75994006 TCAACTC-ATTGGAGCTCACTGTT
1 TCAGCTCGA-TAGAGCTTACCGTT
*
75994029 TTAGCTCG-TATGAGCTTA-C-TAT
1 TCAGCTCGATA-GAGCTTACCGT-T
75994051 TCAGCTCGATAGAGCTTACCGTT
1 TCAGCTCGATAGAGCTTACCGTT
*
75994074 TCAGCTCAATAGAGCTTAC
1 TCAGCTCGATAGAGCTTAC
75994093 TATTCATCAG
Statistics
Matches: 68, Mismatches: 12, Indels: 15
0.72 0.13 0.16
Matches are distributed among these distances:
21 1 0.01
22 16 0.24
23 36 0.53
24 15 0.22
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (23 bp):
TCAGCTCGATAGAGCTTACCGTT
Found at i:76005886 original size:3 final size:3
Alignment explanation
Indices: 76005878--76005913 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
76005868 CTGAACCGCT
* *
76005878 ATA ATA ATA GTA ATA GTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
76005914 CCAAATTCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:76006931 original size:20 final size:20
Alignment explanation
Indices: 76006894--76006931 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
76006884 ATTTTAATTT
*
76006894 TTTTAAAATAAGTTTTAAAA
1 TTTTAAAATAAGTATTAAAA
76006914 TTTTAAAA-AAGTCATTAA
1 TTTTAAAATAAGT-ATTAA
76006932 TTCTTGACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (20 bp):
TTTTAAAATAAGTATTAAAA
Found at i:76007447 original size:30 final size:30
Alignment explanation
Indices: 76007411--76007470 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
76007401 AAAGACTATC
76007411 ACATTCTTTATTACAACTCTGCAAAACTAA
1 ACATTCTTTATTACAACTCTGCAAAACTAA
76007441 ACATTCTTTATTACAACTCTGCAAAACTAA
1 ACATTCTTTATTACAACTCTGCAAAACTAA
76007471 CACAAGGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.33
Consensus pattern (30 bp):
ACATTCTTTATTACAACTCTGCAAAACTAA
Found at i:76013891 original size:7 final size:7
Alignment explanation
Indices: 76013879--76013904 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
76013869 TTTTTACCCT
76013879 GAATCTA
1 GAATCTA
76013886 GAATCTA
1 GAATCTA
76013893 GAATCTA
1 GAATCTA
76013900 GAATC
1 GAATC
76013905 CTGAACCTTA
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:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (7 bp):
GAATCTA
Found at i:76013997 original size:35 final size:33
Alignment explanation
Indices: 76013958--76014033 Score: 84
Period size: 35 Copynumber: 2.3 Consensus size: 33
76013948 AAACCTTTGG
*
76013958 ACCCTAAACATG-ATCCTTAAACCTCAAACCCTTAA
1 ACCCTAAACATGAAT-CTTAAACCCCAAA-CC-TAA
**
76013993 ACCCTAAATTTGAATCTTAAACCCCAAACCTAA
1 ACCCTAAACATGAATCTTAAACCCCAAACCTAA
76014026 ACCC-AAAC
1 ACCCTAAAC
76014034 CCAATCCTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 3 0.08
33 7 0.19
34 2 0.06
35 22 0.61
36 2 0.06
ACGTcount: A:0.42, C:0.34, G:0.03, T:0.21
Consensus pattern (33 bp):
ACCCTAAACATGAATCTTAAACCCCAAACCTAA
Found at i:76014112 original size:21 final size:21
Alignment explanation
Indices: 76014088--76014127 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
76014078 AACCCAAACC
* *
76014088 CAAACCCTGAACCTTAAATCT
1 CAAAACCTGAACCCTAAATCT
*
76014109 CAAAACTTGAACCCTAAAT
1 CAAAACCTGAACCCTAAAT
76014128 TTGCAACTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.30, G:0.05, T:0.23
Consensus pattern (21 bp):
CAAAACCTGAACCCTAAATCT
Found at i:76014125 original size:53 final size:53
Alignment explanation
Indices: 76014011--76014126 Score: 169
Period size: 53 Copynumber: 2.2 Consensus size: 53
76014001 TTTGAATCTT
* * *
76014011 AAACCCCAAACCTAAACCCAAACCCAATCCTTGAACCTTAAATCTCAAAACTC
1 AAACCCTAAACCTAAACCCAAACCCAAACCCTGAACCTTAAATCTCAAAACTC
* * *
76014064 AAATCCTAAACTTAAACCCAAACCCAAACCCTGAACCTTAAATCTCAAAACTT
1 AAACCCTAAACCTAAACCCAAACCCAAACCCTGAACCTTAAATCTCAAAACTC
*
76014117 GAACCCTAAA
1 AAACCCTAAA
76014127 TTTGCAACTA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.45, C:0.34, G:0.03, T:0.18
Consensus pattern (53 bp):
AAACCCTAAACCTAAACCCAAACCCAAACCCTGAACCTTAAATCTCAAAACTC
Found at i:76015868 original size:21 final size:21
Alignment explanation
Indices: 76015825--76015863 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
76015815 TAATTGTAAG
76015825 AAATTATTAATAATATTATTT
1 AAATTATTAATAATATTATTT
76015846 AAATTA-TAAT-ATATTATT
1 AAATTATTAATAATATTATT
76015864 ATTAATAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATTATTAATAATATTATTT
Found at i:76016249 original size:19 final size:19
Alignment explanation
Indices: 76016210--76016249 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
76016200 ACAACAAAAT
* *
76016210 AATAGTAACATAATAGTAA
1 AATAGTAACAAAATAGAAA
76016229 AATAGTAACAAAATAGAAA
1 AATAGTAACAAAATAGAAA
76016248 AA
1 AA
76016250 ATAACAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.65, C:0.05, G:0.10, T:0.20
Consensus pattern (19 bp):
AATAGTAACAAAATAGAAA
Found at i:76018577 original size:11 final size:11
Alignment explanation
Indices: 76018561--76018591 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
76018551 CCCCCCCCCA
76018561 AAAAAAAAAAG
1 AAAAAAAAAAG
76018572 AAAAAAAAAAG
1 AAAAAAAAAAG
76018583 AAAAGAAAA
1 AAAA-AAAA
76018592 CATGACAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:76018581 original size:16 final size:16
Alignment explanation
Indices: 76018560--76018591 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
76018550 CCCCCCCCCC
76018560 AAAAAAAAAAAGAAAA
1 AAAAAAAAAAAGAAAA
*
76018576 AAAAAAGAAAAGAAAA
1 AAAAAAAAAAAGAAAA
76018592 CATGACAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAGAAAA
Found at i:76022652 original size:28 final size:28
Alignment explanation
Indices: 76022582--76022652 Score: 124
Period size: 28 Copynumber: 2.5 Consensus size: 28
76022572 GTTAAGTTAG
*
76022582 CGACTAGTTGATTGACGAGGAACCCAAAA
1 CGAC-AGTTGATTGGCGAGGAACCCAAAA
76022611 CGACAGTTGATTGGCGAGGAACCCAAAA
1 CGACAGTTGATTGGCGAGGAACCCAAAA
76022639 CGACAGTTGATTGG
1 CGACAGTTGATTGG
76022653 GATTACTGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 37 0.90
29 4 0.10
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (28 bp):
CGACAGTTGATTGGCGAGGAACCCAAAA
Found at i:76022794 original size:47 final size:47
Alignment explanation
Indices: 76022725--76022830 Score: 203
Period size: 47 Copynumber: 2.3 Consensus size: 47
76022715 TGAATTTAAT
*
76022725 TTTTTTTATGTTATTTTATTTTATCATTATGAAAATATTAAAAACCC
1 TTTTATTATGTTATTTTATTTTATCATTATGAAAATATTAAAAACCC
76022772 TTTTATTATGTTATTTTATTTTATCATTATGAAAATATTAAAAACCC
1 TTTTATTATGTTATTTTATTTTATCATTATGAAAATATTAAAAACCC
76022819 TTTTATTATGTT
1 TTTTATTATGTT
76022831 CTAGTACTAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.55
Consensus pattern (47 bp):
TTTTATTATGTTATTTTATTTTATCATTATGAAAATATTAAAAACCC
Found at i:76024638 original size:41 final size:41
Alignment explanation
Indices: 76024570--76024648 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 41
76024560 TACAAGGGTT
76024570 TTCACACGGCCTGGAACATGCCAGTGTCCCTAGCCCGTGTCC
1 TTCACACGGCCTGGAACATGCCAGTGT-CCTAGCCCGTGTCC
*
76024612 TTCACACGGCCAT-G-ACATGCCCGTGTCCTAGCCCGTG
1 TTCACACGGCC-TGGAACATGCCAGTGTCCTAGCCCGTG
76024649 AGCAAAAACC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
40 11 0.31
41 11 0.31
42 12 0.34
43 1 0.03
ACGTcount: A:0.16, C:0.38, G:0.24, T:0.22
Consensus pattern (41 bp):
TTCACACGGCCTGGAACATGCCAGTGTCCTAGCCCGTGTCC
Found at i:76035225 original size:70 final size:70
Alignment explanation
Indices: 76035142--76035282 Score: 255
Period size: 70 Copynumber: 2.0 Consensus size: 70
76035132 TATTTTAGTA
*
76035142 ATGCTAACCATCTTCACTGTCACAAATTGAAGTTTTTTTGAGTCATCAGATATTTCAAAATTTTA
1 ATGCTAACCATCTTCACTGTCACAAATTGAAGTCTTTTTGAGTCATCAGATATTTCAAAATTTTA
76035207 TGGTC
66 TGGTC
* *
76035212 ATGCTAACCATCTTCGCTGTCACAAATTGAAGTCTTTTTGAGTCATCAGATATTTCAAACTTTTA
1 ATGCTAACCATCTTCACTGTCACAAATTGAAGTCTTTTTGAGTCATCAGATATTTCAAAATTTTA
76035277 TGGTC
66 TGGTC
76035282 A
1 A
76035283 GTATAAATAT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (70 bp):
ATGCTAACCATCTTCACTGTCACAAATTGAAGTCTTTTTGAGTCATCAGATATTTCAAAATTTTA
TGGTC
Found at i:76040111 original size:25 final size:25
Alignment explanation
Indices: 76040066--76040117 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
76040056 ATTAGAGATC
76040066 ATTGTTTTCCGACTGAATTGATGTT
1 ATTGTTTTCCGACTGAATTGATGTT
76040091 ATTGTTGTT-CGA-TGAATTTGATGTT
1 ATTGTT-TTCCGACTGAA-TTGATGTT
76040116 AT
1 AT
76040118 ATTGGGCATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 4 0.16
25 19 0.76
26 2 0.08
ACGTcount: A:0.21, C:0.08, G:0.21, T:0.50
Consensus pattern (25 bp):
ATTGTTTTCCGACTGAATTGATGTT
Found at i:76047111 original size:13 final size:13
Alignment explanation
Indices: 76047093--76047118 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76047083 TAAGCAATCG
76047093 CACACGGGCGTGT
1 CACACGGGCGTGT
76047106 CACACGGGCGTGT
1 CACACGGGCGTGT
76047119 TCCTGCTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:76053355 original size:26 final size:26
Alignment explanation
Indices: 76053319--76053376 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
76053309 ATACGAGCCA
* * *
76053319 TAATTAGGAAGTTCACAAAGAACTTT
1 TAATCAGGAAGGTCACAAAGAACCTT
*
76053345 TAATCAGGAAGGTCACAAAGAGCCTT
1 TAATCAGGAAGGTCACAAAGAACCTT
76053371 TAATCA
1 TAATCA
76053377 AGAGCTCCGG
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:0.16, G:0.17, T:0.26
Consensus pattern (26 bp):
TAATCAGGAAGGTCACAAAGAACCTT
Found at i:76053497 original size:65 final size:65
Alignment explanation
Indices: 76053422--76053636 Score: 272
Period size: 65 Copynumber: 3.3 Consensus size: 65
76053412 CAAGCCATAT
* * * *
76053422 CAGGACGCTCACAAAGAGCTGCATTTGTGTCTACAACATATGTAGAATCACAACCGATCATATAA
1 CAGGACGCTCACAAAGAGCTGCATTTGTGTCTGCAATATATGCAGGATCACAACCGATCATATAA
* * * * *
76053487 CAGGATGCTCACAAATAACT--ATGTCTGTGTCTGTAATATATGCAGGATCACAACTGATCATAT
1 CAGGACGCTCACAAAGAGCTGCAT-T-TGTGTCTGCAATATATGCAGGATCACAACCGATCATAT
76053550 AA
64 AA
* * *
76053552 CAGGACGCTCACAAAGAGTTGCGTTTGTGTCCGCAATATATGCAGGATCACAACCGATCATATAA
1 CAGGACGCTCACAAAGAGCTGCATTTGTGTCTGCAATATATGCAGGATCACAACCGATCATATAA
* *
76053617 CAGGACACTCATAAAGAGCT
1 CAGGACGCTCACAAAGAGCT
76053637 ACTGTAGTCC
Statistics
Matches: 126, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
63 2 0.02
64 1 0.01
65 121 0.96
66 1 0.01
67 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (65 bp):
CAGGACGCTCACAAAGAGCTGCATTTGTGTCTGCAATATATGCAGGATCACAACCGATCATATAA
Found at i:76057423 original size:40 final size:40
Alignment explanation
Indices: 76057358--76057441 Score: 141
Period size: 40 Copynumber: 2.1 Consensus size: 40
76057348 TTTACCACAA
*
76057358 TAAGGTTCTCCAATATTACAAGGTATAGTCTCATACTCAC
1 TAAGATTCTCCAATATTACAAGGTATAGTCTCATACTCAC
* *
76057398 TAAGATTCTTCAATATTACAGGGTATAGTCTCATACTCAC
1 TAAGATTCTCCAATATTACAAGGTATAGTCTCATACTCAC
76057438 TAAG
1 TAAG
76057442 CTTTACCACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (40 bp):
TAAGATTCTCCAATATTACAAGGTATAGTCTCATACTCAC
Found at i:76060353 original size:3 final size:3
Alignment explanation
Indices: 76060345--76060382 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
76060335 ATTAATGGCT
76060345 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
76060383 TCCACTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:76064245 original size:17 final size:17
Alignment explanation
Indices: 76064213--76064258 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
76064203 TTTATGCAAA
*
76064213 CATAAACAT-TTAAGTT
1 CATAAACATAATAAGTT
*
76064229 CATAAACCTAATAAGTT
1 CATAAACATAATAAGTT
76064246 CATAAACATAATA
1 CATAAACATAATA
76064259 TATAATCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.30
Consensus pattern (17 bp):
CATAAACATAATAAGTT
Found at i:76066487 original size:14 final size:14
Alignment explanation
Indices: 76066468--76066505 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
76066458 AAAAAAATTA
*
76066468 ACTTAATTAACCAT
1 ACTTAATTAACCAC
76066482 ACTTAATTAACCAC
1 ACTTAATTAACCAC
76066496 ACTTAATTAA
1 ACTTAATTAA
76066506 ATTTAATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (14 bp):
ACTTAATTAACCAC
Found at i:76066712 original size:23 final size:25
Alignment explanation
Indices: 76066666--76066714 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
76066656 TACCTTAAGT
76066666 AACTATCAATTCAATAAAATTACTA
1 AACTATCAATTCAATAAAATTACTA
* *
76066691 AACTAT-AATTCCAT-ATATTACTA
1 AACTATCAATTCAATAAAATTACTA
76066714 A
1 A
76066715 TTTAGACTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 9 0.41
24 7 0.32
25 6 0.27
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (25 bp):
AACTATCAATTCAATAAAATTACTA
Found at i:76067018 original size:3 final size:3
Alignment explanation
Indices: 76067005--76067103 Score: 182
Period size: 3 Copynumber: 33.0 Consensus size: 3
76066995 CTATTTCTGA
76067005 CTT CTTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
76067051 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
76067099 -TT CTT
1 CTT CTT
76067104 TTCAATTGCA
Statistics
Matches: 94, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.02
3 89 0.95
4 3 0.03
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:76067758 original size:11 final size:11
Alignment explanation
Indices: 76067742--76067766 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
76067732 GGTGAAGAGA
76067742 TATTTTTTATT
1 TATTTTTTATT
76067753 TATTTTTTATT
1 TATTTTTTATT
76067764 TAT
1 TAT
76067767 AATTTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TATTTTTTATT
Found at i:76076001 original size:21 final size:18
Alignment explanation
Indices: 76075948--76076002 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 18
76075938 TTTATATTTT
76075948 TAAAAAAATTATAAAAATA
1 TAAAAAAATTA-AAAAATA
*
76075967 TAAAAGAATCTAAAGAATATA
1 TAAAAAAAT-TAAA-AA-ATA
76075988 TAAAGAAAATTAAAA
1 TAAA-AAAATTAAAA
76076003 TTTTAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
19 10 0.33
20 5 0.17
21 11 0.37
22 4 0.13
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (18 bp):
TAAAAAAATTAAAAAATA
Found at i:76079100 original size:26 final size:27
Alignment explanation
Indices: 76079071--76079121 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
76079061 TATAACTATT
*
76079071 AAATATTTATAATTAGT-ATTTTAAAA
1 AAATATTTATAATTAATGATTTTAAAA
*
76079097 AAATATTTTTAATTAATGATTTTAA
1 AAATATTTATAATTAATGATTTTAA
76079122 CACATTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (27 bp):
AAATATTTATAATTAATGATTTTAAAA
Found at i:76085147 original size:146 final size:147
Alignment explanation
Indices: 76084882--76085174 Score: 446
Period size: 146 Copynumber: 2.0 Consensus size: 147
76084872 CAAAGATCAC
* * * *
76084882 CTCTCTCTCTCTCGCTGGGGGAGAGTGTTAGTATTTTATTGTTGACTAGTCAGGAACATTTTCTT
1 CTCTCTCTCTCTCGCAGGAGGAGAGTGTTAGGATTTTATTGTTGACTAATCAGGAACATTTTCTT
* *
76084947 TTGTTGTCTAAATGTTTCTTGGTCACTCTGCACTAACCTTTAATCTTCACTATATCTAGGTAACA
66 TTGTTGTCTAAATGCTTCTTGATCACTCTGCACTAACCTTTAATCTTCACTATATCTAGGTAACA
**
76085012 AGTTTGGAGACCAACCT
131 AGTCAGGAGACCAACCT
* * * *
76085029 CTCTCTCTCTGTGGCAGGAGGAGAGTGTTAGGATTTTGGTT-TTGAGTAATCAGGAACA-TTTCT
1 CTCTCTCTCTCTCGCAGGAGGAGAGTGTTAGGATTTT-ATTGTTGACTAATCAGGAACATTTTCT
*
76085092 TTTGTTGTCTAAATGCTTCTTGATCACTTTGCACTAACCTTTAATCTTCACTATATCTAGGTAAC
65 TTTGTTGTCTAAATGCTTCTTGATCACTCTGCACTAACCTTTAATCTTCACTATATCTAGGTAAC
76085157 AAGTCAGGAGACCAACCT
130 AAGTCAGGAGACCAACCT
76085175 AGTGGCTAGA
Statistics
Matches: 132, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
146 83 0.63
147 47 0.36
148 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (147 bp):
CTCTCTCTCTCTCGCAGGAGGAGAGTGTTAGGATTTTATTGTTGACTAATCAGGAACATTTTCTT
TTGTTGTCTAAATGCTTCTTGATCACTCTGCACTAACCTTTAATCTTCACTATATCTAGGTAACA
AGTCAGGAGACCAACCT
Found at i:76092279 original size:26 final size:27
Alignment explanation
Indices: 76092250--76092300 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
76092240 TAAAGTTCCA
*
76092250 AAATAATTTTAATAATTA-AATTAATT
1 AAATAATTTTAAAAATTATAATTAATT
76092276 AAATAATTTTAAAAATTATAATTAA
1 AAATAATTTTAAAAATTATAATTAA
76092301 ATATTTTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
AAATAATTTTAAAAATTATAATTAATT
Found at i:76092301 original size:23 final size:25
Alignment explanation
Indices: 76092250--76092309 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
76092240 TAAAGTTCCA
*
76092250 AAATAATTTTAATAATTAAATTAATT
1 AAATAATTTTAAAAATT-AATTAATT
76092276 AAATAATTTTAAAAATT-A-TAATT
1 AAATAATTTTAAAAATTAATTAATT
*
76092299 AAATATTTTTA
1 AAATAATTTTA
76092310 CACAATCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 15 0.47
24 1 0.03
26 16 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AAATAATTTTAAAAATTAATTAATT
Found at i:76097131 original size:13 final size:13
Alignment explanation
Indices: 76097115--76097140 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76097105 TTTAAACCGA
76097115 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
76097128 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
76097141 GTTGCCAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:76097710 original size:5 final size:5
Alignment explanation
Indices: 76097700--76097800 Score: 96
Period size: 5 Copynumber: 20.2 Consensus size: 5
76097690 AAGTATAACT
* *
76097700 TATCA TATCA TAATGA -ATCA TATCA TATCA TATTA TATCA TATCA TATCA
1 TATCA TATCA T-ATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
* * * * ** * *
76097750 TATCA TATCG TAACA TAGCA TAGCA TAGGA TAGCA TATCA AATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
76097800 T
1 T
76097801 GTCCTACCCC
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
4 3 0.04
5 75 0.93
6 3 0.04
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (5 bp):
TATCA
Found at i:76098417 original size:49 final size:49
Alignment explanation
Indices: 76098335--76098459 Score: 115
Period size: 49 Copynumber: 2.6 Consensus size: 49
76098325 ACACACGGTT
* * * * ** * **
76098335 GTGTTCTCTACACATCCTAGCCACATGGGATGCAAAAACACATATGGTC
1 GTGTGCTCCACACAACCTAGCCACACGAAATGCAAAAACACATACGACC
* * * *
76098384 GTGTGCTCCATACAACCTATCCACACGAAATGCAGAAAGACATACGACC
1 GTGTGCTCCACACAACCTAGCCACACGAAATGCAAAAACACATACGACC
* *
76098433 GTGTGCTCTACACTACCTAGCCACACG
1 GTGTGCTCCACACAACCTAGCCACACG
76098460 GTCTACCACA
Statistics
Matches: 59, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
49 59 1.00
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (49 bp):
GTGTGCTCCACACAACCTAGCCACACGAAATGCAAAAACACATACGACC
Found at i:76101576 original size:29 final size:30
Alignment explanation
Indices: 76101502--76101576 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
76101492 AAAATGAATG
* * *
76101502 TTAGTGACTGATTTGTCATTTTTCTAAATT
1 TTAGTGACTGATTTGTAACTTTTCTAAAGT
*
76101532 TTAGTGACTGAGTTGTAACTTTT-TAAAGT
1 TTAGTGACTGATTTGTAACTTTTCTAAAGT
* *
76101561 TTAGTGATTGTTTTGT
1 TTAGTGACTGATTTGT
76101577 TATTATAACT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 18 0.47
30 20 0.53
ACGTcount: A:0.23, C:0.07, G:0.19, T:0.52
Consensus pattern (30 bp):
TTAGTGACTGATTTGTAACTTTTCTAAAGT
Found at i:76107082 original size:27 final size:26
Alignment explanation
Indices: 76107047--76107212 Score: 199
Period size: 27 Copynumber: 6.2 Consensus size: 26
76107037 AGCATGGCTG
* *
76107047 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
76107073 CCAGATACAGATAATCGTGGCAAAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
76107101 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
76107128 CCA-AATCAGATAATCATGGCATAGCCA
1 CCAGAA-CAGATAAT-GTGGCAGAGCCA
76107155 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
76107182 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
76107209 CCAG
1 CCAG
76107213 GACGCTTCCT
Statistics
Matches: 122, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.08
27 92 0.75
28 20 0.16
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:76107106 original size:54 final size:54
Alignment explanation
Indices: 76107047--76107212 Score: 262
Period size: 54 Copynumber: 3.1 Consensus size: 54
76107037 AGCATGGCTG
* * *
76107047 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAAAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCATAGCCA
* *
76107101 CCAGAACAGATATATGTGGCAGAGCCACCAAATCAGATAATCATGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
*
76107155 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
76107209 CCAG
1 CCAG
76107213 GACGCTTCCT
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 86 0.83
55 17 0.17
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
Found at i:76114189 original size:27 final size:27
Alignment explanation
Indices: 76114151--76114316 Score: 189
Period size: 27 Copynumber: 6.1 Consensus size: 27
76114141 AGCATGGCTG
* *
76114151 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
76114177 CCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
76114205 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
76114232 CCAGAT-CAGATAATCGTGGCATAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
76114259 CCAGA-ACAGATATATGTGGTAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
* *
76114286 CCAGAT-CAGATAATTGTGGCATAACCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
76114313 CCAG
1 CCAG
76114317 GACGCTTCCT
Statistics
Matches: 121, Mismatches: 10, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
26 8 0.07
27 94 0.78
28 19 0.16
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:76114243 original size:54 final size:54
Alignment explanation
Indices: 76114151--76114316 Score: 253
Period size: 54 Copynumber: 3.1 Consensus size: 54
76114141 AGCATGGCTG
* * * *
76114151 CCAGAACAGATA-ATGTGACAGAGTCACCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCATAGCCA
76114205 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
* * *
76114259 CCAGAACAGATATATGTGGTAGAGCCACCAGATCAGATAATTGTGGCATAACCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
76114313 CCAG
1 CCAG
76114317 GACGCTTCCT
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
54 86 0.83
55 18 0.17
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
Found at i:76120333 original size:18 final size:18
Alignment explanation
Indices: 76120312--76120372 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
76120302 AGTTTGGAAA
76120312 ATTAATACAGTTCGCCAT
1 ATTAATACAGTTCGCCAT
* * *
76120330 ATTAATACAGATCACCAA
1 ATTAATACAGTTCGCCAT
*
76120348 ATTAACACAGTTCGCCAT
1 ATTAATACAGTTCGCCAT
*
76120366 ACTAATA
1 ATTAATA
76120373 TAATTCACCA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (18 bp):
ATTAATACAGTTCGCCAT
Found at i:76120589 original size:15 final size:16
Alignment explanation
Indices: 76120557--76120589 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
76120547 AATTATCAAT
76120557 AAAATTCATATGTTATA
1 AAAATTCATA-GTTATA
76120574 AAAATTCATA-TTATA
1 AAAATTCATAGTTATA
76120589 A
1 A
76120590 TATTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
17 10 0.62
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
AAAATTCATAGTTATA
Found at i:76122573 original size:26 final size:26
Alignment explanation
Indices: 76122544--76122593 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
76122534 ATAGGGGTAG
76122544 GATTCTGTACATCTG-ATCTGTTATCT
1 GATTCTG-ACATCTGTATCTGTTATCT
* *
76122570 GATTCTGATATCTGTTTCTGTTAT
1 GATTCTGACATCTGTATCTGTTAT
76122594 GGACTTAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (26 bp):
GATTCTGACATCTGTATCTGTTATCT
Found at i:76122576 original size:13 final size:13
Alignment explanation
Indices: 76122544--76122593 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
76122534 ATAGGGGTAG
*
76122544 GATTCTGTACATCT
1 GATTCTGT-TATCT
76122558 GA-TCTGTTATCT
1 GATTCTGTTATCT
*
76122570 GATTCTGATATCT
1 GATTCTGTTATCT
*
76122583 GTTTCTGTTAT
1 GATTCTGTTAT
76122594 GGACTTAGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
12 6 0.19
13 23 0.74
14 2 0.06
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (13 bp):
GATTCTGTTATCT
Done.