Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 242 of 250
Found at i:74909228 original size:117 final size:117
Alignment explanation
Indices: 74909016--74909956 Score: 1295
Period size: 117 Copynumber: 8.1 Consensus size: 117
74909006 CACTAATGAC
* * ** * *
74909016 ATCGATATCTTCATTACTTTCAAAGAGTTCAAA-TTCTAGGATTCTACCTACAGGCGTGCCTATT
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTC-AAGATTCTACCTACAGGTGTGCCTATT
* *
74909080 CCTCCGTCAGGACCTAGTAGAAGTACATCAGATCCACCTCCTCCATCGTCAAT
65 CCTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* * * * *
74909133 ATTGACATCTTCATCACTTTTGAAAAGTTCAAATTTCAAGATTCTACCTATAGGTGTTCCTATCC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* * * *
74909198 CTCCGTCGGGACCTAGTGGAAGTACATCAGATCCGCCACCTCCATCGTCAAT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* * *
74909250 ATCGAAATTTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCATATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* * ** * *
74909315 CTCCGTCAGGACCTAATGAAAGTACATCAGATCTGCCACCTCCATCGTCAAT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* * * *
74909367 AACGACATCTTCATCACTTGTGAAGAGTTTAAATTTCAAGATTCTACCTACAGGTGTGGCTATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* * *
74909432 CTCTGTC-GAGACCTAGTGGAAGTACATCAGATCCGCCACCTCCACCGTCAAT
66 CTCCGTCAG-GACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* * * *
74909484 AGCGACATCTTCATCACTTTTGAAGAGTTCAAATTTTAGGATTATACCTACAGGTGTGCCTATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* *
74909549 CTCCGTCGGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAGT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
*
74909601 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAGGATTCTACCTACAGGTGTGCCTATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* * * *
74909666 CTCCGCCGGGACCTAGTGGAAGTACATTAGATCCACCTCCTCCACCGTCAGT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* *
74909718 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTTAGGATTCTACCTACAGGTGTGCCTATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
*
74909783 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTTAAT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* * *
74909835 ATTG--A----CATCACTTTTAAAGAGTTCAAATTTCAAGATTCTACCTACTGGTGTGCCTATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* * * ** *
74909894 CTCCGTCAAGACCTAGTGAAAGTACATCATATCCACCTCCTCCATTGTTAAT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
*
74909946 ATCAACATCTT
1 ATCGACATCTT
74909957 TACCAATTTC
Statistics
Matches: 742, Mismatches: 73, Indels: 18
0.89 0.09 0.02
Matches are distributed among these distances:
111 99 0.13
113 1 0.00
115 1 0.00
116 1 0.00
117 636 0.86
118 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (117 bp):
ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
Found at i:74919845 original size:10 final size:10
Alignment explanation
Indices: 74919820--74919865 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
74919810 GTAAATATTT
74919820 AATTTTTAAA
1 AATTTTTAAA
74919830 AA--TTTAAA
1 AATTTTTAAA
74919838 AATTTTTAAA
1 AATTTTTAAA
* *
74919848 AAATTATAAA
1 AATTTTTAAA
74919858 AATATTTT
1 AAT-TTTT
74919866 TAAATTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
8 8 0.28
10 18 0.62
11 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:74920452 original size:24 final size:25
Alignment explanation
Indices: 74920396--74920452 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
74920386 TGTTTTTCTT
* **
74920396 TTAATTTAATAATCCTATTTTTATA
1 TTAATTTAATAATCCTAGTTGAATA
74920421 TTAATTTAATAATCCT-GTTGAATA
1 TTAATTTAATAATCCTAGTTGAATA
*
74920445 TTACTTTA
1 TTAATTTA
74920453 TAAGCAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.53
Consensus pattern (25 bp):
TTAATTTAATAATCCTAGTTGAATA
Found at i:74920639 original size:12 final size:13
Alignment explanation
Indices: 74920622--74920669 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
74920612 ACAATGAGAC
74920622 AATATAATATTA-
1 AATATAATATTAT
74920634 AATATAATA-TAT
1 AATATAATATTAT
* *
74920646 GATATAATATTTT
1 AATATAATATTAT
*
74920659 AATATTATATT
1 AATATAATATT
74920670 TTATAATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 2 0.07
12 17 0.57
13 11 0.37
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (13 bp):
AATATAATATTAT
Found at i:74921850 original size:31 final size:31
Alignment explanation
Indices: 74921802--74921860 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
74921792 AATAGTACAC
* **
74921802 GAGGAAAATATCCAGTTTTTGTGTAAAAGAA
1 GAGGAAAATATCAAGTTTGGGTGTAAAAGAA
74921833 GAGG-AAATATCTAAGTTTGGGTGTAAAA
1 GAGGAAAATATC-AAGTTTGGGTGTAAAA
74921861 ATGGAAGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.29
Consensus pattern (31 bp):
GAGGAAAATATCAAGTTTGGGTGTAAAAGAA
Found at i:74925110 original size:15 final size:16
Alignment explanation
Indices: 74925089--74925135 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
74925079 ATTGCATATT
74925089 TTTTTATAATATTTAC
1 TTTTTATAATATTTAC
* *
74925105 -TTTTATTATCATTATTC
1 TTTTTATAAT-ATT-TAC
74925122 TTTTTATAATATTT
1 TTTTTATAATATTT
74925136 TTTTAATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
15 8 0.32
16 4 0.16
17 5 0.20
18 8 0.32
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTATAATATTTAC
Found at i:74933602 original size:17 final size:19
Alignment explanation
Indices: 74933568--74933605 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
74933558 AAACCTTGAA
74933568 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
74933587 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
74933604 TT
1 TT
74933606 CCTTCCCCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:74950970 original size:26 final size:26
Alignment explanation
Indices: 74950889--74950970 Score: 60
Period size: 29 Copynumber: 2.9 Consensus size: 26
74950879 ATATCGGGAG
74950889 GTAAATTA-TATTTTATTTAAAAATAA
1 GTAAATTATTATTTTA-TTAAAAATAA
* *
74950915 ATAAATTAATCTCTTTATATTAAATTAA-ATA
1 GTAAATT-AT-TATTT-TATTAAA--AATA-A
74950946 GTAAATTGATTATTTTATTAAAAAT
1 GTAAATT-ATTATTTTATTAAAAAT
74950971 TTCGTCCATA
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
26 6 0.14
27 3 0.07
29 16 0.37
30 7 0.16
31 11 0.26
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (26 bp):
GTAAATTATTATTTTATTAAAAATAA
Found at i:74954311 original size:18 final size:17
Alignment explanation
Indices: 74954277--74954309 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
74954267 ATTTATGTAT
74954277 TTTTTTAAAAATATTTA
1 TTTTTTAAAAATATTTA
74954294 TTTTTTAAAAATATTT
1 TTTTTTAAAAATATTT
74954310 TACTATAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTTTAAAAATATTTA
Found at i:74959304 original size:21 final size:21
Alignment explanation
Indices: 74959280--74959319 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
74959270 ACCTTTTCTA
74959280 AAGTTAAAA-GTCAAAACTATT
1 AAGTTAAAAGGT-AAAACTATT
74959301 AAGTTAAAAGGTAAAACTA
1 AAGTTAAAAGGTAAAACTA
74959320 CTTTGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.25
Consensus pattern (21 bp):
AAGTTAAAAGGTAAAACTATT
Found at i:74959348 original size:24 final size:23
Alignment explanation
Indices: 74959316--74959369 Score: 90
Period size: 24 Copynumber: 2.3 Consensus size: 23
74959306 AAAAGGTAAA
*
74959316 ACTACTTTGTTTTGATAAAGTTT
1 ACTAATTTGTTTTGATAAAGTTT
74959339 ACTTAATTTGTTTTGATAAAGTTT
1 AC-TAATTTGTTTTGATAAAGTTT
74959363 ACTAATT
1 ACTAATT
74959370 AAGTTAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 7 0.24
24 22 0.76
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (23 bp):
ACTAATTTGTTTTGATAAAGTTT
Found at i:74962944 original size:47 final size:47
Alignment explanation
Indices: 74962837--74963027 Score: 186
Period size: 47 Copynumber: 3.9 Consensus size: 47
74962827 AATGTGATTT
* * * *
74962837 CCGTATAAGACCATAGCTGGGCTATGGCTTCGGACAAATGTGATATGTGCTT
1 CCGTATAAGACCATATCTGGGATATGGCATCGG-----TGTGATATGTGCTA
*
74962889 CCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTA
1 CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
* * * *
74962936 CTGTATAAGACCATATTTGGGATATGGCATCAGTGTGATATGTGAT-
1 CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
* ** * *
74962982 CCGTGTAAGACCATGGCTGGGTTATGGCCTCGGTATGTGATATGTG
1 CCGTATAAGACCATATCTGGGATATGGCATCGG--TGTGATATGTG
74963028 ACTATGTGCA
Statistics
Matches: 119, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
46 25 0.21
47 54 0.45
48 11 0.09
52 29 0.24
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (47 bp):
CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
Found at i:74963060 original size:95 final size:93
Alignment explanation
Indices: 74962875--74963045 Score: 211
Period size: 93 Copynumber: 1.8 Consensus size: 93
74962865 TTCGGACAAA
* *
74962875 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTACTGT
1 TGTGATATGTGCATCCGTATAAGACCATAGCCGGGATATGGCATCGGTGTGATATGTGCTACTGT
*
74962940 ATAAGACCATATTTGGGATATGGCATCAG
66 ACAAGACCATATTT-GGATATGGCATCAG
* * * * *
74962969 TGTGATATGTG-ATCCGTGTAAGACCATGGCTGGGTTATGGCCTCGGTATGTGATATGTGACTA-
1 TGTGATATGTGCATCCGTATAAGACCATAGCCGGGATATGGCATCGG--TGTGATATGTG-CTAC
*
74963032 TGTGCAAGACCATA
63 TGTACAAGACCATA
74963046 GTTTTACTAT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
93 28 0.43
94 11 0.17
95 23 0.35
96 3 0.05
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (93 bp):
TGTGATATGTGCATCCGTATAAGACCATAGCCGGGATATGGCATCGGTGTGATATGTGCTACTGT
ACAAGACCATATTTGGATATGGCATCAG
Found at i:74963413 original size:24 final size:22
Alignment explanation
Indices: 74963370--74963413 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
74963360 ATAAATTGTG
* *
74963370 AAAATTGAGTTAAGGGCTGAAT
1 AAAATTGAGTTAAAGCCTGAAT
74963392 AAAATATGAGATTAAAGCCTGA
1 AAAAT-TGAG-TTAAAGCCTGA
74963414 TGAGTCTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 4 0.22
24 9 0.50
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (22 bp):
AAAATTGAGTTAAAGCCTGAAT
Found at i:74965640 original size:19 final size:18
Alignment explanation
Indices: 74965616--74965655 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
74965606 TGGTTCAGGT
74965616 TTTCAA-TCTCATATCTCAA
1 TTTCAATTCTCA-AT-TCAA
74965635 TTTCAATTCTCAATTCAA
1 TTTCAATTCTCAATTCAA
74965653 TTT
1 TTT
74965656 TTCATTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 8 0.40
20 5 0.25
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTCAATTCTCAATTCAA
Found at i:74966653 original size:13 final size:13
Alignment explanation
Indices: 74966635--74966666 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
74966625 TTTCATTTCA
74966635 TTTATTTCTTTAT
1 TTTATTTCTTTAT
74966648 TTTATTTCTTTAT
1 TTTATTTCTTTAT
74966661 TTTATT
1 TTTATT
74966667 ATTAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTCTTTAT
Found at i:74966817 original size:15 final size:16
Alignment explanation
Indices: 74966788--74966826 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
74966778 TAAAATAATA
74966788 TTAA-TATAATATATT
1 TTAATTATAATATATT
74966803 TTAATTATAAT-TATT
1 TTAATTATAATATATT
*
74966818 TTACTTATA
1 TTAATTATA
74966827 TAATAAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAATTATAATATATT
Found at i:74966830 original size:17 final size:17
Alignment explanation
Indices: 74966791--74966831 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
74966781 AATAATATTA
74966791 ATATAATATATTTTAAT
1 ATATAATATATTTTAAT
*
74966808 -TATAAT-TATTTTACTT
1 ATATAATATATTTTA-AT
74966824 ATATAATA
1 ATATAATA
74966832 AGTAAATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
15 7 0.35
16 7 0.35
17 6 0.30
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATAATATATTTTAAT
Found at i:74972208 original size:20 final size:19
Alignment explanation
Indices: 74972179--74972227 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
74972169 AATAAATATT
74972179 TTTAAAATATA-ATAATAAA
1 TTTAAAATATATATAA-AAA
*
74972198 TTTAAAGATATATATAAAAT
1 TTTAAA-ATATATATAAAAA
74972218 TTTAAAATAT
1 TTTAAAATAT
74972228 TGTTGACGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 10 0.37
20 13 0.48
21 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
TTTAAAATATATATAAAAA
Found at i:74972911 original size:31 final size:31
Alignment explanation
Indices: 74972873--74972937 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
74972863 TTAGTATAAT
*
74972873 ATTTGGTACTCT-AGTTTAATTTCAATATTTA
1 ATTTGGTACT-TAAGTTTAATTTCAATATTCA
**
74972904 ATTTGGTACTTAAGTTTGGTTTCAATATTCA
1 ATTTGGTACTTAAGTTTAATTTCAATATTCA
74972935 ATT
1 ATT
74972938 GGATATCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 1 0.03
31 29 0.97
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (31 bp):
ATTTGGTACTTAAGTTTAATTTCAATATTCA
Found at i:74975628 original size:32 final size:33
Alignment explanation
Indices: 74975592--74975653 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
74975582 AAAATTATCT
74975592 TAAATATAATAAATATTTT-TTATATTAAAAAA
1 TAAATATAATAAATATTTTATTATATTAAAAAA
*
74975624 TAAATATAATAAATATTTTATTGTATTAAA
1 TAAATATAATAAATATTTTATTATATTAAA
74975654 TATAATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 19 0.68
33 9 0.32
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (33 bp):
TAAATATAATAAATATTTTATTATATTAAAAAA
Found at i:74976858 original size:24 final size:24
Alignment explanation
Indices: 74976831--74976882 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
74976821 TTAGTAAGTC
*
74976831 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
74976855 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
74976879 AAAT
1 AAAT
74976883 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:74978827 original size:24 final size:24
Alignment explanation
Indices: 74978800--74978851 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
74978790 TTAGTAAGTC
*
74978800 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
74978824 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
74978848 AAAT
1 AAAT
74978852 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:74981517 original size:57 final size:57
Alignment explanation
Indices: 74981448--74981569 Score: 228
Period size: 57 Copynumber: 2.2 Consensus size: 57
74981438 TTTATATTTG
*
74981448 TAAAAAGA-ATGAATTTGTTTTAATAATTCTGTAATTGAGTTAACATCGAATCTACT
1 TAAAAAAATATGAATTTGTTTTAATAATTCTGTAATTGAGTTAACATCGAATCTACT
74981504 TAAAAAAATATGAATTTGTTTTAATAATTCTGTAATTGAGTTAACATCGAATCTACT
1 TAAAAAAATATGAATTTGTTTTAATAATTCTGTAATTGAGTTAACATCGAATCTACT
74981561 TAAAAAAAT
1 TAAAAAAAT
74981570 GCATTAAACA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 7 0.11
57 57 0.89
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.39
Consensus pattern (57 bp):
TAAAAAAATATGAATTTGTTTTAATAATTCTGTAATTGAGTTAACATCGAATCTACT
Found at i:74982549 original size:67 final size:67
Alignment explanation
Indices: 74982452--74982629 Score: 172
Period size: 67 Copynumber: 2.7 Consensus size: 67
74982442 AAAAATTATA
* *
74982452 AAAAAAAATATTA-AAATTGATACAAA-TTTATTAAGATTATAAAAACTTA-T-AAATATTATAG
1 AAAAAAAATATTATAAATT-ATAAAAATTTTATTAA-ATTATAAAAACTTATTAAAATATT-TAA
74982513 AATGT
63 AATGT
* * * *
74982518 AAAAAAAATCTAATAAATTATAAAAATTTTATGAAATTA-ATAAACCTTATTTAAAATATTTAAA
1 AAAAAAAATATTATAAATTATAAAAATTTTATTAAATTATA-AAAACTTA-TTAAAATATTTAAA
*
74982582 ATTT
64 ATGT
* *
74982586 AAAAAACATATTAT-AATT-TGAAAAATTTTAATAAATTATAAAAA
1 AAAAAAAATATTATAAATTAT-AAAAATTTTATTAAATTATAAAAA
74982630 ATTAAAACTT
Statistics
Matches: 91, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
65 1 0.01
66 29 0.32
67 35 0.38
68 19 0.21
69 7 0.08
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.36
Consensus pattern (67 bp):
AAAAAAAATATTATAAATTATAAAAATTTTATTAAATTATAAAAACTTATTAAAATATTTAAAAT
GT
Found at i:74983066 original size:17 final size:17
Alignment explanation
Indices: 74983044--74983084 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
74983034 TCAATTTTTT
**
74983044 TTTATATTTTTTATTTA
1 TTTATATTTTTTATAAA
*
74983061 TTTATAATTTTTATAAA
1 TTTATATTTTTTATAAA
74983078 TTTATAT
1 TTTATAT
74983085 AATTAAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTATATTTTTTATAAA
Found at i:74983076 original size:9 final size:9
Alignment explanation
Indices: 74983042--74983266 Score: 74
Period size: 10 Copynumber: 24.2 Consensus size: 9
74983032 GTTCAATTTT
74983042 TTTTTAT-A
1 TTTTTATAA
*
74983050 TTTTT-TAT
1 TTTTTATAA
74983058 TTATTTATAA
1 TT-TTTATAA
74983068 TTTTTATAAA
1 TTTTTAT-AA
*
74983078 TTTATATAA
1 TTTTTATAA
** *
74983087 -TTAAAT-T
1 TTTTTATAA
74983094 TTTTTATAA
1 TTTTTATAA
* *
74983103 -ATTTATGA
1 TTTTTATAA
* *
74983111 TTTCATAGAA
1 TTT-TTATAA
*
74983121 TTTTAATACA
1 TTTTTATA-A
74983131 TTTTTATAAA
1 TTTTTAT-AA
* *
74983141 ATTTTAAACA
1 TTTTTATA-A
74983151 TGTTTTACTAA
1 T-TTTTA-TAA
* *
74983162 TTTTACATAT
1 TTTT-TATAA
74983172 TTTTTATAA
1 TTTTTATAA
* *
74983181 TCTGTTA-GA
1 T-TTTTATAA
74983190 TTTTTAT-A
1 TTTTTATAA
74983198 TTTTTATAA
1 TTTTTATAA
74983207 TATTTATATAA
1 T-TTT-TATAA
74983218 TATTTTATAA
1 T-TTTTATAA
74983228 CTTTTT-TAA
1 -TTTTTATAA
*
74983237 GTTTATATAAA
1 -TTTTTAT-AA
74983248 TTTTTAT--
1 TTTTTATAA
74983255 TTTTTAATAA
1 TTTTT-ATAA
74983265 TT
1 TT
74983267 AATAAATTTC
Statistics
Matches: 160, Mismatches: 32, Indels: 48
0.67 0.13 0.20
Matches are distributed among these distances:
7 6 0.04
8 36 0.22
9 29 0.18
10 66 0.41
11 22 0.14
12 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:74983211 original size:11 final size:11
Alignment explanation
Indices: 74983195--74983227 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
74983185 TTAGATTTTT
74983195 ATATTTTTATA
1 ATATTTTTATA
*
74983206 ATATTTATATA
1 ATATTTTTATA
74983217 ATA-TTTTATA
1 ATATTTTTATA
74983227 A
1 A
74983228 CTTTTTTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATATTTTTATA
Found at i:74983211 original size:19 final size:19
Alignment explanation
Indices: 74983189--74983265 Score: 63
Period size: 19 Copynumber: 4.0 Consensus size: 19
74983179 AATCTGTTAG
74983189 ATTTTTATATTTTTATAAT
1 ATTTTTATATTTTTATAAT
*
74983208 ATTTATATAATATTTTATAACT
1 ATTTTTAT-AT-TTTTATAA-T
*
74983230 -TTTTTA-AGTTTATATAA-
1 ATTTTTATA-TTTTTATAAT
74983247 ATTTTTAT-TTTTTAATAAT
1 ATTTTTATATTTTT-ATAAT
74983266 TAATAAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
17 4 0.09
18 10 0.22
19 15 0.33
20 3 0.07
21 13 0.28
22 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (19 bp):
ATTTTTATATTTTTATAAT
Found at i:74983223 original size:29 final size:27
Alignment explanation
Indices: 74983191--74983295 Score: 101
Period size: 25 Copynumber: 3.8 Consensus size: 27
74983181 TCTGTTAGAT
74983191 TTTTATATTTTTATAATATTTATATAATA
1 TTTTATATTTTT-TAATATTTATATAA-A
*
74983220 TTTTATAACTTTTTTAA-GTTTATATAAA
1 TTTTAT-A-TTTTTTAATATTTATATAAA
*
74983248 TTTT-TATTTTTTAATAATTA-ATAAA
1 TTTTATATTTTTTAATATTTATATAAA
*
74983273 TTTCTGAT-TTTTTTAATTTTTAT
1 TTT-T-ATATTTTTTAATATTTAT
74983296 GAGAAAAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
25 16 0.25
26 5 0.08
27 13 0.20
28 6 0.09
29 15 0.23
30 4 0.06
31 5 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTTATATTTTTTAATATTTATATAAA
Found at i:74983289 original size:24 final size:24
Alignment explanation
Indices: 74983229--74983290 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 24
74983219 ATTTTATAAC
*
74983229 TTTTTTAAGTTTATATAAATTTTTAT
1 TTTTTTAA--TTATATAAATTTTGAT
74983255 TTTTTAATAATTA-ATAAATTTCTGAT
1 TTTTT--TAATTATATAAATTT-TGAT
74983281 TTTTTTAATT
1 TTTTTTAATT
74983291 TTTATGAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
24 5 0.16
25 8 0.25
26 16 0.50
28 3 0.09
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (24 bp):
TTTTTTAATTATATAAATTTTGAT
Found at i:74983454 original size:42 final size:42
Alignment explanation
Indices: 74983392--74983476 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
74983382 AATGACAAAG
*
74983392 AATGTTAATAGAGAAGCTTAGATGATTATTTTAACTAACAAC
1 AATGTTAATAGAGAAACTTAGATGATTATTTTAACTAACAAC
74983434 AATGTTAATAGAGAAACTTAGATGATTATTTTAACTAACAAC
1 AATGTTAATAGAGAAACTTAGATGATTATTTTAACTAACAAC
74983476 A
1 A
74983477 TGAACTTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (42 bp):
AATGTTAATAGAGAAACTTAGATGATTATTTTAACTAACAAC
Found at i:74983736 original size:30 final size:28
Alignment explanation
Indices: 74983672--74983740 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 28
74983662 TTTGTTAAGT
74983672 TTTATTATTTTTTAAAATTTAATGTAAA
1 TTTATTATTTTTTAAAATTTAATGTAAA
* * * *
74983700 TATATTATTATATTTATAATTTTATGTTAA
1 TTTATTATT-T-TTTAAAATTTAATGTAAA
74983730 TTTATTATTTT
1 TTTATTATTTT
74983741 CACATATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
28 9 0.26
29 2 0.06
30 23 0.68
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (28 bp):
TTTATTATTTTTTAAAATTTAATGTAAA
Found at i:74989622 original size:18 final size:16
Alignment explanation
Indices: 74989584--74989625 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
74989574 TTGATCTTAC
74989584 ATATATAATAAAATTA
1 ATATATAATAAAATTA
*
74989600 A-ATATAATAATATTA
1 ATATATAATAAAATTA
74989615 TATTATATAAT
1 -A-TATATAAT
74989626 TGTTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 13 0.59
16 2 0.09
18 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATATAATAAAATTA
Found at i:74991249 original size:23 final size:23
Alignment explanation
Indices: 74991223--74991266 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
74991213 AAATATGAAA
*
74991223 TTTTAAAAAATAAAAAA-ATTTC
1 TTTTTAAAAATAAAAAATATTTC
*
74991245 TTTTTCAAAATAAAAAATATTT
1 TTTTTAAAAATAAAAAATATTT
74991267 TTTCTTTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
TTTTTAAAAATAAAAAATATTTC
Found at i:74991261 original size:21 final size:21
Alignment explanation
Indices: 74991229--74991270 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
74991219 GAAATTTTAA
*
74991229 AAAATAAAAAAATTTCTTTTTC
1 AAAATAAAAAAATAT-TTTTTC
74991251 AAAAT-AAAAAATATTTTTTC
1 AAAATAAAAAAATATTTTTTC
74991271 TTTGGATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 8 0.42
22 5 0.26
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAATAAAAAAATATTTTTTC
Found at i:74991656 original size:22 final size:21
Alignment explanation
Indices: 74991626--74991684 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
74991616 TGTATGAATT
* *
74991626 TTTTAATTTTATTTTTGATTAA
1 TTTTGATTTTATTTTT-ATAAA
74991648 TTTTGATTTTAATTTTTATAAA
1 TTTTGATTTT-ATTTTTATAAA
*
74991670 TTTTGA-ATTATTTTT
1 TTTTGATTTTATTTTT
74991685 TGATGTGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 6 0.18
21 2 0.06
22 19 0.58
23 6 0.18
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTGATTTTATTTTTATAAA
Found at i:74995388 original size:3 final size:3
Alignment explanation
Indices: 74995380--74995422 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
74995370 GCCTTTCTTG
74995380 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
74995423 AAATGATTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:75005185 original size:8 final size:8
Alignment explanation
Indices: 75005172--75005202 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
75005162 AAAGTGTTGC
75005172 TTTGGTTT
1 TTTGGTTT
75005180 TTTGGTTT
1 TTTGGTTT
75005188 TTTGGTTT
1 TTTGGTTT
75005196 TTTGGTT
1 TTTGGTT
75005203 CCCCTCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.26, T:0.74
Consensus pattern (8 bp):
TTTGGTTT
Found at i:75008090 original size:28 final size:28
Alignment explanation
Indices: 75008050--75008109 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
75008040 AAAAATCTCA
* *
75008050 TATTGGTCTTATACTAAGAGTTAGATTG
1 TATTGGTCTTATACTAAAAGTTAAATTG
75008078 TATTGGTCTTATACTAAAAGTTAAATTG
1 TATTGGTCTTATACTAAAAGTTAAATTG
75008106 TATT
1 TATT
75008110 TTGCCCTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.45
Consensus pattern (28 bp):
TATTGGTCTTATACTAAAAGTTAAATTG
Found at i:75010229 original size:26 final size:26
Alignment explanation
Indices: 75010200--75010250 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
75010190 TTTAAAAAAT
75010200 TTATTTGTTAAAATA-AGTTTTTTTAA
1 TTATTTGTTAAAATATA-TTTTTTTAA
* *
75010226 TTATTTTTTAGAATATATTTTTTTA
1 TTATTTGTTAAAATATATTTTTTTA
75010251 TTTACAGGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
TTATTTGTTAAAATATATTTTTTTAA
Found at i:75013765 original size:13 final size:13
Alignment explanation
Indices: 75013747--75013771 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75013737 CAATATATTT
75013747 ATTAATTAAAAAC
1 ATTAATTAAAAAC
75013760 ATTAATTAAAAA
1 ATTAATTAAAAA
75013772 TTAAAACAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:75015226 original size:13 final size:14
Alignment explanation
Indices: 75015210--75015245 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
75015200 CAATCTCATA
75015210 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
75015223 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
75015236 TCTC-ATTTCA
1 TCTCAATTTCA
75015246 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:75015235 original size:18 final size:19
Alignment explanation
Indices: 75015197--75015237 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
75015187 TGGTTCATGT
75015197 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
75015216 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
75015234 TTTC
1 TTTC
75015238 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:75016518 original size:26 final size:26
Alignment explanation
Indices: 75016484--75016535 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
75016474 CTTCCCCTGC
75016484 TTTTCGTTTGCCTAT-TCTGTTTCTTT
1 TTTTCGTTT-CCTATCTCTGTTTCTTT
* * *
75016510 TTTTTGTTTCCTTTCTCTTTTTCTTT
1 TTTTCGTTTCCTATCTCTGTTTCTTT
75016536 ATTTATTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.02, C:0.19, G:0.08, T:0.71
Consensus pattern (26 bp):
TTTTCGTTTCCTATCTCTGTTTCTTT
Found at i:75017268 original size:13 final size:14
Alignment explanation
Indices: 75017250--75017278 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
75017240 GATTAACTTC
75017250 ATAAATATTTT-TA
1 ATAAATATTTTCTA
75017263 ATAAATATTTTCTA
1 ATAAATATTTTCTA
75017277 AT
1 AT
75017279 CCATTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATATTTTCTA
Found at i:75023260 original size:30 final size:27
Alignment explanation
Indices: 75023206--75023260 Score: 74
Period size: 30 Copynumber: 1.9 Consensus size: 27
75023196 TAATTAAAAA
*
75023206 AATTAAAGTTGGTGTAAAGTTTAATAG
1 AATTAAAGTTGGTGTAAAATTTAATAG
75023233 AATTCAAAGTTTGGTGATAAAATTTAAT
1 AATT-AAAG-TTGGTG-TAAAATTTAAT
75023261 TACATAAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 4 0.17
29 6 0.25
30 10 0.42
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (27 bp):
AATTAAAGTTGGTGTAAAATTTAATAG
Found at i:75031310 original size:25 final size:27
Alignment explanation
Indices: 75031261--75031325 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 27
75031251 ATTATGAAGC
*
75031261 TTTTTTTTATTAGAAAAACAGGT-AA-
1 TTTTTTTTATTAGAAAAACAAGTAAAT
75031286 TTTTTTTTATTAGATAAAA-AAGTAAAT
1 TTTTTTTTATTAGA-AAAACAAGTAAAT
75031313 TATTTTTTTATTA
1 T-TTTTTTTATTA
75031326 TTATTATCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
25 17 0.49
26 6 0.17
27 1 0.03
28 11 0.31
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (27 bp):
TTTTTTTTATTAGAAAAACAAGTAAAT
Found at i:75037979 original size:16 final size:16
Alignment explanation
Indices: 75037955--75038014 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
75037945 GTAATATTAT
75037955 TTAAAATAATGACTAA
1 TTAAAATAATGACTAA
* * * *
75037971 TTAACATAATTAAATTAT
1 TTAAAATAA-T-GACTAA
75037989 TTAAAATAATGACTAA
1 TTAAAATAATGACTAA
*
75038005 TTAATATAAT
1 TTAAAATAAT
75038015 TAACTCTAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
16 20 0.61
17 2 0.06
18 11 0.33
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (16 bp):
TTAAAATAATGACTAA
Found at i:75037989 original size:34 final size:34
Alignment explanation
Indices: 75037950--75038017 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
75037940 GCAAAGTAAT
75037950 ATTATTTAAAATAATGACTAATTAACATAATTAA
1 ATTATTTAAAATAATGACTAATTAACATAATTAA
*
75037984 ATTATTTAAAATAATGACTAATTAATATAATTAA
1 ATTATTTAAAATAATGACTAATTAACATAATTAA
75038018 CTCTAATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (34 bp):
ATTATTTAAAATAATGACTAATTAACATAATTAA
Found at i:75038257 original size:18 final size:18
Alignment explanation
Indices: 75038236--75038278 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
75038226 TTTTAACTAA
75038236 TAATTATAATTTAAAT-TC
1 TAATTAT-ATTTAAATATC
* *
75038254 TAATTATTTTTAAATATT
1 TAATTATATTTAAATATC
75038272 TAATTAT
1 TAATTAT
75038279 CATAGGTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTATATTTAAATATC
Found at i:75040781 original size:20 final size:21
Alignment explanation
Indices: 75040741--75040781 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
75040731 TTTTGAAATT
*
75040741 TAGTCTTTATAGTTTTGTTTC
1 TAGTCTTTATAATTTTGTTTC
*
75040762 TAGTCTTT-TAATTTTTTTTC
1 TAGTCTTTATAATTTTGTTTC
75040782 GAATTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.15, C:0.10, G:0.10, T:0.66
Consensus pattern (21 bp):
TAGTCTTTATAATTTTGTTTC
Found at i:75049520 original size:23 final size:23
Alignment explanation
Indices: 75049463--75049521 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
75049453 ATTTTTAAAA
75049463 ATTTAAAATATAT-TTTTATCAT
1 ATTTAAAATATATATTTTATCAT
**
75049485 ATATTAATCTATA-ATTTTATCAT
1 AT-TTAAAATATATATTTTATCAT
75049508 -TTTAAAATATATAT
1 ATTTAAAATATATAT
75049522 ATATGTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
21 8 0.27
22 5 0.17
23 17 0.57
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTAAAATATATATTTTATCAT
Found at i:75050300 original size:74 final size:74
Alignment explanation
Indices: 75050189--75050336 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
75050179 AAAAGATAAG
75050189 GATAAAATAGAAAAAAGTTATCGAACTCAGTCTCTTATTTTGCATGCCAAATGTTATAAATTTAC
1 GATAAAATAGAAAAAAGTTATCGAACTCAGTCTCTTATTTTGCATGCCAAATGTTATAAATTTAC
75050254 AAAAAGGGC
66 AAAAAGGGC
75050263 GATAAAATAGAAAAAAGTTATCGAACTCAGTCTCTTATTTTGCATGCCAAATGTTATAAATTTAC
1 GATAAAATAGAAAAAAGTTATCGAACTCAGTCTCTTATTTTGCATGCCAAATGTTATAAATTTAC
75050328 AAAAAGGGC
66 AAAAAGGGC
75050337 CTACCTCCCT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.30
Consensus pattern (74 bp):
GATAAAATAGAAAAAAGTTATCGAACTCAGTCTCTTATTTTGCATGCCAAATGTTATAAATTTAC
AAAAAGGGC
Found at i:75058539 original size:28 final size:28
Alignment explanation
Indices: 75058477--75058543 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
75058467 TATATTTTTT
75058477 TTACAAAAAA-ATTAAATATTTTTAAAA
1 TTACAAAAAATATTAAATATTTTTAAAA
* * *
75058504 TCATAAAAAATATTAAA-AGTTTTTAAAG
1 TTACAAAAAATATTAAATA-TTTTTAAAA
75058532 TTACAAAAAATA
1 TTACAAAAAATA
75058544 AATTAAATGG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 9 0.27
28 24 0.73
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.34
Consensus pattern (28 bp):
TTACAAAAAATATTAAATATTTTTAAAA
Found at i:75063797 original size:24 final size:23
Alignment explanation
Indices: 75063767--75063815 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
75063757 AGCTATATTT
* *
75063767 AACTTTTTTATCAGTTTTTCTCTA
1 AACTTTTATATCAATTTTT-TCTA
75063791 AACTTTTATATCAATTTTTTCTA
1 AACTTTTATATCAATTTTTTCTA
75063814 AA
1 AA
75063816 TTTGTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.29, C:0.14, G:0.02, T:0.55
Consensus pattern (23 bp):
AACTTTTATATCAATTTTTTCTA
Found at i:75063829 original size:23 final size:23
Alignment explanation
Indices: 75063767--75063834 Score: 57
Period size: 24 Copynumber: 2.9 Consensus size: 23
75063757 AGCTATATTT
** *
75063767 AACTTTTTTATCAGTTTTTCTCTA
1 AACTTTTAAATCAATTTTT-TCTA
*
75063791 AACTTTTATATCAATTTTTTCTA
1 AACTTTTAAATCAATTTTTTCTA
*
75063814 AATTTGTTAAAT-AATTATTTT
1 AACTT-TTAAATCAATT-TTTT
75063835 TTACCCATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.32
24 26 0.68
ACGTcount: A:0.29, C:0.10, G:0.03, T:0.57
Consensus pattern (23 bp):
AACTTTTAAATCAATTTTTTCTA
Found at i:75065258 original size:21 final size:22
Alignment explanation
Indices: 75065233--75065282 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
75065223 TTCAAATACC
75065233 AAATTTTAATTATTT-ATATA-A
1 AAATTTTAA-TATTTCATATATA
*
75065254 TAATTTT-ATATTTCATATATA
1 AAATTTTAATATTTCATATATA
75065275 AAATTTTA
1 AAATTTTA
75065283 TAAATAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 5 0.21
20 6 0.25
21 13 0.54
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
AAATTTTAATATTTCATATATA
Found at i:75065292 original size:21 final size:22
Alignment explanation
Indices: 75065247--75065294 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
75065237 TTTAATTATT
** *
75065247 TATATAATAATTTTATATTTCA
1 TATATAATAATTTTATAAATAA
75065269 TATATAA-AATTTTATAAATAA
1 TATATAATAATTTTATAAATAA
75065290 TATAT
1 TATAT
75065295 TTATATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TATATAATAATTTTATAAATAA
Found at i:75065760 original size:31 final size:29
Alignment explanation
Indices: 75065703--75065767 Score: 69
Period size: 31 Copynumber: 2.2 Consensus size: 29
75065693 CTTTAATTAC
*
75065703 ATAAAATTTAAATTAAATCATTTAATAAATT
1 ATAAAATTTAAATTAAATCATGTAAT--ATT
* *
75065734 ATAAAA-TTATATATAACTCATGTAATATT
1 ATAAAATTTAAAT-TAAATCATGTAATATT
75065763 ATAAA
1 ATAAA
75065768 CTGGTAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 8 0.27
30 5 0.17
31 17 0.57
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.40
Consensus pattern (29 bp):
ATAAAATTTAAATTAAATCATGTAATATT
Found at i:75066522 original size:16 final size:16
Alignment explanation
Indices: 75066501--75066539 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
75066491 AATTTTTTGG
75066501 ATCATTTTAAGTTTTA
1 ATCATTTTAAGTTTTA
** *
75066517 ATCATTTTGGGTTTTG
1 ATCATTTTAAGTTTTA
75066533 ATCATTT
1 ATCATTT
75066540 AGGTTGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.23, C:0.08, G:0.13, T:0.56
Consensus pattern (16 bp):
ATCATTTTAAGTTTTA
Found at i:75068554 original size:75 final size:74
Alignment explanation
Indices: 75068467--75068637 Score: 208
Period size: 75 Copynumber: 2.4 Consensus size: 74
75068457 GTTTTCCTCA
** * * **
75068467 TTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAACT
1 TTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAACT
75068531 CAGTATGGAT
65 CAGTATGGAT
*
75068541 TTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAACT
1 TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
*
75068606 CATTATGGA-
65 CAGTATGGAT
*
75068615 -TG--ATACTATACCTACATTTCACA
1 TTGAAATACCATACCTACATTTCACA
75068638 CTTTGCCATG
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
70 20 0.23
73 2 0.02
74 7 0.08
75 57 0.66
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (74 bp):
TTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTC
AGTATGGAT
Found at i:75068634 original size:35 final size:35
Alignment explanation
Indices: 75068471--75068637 Score: 183
Period size: 35 Copynumber: 4.6 Consensus size: 35
75068461 TCCTCATTGA
** *
75068471 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
75068506 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
75068546 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
75068581 AATACCATACCTACATTTCACAACTCATTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
* *
75068616 GATACTATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
75068638 CTTTGCCATG
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
35 85 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:75070048 original size:17 final size:18
Alignment explanation
Indices: 75070007--75070058 Score: 79
Period size: 17 Copynumber: 2.9 Consensus size: 18
75069997 ATTTCTAATC
*
75070007 ACTTATTTTACCATAAGCT
1 ACTTATTTTACCAT-AGCA
75070026 ACTTATTTTACCAT-GCA
1 ACTTATTTTACCATAGCA
75070043 ACTTATTTTACCATAG
1 ACTTATTTTACCATAG
75070059 TTCATAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 16 0.52
18 1 0.03
19 14 0.45
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (18 bp):
ACTTATTTTACCATAGCA
Found at i:75073644 original size:5 final size:5
Alignment explanation
Indices: 75073617--75073659 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
75073607 TTATATATAA
* * * *
75073617 AATAT AATAC AATAC AATAT AATGT AATGT AATAT AATAT AAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AAT
75073660 CTTGATAGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (5 bp):
AATAT
Found at i:75074492 original size:20 final size:20
Alignment explanation
Indices: 75074463--75074502 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
75074453 AATCAAGGTT
* *
75074463 AAATAGAAGAAGTAAACTTC
1 AAATAAAAGAAATAAACTTC
75074483 AAATAAAAGAAATAAACTTC
1 AAATAAAAGAAATAAACTTC
75074503 TATACTAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (20 bp):
AAATAAAAGAAATAAACTTC
Found at i:75075767 original size:55 final size:55
Alignment explanation
Indices: 75075669--75075777 Score: 141
Period size: 55 Copynumber: 2.0 Consensus size: 55
75075659 TTATAGATTT
* *
75075669 GAATAGGGTTTCAATGAATCCTAATTCATAAGCGCTTTGGAGTCTAAGTCTAATC
1 GAATAGGGTTTCAATGAATCCTAATTCACAAGCGCTTTAGAGTCTAAGTCTAATC
* **
75075724 GAATTGGGTTTCAATGAATCCTAATTCAACAAG-G-TATTAGAGTCTGGGTCTAAT
1 GAATAGGGTTTCAATGAATCCTAATTC-ACAAGCGCT-TTAGAGTCTAAGTCTAAT
75075778 TACTCTCCTC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
54 1 0.02
55 42 0.89
56 4 0.09
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (55 bp):
GAATAGGGTTTCAATGAATCCTAATTCACAAGCGCTTTAGAGTCTAAGTCTAATC
Found at i:75079121 original size:19 final size:19
Alignment explanation
Indices: 75079086--75079123 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
75079076 AGCTATCAAG
**
75079086 ATTATATTATATTGCATTA
1 ATTATATTATAAAGCATTA
75079105 ATTATATTATAAAGCATTA
1 ATTATATTATAAAGCATTA
75079124 TATGGTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (19 bp):
ATTATATTATAAAGCATTA
Found at i:75085968 original size:6 final size:6
Alignment explanation
Indices: 75085957--75085987 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
75085947 CTTCTTAGAA
75085957 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT G
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT G
75085988 GTGAATTACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.35, T:0.16
Consensus pattern (6 bp):
GAAGAT
Found at i:75087918 original size:30 final size:32
Alignment explanation
Indices: 75087866--75087926 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 32
75087856 ATATTTTTAT
*
75087866 TAATATTTATATATTTGTAATTAAATTTAAAA
1 TAATATTTATATATTTGAAATTAAATTTAAAA
*
75087898 TAATTTTTAT-TATTT-AAATTAAATTTAAA
1 TAATATTTATATATTTGAAATTAAATTTAAA
75087927 CTAAATGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 13 0.48
31 5 0.19
32 9 0.33
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (32 bp):
TAATATTTATATATTTGAAATTAAATTTAAAA
Found at i:75088141 original size:3 final size:3
Alignment explanation
Indices: 75088133--75088165 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
75088123 ATAAAATGTC
*
75088133 ATG ATG ATG ATG ATG ATG ATA ATG ATG AT- ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
75088166 GACATTTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:75089048 original size:17 final size:18
Alignment explanation
Indices: 75089028--75089073 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
75089018 CAAATGCACA
75089028 TTTTTATAAAAT-TTAAT
1 TTTTTATAAAATATTAAT
**
75089045 TTTTTATTTAATATTAAT
1 TTTTTATAAAATATTAAT
75089063 TTATTT-TAAAA
1 TT-TTTATAAAA
75089074 GAAATTCAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 10 0.43
18 10 0.43
19 3 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTTATAAAATATTAAT
Found at i:75094504 original size:18 final size:19
Alignment explanation
Indices: 75094462--75094500 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
75094452 TCAAAATTTT
75094462 AAATAATAATTATTGTTGA
1 AAATAATAATTATTGTTGA
75094481 AAATAATAA-TATT-TTGA
1 AAATAATAATTATTGTTGA
75094498 AAA
1 AAA
75094501 ATAAAATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
18 4 0.20
19 9 0.45
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (19 bp):
AAATAATAATTATTGTTGA
Found at i:75096128 original size:8 final size:8
Alignment explanation
Indices: 75096115--75096141 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
75096105 GATTGGATCT
75096115 TTTATTGC
1 TTTATTGC
75096123 TTTATTGC
1 TTTATTGC
75096131 TTTATTGC
1 TTTATTGC
75096139 TTT
1 TTT
75096142 TCTGTTCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (8 bp):
TTTATTGC
Found at i:75104312 original size:3 final size:3
Alignment explanation
Indices: 75104301--75104332 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
75104291 TAGAAGAACA
*
75104301 AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
75104333 AACATTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:75111180 original size:29 final size:27
Alignment explanation
Indices: 75111128--75111187 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 27
75111118 AAGTTAAAAT
75111128 TTTTTAAGAGGTAAAAATTAAATTATAAA
1 TTTTTAAGAGGTAAAAATTAAATT-T-AA
* *
75111157 TTTTTATA-AGGTAAAAGTTTAATTTAA
1 TTTTTA-AGAGGTAAAAATTAAATTTAA
75111184 TTTT
1 TTTT
75111188 ATATTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 6 0.21
28 1 0.04
29 20 0.71
30 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (27 bp):
TTTTTAAGAGGTAAAAATTAAATTTAA
Found at i:75115806 original size:20 final size:20
Alignment explanation
Indices: 75115783--75115824 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
75115773 TTCTTTTGAA
75115783 AAATGATTAT-TTTATAAAAT
1 AAATGATTATGTTTA-AAAAT
* *
75115803 AAATTATTTTGTTTAAAAAT
1 AAATGATTATGTTTAAAAAT
75115823 AA
1 AA
75115825 TTGAATATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
AAATGATTATGTTTAAAAAT
Found at i:75121457 original size:33 final size:33
Alignment explanation
Indices: 75121406--75121485 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
75121396 TCCCATTGTG
*
75121406 CCGGAACCGACACCATCTGCCGAGGTGCCTGATT
1 CCGGCACC-ACACCATCTGCCGAGGTGCCTGATT
75121440 CCGGCACCACACCATCTGCCGAGGTGCCTGATT
1 CCGGCACCACACCATCTGCCGAGGTGCCTGATT
*
75121473 CCGGCACTACACC
1 CCGGCACCACACC
75121486 GGCTCTAACT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 37 0.84
34 7 0.16
ACGTcount: A:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (33 bp):
CCGGCACCACACCATCTGCCGAGGTGCCTGATT
Found at i:75122071 original size:62 final size:64
Alignment explanation
Indices: 75121974--75122100 Score: 179
Period size: 62 Copynumber: 2.0 Consensus size: 64
75121964 GTTTTTTTTA
* * * *
75121974 TGATAGTATCTGAAAATATTGTAGGGTTAAGTTTGTTG-A-TTTTTTTAGAATTAGGATTAAAT
1 TGATAGAATCTGAAAATATTGTAGGGTTAAATTTGTTGAACTTTTTTTAGAATTAAGACTAAAT
*
75122036 TGATAGAATCTGTAAATATTGTTA-GGTTAAATTTGTTGAACTTTTTTTAGAATTAAGACTAAAT
1 TGATAGAATCTGAAAATATTG-TAGGGTTAAATTTGTTGAACTTTTTTTAGAATTAAGACTAAAT
75122100 T
1 T
75122101 TATAAAATTT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
62 32 0.56
63 3 0.05
64 22 0.39
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (64 bp):
TGATAGAATCTGAAAATATTGTAGGGTTAAATTTGTTGAACTTTTTTTAGAATTAAGACTAAAT
Found at i:75122120 original size:64 final size:63
Alignment explanation
Indices: 75121987--75122121 Score: 166
Period size: 64 Copynumber: 2.1 Consensus size: 63
75121977 TAGTATCTGA
* * * * *
75121987 AAATATTG-TAGGGTTAAGTTTGTTGATTTTTTTAGAATTAGGATTAAATTGATAGAATCTGT
1 AAATATTGTTAGGGTTAAATTTGTTGATTTTTTTAGAATTAAGACTAAATTGATAAAATCTAT
* *
75122049 AAATATTGTTA-GGTTAAATTTGTTGAACTTTTTTTAGAATTAAGACTAAATTTATAAAATTTAT
1 AAATATTGTTAGGGTTAAATTTGTTG-A-TTTTTTTAGAATTAAGACTAAATTGATAAAATCTAT
*
75122113 AATTATTGT
1 AAATATTGT
75122122 AGAACTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
62 21 0.34
63 3 0.05
64 38 0.61
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (63 bp):
AAATATTGTTAGGGTTAAATTTGTTGATTTTTTTAGAATTAAGACTAAATTGATAAAATCTAT
Found at i:75122131 original size:64 final size:62
Alignment explanation
Indices: 75122005--75122136 Score: 149
Period size: 64 Copynumber: 2.1 Consensus size: 62
75121995 TAGGGTTAAG
* * * * **
75122005 TTTGTTGATTTTTTTAGAATTAGGATTAAATTGATAGAATCTGTAAATATTGTTAGGTTAAA
1 TTTGTTGATTTTTTTAGAATTAAGACTAAATTGATAAAATCTATAAATATTGTTAGACTAAA
* * *
75122067 TTTGTTGAACTTTTTTTAGAATTAAGACTAAATTTATAAAATTTATAATTATTG-TAGAACTAAA
1 TTTGTTG-A-TTTTTTTAGAATTAAGACTAAATTGATAAAATCTATAAATATTGTTAG-ACTAAA
75122131 TTTGTT
1 TTTGTT
75122137 ATTATGTAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
62 7 0.12
63 4 0.07
64 47 0.81
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.48
Consensus pattern (62 bp):
TTTGTTGATTTTTTTAGAATTAAGACTAAATTGATAAAATCTATAAATATTGTTAGACTAAA
Found at i:75130351 original size:21 final size:21
Alignment explanation
Indices: 75130325--75130365 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
75130315 ATCTGCTCAA
* *
75130325 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTATGGAGTAC
75130346 ACTCCACCTGCTATGGAGTA
1 ACTCCACCTGCTATGGAGTA
75130366 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTATGGAGTAC
Found at i:75132249 original size:104 final size:105
Alignment explanation
Indices: 75132003--75132270 Score: 450
Period size: 104 Copynumber: 2.6 Consensus size: 105
75131993 TTGTATATAA
** *
75132003 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
75132067 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
75132108 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
75132173 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
75132212 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
75132271 ATAACGGTTA
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 85 0.55
105 68 0.44
106 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:75136534 original size:19 final size:21
Alignment explanation
Indices: 75136510--75136549 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
75136500 TTTTTTAAAA
75136510 TATAAA-ATTTGAATT-TTTT
1 TATAAATATTTGAATTATTTT
75136529 TATAAATATTTGAATTATTTT
1 TATAAATATTTGAATTATTTT
75136550 GTAATTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 9 0.47
21 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
TATAAATATTTGAATTATTTT
Found at i:75142151 original size:18 final size:18
Alignment explanation
Indices: 75142128--75142162 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
75142118 AAAAAATATA
75142128 TTTTAT-ATTAATATTTAT
1 TTTTATAATTAA-ATTTAT
75142146 TTTTATAATTAAATTTA
1 TTTTATAATTAAATTTA
75142163 AACGAAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATAATTAAATTTAT
Found at i:75143874 original size:26 final size:26
Alignment explanation
Indices: 75143844--75143893 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
75143834 AGCATATAAA
* * *
75143844 AAAATATGATATTTAATAATAAATTT
1 AAAATATAATATATAATAAAAAATTT
75143870 AAAATATAATATATAATAAAAAAT
1 AAAATATAATATATAATAAAAAAT
75143894 ATATTTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (26 bp):
AAAATATAATATATAATAAAAAATTT
Found at i:75144426 original size:18 final size:18
Alignment explanation
Indices: 75144403--75144526 Score: 144
Period size: 18 Copynumber: 6.9 Consensus size: 18
75144393 AATTATATCT
75144403 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
75144421 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
75144439 TCTAAGATTGTAATCATA
1 TCTAAGATTGCAATCATA
* *
75144457 TCTAAGATTG-TATTATA
1 TCTAAGATTGCAATCATA
* * *
75144474 TCTAAAATTACAATTATA
1 TCTAAGATTGCAATCATA
* * *
75144492 TTTAAGATTG-TACCATA
1 TCTAAGATTGCAATCATA
75144509 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
75144527 TGAAGATTAT
Statistics
Matches: 88, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
17 26 0.30
18 58 0.66
19 4 0.05
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:75144498 original size:35 final size:35
Alignment explanation
Indices: 75144403--75144526 Score: 158
Period size: 35 Copynumber: 3.5 Consensus size: 35
75144393 AATTATATCT
*
75144403 TCTAAGATTGCAATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
* *
75144439 TCTAAGATTGTAATCATATCTAAGATTGTATTATA
1 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
* * * * *
75144474 TCTAAAATTACAATTATATTTAAGATTGTACCATA
1 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
75144509 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
75144527 TGAAGATTAT
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
35 43 0.58
36 31 0.42
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:75144498 original size:53 final size:53
Alignment explanation
Indices: 75144403--75144526 Score: 160
Period size: 53 Copynumber: 2.3 Consensus size: 53
75144393 AATTATATCT
* * *
75144403 TCTAAGATTGCAATCATATCTAAGATTGCAATCATATCTAAGATTGTAATCATA
1 TCTAAGATTGCAATCATATCTAAAATTACAATCATATCTAAGATTGT-ACCATA
* * * *
75144457 TCTAAGATTG-TATTATATCTAAAATTACAATTATATTTAAGATTGTACCATA
1 TCTAAGATTGCAATCATATCTAAAATTACAATCATATCTAAGATTGTACCATA
75144509 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
75144527 TGAAGATTAT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
52 15 0.25
53 30 0.51
54 14 0.24
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (53 bp):
TCTAAGATTGCAATCATATCTAAAATTACAATCATATCTAAGATTGTACCATA
Found at i:75145163 original size:9 final size:9
Alignment explanation
Indices: 75145149--75145173 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
75145139 TCTCCTTTCA
75145149 TCTTCTTGT
1 TCTTCTTGT
75145158 TCTTCTTGT
1 TCTTCTTGT
75145167 TCTTCTT
1 TCTTCTT
75145174 CCTCTCGGGA
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:0.00, C:0.24, G:0.08, T:0.68
Consensus pattern (9 bp):
TCTTCTTGT
Found at i:75150743 original size:6 final size:6
Alignment explanation
Indices: 75150705--75150739 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
75150695 TCCTTTCCTC
* *
75150705 TTCTTG TTCTTG TTCTTG TTGTTG TTCTTC TTCTT
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTT
75150740 CTTCATATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.17, G:0.14, T:0.69
Consensus pattern (6 bp):
TTCTTG
Found at i:75153631 original size:17 final size:17
Alignment explanation
Indices: 75153611--75153644 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
75153601 AAATAGATTT
75153611 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
75153628 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
75153645 ACTTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:75156936 original size:3 final size:3
Alignment explanation
Indices: 75156928--75156970 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
75156918 TTTTGTACGT
* *
75156928 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TGA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
75156971 TCTGTTAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:75162236 original size:18 final size:18
Alignment explanation
Indices: 75162213--75162264 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
75162203 ACCCCATCTG
* *
75162213 GAGTAATCACTAGGTCTA
1 GAGTAATCACTAGGCCGA
* *
75162231 GAGTAATCGCTAGGCCGG
1 GAGTAATCACTAGGCCGA
*
75162249 GAGTAATCACTGGGCC
1 GAGTAATCACTAGGCC
75162265 TATTACCCCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (18 bp):
GAGTAATCACTAGGCCGA
Found at i:75164338 original size:2 final size:2
Alignment explanation
Indices: 75164331--75164361 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
75164321 AGCAGCCCCT
*
75164331 TC TC TC TC TC TC TC TC TC TC TC TC TG TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
75164362 TCCTTCTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.03, T:0.52
Consensus pattern (2 bp):
TC
Found at i:75170010 original size:21 final size:21
Alignment explanation
Indices: 75169987--75170027 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
75169977 AATATATATA
75169987 TTTATATAATTAAAATTTTAAT
1 TTTATA-AATTAAAATTTTAAT
* *
75170009 TTTCTAAATTAAATTTTTA
1 TTTATAAATTAAAATTTTA
75170028 TGAATTTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTATAAATTAAAATTTTAAT
Found at i:75177359 original size:21 final size:21
Alignment explanation
Indices: 75177315--75177361 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
75177305 GGTTACCGTT
*** *
75177315 CGAGAATCATGGACTGTGATG
1 CGAGAATCATGGACCACGAGG
75177336 CGAGAATCATGGACCACGAGG
1 CGAGAATCATGGACCACGAGG
75177357 CGAGA
1 CGAGA
75177362 CTAAACATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.19, G:0.34, T:0.15
Consensus pattern (21 bp):
CGAGAATCATGGACCACGAGG
Found at i:75185602 original size:19 final size:19
Alignment explanation
Indices: 75185578--75185636 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
75185568 CCGGTTTAAA
75185578 TTATTGTATAAATTAATAT
1 TTATTGTATAAATTAATAT
* *
75185597 TTATTGAAT-AGTTAAT-T
1 TTATTGTATAAATTAATAT
* *
75185614 TTTTTGTATAAAATAAATAT
1 TTATTGTAT-AAATTAATAT
75185634 TTA
1 TTA
75185637 GACTTTTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
17 8 0.27
18 6 0.20
19 13 0.43
20 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.53
Consensus pattern (19 bp):
TTATTGTATAAATTAATAT
Found at i:75193368 original size:14 final size:15
Alignment explanation
Indices: 75193332--75193369 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
75193322 AAAACATGGC
* *
75193332 CTAAACTAAACTAAA
1 CTAATCTAAACAAAA
75193347 CTAATCTAAACAAAA
1 CTAATCTAAACAAAA
75193362 C-AATCTAA
1 CTAATCTAA
75193370 TTTAGATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (15 bp):
CTAATCTAAACAAAA
Found at i:75208250 original size:55 final size:55
Alignment explanation
Indices: 75208166--75208276 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
75208156 CCCTAAATAG
75208166 AACCATATCGAACCTCTAGTGGTCATCCGATTAGGTGTTCTATTTCTCATTTCTT
1 AACCATATCGAACCTCTAGTGGTCATCCGATTAGGTGTTCTATTTCTCATTTCTT
75208221 AACCATATCGAACCTCTAGTGGTCATCCGATTAGGTGTTCTATTTCTCATTTCTT
1 AACCATATCGAACCTCTAGTGGTCATCCGATTAGGTGTTCTATTTCTCATTTCTT
75208276 A
1 A
75208277 CTTTGAATTC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (55 bp):
AACCATATCGAACCTCTAGTGGTCATCCGATTAGGTGTTCTATTTCTCATTTCTT
Found at i:75215685 original size:14 final size:14
Alignment explanation
Indices: 75215666--75215697 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
75215656 TCCAACCACC
75215666 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
75215680 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
75215694 GGGC
1 GGGC
75215698 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:75220805 original size:14 final size:14
Alignment explanation
Indices: 75220786--75220817 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
75220776 TCCAACCACC
75220786 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
75220800 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
75220814 GGGC
1 GGGC
75220818 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:75226322 original size:28 final size:27
Alignment explanation
Indices: 75226278--75226387 Score: 107
Period size: 28 Copynumber: 4.0 Consensus size: 27
75226268 CTGCACAATC
* *
75226278 GATGTCTTGCACGCTAAGTGCTATACCG
1 GATGTCTTGCACACTAAGTGCCAT-CCG
*
75226306 GATGT-TTCGCACACTAAGTGCCATCCTT
1 GATGTCTT-GCACACTAAGTGCCATCC-G
* * *
75226334 TAT-ACTTCGCACACTAAGTGCCATTTCG
1 GATGTCTT-GCACACTAAGTGCCA-TCCG
75226362 GATGTCTTGCACACTAAGTGCCATCC
1 GATGTCTTGCACACTAAGTGCCATCC
75226388 TCAATACTTC
Statistics
Matches: 67, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
27 6 0.09
28 56 0.84
29 5 0.07
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (27 bp):
GATGTCTTGCACACTAAGTGCCATCCG
Found at i:75226377 original size:56 final size:56
Alignment explanation
Indices: 75226286--75226411 Score: 182
Period size: 56 Copynumber: 2.2 Consensus size: 56
75226276 TCGATGTCTT
* * **
75226286 GCACGCTAAGTGCTATACCGGATGTTTCGCACACTAAGTGCCATCCTTTATACTTC
1 GCACACTAAGTGCCATACCGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTC
**
75226342 GCACACTAAGTGCCATTTCGGATGTCTT-GCACACTAAGTGCCATCCTCAATACTTC
1 GCACACTAAGTGCCATACCGGATGT-TTCGCACACTAAGTGCCATCCTCAATACTTC
75226398 GCACACTAAGTGCC
1 GCACACTAAGTGCC
75226412 GTTCGATTGG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
56 61 0.97
57 2 0.03
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (56 bp):
GCACACTAAGTGCCATACCGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTC
Found at i:75226401 original size:28 final size:28
Alignment explanation
Indices: 75226311--75226411 Score: 125
Period size: 28 Copynumber: 3.6 Consensus size: 28
75226301 TACCGGATGT
**
75226311 TTCGCACACTAAGTGCCATCCTTTATAC
1 TTCGCACACTAAGTGCCATCCTCAATAC
* * *
75226339 TTCGCACACTAAGTGCCAT-TTCGGATGTC
1 TTCGCACACTAAGTGCCATCCTC-AAT-AC
75226368 TT-GCACACTAAGTGCCATCCTCAATAC
1 TTCGCACACTAAGTGCCATCCTCAATAC
75226395 TTCGCACACTAAGTGCC
1 TTCGCACACTAAGTGCC
75226412 GTTCGATTGG
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
27 4 0.06
28 53 0.85
29 5 0.08
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.29
Consensus pattern (28 bp):
TTCGCACACTAAGTGCCATCCTCAATAC
Found at i:75226853 original size:68 final size:63
Alignment explanation
Indices: 75226706--75226853 Score: 156
Period size: 63 Copynumber: 2.3 Consensus size: 63
75226696 ATATAGTTTG
** * *
75226706 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCGATGTGACCTAGCCAGTTTATCTCGTA
1 GCTCTCTTGTACACATGGTGAACAAATAGTACCACCCATGCGACCTAGCCAGTTTATCTCGTA
* * *
75226769 ACTCTCTTGT-CTACATGGTGTACAAATAGTATCACCCATGCGACCTAGCTACA-TTATAATGTC
1 GCTCTCTTGTAC-ACATGGTGAACAAATAGTACCACCCATGCGACCTAGC--CAGTT-T-A--TC
75226832 TCGTA
59 TCGTA
75226837 GCTCTCTTGTACACATG
1 GCTCTCTTGTACACATG
75226854 ATGTGCACTC
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
62 1 0.01
63 40 0.58
64 2 0.03
65 3 0.04
66 1 0.01
68 21 0.30
69 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGAACAAATAGTACCACCCATGCGACCTAGCCAGTTTATCTCGTA
Found at i:75230504 original size:68 final size:68
Alignment explanation
Indices: 75230356--75230511 Score: 165
Period size: 68 Copynumber: 2.2 Consensus size: 68
75230346 AGCCAATGTG
* * * **
75230356 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACGTCAC-TCGAATCACACATGCGACCTAGCTACACA
*
75230421 TATC
65 TATA
* *
75230425 TCTCACGTAGCTCTCTTGTCTACATGG-GATACGTC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACGTCACTCGAATCACACATGCGACCTAGCTAC-
75230487 ACATAGTA
62 ACATA-TA
75230495 TCTCGTAGCTCTCTTGT
1 TCTCGTAGCTCTCTTGT
75230512 ACACATGATG
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
68 36 0.49
69 6 0.08
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.34
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACGTCACTCGAATCACACATGCGACCTAGCTACACAT
ATA
Found at i:75234150 original size:37 final size:37
Alignment explanation
Indices: 75234100--75234173 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
75234090 AAACTTGTAT
75234100 GTATTCAAGTTCAATCTCAAATTCGACTTAATAATTA
1 GTATTCAAGTTCAATCTCAAATTCGACTTAATAATTA
*
75234137 GTATTCAAGTTCAATCTCAAATTCGACTTGATAATTA
1 GTATTCAAGTTCAATCTCAAATTCGACTTAATAATTA
75234174 AACTTAAGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.38
Consensus pattern (37 bp):
GTATTCAAGTTCAATCTCAAATTCGACTTAATAATTA
Found at i:75238270 original size:17 final size:18
Alignment explanation
Indices: 75238240--75238280 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
75238230 TATATTTGTT
75238240 TTTTAATTAAAAA-TAA-A
1 TTTT-ATTAAAAATTAATA
75238257 TTTTATTAATAAATTAATA
1 TTTTATTAA-AAATTAATA
75238276 TTTTA
1 TTTTA
75238281 ATCACTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 5 0.24
17 7 0.33
18 3 0.14
19 6 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTATTAAAAATTAATA
Found at i:75239890 original size:13 final size:13
Alignment explanation
Indices: 75239874--75239913 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
75239864 TTATATTATC
75239874 TTATTACCTAATT
1 TTATTACCTAATT
*
75239887 TTA-TA-CT-ATC
1 TTATTACCTAATT
75239897 TTATTACCTAATT
1 TTATTACCTAATT
75239910 TTAT
1 TTAT
75239914 AATTTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
10 5 0.23
11 4 0.18
12 4 0.18
13 9 0.41
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATTACCTAATT
Found at i:75239890 original size:23 final size:23
Alignment explanation
Indices: 75239859--75239914 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
75239849 TGTGACACTT
* *
75239859 TAATATTATATTATCTTATTACC
1 TAATTTTATACTATCTTATTACC
75239882 TAATTTTATACTATCTTATTACC
1 TAATTTTATACTATCTTATTACC
75239905 TAATTTTATA
1 TAATTTTATA
75239915 ATTTTTAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.54
Consensus pattern (23 bp):
TAATTTTATACTATCTTATTACC
Found at i:75242052 original size:18 final size:19
Alignment explanation
Indices: 75242019--75242054 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
75242009 ATGTTAAGTC
*
75242019 CTAAACAAAAGCAAAGAAT
1 CTAAACAAAAGAAAAGAAT
75242038 CTAAA-AAAAGAAAAGAA
1 CTAAACAAAAGAAAAGAA
75242055 AGCTGATGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.69, C:0.11, G:0.11, T:0.08
Consensus pattern (19 bp):
CTAAACAAAAGAAAAGAAT
Found at i:75243773 original size:29 final size:30
Alignment explanation
Indices: 75243714--75243771 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
75243704 TCCGAGCCTT
* *
75243714 GGGGTAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
75243744 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
75243772 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.24, T:0.33
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:75244001 original size:13 final size:13
Alignment explanation
Indices: 75243983--75244014 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
75243973 TTTCCAGCAA
75243983 TTATGAATTTATT
1 TTATGAATTTATT
75243996 TTATGAATTTATT
1 TTATGAATTTATT
*
75244009 TGATGA
1 TTATGA
75244015 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:75244222 original size:50 final size:50
Alignment explanation
Indices: 75244109--75244350 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
75244099 ATTTGGGTAA
* * *
75244109 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
75244165 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
75244215 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
75244265 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
75244315 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
75244351 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:75244298 original size:100 final size:103
Alignment explanation
Indices: 75244109--75244358 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
75244099 ATTTGGGTAA
75244109 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
75244174 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
75244215 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
75244277 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
75244315 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
75244359 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:75255507 original size:21 final size:22
Alignment explanation
Indices: 75255483--75255528 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
75255473 AATTAGATAG
75255483 ATAAATAAT-AA-AAATTCTTAC
1 ATAAATAATAAATAAATT-TTAC
*
75255504 ATAAATGATAAATAAATTTTAC
1 ATAAATAATAAATAAATTTTAC
75255526 ATA
1 ATA
75255529 TATTTCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 9 0.41
23 5 0.23
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.35
Consensus pattern (22 bp):
ATAAATAATAAATAAATTTTAC
Found at i:75259890 original size:18 final size:17
Alignment explanation
Indices: 75259857--75259895 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
75259847 TTGTATAAAT
75259857 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
75259875 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
75259892 TGTG
1 TGTG
75259896 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:75260148 original size:23 final size:23
Alignment explanation
Indices: 75260121--75260196 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
75260111 AGTGTTATTG
75260121 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
75260144 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
75260167 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
75260190 GTCAGTG
1 ATCAGTG
75260197 TGGCACTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:75262451 original size:4 final size:4
Alignment explanation
Indices: 75262442--75262470 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
75262432 AGCAAACGTG
75262442 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
75262471 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Done.