Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 286 of 345
Found at i:97507568 original size:14 final size:15
Alignment explanation
Indices: 97507551--97507659 Score: 76
Period size: 18 Copynumber: 6.4 Consensus size: 15
97507541 ATAATCTTCA
97507551 ATATG-CAATCTTAG
1 ATATGACAATCTTAG
97507565 ATATGATACAATCTTAG
1 ATATG--ACAATCTTAG
97507582 ATATGATTGCAATCTTAG
1 ATATGA---CAATCTTAG
97507600 ATATGATATGCAATCTTAG
1 ATATG--A--CAATCTTAG
*
97507619 ATATGATACAATTTTAG
1 ATATG--ACAATCTTAG
97507636 ATATGATTGCAATCTTAG
1 ATATGA---CAATCTTAG
97507654 ATATGA
1 ATATGA
97507660 TATGCAATCT
Statistics
Matches: 82, Mismatches: 2, Indels: 18
0.80 0.02 0.18
Matches are distributed among these distances:
14 5 0.06
15 2 0.02
17 27 0.33
18 28 0.34
19 19 0.23
20 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (15 bp):
ATATGACAATCTTAG
Found at i:97507599 original size:35 final size:35
Alignment explanation
Indices: 97507554--97507673 Score: 170
Period size: 35 Copynumber: 3.3 Consensus size: 35
97507544 ATCTTCAATA
97507554 TGCAATCTTAGATATGATACAATCTTAGATATGAT
1 TGCAATCTTAGATATGATACAATCTTAGATATGAT
97507589 TGCAATCTTAGATATGATATGCAATCTTAGATATGA-
1 TGCAATCTTAGATATGATA--CAATCTTAGATATGAT
* * *
97507625 TACAATTTTAGATATGATTGCAATCTTAGATATGAT
1 TGCAATCTTAGATATGA-TACAATCTTAGATATGAT
97507661 ATGCAATCTTAGA
1 -TGCAATCTTAGA
97507674 AGATATGATT
Statistics
Matches: 75, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
35 34 0.45
36 15 0.20
37 26 0.35
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.38
Consensus pattern (35 bp):
TGCAATCTTAGATATGATACAATCTTAGATATGAT
Found at i:97507610 original size:54 final size:54
Alignment explanation
Indices: 97507551--97507673 Score: 237
Period size: 54 Copynumber: 2.3 Consensus size: 54
97507541 ATAATCTTCA
97507551 ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
1 ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
*
97507605 ATATGCAATCTTAGATATGATACAATTTTAGATATGATTGCAATCTTAGATATG
1 ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
97507659 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
97507674 AGATATGATT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (54 bp):
ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
Found at i:97507680 original size:17 final size:19
Alignment explanation
Indices: 97507551--97507673 Score: 195
Period size: 19 Copynumber: 6.8 Consensus size: 19
97507541 ATAATCTTCA
97507551 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
97507570 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
97507587 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
97507605 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
97507624 ATA--CAATTTTAGATATG
1 ATATGCAATCTTAGATATG
97507641 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
97507659 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
97507674 AGATATGATT
Statistics
Matches: 96, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
17 31 0.32
18 31 0.32
19 34 0.35
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:97507699 original size:22 final size:22
Alignment explanation
Indices: 97507551--97507696 Score: 88
Period size: 19 Copynumber: 7.7 Consensus size: 22
97507541 ATAATCTTCA
97507551 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
97507570 ATA--CAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
97507587 AT-TGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
97507605 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
*
97507624 ATA--CAATTTTAGA---TATG
1 ATATGCAATCTTAGAAGATATG
97507641 AT-TGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
97507659 ATATGCAATCTTAGAAGATATG
1 ATATGCAATCTTAGAAGATATG
* *
97507681 ATTTTGTAATCTTAGA
1 A-TATGCAATCTTAGA
97507697 GATTTAATTT
Statistics
Matches: 107, Mismatches: 4, Indels: 28
0.77 0.03 0.20
Matches are distributed among these distances:
17 28 0.26
18 28 0.26
19 31 0.29
22 8 0.07
23 12 0.11
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (22 bp):
ATATGCAATCTTAGAAGATATG
Found at i:97514434 original size:8 final size:7
Alignment explanation
Indices: 97514417--97514471 Score: 51
Period size: 7 Copynumber: 7.7 Consensus size: 7
97514407 CTTCTATTTC
97514417 AAAAA-A
1 AAAAAGA
*
97514423 AAAAGGA
1 AAAAAGA
97514430 AAAAAGA
1 AAAAAGA
97514437 AAAGAA-A
1 AAA-AAGA
*
97514444 AAGAGAAAA
1 AA-A-AAGA
97514453 AAAAAGA
1 AAAAAGA
97514460 AAAAAGA
1 AAAAAGA
97514467 AAAAA
1 AAAAA
97514472 TGGAGAGGCC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
6 4 0.10
7 28 0.67
8 7 0.17
9 3 0.07
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:97514439 original size:13 final size:12
Alignment explanation
Indices: 97514417--97514471 Score: 60
Period size: 12 Copynumber: 4.5 Consensus size: 12
97514407 CTTCTATTTC
97514417 AAAAAA-AAAAGG
1 AAAAAAGAAAA-G
97514429 AAAAAAGAAAAG
1 AAAAAAGAAAAG
97514441 AAAAAGAGAAAA-
1 AAAAA-AGAAAAG
*
97514453 AAAAAGAAAAAAG
1 AAAAA-AGAAAAG
97514466 AAAAAA
1 AAAAAA
97514472 TGGAGAGGCC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
12 24 0.62
13 15 0.38
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:97514444 original size:18 final size:18
Alignment explanation
Indices: 97514417--97514471 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
97514407 CTTCTATTTC
97514417 AAAAA-AAAAAG-GAAAAA
1 AAAAAGAAAAAGAG-AAAA
97514434 AGAAAAGAAAAAGAGAAAA
1 A-AAAAGAAAAAGAGAAAA
97514453 AAAAAGAAAAA-AGAAAA
1 AAAAAGAAAAAGAGAAAA
97514470 AA
1 AA
97514472 TGGAGAGGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 9 0.26
18 14 0.40
19 11 0.31
20 1 0.03
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAGAGAAAA
Found at i:97515479 original size:44 final size:44
Alignment explanation
Indices: 97515429--97515769 Score: 327
Period size: 44 Copynumber: 7.8 Consensus size: 44
97515419 AATCCAAGAT
* * * *
97515429 GATTTGGCGTCTCTGTATTGTCA-AGGAGCAGGTCAAAGATGACA
1 GATTTGGCATCTCTGTATTGGCAGA-GAGCAGATCAAAGATAACA
* *
97515473 GATTTGGCATCTCTGTATTGGCAGAGAACAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAACA
* *
97515517 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGAGATAACT
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATC-AA-AGATAACA
* * * ** * *
97515563 GATTTGGCTTTCACGTGT-TTACGTTGA-AGCAAATCCAAGAT----
1 GATTTGGC-ATCTC-TGTATT-GGCAGAGAGCAGATCAAAGATAACA
* * * *
97515604 GATTTGGCGTCTCTGTATTGTCAGAAAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAACA
* * *
97515648 AATTTGCCATCTCTGTATTGGCAGAGAGTAGATCAAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAACA
* *
97515692 GATTTGGCATCTCTGTATTGGCAGAGAACAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAACA
* * * *
97515736 AATTTGGCGTCTCTGTATTGGCAGGGAGTAGATC
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
97515770 GAGGACATAG
Statistics
Matches: 242, Mismatches: 43, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
39 5 0.02
40 17 0.07
41 8 0.03
44 173 0.71
45 6 0.02
46 16 0.07
47 12 0.05
48 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAACA
Found at i:97515703 original size:175 final size:175
Alignment explanation
Indices: 97515412--97515730 Score: 514
Period size: 175 Copynumber: 1.8 Consensus size: 175
97515402 GTATTTACAC
* * * *
97515412 TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTCAAGGAGCAGGTCAAAGATGACAGATT
1 TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTCAAGAAGCAGATCAAAGATAACAAATT
* * *
97515477 TGGCATCTCTGTATTGGCAGAGAACAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGG
66 TGCCATCTCTGTATTGGCAGAGAACAGATCAAAGATAACAGATTTGGCATCTCTGTATTGGCAGA
* *
97515542 GAGCAGATCGAAGAGATAACTGATTTGGCTTTCACGTGTTTACGT
131 GAACAGATCAAAGAGATAACTGATTTGGCTTTCACGTGTTTACGT
*
97515587 TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTC-AGAAAGCAGATCGAAGATAACAAAT
1 TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTCAAG-AAGCAGATCAAAGATAACAAAT
**
97515651 TTGCCATCTCTGTATTGGCAGAGAGTAGATCAAAGATAACAGATTTGGCATCTCTGTATTGGCAG
65 TTGCCATCTCTGTATTGGCAGAGAACAGATCAAAGATAACAGATTTGGCATCTCTGTATTGGCAG
97515716 AGAACAGATCAAAGA
130 AGAACAGATCAAAGA
97515731 TAGCAAATTT
Statistics
Matches: 131, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
174 2 0.02
175 129 0.98
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (175 bp):
TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGTCAAGAAGCAGATCAAAGATAACAAATT
TGCCATCTCTGTATTGGCAGAGAACAGATCAAAGATAACAGATTTGGCATCTCTGTATTGGCAGA
GAACAGATCAAAGAGATAACTGATTTGGCTTTCACGTGTTTACGT
Found at i:97515824 original size:219 final size:219
Alignment explanation
Indices: 97515438--97515861 Score: 681
Period size: 219 Copynumber: 1.9 Consensus size: 219
97515428 TGATTTGGCG
* * *
97515438 TCTCTGTATTGTCAAGGAGCAGGTCAAAGATGACAGATTTGGCATCTCTGTATTGGCAGAGAACA
1 TCTCTGTATTGGCAAGGAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTGGCAGAGAACA
* * *
97515503 GATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGAGATAACTGATTT
66 GATCAAAGATAACAAATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAACTGATTT
97515568 GGCTTTCACGTGTTTACGTTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATT-GTCAGAAAG
131 GGCTTTCACGTGTTTACGTTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGGT-AGAAAG
97515632 CAGATCGAAGATAACAAATTTGCCA
195 CAGATCGAAGATAACAAATTTGCCA
*
97515657 TCTCTGTATTGGC-AGAGAGTAGATCAAAGATAACAGATTTGGCATCTCTGTATTGGCAGAGAAC
1 TCTCTGTATTGGCAAG-GAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTGGCAGAGAAC
* * * * *
97515721 AGATCAAAGATAGCAAATTTGGCGTCTCTGTATTGGCAGGGAGTAGATCGAGGACATAGCTGATT
65 AGATCAAAGATAACAAATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAACTGATT
* **
97515786 TGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGTAGGGAG
130 TGGCTTTCACGTGTTTACGTTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGGTAGAAAG
97515851 CAGATCGAAGA
195 CAGATCGAAGA
97515862 CATAGCTGAT
Statistics
Matches: 188, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
218 2 0.01
219 184 0.98
220 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (219 bp):
TCTCTGTATTGGCAAGGAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTGGCAGAGAACA
GATCAAAGATAACAAATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAACTGATTT
GGCTTTCACGTGTTTACGTTGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGGTAGAAAGC
AGATCGAAGATAACAAATTTGCCA
Found at i:97515849 original size:87 final size:87
Alignment explanation
Indices: 97515737--97515986 Score: 446
Period size: 87 Copynumber: 2.9 Consensus size: 87
97515727 AAGATAGCAA
*
97515737 ATTTGGCGTCTCTGTATTGGCAGGGAGTAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTT
1 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTT
97515802 ACGTTGAAGCAAATCTAAGATG
66 ACGTTGAAGCAAATCTAAGATG
* *
97515824 ATTTGGCGTCTCTGTATTGGTAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
1 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTT
*
97515889 ACATTGAAGCAAATCTAAGATG
66 ACGTTGAAGCAAATCTAAGATG
* *
97515911 ATTTGGCGTCTCTGTATTGGCAGGAAGCAGATCGAGGACATAGCTGATTTGGTTTTCACGTGTTT
1 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTT
97515976 ACGTTGAAGCA
66 ACGTTGAAGCA
97515987 CGTGTTTACG
Statistics
Matches: 154, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 154 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.32
Consensus pattern (87 bp):
ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTT
ACGTTGAAGCAAATCTAAGATG
Found at i:97515990 original size:18 final size:18
Alignment explanation
Indices: 97515967--97516004 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
97515957 ATTTGGTTTT
97515967 CACGTGTTTACGTTGAAG
1 CACGTGTTTACGTTGAAG
97515985 CACGTGTTTACGTTGAAG
1 CACGTGTTTACGTTGAAG
97516003 CA
1 CA
97516005 AATCTAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (18 bp):
CACGTGTTTACGTTGAAG
Found at i:97516062 original size:105 final size:105
Alignment explanation
Indices: 97515880--97516091 Score: 352
Period size: 105 Copynumber: 2.0 Consensus size: 105
97515870 ATTTGGCTTT
*
97515880 CACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGAAGCAGATCG
1 CACGTGTTTACATTGAAGCAAATCTAAGATGATTTAGCGTCTCTGTATTGGCAGGAAGCAGATCG
* * *
97515945 AGGACATAGCTGATTTGGTTTTCACGTGTTTACGTTGAAG
66 AAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAG
* * * *
97515985 CACGTGTTTACGTTGAAGCAAATCTAAGATGGTTTAGCGTCTCTGTATTGGCAGGGAGCAGATTG
1 CACGTGTTTACATTGAAGCAAATCTAAGATGATTTAGCGTCTCTGTATTGGCAGGAAGCAGATCG
97516050 AAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAG
66 AAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAG
97516090 CA
1 CA
97516092 AATCTAAGAT
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
105 99 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (105 bp):
CACGTGTTTACATTGAAGCAAATCTAAGATGATTTAGCGTCTCTGTATTGGCAGGAAGCAGATCG
AAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAG
Found at i:97516761 original size:18 final size:18
Alignment explanation
Indices: 97516719--97516838 Score: 181
Period size: 18 Copynumber: 6.7 Consensus size: 18
97516709 ATCTTCAATA
97516719 TGCAATCTTAGATATGA-
1 TGCAATCTTAGATATGAT
*
97516736 TACAATCTTAGATATGAT
1 TGCAATCTTAGATATGAT
97516754 TGCAATCTTAGATATGAT
1 TGCAATCTTAGATATGAT
*
97516772 ATGCAATCGTAGATATGA-
1 -TGCAATCTTAGATATGAT
*
97516790 TACAATCTTAGATATGAT
1 TGCAATCTTAGATATGAT
97516808 TGCAATCTTAGATATGAT
1 TGCAATCTTAGATATGAT
97516826 ATGCAATCTTAGA
1 -TGCAATCTTAGA
97516839 AGATATGATT
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
17 31 0.33
18 34 0.37
19 28 0.30
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.36
Consensus pattern (18 bp):
TGCAATCTTAGATATGAT
Found at i:97516764 original size:35 final size:35
Alignment explanation
Indices: 97516719--97516838 Score: 170
Period size: 35 Copynumber: 3.3 Consensus size: 35
97516709 ATCTTCAATA
97516719 TGCAATCTTAGATATGATACAATCTTAGATATGAT
1 TGCAATCTTAGATATGATACAATCTTAGATATGAT
*
97516754 TGCAATCTTAGATATGATATGCAATCGTAGATATGA-
1 TGCAATCTTAGATATGATA--CAATCTTAGATATGAT
* *
97516790 TACAATCTTAGATATGATTGCAATCTTAGATATGAT
1 TGCAATCTTAGATATGA-TACAATCTTAGATATGAT
97516826 ATGCAATCTTAGA
1 -TGCAATCTTAGA
97516839 AGATATGATT
Statistics
Matches: 75, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
35 33 0.44
36 16 0.21
37 26 0.35
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.36
Consensus pattern (35 bp):
TGCAATCTTAGATATGATACAATCTTAGATATGAT
Found at i:97516775 original size:54 final size:54
Alignment explanation
Indices: 97516716--97516838 Score: 237
Period size: 54 Copynumber: 2.3 Consensus size: 54
97516706 ATAATCTTCA
97516716 ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
1 ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
*
97516770 ATATGCAATCGTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
1 ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
97516824 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
97516839 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (54 bp):
ATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
Found at i:97516845 original size:17 final size:19
Alignment explanation
Indices: 97516716--97516838 Score: 195
Period size: 19 Copynumber: 6.8 Consensus size: 19
97516706 ATAATCTTCA
97516716 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
97516735 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
97516752 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
97516770 ATATGCAATCGTAGATATG
1 ATATGCAATCTTAGATATG
97516789 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
97516806 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
97516824 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
97516839 AGATATGATT
Statistics
Matches: 96, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
17 31 0.32
18 32 0.33
19 33 0.34
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:97516864 original size:22 final size:22
Alignment explanation
Indices: 97516716--97516861 Score: 88
Period size: 18 Copynumber: 7.7 Consensus size: 22
97516706 ATAATCTTCA
97516716 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
97516735 ATA--CAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
97516752 AT-TGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
*
97516770 ATATGCAATC---GTAGATATG
1 ATATGCAATCTTAGAAGATATG
97516789 ATA--CAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
97516806 AT-TGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
97516824 ATATGCAATCTTAGAAGATATG
1 ATATGCAATCTTAGAAGATATG
* *
97516846 ATTTTGTAATCTTAGA
1 A-TATGCAATCTTAGA
97516862 GATTTAATTT
Statistics
Matches: 111, Mismatches: 2, Indels: 24
0.81 0.01 0.18
Matches are distributed among these distances:
17 30 0.27
18 32 0.29
19 29 0.26
22 8 0.07
23 12 0.11
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (22 bp):
ATATGCAATCTTAGAAGATATG
Found at i:97516871 original size:22 final size:22
Alignment explanation
Indices: 97516830--97516875 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
97516820 TATGATATGC
*
97516830 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATAT-AATTTGT
*
97516853 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
97516874 AA
1 AA
97516876 ATACCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:97516874 original size:21 final size:23
Alignment explanation
Indices: 97516817--97516875 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
97516807 TTGCAATCTT
* *
97516817 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
97516839 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
*
97516861 AGAT-TTAATTTGTAA
1 AGATATGAATTTGTAA
97516876 ATACCTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 9 0.29
22 11 0.35
23 11 0.35
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:97518258 original size:21 final size:22
Alignment explanation
Indices: 97518220--97518260 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
97518210 CTCCCGTTTT
* *
97518220 CATTTTTCTTAAAGTCGATTCC
1 CATTTTTCTAAAACTCGATTCC
97518242 CATTTTTC-AAAACTCGATT
1 CATTTTTCTAAAACTCGATT
97518261 TAAAAATGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (22 bp):
CATTTTTCTAAAACTCGATTCC
Found at i:97519709 original size:47 final size:48
Alignment explanation
Indices: 97519640--97519864 Score: 197
Period size: 47 Copynumber: 4.9 Consensus size: 48
97519630 GGTAAGGTGC
* *
97519640 CGATGCCATATCCCAAACATGGTCTTACACTGGCTCAT-ATCTC-ATG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAATG
* *
97519686 TCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTC-GTAG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAT-G
* * * * *
97519734 CTAATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CGTCTCGAGG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAATG
* * *
97519780 CAGATG-CATGTCCCAGACAT-GTATT--ACTAGCAC-TCATCTCAATG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAATG
*
97519824 CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCAT
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT
97519865 AATGTGGCCG
Statistics
Matches: 145, Mismatches: 22, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
44 15 0.10
45 15 0.10
46 47 0.32
47 54 0.37
48 14 0.10
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAATG
Found at i:97519776 original size:46 final size:46
Alignment explanation
Indices: 97519641--97519900 Score: 168
Period size: 47 Copynumber: 5.6 Consensus size: 46
97519631 GTAAGGTGCC
* * * *
97519641 GATGCCATATCCCAAACATGGTCTTACACTGGCTCAT-ATCTC-ATGTC-
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACT-ATCATCTCGA-GGCA
97519688 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA-GCTA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGGC-A
* *
97519737 -ATGCATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCGAGGCA
1 GATGCATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGAGGCA
* * *
97519782 GATGCATGTCCCAGACATGTATT--ACT-AGC-ACTCATCTCAATGCCA
1 GATGCATGTCCCAGACATGTCTTACACTGA-CTA-TCATCTCGA-GGCA
* * * * *
97519827 -ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACTATCAT-CTCGAGGCA
97519874 GATGCATGT-CCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
97519901 AGCTCACAAT
Statistics
Matches: 174, Mismatches: 19, Indels: 42
0.74 0.08 0.18
Matches are distributed among these distances:
44 13 0.07
45 31 0.18
46 56 0.32
47 58 0.33
48 14 0.08
49 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAGGCA
Found at i:97519945 original size:15 final size:15
Alignment explanation
Indices: 97519925--97519969 Score: 90
Period size: 15 Copynumber: 3.0 Consensus size: 15
97519915 CATATGTCAT
97519925 GGCATGAATATCCGA
1 GGCATGAATATCCGA
97519940 GGCATGAATATCCGA
1 GGCATGAATATCCGA
97519955 GGCATGAATATCCGA
1 GGCATGAATATCCGA
97519970 TTTATTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (15 bp):
GGCATGAATATCCGA
Found at i:97521462 original size:148 final size:148
Alignment explanation
Indices: 97521194--97521486 Score: 451
Period size: 148 Copynumber: 2.0 Consensus size: 148
97521184 ATTAAAAATA
* * *
97521194 TAAAAATATTCAAAATATTGCCTTATTTAAAATAACTTCTATTGTATTAAAAATATAAAAGTAAA
1 TAAAAATATTAAAAATATTGCCTTATTCAAAAGAACTTCTATTGTATTAAAAATATAAAAGTAAA
*** * * *
97521259 TTACAATTACTTTATTCAAAACAACTTTTATTTTATTAAATGGAACAATATAAAAAAGTTTGTAC
66 TTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAAGTTTATAC
*
97521324 AAATATATTAAAAAATTT
131 AAATATATAAAAAAATTT
* ** * *
97521342 TAAAAATTTTAAAAATATTGGTTTATTCAAAAGAACTTTTATTTTATTAAAAATATAAAAGTAAA
1 TAAAAATATTAAAAATATTGCCTTATTCAAAAGAACTTCTATTGTATTAAAAATATAAAAGTAAA
97521407 TTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAAGTTTATAC
66 TTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAAGTTTATAC
97521472 AAATATATAAAAAAA
131 AAATATATAAAAAAA
97521487 ATCAATGTTG
Statistics
Matches: 130, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
148 130 1.00
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (148 bp):
TAAAAATATTAAAAATATTGCCTTATTCAAAAGAACTTCTATTGTATTAAAAATATAAAAGTAAA
TTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAAGTTTATAC
AAATATATAAAAAAATTT
Found at i:97521605 original size:21 final size:21
Alignment explanation
Indices: 97521581--97521628 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
97521571 GCAGGGGTTG
97521581 TGGTTGCTCC-G-ACGGGGATTA
1 TGGTTGCTCCGGTA-GGGGA-TA
*
97521602 TGGTTCCTCCGGTAGGGGATA
1 TGGTTGCTCCGGTAGGGGATA
97521623 TGGTTG
1 TGGTTG
97521629 TGGGTGTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 16 0.70
22 6 0.26
23 1 0.04
ACGTcount: A:0.12, C:0.17, G:0.40, T:0.31
Consensus pattern (21 bp):
TGGTTGCTCCGGTAGGGGATA
Found at i:97524185 original size:57 final size:58
Alignment explanation
Indices: 97524116--97524242 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 58
97524106 AAGTGTCGCC
* * ** * *
97524116 TTACTGTTACTGTTCCTGATTTATTTTGAAGAGGTACTC-CGTACCTTAATGTTACTA
1 TTACTGTTACTGTTCCGGATTCATTCCGAAGAGGTACTCACGTACCATAATGCTACTA
* *
97524173 TTACTGTTACTGTTCCGGATTCATTCCGATGAGGTACTCTATGTACCATAATGCTACTA
1 TTACTGTTACTGTTCCGGATTCATTCCGAAGAGGTACTC-ACGTACCATAATGCTACTA
97524232 TTACTGTTACT
1 TTACTGTTACT
97524243 ATTACTGTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 34 0.57
59 26 0.43
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.42
Consensus pattern (58 bp):
TTACTGTTACTGTTCCGGATTCATTCCGAAGAGGTACTCACGTACCATAATGCTACTA
Found at i:97524244 original size:12 final size:12
Alignment explanation
Indices: 97524227--97524252 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
97524217 ACCATAATGC
97524227 TACTATTACTGT
1 TACTATTACTGT
97524239 TACTATTACTGT
1 TACTATTACTGT
97524251 TA
1 TA
97524253 TCGTTACTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (12 bp):
TACTATTACTGT
Found at i:97524416 original size:18 final size:18
Alignment explanation
Indices: 97524373--97524422 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
97524363 TAAATAAAGG
97524373 TACTGAATAATTGACTGC
1 TACTGAATAATTGACTGC
* * *
97524391 TACGGAATATTTGACTGT
1 TACTGAATAATTGACTGC
* *
97524409 TATTGAATTATTGA
1 TACTGAATAATTGA
97524423 TTATTACTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (18 bp):
TACTGAATAATTGACTGC
Found at i:97525871 original size:7 final size:7
Alignment explanation
Indices: 97525861--97525886 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
97525851 TTATATACAT
97525861 AATACTA
1 AATACTA
97525868 AATACTA
1 AATACTA
97525875 AATACTA
1 AATACTA
97525882 AATAC
1 AATAC
97525887 GAATCGACTA
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:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:97527079 original size:11 final size:11
Alignment explanation
Indices: 97527045--97527080 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
97527035 TAAAGAGAGC
*
97527045 TTTGAGAGAAA
1 TTTGAGAGAAT
97527056 TTTGAGAGAAT
1 TTTGAGAGAAT
*
97527067 TTTGAGAGGAT
1 TTTGAGAGAAT
97527078 TTT
1 TTT
97527081 TGTGTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.39
Consensus pattern (11 bp):
TTTGAGAGAAT
Found at i:97527499 original size:44 final size:44
Alignment explanation
Indices: 97527450--97527537 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
97527440 AAAACAAAGT
*
97527450 TAATTTTGAAGGTGCTTGGTAAGGATAAAAAATGAGAGAGCAGA
1 TAATTTTGAAGGTGCTTGGTAAGGATAAAAAAAGAGAGAGCAGA
* *
97527494 TAATTTTGAATGTGCTTGGTAAGGGTAAAAAAAGAGAGAGCAGA
1 TAATTTTGAAGGTGCTTGGTAAGGATAAAAAAAGAGAGAGCAGA
97527538 GAGACAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.41, C:0.05, G:0.30, T:0.25
Consensus pattern (44 bp):
TAATTTTGAAGGTGCTTGGTAAGGATAAAAAAAGAGAGAGCAGA
Found at i:97527561 original size:2 final size:2
Alignment explanation
Indices: 97527556--97527586 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
97527546 AAAAAAAGAA
97527556 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
97527587 AAAGAGAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:97533089 original size:49 final size:50
Alignment explanation
Indices: 97532931--97533107 Score: 221
Period size: 51 Copynumber: 3.5 Consensus size: 50
97532921 GGATACCCGA
* * * *
97532931 TGGCCTGCACATAGTACCACTCTTGTAGTCAAAGCTACCTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGT-GACAAAGCTATCTTCTTCACAAAG
* *
97532982 TGGCTTTCATATAGTACCACACTTGTGAACAAAGCTATCTTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTG-ACAAAGCTATC-TTCTTCACAAAG
* * *
97533034 TGGCCTTCACATAGTATCACACTTGTGACCAAGCTATC-TCTTCTCAAAG
1 TGGCCTTCACATAGTACCACACTTGTGACAAAGCTATCTTCTTCACAAAG
* *
97533083 TGGCCTTCACATAGTAACATACTTG
1 TGGCCTTCACATAGTACCACACTTG
97533108 AGTCACTAGT
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
49 33 0.30
50 1 0.01
51 41 0.37
52 36 0.32
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (50 bp):
TGGCCTTCACATAGTACCACACTTGTGACAAAGCTATCTTCTTCACAAAG
Found at i:97533667 original size:21 final size:21
Alignment explanation
Indices: 97533643--97533688 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
97533633 ATCACTTAGT
*
97533643 AAAAGTTGTTTATCACACCCC
1 AAAAGTTGTTTATCACACCAC
*
97533664 AAAAGTTGTTTATTACACCAC
1 AAAAGTTGTTTATCACACCAC
97533685 AAAA
1 AAAA
97533689 TTTTATATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (21 bp):
AAAAGTTGTTTATCACACCAC
Found at i:97540398 original size:19 final size:18
Alignment explanation
Indices: 97540339--97540403 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
97540329 TTTAAGTTTG
*
97540339 ATTAGATTTTAGATTTAA
1 ATTAAATTTTAGATTTAA
** *
97540357 ATTAGGTTTTTAGATTCTTA
1 ATTA-AATTTTAGATT-TAA
97540377 ATTAAATTTTAGATATTAA
1 ATTAAATTTTAGAT-TTAA
*
97540396 ATTCAATT
1 ATTAAATT
97540404 AGATGTTTAG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 4 0.11
19 27 0.71
20 7 0.18
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (18 bp):
ATTAAATTTTAGATTTAA
Found at i:97545039 original size:22 final size:21
Alignment explanation
Indices: 97545004--97545133 Score: 68
Period size: 19 Copynumber: 6.7 Consensus size: 21
97544994 AAAAGGTATC
* *
97545004 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
97545025 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
97545048 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
97545067 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
**
97545085 T--GTATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
97545102 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
97545121 TGC-AATCATATCT
1 TACAAATCATATCT
97545134 AAGATTGTAT
Statistics
Matches: 94, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
17 15 0.16
18 21 0.22
19 29 0.31
20 1 0.01
21 3 0.03
22 15 0.16
23 10 0.11
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:97545047 original size:23 final size:22
Alignment explanation
Indices: 97545004--97545061 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
97544994 AAAAGGTATC
* *
97545004 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
97545025 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
97545048 TGCATATCATATCT
1 TACAAATCATATCT
97545062 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:97545064 original size:19 final size:19
Alignment explanation
Indices: 97545040--97545162 Score: 204
Period size: 19 Copynumber: 6.8 Consensus size: 19
97545030 AATCATATCT
97545040 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
97545059 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
97545077 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
97545094 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
97545113 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
97545131 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
97545148 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
97545163 TGAAGATTAT
Statistics
Matches: 98, Mismatches: 0, Indels: 12
0.89 0.00 0.11
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 34 0.35
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:97545108 original size:54 final size:54
Alignment explanation
Indices: 97545040--97545162 Score: 246
Period size: 54 Copynumber: 2.3 Consensus size: 54
97545030 AATCATATCT
97545040 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
97545094 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
97545148 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
97545163 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:97545109 original size:14 final size:15
Alignment explanation
Indices: 97545054--97545162 Score: 85
Period size: 17 Copynumber: 6.4 Consensus size: 15
97545044 AGATTGCATA
97545054 TCATATCTAAGATTG
1 TCATATCTAAGATTG
97545069 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
97545087 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
97545104 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
97545123 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
97545141 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
97545158 -CATAT
1 TCATAT
97545163 TGAAGATTAT
Statistics
Matches: 85, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.06
17 32 0.38
18 31 0.36
19 17 0.20
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:97545159 original size:35 final size:36
Alignment explanation
Indices: 97545040--97545159 Score: 190
Period size: 35 Copynumber: 3.3 Consensus size: 36
97545030 AATCATATCT
*
97545040 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTGCTATCATA
*
97545077 TCTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGC-TATCATA
97545113 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGCTATCATA
97545148 TCTAAGATTGCA
1 TCTAAGATTGCA
97545160 TATTGAAGAT
Statistics
Matches: 78, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
35 36 0.46
36 16 0.21
37 26 0.33
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGCAATCATATCTAAGATTGCTATCATA
Found at i:97545564 original size:43 final size:44
Alignment explanation
Indices: 97545482--97545564 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 44
97545472 CATGTTGATA
97545482 TCTTCGATCTGCTCTCTGTCAAACACAGAGATGCCAAATCTGCT
1 TCTTCGATCTGCTCTCTGTCAAACACAGAGATGCCAAATCTGCT
* * * *
97545526 TCTTCGATTTGTTTTCTGTC-AATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCTCTGTCAAACACAGAGATGCCAAATC
97545565 ATCTTAGATC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
43 18 0.51
44 17 0.49
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCTGTCAAACACAGAGATGCCAAATCTGCT
Found at i:97545818 original size:41 final size:40
Alignment explanation
Indices: 97545773--97545906 Score: 92
Period size: 47 Copynumber: 3.1 Consensus size: 40
97545763 CAGAGACGCT
97545773 AAATCATCTTAGATTTGCTTCAACATAAACACGTGAAAGCC
1 AAATCATCTTAGATTTGCTTCAACATAAACACGTGAAA-CC
* * * ** * * *
97545814 AAATCAGCTATGTCTTCGATCTGCTCCCTGCCA-ATACA-GAGACACC
1 AAAT---C-A--TCTTAGATTTGCT-TC-AACATAAACACGTGAAACC
97545860 AAATCATCTTAGATTTGCTTCAACATAAACACGTGAAAACC
1 AAATCATCTTAGATTTGCTTCAACATAAACACGTG-AAACC
97545901 AAATCA
1 AAATCA
97545907 ACTATGTCCT
Statistics
Matches: 66, Mismatches: 16, Indels: 22
0.63 0.15 0.21
Matches are distributed among these distances:
38 2 0.03
39 5 0.08
40 13 0.20
41 14 0.21
42 1 0.02
43 1 0.02
44 1 0.02
45 1 0.02
46 6 0.09
47 15 0.23
48 5 0.08
49 2 0.03
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (40 bp):
AAATCATCTTAGATTTGCTTCAACATAAACACGTGAAACC
Found at i:97545885 original size:87 final size:87
Alignment explanation
Indices: 97545739--97546212 Score: 779
Period size: 87 Copynumber: 5.4 Consensus size: 87
97545729 AGATCTGTTA
* * * *
97545739 TCTTCGATCTGCTCTCTGACAATACAGAGACGCTAAATCATCTTAGATTTGCTTCAACATAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
97545804 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* *
97545826 TCTTCGATCTGCTCCCTGCCAATACAGAGACACCAAATCATCTTAGATTTGCTTCAACATAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
* *
97545891 CGTGAAAACCAAATCAACTATG
66 CGTGAAAGCCAAATCAGCTATG
* *
97545913 TCCTT-GATCTGCTCCCTACCAATACAGAGACGCCAAATCATCTTAGATTTTCTTCAACGTAAAC
1 T-CTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAAC
* * *
97545977 ACGTAAAATCCAAATCAGCTATT
65 ACGTGAAAGCCAAATCAGCTATG
* *
97546000 TCTTCGATCTGCTCCCTACCAATATAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
97546065 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
*
97546087 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGTTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
97546152 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
*
97546174 TCCTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATC
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATC
97546213 TGCTGTCTTC
Statistics
Matches: 362, Mismatches: 23, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
86 3 0.01
87 356 0.98
88 3 0.01
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.26
Consensus pattern (87 bp):
TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
CGTGAAAGCCAAATCAGCTATG
Found at i:97546228 original size:44 final size:44
Alignment explanation
Indices: 97546177--97546519 Score: 369
Period size: 44 Copynumber: 7.8 Consensus size: 44
97546167 AGCTATGTCC
* * * *
97546177 TCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGCTGTCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCT
* *
97546221 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATTTTTTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCT
*
97546265 TCGATCTGCTCTTTGCCAATACAGAGATGCCAAATCTGTTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCT
* * *
97546309 TCGATCTGCTCTTTGACAATACAGAGACGCCAAATC----ATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCT
* * * * * *
97546349 T-GAATTTGCT-T-TAACGTAA-ACACGTGAAAGCCAAATCAGTTATGTCT
1 TCG-ATCTGCTCTCT-GC-CAATACA-GAG-ATGCCAAATCTGTTA--TCT
* *
97546396 TCGATCTGCTCCCTGCCAATACAGAGATACCAAATCTGTTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCT
* *
97546440 TCGATCTGCTCTCTGCCAATACAGAGATGCAAAATCTGTCATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCT
* *
97546484 TCGATCTGCTCCCTGACAATACAGAGATGCCAAATC
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATC
97546520 ATCTTGGATC
Statistics
Matches: 252, Mismatches: 32, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
38 1 0.00
39 5 0.02
40 15 0.06
41 9 0.04
44 189 0.75
45 1 0.00
46 12 0.05
47 14 0.06
48 5 0.02
49 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (44 bp):
TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCT
Found at i:97546331 original size:219 final size:219
Alignment explanation
Indices: 97546087--97546519 Score: 690
Period size: 219 Copynumber: 2.0 Consensus size: 219
97546077 ATCAGCTATG
*
97546087 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTT-AGATTTG-TTTCAACGTAAA
1 TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCATCTTGA-ATTTGCTTT-AACGTAAA
*
97546150 CACGTGAAAGCCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTG
64 CACGTGAAAGCCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACAGAGACACCAAATCTG
* * * * * **
97546215 CTGTCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATTTTTTATCTTCGATCTGCTCTTTG
129 CTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCAAAATCTGTCATCTTCGATCTGCTCCCTG
*
97546280 CCAATACAGAGATGCCAAATCTGTTA
194 ACAATACAGAGATGCCAAATCTGTTA
**
97546306 TCTTCGATCTGCTCTTTGACAATACAGAGACGCCAAATCATCTTGAATTTGCTTTAACGTAAACA
1 TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCATCTTGAATTTGCTTTAACGTAAACA
* * * *
97546371 CGTGAAAGCCAAATCAGTTATGTCTTCGATCTGCTCCCTGCCAATACAGAGATACCAAATCTGTT
66 CGTGAAAGCCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACAGAGACACCAAATCTGCT
97546436 ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCAAAATCTGTCATCTTCGATCTGCTCCCTGAC
131 ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCAAAATCTGTCATCTTCGATCTGCTCCCTGAC
97546501 AATACAGAGATGCCAAATC
196 AATACAGAGATGCCAAATC
97546520 ATCTTGGATC
Statistics
Matches: 196, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
219 192 0.98
220 4 0.02
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (219 bp):
TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCATCTTGAATTTGCTTTAACGTAAACA
CGTGAAAGCCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACAGAGACACCAAATCTGCT
ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCAAAATCTGTCATCTTCGATCTGCTCCCTGAC
AATACAGAGATGCCAAATCTGTTA
Found at i:97546397 original size:175 final size:175
Alignment explanation
Indices: 97546216--97546534 Score: 530
Period size: 175 Copynumber: 1.8 Consensus size: 175
97546206 CCAAATCTGC
* * * * *
97546216 TGTCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATTTTTTATCTTCGATCTGCTCTTTGC
1 TGTCTTCGATCTGCTCCCTGCCAATACAGAGATACCAAATCTGTTATCTTCGATCTGCTCTCTGC
* * **
97546281 CAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTTTGACAATACAGAGACGCCAAATCA
66 CAATACAGAGATGCAAAATCTGTCATCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCA
*
97546346 TCTTGAATTTGCTTTAACGTAAACACGTGAAAGCCAAATCAGTTA
131 TCTTGAATCTGCTTTAACGTAAACACGTGAAAGCCAAATCAGTTA
97546391 TGTCTTCGATCTGCTCCCTGCCAATACAGAGATACCAAATCTGTTATCTTCGATCTGCTCTCTGC
1 TGTCTTCGATCTGCTCCCTGCCAATACAGAGATACCAAATCTGTTATCTTCGATCTGCTCTCTGC
*
97546456 CAATACAGAGATGCAAAATCTGTCATCTTCGATCTGCTCCCTGACAATACAGAGATGCCAAATCA
66 CAATACAGAGATGCAAAATCTGTCATCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCA
*
97546521 TCTTGGATCTGCTT
131 TCTTGAATCTGCTT
97546535 CAGTGTAAAT
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
175 132 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (175 bp):
TGTCTTCGATCTGCTCCCTGCCAATACAGAGATACCAAATCTGTTATCTTCGATCTGCTCTCTGC
CAATACAGAGATGCAAAATCTGTCATCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCA
TCTTGAATCTGCTTTAACGTAAACACGTGAAAGCCAAATCAGTTA
Found at i:97547515 original size:20 final size:21
Alignment explanation
Indices: 97547492--97547531 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
97547482 CCTCTCCATT
*
97547492 TTTTCTTT-TTTCTCTTTTTA
1 TTTTCTTTATTTCCCTTTTTA
97547512 TTTTCTTTATTTCCCTTTTT
1 TTTTCTTTATTTCCCTTTTT
97547532 CCTCTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTCTTTATTTCCCTTTTTA
Found at i:97554326 original size:22 final size:21
Alignment explanation
Indices: 97554301--97554347 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
97554291 TACAAATTAA
97554301 ATCTT-TAAGATTACAAAATCAT
1 ATCTTCTAAGATTAC--AATCAT
*
97554323 ATCTTCTAAGATTGCAATCAT
1 ATCTTCTAAGATTACAATCAT
97554344 ATCT
1 ATCT
97554348 AAGATTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 5 0.22
23 8 0.35
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (21 bp):
ATCTTCTAAGATTACAATCAT
Found at i:97554361 original size:17 final size:18
Alignment explanation
Indices: 97554327--97554426 Score: 150
Period size: 17 Copynumber: 5.6 Consensus size: 18
97554317 AATCATATCT
*
97554327 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
97554345 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
97554362 TCTAAGATTGCATATCATA
1 TCTAAGATTGC-TATCATA
*
97554381 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
*
97554399 TCTAAGATTG-TACCATA
1 TCTAAGATTGCTATCATA
97554416 TCTAAGATTGC
1 TCTAAGATTGC
97554427 ATATTGAAGA
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
17 31 0.41
18 26 0.35
19 18 0.24
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:97554370 original size:35 final size:36
Alignment explanation
Indices: 97554327--97554427 Score: 152
Period size: 35 Copynumber: 2.8 Consensus size: 36
97554317 AATCATATCT
*
97554327 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGCAATCATA
97554362 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTGCAATCATA
* *
97554399 TCTAAGATTG-TACCATATCTAAGATTGCA
1 TCTAAGATTGCAATCATATCTAAGATTGCA
97554428 TATTGAAGAT
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
35 29 0.48
36 16 0.26
37 16 0.26
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTAAGATTGCAATCATATCTAAGATTGCAATCATA
Found at i:97554389 original size:54 final size:52
Alignment explanation
Indices: 97554320--97554430 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 52
97554310 ATTACAAAAT
*
97554320 CATATCTTCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTG
1 CATATCTTCTAAGATTGCAATCATATCTAAGATTGTACCATATCTAAGATTG
97554372 CATATCATATCTAAGATTGCAATCATATCTAAGATTGTACCATATCTAAGATTG
1 CATATC-T-TCTAAGATTGCAATCATATCTAAGATTGTACCATATCTAAGATTG
97554426 CATAT
1 CATAT
97554431 TGAAGATTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
52 6 0.11
53 1 0.02
54 49 0.88
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (52 bp):
CATATCTTCTAAGATTGCAATCATATCTAAGATTGTACCATATCTAAGATTG
Found at i:97554942 original size:18 final size:18
Alignment explanation
Indices: 97554919--97554976 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 18
97554909 AGGTTGTGAG
97554919 AAGAGAAGTTGAAATAAA
1 AAGAGAAGTTGAAATAAA
**
97554937 AAGAG-AGTGTG-AGGAAA
1 AAGAGAAGT-TGAAATAAA
97554954 AAGA-AA-TTGAAATAAA
1 AAGAGAAGTTGAAATAAA
*
97554970 AAAAGAA
1 AAGAGAA
97554977 AAAGAAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 9
0.69 0.11 0.20
Matches are distributed among these distances:
15 2 0.06
16 8 0.26
17 14 0.45
18 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.14
Consensus pattern (18 bp):
AAGAGAAGTTGAAATAAA
Found at i:97554984 original size:5 final size:6
Alignment explanation
Indices: 97554950--97554993 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
97554940 AGAGTGTGAG
**
97554950 GAAAAA GAAATT GAAATAA -AAAAA GAAAAA GAAAAA GAAAAA GA
1 GAAAAA GAAAAA GAAA-AA GAAAAA GAAAAA GAAAAA GAAAAA GA
97554994 GTGCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 2 0.06
6 30 0.94
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (6 bp):
GAAAAA
Found at i:97557250 original size:17 final size:17
Alignment explanation
Indices: 97557224--97557256 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
97557214 AATTTAGACA
97557224 TTTTTATTTTT-TTTTG
1 TTTTTATTTTTGTTTTG
97557240 TTTTATATTTTTGTTTT
1 TTTT-TATTTTTGTTTT
97557257 TAATTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (17 bp):
TTTTTATTTTTGTTTTG
Found at i:97564627 original size:21 final size:21
Alignment explanation
Indices: 97564601--97564643 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
97564591 AAAGGGAATG
*
97564601 TACCTCATTAAAATTAACCAA
1 TACCTCATTAAAATCAACCAA
97564622 TACCTCATTAAAATCAACCAA
1 TACCTCATTAAAATCAACCAA
97564643 T
1 T
97564644 GTACCAGCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.28
Consensus pattern (21 bp):
TACCTCATTAAAATCAACCAA
Found at i:97569781 original size:21 final size:22
Alignment explanation
Indices: 97569729--97569781 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
97569719 AAATAAAGTC
*
97569729 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
97569750 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
97569772 CATGTATCAT
1 CATGTATCAT
97569782 CATTTACTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:97578813 original size:34 final size:34
Alignment explanation
Indices: 97578775--97578841 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
97578765 AGTAACAGTC
*
97578775 CAGTAACAGTTATG-GCCTTAGCCCAATACAGTAT
1 CAGTAACAG-TATGAACCTTAGCCCAATACAGTAT
* * *
97578809 CAGTATCAGTGTGAACCTTAGCCCAATCCAGTA
1 CAGTAACAGTATGAACCTTAGCCCAATACAGTA
97578842 ACAATAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 3 0.11
34 25 0.89
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (34 bp):
CAGTAACAGTATGAACCTTAGCCCAATACAGTAT
Found at i:97597211 original size:50 final size:50
Alignment explanation
Indices: 97597087--97597369 Score: 225
Period size: 50 Copynumber: 5.6 Consensus size: 50
97597077 ATTGTGAGAA
* * * *** *
97597087 CACATGTGTAGTACTATGTGCAGGATACTATGTGTTTAAGATATTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGATA--GTTAGGT
* * *
97597139 CACGTGTGTAGTAATAAATGCAGGCTACTATATGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGATAGTTAGGT
* * * * *
97597189 CGCATGTGTAGTACTAAGTGCAGGCTACTA-AGCGTACTC-GACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATA-TGTAC-CAGA-TAGTT-AGGT
* * ** * *
97597240 CACGTGTATAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGATAGTTAGGT
* * * * *
97597290 CACGTGTGTAGTACTAAGTGTAGACTACCACATGTACCAGATTA-TT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGA-TAGTTAGGT
*
97597339 CGCATGTGTAGTACTAAGTGCAGGCTACTAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTAT
97597370 GCATACTAGA
Statistics
Matches: 182, Mismatches: 41, Indels: 19
0.75 0.17 0.08
Matches are distributed among these distances:
49 30 0.16
50 79 0.43
51 38 0.21
52 35 0.19
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGATAGTTAGGT
Found at i:97597601 original size:16 final size:15
Alignment explanation
Indices: 97597580--97597609 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
97597570 GAATGGAGTA
97597580 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
97597596 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
97597610 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:97603686 original size:16 final size:17
Alignment explanation
Indices: 97603655--97603687 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
97603645 CATACACCAA
97603655 CTTCTATACTTAACACC
1 CTTCTATACTTAACACC
*
97603672 CTTCT-TACTTCACACC
1 CTTCTATACTTAACACC
97603688 TTGCCTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.24, C:0.39, G:0.00, T:0.36
Consensus pattern (17 bp):
CTTCTATACTTAACACC
Found at i:97604373 original size:23 final size:23
Alignment explanation
Indices: 97604343--97604429 Score: 79
Period size: 23 Copynumber: 3.8 Consensus size: 23
97604333 AAATGCATTT
* *
97604343 ACAAAATACT-CCATAAAGGCCAA
1 ACAAAATA-TGCCAGAAAGGACAA
*
97604366 ACAAAATATGCCAGACAGGACAA
1 ACAAAATATGCCAGAAAGGACAA
*
97604389 ACAAAATATGCCACAAAGG-CAA
1 ACAAAATATGCCAGAAAGGACAA
** *
97604411 TACAGGATATGCCACAAAG
1 -ACAAAATATGCCAGAAAG
97604430 ATTATGTTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
22 4 0.07
23 51 0.93
ACGTcount: A:0.51, C:0.23, G:0.15, T:0.11
Consensus pattern (23 bp):
ACAAAATATGCCAGAAAGGACAA
Found at i:97606599 original size:54 final size:54
Alignment explanation
Indices: 97606541--97606740 Score: 154
Period size: 54 Copynumber: 3.7 Consensus size: 54
97606531 ATTACTGAAA
*
97606541 TACCCTCAAATTGTA-A-AATTACCAAAGTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTC-AATT-TACAGAATTACCAAAGTACCCTCGATTTAAAGAATTACTGTTT
* ****
97606595 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAAAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAGTACCCTCGATTTAAAGAATTACTGTTT
** * ***** ****
97606649 TACCCTTGATCTACAGAATTACTGTTTTACCCTCGATTTACAA-AATTACTAAAA
1 TACCCTCAATTTACAGAATTACCAAAGTACCCTCGATTTA-AAGAATTACTGTTT
* * * *
97606703 TACCCTTAGTTTACAAAATTACCAAAATACCCTCGATT
1 TACCCTCAATTTACAGAATTACCAAAGTACCCTCGATT
97606741 AGTAAAATTA
Statistics
Matches: 121, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
52 2 0.02
53 4 0.03
54 113 0.93
55 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.35
Consensus pattern (54 bp):
TACCCTCAATTTACAGAATTACCAAAGTACCCTCGATTTAAAGAATTACTGTTT
Found at i:97606698 original size:27 final size:27
Alignment explanation
Indices: 97606568--97606698 Score: 208
Period size: 27 Copynumber: 4.9 Consensus size: 27
97606558 ATTACCAAAG
*
97606568 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
97606595 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
97606622 TACCCTCGATTTAAAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
97606649 TACCCTTGATCTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
97606676 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
97606699 AAAATACCCT
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:97606706 original size:27 final size:27
Alignment explanation
Indices: 97606676--97606923 Score: 200
Period size: 27 Copynumber: 9.2 Consensus size: 27
97606666 ATTACTGTTT
* *
97606676 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
97606703 TACCCT-TAGTTTACAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
97606730 TACCCTCGA-TTAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * *
97606757 TACCCTAG-TCTGTAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
97606783 TACCC-CTGGTTTGTAAAATTACCGAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* * *
97606810 TACCTTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * * * * *
97606837 TACCATTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
97606864 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
97606891 TACCC-CTGATTTACAAAGTTACAAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
97606918 TACCCT
1 TACCCT
97606924 TGACTTTCTA
Statistics
Matches: 179, Mismatches: 33, Indels: 17
0.78 0.14 0.07
Matches are distributed among these distances:
26 24 0.13
27 153 0.85
28 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:97606734 original size:81 final size:80
Alignment explanation
Indices: 97606523--97606739 Score: 204
Period size: 81 Copynumber: 2.7 Consensus size: 80
97606513 AATACTTTAG
* * * * * *
97606523 TTTACCAAATTACTGAAATACCCTCAAATTGT-AAAATTACCAAAGTACCCTCGATTTATAGAAT
1 TTTACAAAATTACTGAAATACCCT-TAGTT-TAAAAATTACCAAAATACCCTCGATCTACAGAAT
97606587 TACTGTTTTACCCTCGA
64 TACTGTTTTACCCTCGA
* * *** * ***** *
97606604 TTTACAGAATTACCGTTTTACCC-TCGATTTAAAGAATTACTGTTTTACCCTTGATCTACAGAAT
1 TTTACAAAATTACTGAAATACCCTTAG-TTTAAA-AATTACCAAAATACCCTCGATCTACAGAAT
97606668 TACTGTTTTACCCTCGA
64 TACTGTTTTACCCTCGA
*
97606685 TTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCTCGAT
1 TTTACAAAATTACTGAAATACCCTTAGTTTA-AAAATTACCAAAATACCCTCGAT
97606740 TAGTAAAATT
Statistics
Matches: 101, Mismatches: 30, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
79 1 0.01
80 4 0.04
81 92 0.91
82 4 0.04
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (80 bp):
TTTACAAAATTACTGAAATACCCTTAGTTTAAAAATTACCAAAATACCCTCGATCTACAGAATTA
CTGTTTTACCCTCGA
Found at i:97606748 original size:54 final size:54
Alignment explanation
Indices: 97606676--97606924 Score: 224
Period size: 54 Copynumber: 4.6 Consensus size: 54
97606666 ATTACTGTTT
* * * **
97606676 TACCCTCGATTTA-CAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTCGA-TTAGTAAAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAA
* * *
97606730 TACCCTCGATTAGTAAAATTACCAAAATACCC-TAGTCTGTAAAATTACTAAAA
1 TACCCTCGATTAGTAAAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAA
* * *
97606783 TACCC-CTGGTTTGTAAAATTACCGAAATA-CCTTCAATTTGTAAAATTACCAAAA
1 TACCCTC-GATTAGTAAAATTACCAAAATACCCTT-AATTTGTAAAATTACCAAAA
* * * * * * *
97606837 TACCATTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTAGTAAAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAA
*
97606891 TACCC-CTGATT--TACAAAGTTACAAAAATACCCTT
1 TACCCTC-GATTAGTA-AAA-TTACCAAAATACCCTT
97606925 GACTTTCTAA
Statistics
Matches: 163, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
52 4 0.02
53 48 0.29
54 108 0.66
55 3 0.02
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTAGTAAAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAA
Found at i:97606750 original size:81 final size:80
Alignment explanation
Indices: 97606523--97606831 Score: 183
Period size: 81 Copynumber: 3.8 Consensus size: 80
97606513 AATACTTTAG
* * * ** * * *
97606523 TTTACCAAATTACTGAAATACCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATT
1 TTTACAAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCTCGA-TTATAAAATT
97606588 ACTGTTTTACCCTCGA
65 ACTGTTTTACCCTCGA
* ***** * ***** * * *
97606604 TTTACAGAATTACCGTTTTACCC-TCGATTTA-AAGAATTACTGTTTTACCCTTGATCTACAGAA
1 TTTACAAAATTACTAAAATACCCTTAG-TTTATAA-AATTACCAAAATACCCTCGAT-TATAAAA
97606667 TTACTGTTTTACCCTCGA
63 TTACTGTTTTACCCTCGA
*
97606685 TTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCTCGATTAGTAAAATT
1 TTTACAAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCTCGATTA-TAAAATT
***** *
97606750 ACCAAAATACCCTAG-
65 ACTGTTTTACCCTCGA
* ** * * * * * * *
97606765 TCTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCTTCAATTTGTAAAATT
1 TTTACAAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCTCGA-TTATAAAATT
97606830 AC
65 AC
97606832 CAAAATACCA
Statistics
Matches: 171, Mismatches: 50, Indels: 15
0.72 0.21 0.06
Matches are distributed among these distances:
80 58 0.34
81 109 0.64
82 4 0.02
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (80 bp):
TTTACAAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCTCGATTATAAAATTA
CTGTTTTACCCTCGA
Found at i:97606802 original size:80 final size:81
Alignment explanation
Indices: 97606690--97606895 Score: 254
Period size: 80 Copynumber: 2.6 Consensus size: 81
97606680 CTCGATTTAC
* ** *
97606690 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCTCGATTAGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCAATTAGTAAAATTACCAA
97606755 AATACC-CTAGTCTGT
66 AATACCACTAGTCTGT
* * * *
97606770 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCTTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCAATTAGTAAAATTACCAA
* * *
97606835 AATACCATTGGTTTGT
66 AATACCACTAGTCTGT
* ** *
97606851 GAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCC
1 AAAATTACTAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC
97606896 CTGATTTACA
Statistics
Matches: 106, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
80 67 0.63
81 39 0.37
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCAATTAGTAAAATTACCAA
AATACCACTAGTCTGT
Found at i:97607069 original size:27 final size:27
Alignment explanation
Indices: 97607039--97607130 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
97607029 ACCCCTATTA
*
97607039 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * * *
97607066 GGTAAAGTGATCATAAAGCCCTTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
97607093 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
97607120 GGTAAAATGAC
1 GGTAAAATGAC
97607131 GAATATGCCC
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:97607962 original size:26 final size:26
Alignment explanation
Indices: 97607933--97608083 Score: 205
Period size: 26 Copynumber: 5.8 Consensus size: 26
97607923 GAGGAAGTAC
* **
97607933 AAAAGGGCTTATGCCCCATTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
97607959 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
97607985 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
97608011 AAAAAGGGCTTATGCCCCAGTTTACCG
1 -AAAAGGGCTTATGCCCCAGTTTACCG
* *
97608038 AGAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
97608064 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
97608084 ATTAAAGAGG
Statistics
Matches: 112, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
25 10 0.09
26 78 0.70
27 24 0.21
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:97608044 original size:53 final size:52
Alignment explanation
Indices: 97607933--97608083 Score: 223
Period size: 53 Copynumber: 2.9 Consensus size: 52
97607923 GAGGAAGTAC
*
97607933 AAAAGGGCTTATGCCCCATTTTATTGAAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCA
*
97607985 AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG-AAAAGGGCTTATGCCCCAGTTTACCA
* * ** *
97608038 AGAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTT
97608084 ATTAAAGAGG
Statistics
Matches: 91, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
51 9 0.10
52 35 0.38
53 47 0.52
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCA
Found at i:97608068 original size:79 final size:78
Alignment explanation
Indices: 97607933--97608083 Score: 230
Period size: 79 Copynumber: 1.9 Consensus size: 78
97607923 GAGGAAGTAC
* **
97607933 AAAAGGGCTTATGCCCCATTTTATTGAAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTATG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTT-TG
97607998 CCCCAGTTTATTGA
65 CCCCAGTTTATTGA
* * *
97608012 AAAAGGGCTTATGCCCCAGTTTACCGAGAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTTGC
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTTGC
*
97608077 CCTAGTT
66 CCCAGTT
97608084 ATTAAAGAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
78 9 0.14
79 56 0.86
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (78 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTTGC
CCCAGTTTATTGA
Found at i:97608287 original size:42 final size:42
Alignment explanation
Indices: 97608228--97608319 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
97608218 TAGTCTCCCC
** ** *
97608228 AAATGGGCTTGGTTACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
97608270 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
97608312 AAATGGGC
1 AAATGGGC
97608320 CTAAGGGTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:97625000 original size:21 final size:21
Alignment explanation
Indices: 97624963--97625022 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
97624953 TGTTGAGAAG
* *
97624963 GAAGTTGCTGCAGAAGAGGAA
1 GAAGTTGCTGAAAAAGAGGAA
** *
97624984 GTTGTTGCTGAAAAAGAAGAA
1 GAAGTTGCTGAAAAAGAGGAA
97625005 GAAGTTGCTGAAAAAGAG
1 GAAGTTGCTGAAAAAGAG
97625023 AAAAAAAAAG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.42, C:0.07, G:0.33, T:0.18
Consensus pattern (21 bp):
GAAGTTGCTGAAAAAGAGGAA
Found at i:97625002 original size:18 final size:18
Alignment explanation
Indices: 97624949--97625002 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
97624939 CAATAGGATA
* *
97624949 TTGTTGTTGAGAAGGAAG
1 TTGTTGCTGAAAAGGAAG
* * *
97624967 TTGCTGCAGAAGAGGAAG
1 TTGTTGCTGAAAAGGAAG
*
97624985 TTGTTGCTGAAAAAGAAG
1 TTGTTGCTGAAAAGGAAG
97625003 AAGAAGTTGC
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.33, C:0.06, G:0.35, T:0.26
Consensus pattern (18 bp):
TTGTTGCTGAAAAGGAAG
Found at i:97636334 original size:40 final size:40
Alignment explanation
Indices: 97636278--97636469 Score: 296
Period size: 40 Copynumber: 4.8 Consensus size: 40
97636268 CGGATGATAA
*
97636278 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* * *
97636318 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
97636358 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
97636398 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
* *
97636438 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
97636470 AGCTATATCC
Statistics
Matches: 139, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 137 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:97644179 original size:17 final size:19
Alignment explanation
Indices: 97644157--97644191 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
97644147 TAATTCAAAG
97644157 TCAATTT-CA-TATTTTCA
1 TCAATTTACACTATTTTCA
97644174 TCAATTTACACTATTTTC
1 TCAATTTACACTATTTTC
97644192 TATTCTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (19 bp):
TCAATTTACACTATTTTCA
Found at i:97646051 original size:22 final size:22
Alignment explanation
Indices: 97646023--97646066 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
97646013 AAGTTAAACA
97646023 AGATGCAATTAAGATTATTCAT
1 AGATGCAATTAAGATTATTCAT
*
97646045 AGATGCAATTAAGATTTTTCAT
1 AGATGCAATTAAGATTATTCAT
97646067 TAATTAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (22 bp):
AGATGCAATTAAGATTATTCAT
Found at i:97649989 original size:16 final size:16
Alignment explanation
Indices: 97649952--97649989 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
97649942 TTTTAAATGA
97649952 ATTTTTTAAAATTTAT
1 ATTTTTTAAAATTTAT
*
97649968 AATTTTTGAAAATTT-T
1 -ATTTTTTAAAATTTAT
97649984 ATTTTT
1 ATTTTT
97649990 AATTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 1 0.05
17 13 0.65
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
ATTTTTTAAAATTTAT
Found at i:97650055 original size:20 final size:21
Alignment explanation
Indices: 97650032--97650070 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
97650022 AACTTTTGAA
*
97650032 AATTTTGG-ATTTTTTTTATT
1 AATTTTGGAATTATTTTTATT
97650052 AATTTTGGAATTATTTTTA
1 AATTTTGGAATTATTTTTA
97650071 ATTTTTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (21 bp):
AATTTTGGAATTATTTTTATT
Found at i:97651053 original size:18 final size:18
Alignment explanation
Indices: 97651030--97651067 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
97651020 GGGTCAAACC
97651030 ATTAAATAGAATTAA-TTA
1 ATTAAATAG-ATTAAGTTA
*
97651048 ATTAAATCGATTAAGTTA
1 ATTAAATAGATTAAGTTA
97651066 AT
1 AT
97651068 ATGTATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (18 bp):
ATTAAATAGATTAAGTTA
Found at i:97651652 original size:44 final size:44
Alignment explanation
Indices: 97651589--97651675 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
97651579 AAGTCATGCA
97651589 TTGGTGTTGTTAGTTAGTTAATATGGGAATATCATGTTAGAAAT
1 TTGGTGTTGTTAGTTAGTTAATATGGGAATATCATGTTAGAAAT
97651633 TTGGTGTTGTTAGTTAGTTAATATGGGAATATCATGTTAGAAA
1 TTGGTGTTGTTAGTTAGTTAATATGGGAATATCATGTTAGAAA
97651676 GTTGTAGATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.43
Consensus pattern (44 bp):
TTGGTGTTGTTAGTTAGTTAATATGGGAATATCATGTTAGAAAT
Found at i:97652156 original size:8 final size:8
Alignment explanation
Indices: 97652143--97652170 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
97652133 CGTAAGATAA
97652143 GTGAATAT
1 GTGAATAT
97652151 GTGAATAT
1 GTGAATAT
97652159 GTGAATAT
1 GTGAATAT
97652167 GTGA
1 GTGA
97652171 CTACTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (8 bp):
GTGAATAT
Found at i:97654010 original size:23 final size:23
Alignment explanation
Indices: 97653980--97654035 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
97653970 AATAAGACAC
*
97653980 AAGGCATT-CTGAAATATACCACA
1 AAGGCATTACTG-AATACACCACA
*
97654003 AAGGCATTACTGAATACACCAGA
1 AAGGCATTACTGAATACACCACA
*
97654026 AAAGCATTAC
1 AAGGCATTAC
97654036 AAAACTCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.20
Consensus pattern (23 bp):
AAGGCATTACTGAATACACCACA
Found at i:97658730 original size:20 final size:20
Alignment explanation
Indices: 97658705--97658760 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
97658695 CTAGTGGGAA
*
97658705 TTTATTTTTTAAGAATAAAT
1 TTTATTTTTTGAGAATAAAT
97658725 TTTATTTTTTGAGAATAAAT
1 TTTATTTTTTGAGAATAAAT
97658745 TTTATTTTTTGAGAAT
1 TTTATTTTTTGAGAAT
97658761 TACAATTTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (20 bp):
TTTATTTTTTGAGAATAAAT
Found at i:97663953 original size:43 final size:43
Alignment explanation
Indices: 97663872--97663995 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 43
97663862 TCTGAACTCA
* **
97663872 TTCACCGGCATT-TTGCCTGCTAGGCTTGAA-GCCTGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGGCC-GATATCAT
* * *
97663914 TTCACCGGCATTATAGCCTACTAGGCCCAAAGGCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGGCCGATATCAT
* *
97663957 CTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGGCCGATA
97663996 ATATTATTCA
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 12 0.17
43 55 0.79
44 3 0.04
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGGCCGATATCAT
Found at i:97665947 original size:14 final size:15
Alignment explanation
Indices: 97665918--97665947 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
97665908 CAAAATTTAG
97665918 ACATGATACTTTCAC
1 ACATGATACTTTCAC
97665933 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
97665947 A
1 A
97665948 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:97677338 original size:25 final size:27
Alignment explanation
Indices: 97677301--97677353 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
97677291 TCAAACATGC
97677301 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
97677327 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
97677353 A
1 A
97677354 AAATTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:97678868 original size:26 final size:26
Alignment explanation
Indices: 97678837--97678944 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
97678827 TGAAATGCCC
*
97678837 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
97678863 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
97678889 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
97678915 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
97678941 ATCA
1 ATCA
97678945 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:97680290 original size:32 final size:32
Alignment explanation
Indices: 97680254--97680323 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
97680244 TTCTCGTACC
97680254 ACGAACTACTTCAAATTCGAGTGTGGGCTAGA
1 ACGAACTACTTCAAATTCGAGTGTGGGCTAGA
*
97680286 ACGAACTACTTCAAGTTCGAGTGTGGGCTAGA
1 ACGAACTACTTCAAATTCGAGTGTGGGCTAGA
97680318 ACGAAC
1 ACGAAC
97680324 CGAATCAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (32 bp):
ACGAACTACTTCAAATTCGAGTGTGGGCTAGA
Found at i:97684248 original size:31 final size:28
Alignment explanation
Indices: 97684212--97684291 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 28
97684202 TTCTAGTAGA
*
97684212 AAAAATAT-AATATTTAATACTTATACTTTT
1 AAAAATATCAATA--TAATACATATA-TTTT
97684242 ATAAAATATTCAATATAATACATATATTTT
1 A-AAAATA-TCAATATAATACATATATTTT
*
97684272 AAAAATATTCAATGTAATAC
1 AAAAATA-TCAATATAATAC
97684292 TTAAATTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
29 18 0.40
30 6 0.13
31 16 0.36
32 1 0.02
33 4 0.09
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.41
Consensus pattern (28 bp):
AAAAATATCAATATAATACATATATTTT
Found at i:97684281 original size:29 final size:31
Alignment explanation
Indices: 97684226--97684291 Score: 100
Period size: 29 Copynumber: 2.2 Consensus size: 31
97684216 ATATAATATT
*
97684226 TAATACTTATACTTTTATAAAATATTCAATA
1 TAATACATATACTTTTATAAAATATTCAATA
*
97684257 TAATACATATA-TTTTA-AAAATATTCAATG
1 TAATACATATACTTTTATAAAATATTCAATA
97684286 TAATAC
1 TAATAC
97684292 TTAAATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 18 0.55
30 5 0.15
31 10 0.30
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (31 bp):
TAATACATATACTTTTATAAAATATTCAATA
Found at i:97687542 original size:28 final size:28
Alignment explanation
Indices: 97687497--97687558 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
97687487 GAGCAACCCA
* *
97687497 AAATATCACAATTTGTGTGAGA-AAATTC
1 AAATATCACAACTCGTGTGA-ACAAATTC
*
97687525 AAATATCACAGCTCGTGTGAACAAATTC
1 AAATATCACAACTCGTGTGAACAAATTC
*
97687553 GAATAT
1 AAATAT
97687559 TACTTGTGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (28 bp):
AAATATCACAACTCGTGTGAACAAATTC
Found at i:97689208 original size:17 final size:17
Alignment explanation
Indices: 97689188--97689250 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 17
97689178 ATAAGAAATA
97689188 ATATATAATAAAATATT
1 ATATATAATAAAATATT
* *
97689205 ATATGTAATAAAATATA
1 ATATATAATAAAATATT
* *
97689222 AAATATAATGAAATA-T
1 ATATATAATAAAATATT
97689238 A-A-ATAATAAAATA
1 ATATATAATAAAATA
97689251 ACATATAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 1 0.03
17 27 0.69
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
ATATATAATAAAATATT
Found at i:97689208 original size:48 final size:47
Alignment explanation
Indices: 97689131--97689274 Score: 136
Period size: 48 Copynumber: 3.0 Consensus size: 47
97689121 TTTTATATAC
**
97689131 TAAT-AAATAATAAATAATGTAATAATATATAATAAAAGGA-AGATAATA
1 TAATGAAATAATAAATAATAAAATAATATATAATAAAA-GATA-A-AATA
* * *
97689179 TAA-GAAATAATATATAATAAAATATTATATGTAATAAAATATAAAATA
1 TAATGAAATAATAAATAATAAAATA--ATATATAATAAAAGATAAAATA
* *
97689227 TAATGAAAT-ATAAATAATAAAATAACATATAATTAAAA-ATAATATA
1 TAATGAAATAATAAATAATAAAATAATATATAA-TAAAAGATAAAATA
97689273 TA
1 TA
97689275 TTGTTTTTAT
Statistics
Matches: 81, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
46 15 0.19
47 5 0.06
48 41 0.51
49 7 0.09
50 13 0.16
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (47 bp):
TAATGAAATAATAAATAATAAAATAATATATAATAAAAGATAAAATA
Found at i:97689213 original size:24 final size:22
Alignment explanation
Indices: 97689186--97689250 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 22
97689176 ATATAAGAAA
97689186 TAATATATAATAAAATATTATATG
1 TAATATATAATAAAATA-TA-ATG
*
97689210 TAATA-AAATATAAAATATAATG
1 TAATATATA-ATAAAATATAATG
*
97689232 AAATATAAATAATAAAATA
1 TAATAT--ATAATAAAATA
97689251 ACATATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
22 7 0.21
23 4 0.12
24 21 0.62
25 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (22 bp):
TAATATATAATAAAATATAATG
Found at i:97689268 original size:29 final size:28
Alignment explanation
Indices: 97689211--97689268 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
97689201 TATTATATGT
* *
97689211 AATAAAATATAAAATATAATGAAATATA
1 AATAAAAAATAAAATATAATGAAAAATA
* *
97689239 AATAATAAAATAACATATAATTAAAAATA
1 AATAA-AAAATAAAATATAATGAAAAATA
97689268 A
1 A
97689269 TATATATTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (28 bp):
AATAAAAAATAAAATATAATGAAAAATA
Found at i:97702056 original size:15 final size:15
Alignment explanation
Indices: 97702036--97702064 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
97702026 TATATATATA
97702036 TATATTTATTATTAT
1 TATATTTATTATTAT
97702051 TATATTTATTATTA
1 TATATTTATTATTA
97702065 ATATTATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATATTTATTATTAT
Found at i:97702200 original size:21 final size:22
Alignment explanation
Indices: 97702175--97702239 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 22
97702165 ATCATTTCTA
*
97702175 ATATATATATTGTATATGTTTTT
1 ATATATATA-TGTATATATTTTT
97702198 ATATATATTATGTATATATTTTT
1 ATATATA-TATGTATATATTTTT
*
97702221 A-ATATATATGTACATATTT
1 ATATATATATGTATATATTT
97702240 ATGTAGTATC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.31
22 5 0.13
23 20 0.51
24 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (22 bp):
ATATATATATGTATATATTTTT
Found at i:97702215 original size:13 final size:12
Alignment explanation
Indices: 97702175--97702300 Score: 52
Period size: 12 Copynumber: 10.7 Consensus size: 12
97702165 ATCATTTCTA
*
97702175 ATATATATATTGT
1 ATATATTTA-TGT
*
97702188 ATATGTTT-T-T
1 ATATATTTATGT
97702198 ATATATATTATGT
1 ATATAT-TTATGT
97702211 ATATATTT-T-T
1 ATATATTTATGT
*
97702221 A-ATATATATGT
1 ATATATTTATGT
*
97702232 ACATATTTATGT
1 ATATATTTATGT
*
97702244 AGTATCATTAATAGT
1 A-TAT-ATTTAT-GT
*
97702259 -TATTTTTAT-T
1 ATATATTTATGT
* * *
97702269 ATTTCTAATATGT
1 ATATAT-TTATGT
97702282 ATATA-TTATGT
1 ATATATTTATGT
*
97702293 ACATATTT
1 ATATATTT
97702301 TTAATACTAC
Statistics
Matches: 84, Mismatches: 16, Indels: 27
0.66 0.13 0.21
Matches are distributed among these distances:
9 5 0.06
10 10 0.12
11 18 0.21
12 22 0.26
13 22 0.26
14 5 0.06
15 2 0.02
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (12 bp):
ATATATTTATGT
Found at i:97702417 original size:18 final size:18
Alignment explanation
Indices: 97702379--97702413 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
97702369 TGTACATCGT
*
97702379 TATTATTAGTTATTTTTA
1 TATTATTAGCTATTTTTA
97702397 TATTATTA-CTATTTTTA
1 TATTATTAGCTATTTTTA
97702414 ATATATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
TATTATTAGCTATTTTTA
Found at i:97705383 original size:18 final size:19
Alignment explanation
Indices: 97705350--97705388 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
97705340 TCAATTCATG
*
97705350 ATTTCATATTTCATTTCTC
1 ATTTCATATATCATTTCTC
97705369 ATTTCATA-ATCATTTCTC
1 ATTTCATATATCATTTCTC
97705387 AT
1 AT
97705389 ATTTGCCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTCATATATCATTTCTC
Found at i:97705484 original size:16 final size:17
Alignment explanation
Indices: 97705449--97705486 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
97705439 ATTTCAATAT
97705449 TTTCTCATCTCATATTCA
1 TTTCTCATCT-ATATTCA
*
97705467 TTTCTCATCT-TTTTCA
1 TTTCTCATCTATATTCA
97705483 TTTC
1 TTTC
97705487 AATATCAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
18 10 0.53
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTCTCATCTATATTCA
Found at i:97705484 original size:43 final size:43
Alignment explanation
Indices: 97705363--97705491 Score: 204
Period size: 43 Copynumber: 3.0 Consensus size: 43
97705353 TCATATTTCA
* * *
97705363 TTTCTCATTTCATAATCATTTCTCATATTTGCCACTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGTCATTTCAATAT
97705406 TTTCTCATCTCATAATCATTTCTCATATTTGTCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGTCATTTCAATAT
* * *
97705449 TTTCTCATCTCATATTCATTTCTCATCTTTTTCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGTCATTTCAATAT
97705492 CAATCACATA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.24, C:0.22, G:0.02, T:0.52
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATATTTGTCATTTCAATAT
Found at i:97706383 original size:22 final size:22
Alignment explanation
Indices: 97706355--97706397 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
97706345 AATTTAGTTA
97706355 TTTTCCATTTCTAACTTAAAAC
1 TTTTCCATTTCTAACTTAAAAC
97706377 TTTTCCATTTCTAACTTAAAA
1 TTTTCCATTTCTAACTTAAAA
97706398 ATCTATCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTTCCATTTCTAACTTAAAAC
Found at i:97706409 original size:23 final size:22
Alignment explanation
Indices: 97706358--97706409 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
97706348 TTAGTTATTT
* *
97706358 TCCATTTCTAACTTAAAACTTT
1 TCCATTTCTAACTTAAAAATTA
97706380 TCCATTTCTAACTTAAAAATCTA
1 TCCATTTCTAACTTAAAAAT-TA
*
97706403 TCTATTT
1 TCCATTT
97706410 AATCCTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (22 bp):
TCCATTTCTAACTTAAAAATTA
Found at i:97709688 original size:13 final size:13
Alignment explanation
Indices: 97709656--97709689 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
97709646 TCCCGGGCAT
*
97709656 AATAAACCCAATA
1 AATAAACCAAATA
97709669 AATTAAACCAAATA
1 AA-TAAACCAAATA
97709683 AATAAAC
1 AATAAAC
97709690 ACTACAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (13 bp):
AATAAACCAAATA
Found at i:97709871 original size:43 final size:43
Alignment explanation
Indices: 97709824--97710010 Score: 211
Period size: 43 Copynumber: 4.4 Consensus size: 43
97709814 ATGCCTCTAT
* *
97709824 AGAACATGACCTTTAGCGGCGCTTCTCATAAAAATGTTGCTAA
1 AGAACATGACCTTTAGCGACGCTTCTCATAAAAACGTTGCTAA
*
97709867 AGAACATGACCTTTAGCGACGCTTCTCATAAAAACGTCGCTAA
1 AGAACATGACCTTTAGCGACGCTTCTCATAAAAACGTTGCTAA
* * ** *
97709910 AGAACATGACCTTTAGCAACGCCATC-CCCAAAAACGCTGCTAA
1 AGAACATGACCTTTAGCGACG-CTTCTCATAAAAACGTTGCTAA
* * *
97709953 AGAATATGACCTTTAGCGACGCTTTCCCA-AAAAAC--CGCTAA
1 AGAACATGACCTTTAGCGACGC-TTCTCATAAAAACGTTGCTAA
* *
97709994 AGAAAATAACCTTTAGC
1 AGAACATGACCTTTAGC
97710011 AACACTTTCC
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
41 20 0.16
42 1 0.01
43 100 0.80
44 4 0.03
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGACGCTTCTCATAAAAACGTTGCTAA
Found at i:97709923 original size:86 final size:84
Alignment explanation
Indices: 97709824--97710094 Score: 235
Period size: 86 Copynumber: 3.2 Consensus size: 84
97709814 ATGCCTCTAT
** * * * *
97709824 AGAACATGACCTTTAGCGGCG-CTTCTCATAAAAATGTTGCTAAAGAACATGACCTTTAGCGACG
1 AGAACATGACCTTTAGCAACGCCATC-CACAAAAACGCTGCTAAAGAACATGACCTTTAGCGACG
*
97709888 C-TTCTCATAAAAACGTCGCTAA
65 CTTTCCCA-AAAAAC--CGCTAA
* *
97709910 AGAACATGACCTTTAGCAACGCCATCCCCAAAAACGCTGCTAAAGAATATGACCTTTAGCGACGC
1 AGAACATGACCTTTAGCAACGCCATCCACAAAAACGCTGCTAAAGAACATGACCTTTAGCGACGC
97709975 TTTCCCAAAAAACCGCTAA
66 TTTCCCAAAAAACCGCTAA
* * * ** * ** * ** * *
97709994 AGAAAATAACCTTTAGCAACACTTTCCCCAAAAACGCCACTAAA-TACATGATTTTTAACAACGC
1 AGAACATGACCTTTAGCAACGCCATCCACAAAAACGCTGCTAAAGAACATGACCTTTAGCGACGC
* **
97710058 TTTCTCCTCAAACGCCGCTAA
66 TTTC-CC-AAAAAACCGCTAA
97710079 AG-ACATGACCTTTAGC
1 AGAACATGACCTTTAGC
97710095 GATGCTTTCC
Statistics
Matches: 154, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
83 18 0.12
84 57 0.37
85 12 0.08
86 59 0.38
87 8 0.05
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (84 bp):
AGAACATGACCTTTAGCAACGCCATCCACAAAAACGCTGCTAAAGAACATGACCTTTAGCGACGC
TTTCCCAAAAAACCGCTAA
Found at i:97710037 original size:84 final size:84
Alignment explanation
Indices: 97709863--97710123 Score: 285
Period size: 84 Copynumber: 3.1 Consensus size: 84
97709853 AAAAATGTTG
*
97709863 CTAAAGAACATGACCTTTAGCGACGC-TTCTCATAAAAACGTCGCTAAAGAACATGACCTTTAGC
1 CTAAAGAACATGACCTTTAGCGACGCTTTCCCA-AAAAAC--CGCTAAAGAACATGACCTTTAGC
** **
97709927 AACGCCATCCCCAAAAACGCTG
63 AACGCTTTCCCCAAAAACGCCA
* * *
97709949 CTAAAGAATATGACCTTTAGCGACGCTTTCCCAAAAAACCGCTAAAGAAAATAACCTTTAGCAAC
1 CTAAAGAACATGACCTTTAGCGACGCTTTCCCAAAAAACCGCTAAAGAACATGACCTTTAGCAAC
*
97710014 ACTTTCCCCAAAAACGCCA
66 GCTTTCCCCAAAAACGCCA
* ** * * * ** *
97710033 CTAAA-TACATGATTTTTAACAACGCTTTCTCCTCAAACGCCGCTAAAG-ACATGACCTTTAGCG
1 CTAAAGAACATGACCTTTAGCGACGCTTTC-CC-AAAAAACCGCTAAAGAACATGACCTTTAGCA
*
97710096 ATGCTTTCCCCAAAAACGCCA
64 ACGCTTTCCCCAAAAACGCCA
97710117 CTAAAGA
1 CTAAAGA
97710124 CCATATCAAA
Statistics
Matches: 147, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
83 18 0.12
84 81 0.55
85 12 0.08
86 31 0.21
87 5 0.03
ACGTcount: A:0.37, C:0.29, G:0.13, T:0.22
Consensus pattern (84 bp):
CTAAAGAACATGACCTTTAGCGACGCTTTCCCAAAAAACCGCTAAAGAACATGACCTTTAGCAAC
GCTTTCCCCAAAAACGCCA
Found at i:97710061 original size:42 final size:42
Alignment explanation
Indices: 97709863--97710124 Score: 224
Period size: 42 Copynumber: 6.2 Consensus size: 42
97709853 AAAAATGTTG
* ** * *
97709863 CTAAAGAACATGACCTTTAGCGACGC-TTCTCATAAAAACGTCG
1 CTAAAG-ACATGACCTTTAGCAACGCTTTC-CCCAAAAACGCCA
** **
97709906 CTAAAGAACATGACCTTTAGCAACGCCATCCCCAAAAACGCTG
1 CTAAAG-ACATGACCTTTAGCAACGCTTTCCCCAAAAACGCCA
* * * *
97709949 CTAAAGAATATGACCTTTAGCGACGCTTT-CCCAAAAA-ACCG
1 CTAAAG-ACATGACCTTTAGCAACGCTTTCCCCAAAAACGCCA
* * *
97709990 CTAAAGAAAATAACCTTTAGCAACACTTTCCCCAAAAACGCCA
1 CTAAAG-ACATGACCTTTAGCAACGCTTTCCCCAAAAACGCCA
* ** * * ** *
97710033 CTAAATACATGATTTTTAACAACGCTTTCTCCTCAAACGCCG
1 CTAAAGACATGACCTTTAGCAACGCTTTCCCCAAAAACGCCA
* *
97710075 CTAAAGACATGACCTTTAGCGATGCTTTCCCCAAAAACGCCA
1 CTAAAGACATGACCTTTAGCAACGCTTTCCCCAAAAACGCCA
97710117 CTAAAGAC
1 CTAAAGAC
97710125 CATATCAAAT
Statistics
Matches: 177, Mismatches: 39, Indels: 7
0.79 0.17 0.03
Matches are distributed among these distances:
41 27 0.15
42 82 0.46
43 66 0.37
44 2 0.01
ACGTcount: A:0.37, C:0.29, G:0.13, T:0.22
Consensus pattern (42 bp):
CTAAAGACATGACCTTTAGCAACGCTTTCCCCAAAAACGCCA
Found at i:97710632 original size:23 final size:23
Alignment explanation
Indices: 97710604--97710707 Score: 172
Period size: 23 Copynumber: 4.5 Consensus size: 23
97710594 CTACACAAAG
97710604 AACATTTAAACACTTCAATTTAC
1 AACATTTAAACACTTCAATTTAC
* * *
97710627 AGCATTTAAATACTTTAATTTAC
1 AACATTTAAACACTTCAATTTAC
97710650 AACATTTAAACACTTCAATTTAC
1 AACATTTAAACACTTCAATTTAC
97710673 AACATTTAAACACTTCAATTTAC
1 AACATTTAAACACTTCAATTTAC
*
97710696 AGCATTTAAACA
1 AACATTTAAACA
97710708 TCAGCAACCA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 74 1.00
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (23 bp):
AACATTTAAACACTTCAATTTAC
Found at i:97711945 original size:26 final size:26
Alignment explanation
Indices: 97711910--97711963 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
97711900 CAAAGGCTTG
97711910 TATTATCTTATACAAATATTTAGTTT
1 TATTATCTTATACAAATATTTAGTTT
97711936 TATTATCTTATACAAATATTTAGTTT
1 TATTATCTTATACAAATATTTAGTTT
97711962 TA
1 TA
97711964 ATGGATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (26 bp):
TATTATCTTATACAAATATTTAGTTT
Found at i:97714046 original size:21 final size:21
Alignment explanation
Indices: 97714022--97714065 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
97714012 GTCAATATAT
97714022 ATGACAATCTGTTGGAACAAG
1 ATGACAATCTGTTGGAACAAG
*
97714043 ATGACAATCTGTTGGAAGAAG
1 ATGACAATCTGTTGGAACAAG
97714064 AT
1 AT
97714066 AAAAGCTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (21 bp):
ATGACAATCTGTTGGAACAAG
Found at i:97714796 original size:18 final size:18
Alignment explanation
Indices: 97714770--97714804 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
97714760 GAAAGGATGA
97714770 GAAAAAAAAGGAAATTGG
1 GAAAAAAAAGGAAATTGG
* *
97714788 GAAAGAAAAGGGAATTG
1 GAAAAAAAAGGAAATTG
97714805 AGGGAGAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.31, T:0.11
Consensus pattern (18 bp):
GAAAAAAAAGGAAATTGG
Found at i:97714865 original size:18 final size:18
Alignment explanation
Indices: 97714842--97714878 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
97714832 GAATGGCTAA
97714842 GAAAGAAAAGGAAATTGG
1 GAAAGAAAAGGAAATTGG
* *
97714860 GAAAGAAGAGGACATTGG
1 GAAAGAAAAGGAAATTGG
97714878 G
1 G
97714879 GGGAAAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.38, T:0.11
Consensus pattern (18 bp):
GAAAGAAAAGGAAATTGG
Found at i:97715050 original size:40 final size:40
Alignment explanation
Indices: 97714967--97715050 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
97714957 TAAATTGATT
* * * * * * *
97714967 TTTTGTGGCATTTTTATCATAAGCGCTATTATTGTTTGCC
1 TTTTGCGGCATTTTTATCATAAACGCCACTAATGCTTGAC
*
97715007 TTTTGCGGCATTTTTATCATAAACGCCGCTAATGCTTGAC
1 TTTTGCGGCATTTTTATCATAAACGCCACTAATGCTTGAC
97715047 TTTT
1 TTTT
97715051 TTATAATTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.46
Consensus pattern (40 bp):
TTTTGCGGCATTTTTATCATAAACGCCACTAATGCTTGAC
Done.