Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007851.1 Hibiscus syriacus cultivar Beakdansim tig00110210_pilon, whole genome shotgun sequence
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: 1608033
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 9
Found at i:886604 original size:19 final size:18
Alignment explanation
Indices: 886565--886677 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
886555 GTTGAAATGA
886565 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
886580 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
886597 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
886613 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
886630 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
886646 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
886663 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
886678 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:886708 original size:14 final size:14
Alignment explanation
Indices: 886689--886743 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
886679 TTTGGTTTCG
886689 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
886703 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
886722 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
886736 CGTTGCGA
1 CGTTGCGA
886744 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:886906 original size:33 final size:33
Alignment explanation
Indices: 886864--886934 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
886854 AATACTAACT
*
886864 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
886897 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
886930 TGAAA
1 TGAAA
886935 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:887167 original size:21 final size:22
Alignment explanation
Indices: 887116--887169 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
887106 TGGTTGTGAG
**
887116 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
887138 GGAAATCTTCGGAGAT-GGGAC
1 GGATTTCTTCGGAGATGGGGAC
887159 GGATTTCTTCG
1 GGATTTCTTCG
887170 CCGTAGAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:887340 original size:20 final size:20
Alignment explanation
Indices: 887315--887508 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
887305 CTTTAAATAT
887315 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
887335 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
887357 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
887376 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
887396 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
887416 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
887436 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
887456 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
887476 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
887496 CGCGTTGCGATTT
1 CGCGTTGCGATTT
887509 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:887502 original size:60 final size:60
Alignment explanation
Indices: 887315--887508 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
887305 CTTTAAATAT
**
887315 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
887376 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
887436 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
887496 CGCGTTGCGATTT
1 CGCGTTGCGATTT
887509 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:887525 original size:21 final size:20
Alignment explanation
Indices: 887501--887577 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
887491 ATATTCGCGT
887501 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
887522 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
887542 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
887564 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
887578 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:887588 original size:20 final size:20
Alignment explanation
Indices: 887563--887614 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
887553 AAGAATCGCG
*
887563 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
887583 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
887603 TTGCGATTCTGG
1 TTGCGATTCTGG
887615 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:897733 original size:20 final size:21
Alignment explanation
Indices: 897707--897767 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 21
897697 TTATTTTAAT
897707 TATTATTATTATTAAATAAAA
1 TATTATTATTATTAAATAAAA
* *
897728 TA-TATTATTATTATAT-ATA
1 TATTATTATTATTAAATAAAA
*
897747 TATTATTATCATTAAATAAAA
1 TATTATTATTATTAAATAAAA
897768 AACATACAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 4 0.12
20 25 0.76
21 4 0.12
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TATTATTATTATTAAATAAAA
Found at i:897747 original size:17 final size:17
Alignment explanation
Indices: 897693--897755 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
897683 AATTTTTCAT
897693 TATATTATT-TTA-AT-
1 TATATTATTATTATATA
*
897707 TATTATTATTATTAAATAAAA
1 TA-TATTATTATT--AT-ATA
897728 TATATTATTATTATATA
1 TATATTATTATTATATA
897745 TATATTATTAT
1 TATATTATTAT
897756 CATTAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
14 2 0.05
15 7 0.17
16 2 0.05
17 13 0.32
18 3 0.08
20 11 0.28
21 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATATTATTATTATATA
Found at i:899136 original size:16 final size:17
Alignment explanation
Indices: 899087--899144 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 17
899077 AGTTTTAATG
*
899087 TTATTACTTTTATTTTC
1 TTATTACTTTTATTTTA
* *
899104 TT-TCA-TTTTA-ATTA
1 TTATTACTTTTATTTTA
899118 TTATTA-TTTTATTTTA
1 TTATTACTTTTATTTTA
899134 TTATTACTTTT
1 TTATTACTTTT
899145 GATATATGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
14 4 0.12
15 12 0.36
16 11 0.33
17 6 0.18
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTACTTTTATTTTA
Found at i:899885 original size:20 final size:21
Alignment explanation
Indices: 899862--899913 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
899852 AGAAATTAAA
899862 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTAAATTTTT
* *
899882 AATTCTTTTCTTTCAAATTTTT
1 AATTCATTTATTT-AAATTTTT
899904 -ATT-ATTTATT
1 AATTCATTTATT
899914 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.62
21 3 0.12
22 7 0.27
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTCATTTATTTAAATTTTT
Found at i:906867 original size:92 final size:93
Alignment explanation
Indices: 906710--906898 Score: 283
Period size: 92 Copynumber: 2.0 Consensus size: 93
906700 AGAAGATTCA
* * * *
906710 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGGTATGAACCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTCGAGTTATCTGATCTGATTTGGTATGAACCACAAAACCAAT
*
906775 CATTGAATTTGGAAGATGAA-TGTGCTC
66 CATTGAATTTGAAAGATGAATTGTGCTC
*
906802 ATAGCATCTTCTGGAAGTGTTCTTCGAGTTATCTGATCTGATTTGGTATGAACTC-CAAAATCAA
1 ATAGCATCTTCTGGAAGTGTTCTTCGAGTTATCTGATCTGATTTGGTATGAAC-CACAAAACCAA
* *
906866 TCATTGGATTTGAAAGATGAATTTTGCTC
65 TCATTGAATTTGAAAGATGAATTGTGCTC
906895 ATAG
1 ATAG
906899 TAGAAATAAG
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
92 76 0.87
93 11 0.13
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (93 bp):
ATAGCATCTTCTGGAAGTGTTCTTCGAGTTATCTGATCTGATTTGGTATGAACCACAAAACCAAT
CATTGAATTTGAAAGATGAATTGTGCTC
Found at i:909402 original size:59 final size:54
Alignment explanation
Indices: 909202--909415 Score: 293
Period size: 54 Copynumber: 3.9 Consensus size: 54
909192 GAAATCTTGG
*
909202 CAGAAGCCATAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
*
909256 CAGAAGCCATAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
* * * * *
909310 CAGAAGCCACAAGAAAGGATGAATGTGTTGTCAAATGCTTCATTGACCAATAATCCGAT
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATG-TT--TT-ACGAA-CATCTGAA
* * *
909369 CAGAAACCACAGGAAAAGATGAATGTATTGTCAAATGTTTTACGAAC
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
909416 CAGTGATTAT
Statistics
Matches: 143, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
54 89 0.62
55 6 0.04
56 2 0.01
57 2 0.01
58 6 0.04
59 38 0.27
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (54 bp):
CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
Found at i:909409 original size:113 final size:108
Alignment explanation
Indices: 909202--909415 Score: 293
Period size: 113 Copynumber: 1.9 Consensus size: 108
909192 GAAATCTTGG
* * * * * * *
909202 CAGAAGCCATAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAACAGAAGCCATA
1 CAGAAGCCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACCAAAATCCGAACAGAAACCACA
* *
909267 GGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
66 GGAAAAGATGAATGTATTGTCAAATGTTTTACGAACATCTGAA
*
909310 CAGAAGCCACAAGAAAGGATGAATGTGTTGTCAAATGCTTCATTGACCAATAATCCGATCAGAAA
1 CAGAAGCCACAAGAAAGGATGAATGTGTTGTCAAATG-TT--TT-ACCAA-AATCCGAACAGAAA
909375 CCACAGGAAAAGATGAATGTATTGTCAAATGTTTTACGAAC
61 CCACAGGAAAAGATGAATGTATTGTCAAATGTTTTACGAAC
909416 CAGTGATTAT
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
108 35 0.38
109 2 0.02
111 2 0.02
112 4 0.04
113 48 0.53
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (108 bp):
CAGAAGCCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACCAAAATCCGAACAGAAACCACA
GGAAAAGATGAATGTATTGTCAAATGTTTTACGAACATCTGAA
Found at i:909801 original size:22 final size:22
Alignment explanation
Indices: 909773--909827 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
909763 ATCTACACTC
*
909773 TTCAAAGATGACAAATTTTCTT
1 TTCAAAGATGACAAATTCTCTT
* * *
909795 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAAATTCTCTT
909817 TTCAAAGATGA
1 TTCAAAGATGA
909828 AAGCTTTATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGACAAATTCTCTT
Found at i:910586 original size:76 final size:76
Alignment explanation
Indices: 910506--911004 Score: 903
Period size: 76 Copynumber: 6.6 Consensus size: 76
910496 TATTTCCCAA
*
910506 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
910571 GCCTTAGGGTC
66 GCCTTAGGGTC
*
910582 ATCTGTAAGTCCTTCAGTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
* *
910647 ACCTTCGGGTC
66 GCCTTAGGGTC
910658 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
910723 GCCTTAGGGTC
66 GCCTTAGGGTC
910734 ATCTGTAAGTCCTTCA--GCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
910797 GCCTTAGGGTC
66 GCCTTAGGGTC
* *
910808 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTACA
1 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
910873 GCCTTAGGGTC
66 GCCTTAGGGTC
910884 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
*
910949 GCCTTCGGGTC
66 GCCTTAGGGTC
* *
910960 ATCTATAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGG
1 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGG
911005 TCATCTGTAA
Statistics
Matches: 407, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
74 74 0.18
76 333 0.82
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (76 bp):
ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
GCCTTAGGGTC
Found at i:910918 original size:226 final size:227
Alignment explanation
Indices: 910506--911004 Score: 892
Period size: 226 Copynumber: 2.2 Consensus size: 227
910496 TATTTCCCAA
*
910506 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTTCAG-GCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
*
910571 GCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTG
65 GCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
*
910636 ATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
130 ATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
910701 GGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTC
195 GGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTC
910734 ATCTGTAAGTCCTTCA-GCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 ATCTGTAAGTCCTTCAGGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
910798 CCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGA
66 CCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGA
* * *
910863 TGTTTTTACAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGG
131 TGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGG
*
910928 GAGCTTTTTGATGTTTTCAAAGCCTTCGGGTC
196 GAGCTTTTTGATGTTTTCAAAGCCTTAGGGTC
* *
910960 ATCTATAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGG
1 ATCTGTAAGTCCTTCAG-GCATGATGTTTCCAAAAAGCCTTCGGG
911005 TCATCTGTAA
Statistics
Matches: 260, Mismatches: 9, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
226 217 0.83
228 43 0.17
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (227 bp):
ATCTGTAAGTCCTTCAGGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
CCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGA
TGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGG
GAGCTTTTTGATGTTTTCAAAGCCTTAGGGTC
Found at i:911000 original size:47 final size:47
Alignment explanation
Indices: 910946--911035 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
910936 TGATGTTTTC
910946 AAAGCCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTCCAA
1 AAAGCCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTCCAA
*
910993 AAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
1 AAAGCCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTT
911036 TCAATATTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.31
Consensus pattern (47 bp):
AAAGCCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTCCAA
Found at i:911212 original size:16 final size:17
Alignment explanation
Indices: 911177--911218 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
911167 TAATTATTAT
*
911177 TATTATTAAATAAAATA
1 TATTATTATATAAAATA
*
911194 TATTATTATAT-ATATA
1 TATTATTATATAAAATA
911210 TATTATTAT
1 TATTATTAT
911219 CATTAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTATTATATAAAATA
Found at i:911218 original size:39 final size:35
Alignment explanation
Indices: 911157--911230 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 35
911147 AATTTTTCAT
*
911157 TATATTATTTTAATTATTATTATTATTAAATAAAA
1 TATATTATTTTAATTATTATTATCATTAAATAAAA
911192 TATATTATTATATATATATATTATTATCATTAAATAAAA
1 TATATTATT-T-TA-AT-TATTATTATCATTAAATAAAA
911231 AACATACAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
35 9 0.26
36 1 0.03
37 2 0.06
38 2 0.06
39 20 0.59
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (35 bp):
TATATTATTTTAATTATTATTATCATTAAATAAAA
Found at i:912592 original size:15 final size:15
Alignment explanation
Indices: 912574--912609 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
912564 ATTTTCTTTC
912574 ATTTTAATTATTATT
1 ATTTTAATTATTATT
*
912589 ATTTTATTTATTATT
1 ATTTTAATTATTATT
912604 ACTTTT
1 A-TTTT
912610 GATATATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTAATTATTATT
Found at i:913266 original size:15 final size:15
Alignment explanation
Indices: 913246--913276 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
913236 CCGGTTACGA
913246 CAAGCTGTAAAGGGC
1 CAAGCTGTAAAGGGC
913261 CAAGCTGTAAAGGGC
1 CAAGCTGTAAAGGGC
913276 C
1 C
913277 CTTAGTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.23, G:0.32, T:0.13
Consensus pattern (15 bp):
CAAGCTGTAAAGGGC
Found at i:915063 original size:17 final size:18
Alignment explanation
Indices: 915032--915067 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
915022 TCTTAAATTA
*
915032 TAAAAAATCTCAAATCCC
1 TAAAAAATATCAAATCCC
915050 TAAAAAATAT-AAATCCC
1 TAAAAAATATCAAATCCC
915067 T
1 T
915068 TACTTGTCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAAAAATATCAAATCCC
Found at i:916853 original size:17 final size:19
Alignment explanation
Indices: 916819--916855 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
916809 ATAATATTCC
*
916819 AATTATAAAAATTTATTAT
1 AATTATAAAAATTAATTAT
916838 AATTA-AAAAA-TAATTAT
1 AATTATAAAAATTAATTAT
916855 A
1 A
916856 TAATTCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 5 0.29
19 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTATAAAAATTAATTAT
Found at i:917176 original size:30 final size:30
Alignment explanation
Indices: 917140--917209 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
917130 TTTTCCATTA
917140 TATTTTTTTTAATATTTTTTCAC-A-TAACAT
1 TATTTTTTTT-AT-TTTTTTCACAATTAACAT
*
917170 TATTTTTTATTATTTTTTTTACAATTAACAT
1 TATTTTTT-TTATTTTTTTCACAATTAACAT
*
917201 GATTTTTTT
1 TATTTTTTT
917210 AACAACACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 8 0.23
30 12 0.34
31 15 0.43
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.64
Consensus pattern (30 bp):
TATTTTTTTTATTTTTTTCACAATTAACAT
Found at i:919594 original size:20 final size:20
Alignment explanation
Indices: 919555--919622 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
919545 TCTTTTAAAC
* *
919555 AAACTTTGACCAGAAGTTTCG
1 AAACTTTCACAAG-AGTTTCG
919576 AAACTTTCACAAGAGTTTCG
1 AAACTTTCACAAGAGTTTCG
*
919596 AAACTCTCACAAGAGTTTCG
1 AAACTTTCACAAGAGTTTCG
919616 AAACTTT
1 AAACTTT
919623 ACTTGAAGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
20 32 0.74
21 11 0.26
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (20 bp):
AAACTTTCACAAGAGTTTCG
Found at i:919632 original size:20 final size:19
Alignment explanation
Indices: 919555--919643 Score: 88
Period size: 20 Copynumber: 4.4 Consensus size: 19
919545 TCTTTTAAAC
*
919555 AAACTTTGACCAGAAGTTTCG
1 AAACTTT-ACAAG-AGTTTCG
919576 AAACTTTCACAAGAGTTTCG
1 AAACTTT-ACAAGAGTTTCG
*
919596 AAACTCTCACAAGAGTTTCG
1 AAACT-TTACAAGAGTTTCG
**
919616 AAACTTTACTTGAAGTTTCG
1 AAACTTTACAAG-AGTTTCG
*
919636 ATACTTTA
1 AAACTTTA
919644 GGCTCCAACA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.07
20 43 0.73
21 12 0.20
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (19 bp):
AAACTTTACAAGAGTTTCG
Found at i:922617 original size:122 final size:122
Alignment explanation
Indices: 922400--922643 Score: 425
Period size: 122 Copynumber: 2.0 Consensus size: 122
922390 AAAAAAACTT
* *
922400 ATTAAATGTAATATAGTAAGAGATTTGCCTAAGATAAAATTTGATCTCAATAAGATTTGTGATGT
1 ATTAAAGGTAATATAATAAGAGATTTGCCTAAGATAAAATTTGATCTCAATAAGATTTGTGATGT
** *
922465 ATGTGCTAAGGGTAAACACAAAAGATCTTCTTTTAAACCTATTAATGTTGTATCATC
66 AAATGCTAAGGGTAAACACAAAAGATCTTCTTTTAAAACTATTAATGTTGTATCATC
* *
922522 ATTAAAGGTAATATAATAAGAGGTTTGCCTAAGATAAAATTTGATCTCAATAATATTTGTGATGT
1 ATTAAAGGTAATATAATAAGAGATTTGCCTAAGATAAAATTTGATCTCAATAAGATTTGTGATGT
922587 AAATGCTAAGGGTAAACACAAAAGATCTTCTTTTAAAACTATTAATGTTGTATCATC
66 AAATGCTAAGGGTAAACACAAAAGATCTTCTTTTAAAACTATTAATGTTGTATCATC
922644 TCGTAGAGTA
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
122 115 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (122 bp):
ATTAAAGGTAATATAATAAGAGATTTGCCTAAGATAAAATTTGATCTCAATAAGATTTGTGATGT
AAATGCTAAGGGTAAACACAAAAGATCTTCTTTTAAAACTATTAATGTTGTATCATC
Found at i:924830 original size:12 final size:12
Alignment explanation
Indices: 924813--924842 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
924803 TGAACAGTAA
924813 TGAACAATACCG
1 TGAACAATACCG
*
924825 TGAACAATATCG
1 TGAACAATACCG
924837 TGAACA
1 TGAACA
924843 GTGCCACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (12 bp):
TGAACAATACCG
Found at i:939955 original size:2 final size:2
Alignment explanation
Indices: 939948--939988 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
939938 CGTACAGAGT
939948 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
939989 TTAACCTCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:942253 original size:119 final size:117
Alignment explanation
Indices: 942034--942269 Score: 454
Period size: 119 Copynumber: 2.0 Consensus size: 117
942024 GTTAGAAACC
942034 TGGAGGGGATATTCGTTTATTCTTAGCGGATAGCTATAGAACTCCTCGGTTCGAGCATCTCCTTT
1 TGGAGGGGATATTCGTTTATTCTTAGCGGATAGCTATAGAACTCCTCGGTTCGAGCATCTCCTTT
942099 GCTGTGCTGGAACGGTTTCCACCATGGAATTCCTCTATCATCCACATGCTTT
66 GCTGTGCTGGAACGGTTTCCACCATGGAATTCCTCTATCATCCACATGCTTT
942151 TGGAGGGGATATATTCGTTTATTCTTAGCGGATAGCTATAGAACTCCTCGGTTCGAGCATCTCCT
1 TGGAGGGG--ATATTCGTTTATTCTTAGCGGATAGCTATAGAACTCCTCGGTTCGAGCATCTCCT
942216 TTGCTGTGCTGGAACGGTTTCCACCATGGAATTCCTCTATCATCCACATGCTTT
64 TTGCTGTGCTGGAACGGTTTCCACCATGGAATTCCTCTATCATCCACATGCTTT
942270 GCTTCTAATG
Statistics
Matches: 117, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
117 8 0.07
119 109 0.93
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (117 bp):
TGGAGGGGATATTCGTTTATTCTTAGCGGATAGCTATAGAACTCCTCGGTTCGAGCATCTCCTTT
GCTGTGCTGGAACGGTTTCCACCATGGAATTCCTCTATCATCCACATGCTTT
Found at i:945810 original size:4 final size:4
Alignment explanation
Indices: 945803--945832 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
945793 AGAAAGATTG
945803 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
945833 GAAAGCAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:952123 original size:14 final size:13
Alignment explanation
Indices: 952100--952130 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
952090 ATTGTCAACA
952100 TGTTTGGTAGTTT
1 TGTTTGGTAGTTT
952113 TGTTATGGTAGTTT
1 TGTT-TGGTAGTTT
952127 TGTT
1 TGTT
952131 GCGTTCGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.10, C:0.00, G:0.29, T:0.61
Consensus pattern (13 bp):
TGTTTGGTAGTTT
Found at i:956919 original size:15 final size:16
Alignment explanation
Indices: 956892--956922 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
956882 TGAATAGACT
956892 AATATCTTTTTTAAAA
1 AATATCTTTTTTAAAA
956908 AATATC-TTTTTAAAA
1 AATATCTTTTTTAAAA
956923 TATAATCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
AATATCTTTTTTAAAA
Found at i:957325 original size:41 final size:41
Alignment explanation
Indices: 957279--957359 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
957269 ATATAATTAG
957279 TAATTACTCATAGTCATTAAGTTGTTTTAAGCTTGTTTTTT
1 TAATTACTCATAGTCATTAAGTTGTTTTAAGCTTGTTTTTT
* * *
957320 TAATTACTCATAGTTATTAAGTTGTTTTGAGGTTGTTTTT
1 TAATTACTCATAGTCATTAAGTTGTTTTAAGCTTGTTTTT
957360 ATACTTTCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.23, C:0.07, G:0.15, T:0.54
Consensus pattern (41 bp):
TAATTACTCATAGTCATTAAGTTGTTTTAAGCTTGTTTTTT
Found at i:957377 original size:41 final size:41
Alignment explanation
Indices: 957279--957379 Score: 132
Period size: 41 Copynumber: 2.5 Consensus size: 41
957269 ATATAATTAG
* *
957279 TAATTACTCATAGTCATTAAGTTGTTTTAAGCTTGTTTTTT
1 TAATTACTCATAGTTATTAAGTTGTTTTAAGCTTGTTTTTA
* *
957320 TAATTACTCATAGTTATTAAGTTGTTTTGAGGTTGTTTTTA
1 TAATTACTCATAGTTATTAAGTTGTTTTAAGCTTGTTTTTA
* *
957361 TACTTTCTC-TAGGTTATTA
1 TAATTACTCATA-GTTATTA
957380 GTAGGTAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 2 0.04
41 51 0.96
ACGTcount: A:0.24, C:0.09, G:0.14, T:0.53
Consensus pattern (41 bp):
TAATTACTCATAGTTATTAAGTTGTTTTAAGCTTGTTTTTA
Found at i:958023 original size:31 final size:29
Alignment explanation
Indices: 957951--958023 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 29
957941 AATTGAAGGG
*
957951 ATTGATCTTTTTGCTATTGTATTACTACAT
1 ATTGAT-TTTTTGCTAATGTATTACTACAT
957981 ATTGACTTTTTTCGCTAATGTA-TATCTACAT
1 ATTGA-TTTTTT-GCTAATGTATTA-CTACAT
958012 ATTGATATTTTT
1 ATTGAT-TTTTT
958024 TATGAAGAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
30 13 0.34
31 25 0.66
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.53
Consensus pattern (29 bp):
ATTGATTTTTTGCTAATGTATTACTACAT
Found at i:961289 original size:13 final size:14
Alignment explanation
Indices: 961271--961299 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
961261 TAAATAAGAA
961271 TATTTT-AAATTTT
1 TATTTTAAAATTTT
961284 TATTTTAAAATTTT
1 TATTTTAAAATTTT
961298 TA
1 TA
961300 AAATTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTTTAAAATTTT
Found at i:961310 original size:23 final size:22
Alignment explanation
Indices: 961273--961316 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
961263 AATAAGAATA
* *
961273 TTTTAAATTTTTATTTTAAAAT
1 TTTTAAATTTATATTTCAAAAT
961295 TTTTAAAATTTATATTTCAAAA
1 TTTT-AAATTTATATTTCAAAA
961317 ATATTTCTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTAAATTTATATTTCAAAAT
Found at i:963721 original size:21 final size:21
Alignment explanation
Indices: 963695--963736 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
963685 AATTCATTCA
*
963695 ATATGGATACTAGTTAATCTG
1 ATATGGATACCAGTTAATCTG
*
963716 ATATGGATACCAGTTCATCTG
1 ATATGGATACCAGTTAATCTG
963737 GTATTAATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (21 bp):
ATATGGATACCAGTTAATCTG
Found at i:970136 original size:18 final size:18
Alignment explanation
Indices: 970085--970137 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
970075 ACAAATTTTC
* * *
970085 AAAAAAAATGTTTTATTT
1 AAAAAATATGTTATAATT
*
970103 AAAAAATTAATATTATAATT
1 AAAAAA-T-ATGTTATAATT
970123 AAAAAATATGTTATA
1 AAAAAATATGTTATA
970138 TCTTTTGTCG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 13 0.46
19 1 0.04
20 14 0.50
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (18 bp):
AAAAAATATGTTATAATT
Found at i:970513 original size:31 final size:32
Alignment explanation
Indices: 970478--970544 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 32
970468 ATTAAGAAAA
* *
970478 TAAAAAATTTT-ATAATATAACGGTAGACACC
1 TAAAAAATTTTAAAAATATAACAGTAGACACC
* * *
970509 T-AAAATTTTTAAAAATATAACAGTATACATC
1 TAAAAAATTTTAAAAATATAACAGTAGACACC
970540 TAAAA
1 TAAAA
970545 GTATAACGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
30 8 0.28
31 18 0.62
32 3 0.10
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.31
Consensus pattern (32 bp):
TAAAAAATTTTAAAAATATAACAGTAGACACC
Found at i:971061 original size:15 final size:14
Alignment explanation
Indices: 971035--971070 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
971025 TCATCAAAGT
971035 AAATATTTTATAAA
1 AAATATTTTATAAA
971049 AAATATATTTATAAA
1 AAATAT-TTTATAAA
971064 AAATATT
1 AAATATT
971071 CAATAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATATTTTATAAA
Found at i:971744 original size:2 final size:2
Alignment explanation
Indices: 971737--971766 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
971727 TTTTATTTTC
971737 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
971767 GCAAACGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:971905 original size:37 final size:36
Alignment explanation
Indices: 971787--971908 Score: 122
Period size: 36 Copynumber: 3.4 Consensus size: 36
971777 TGAAAATATG
* * * * *
971787 TATATAATATAT-AGTTTCTAAAAACATTTTAAAAAC
1 TATATATTATATAATTTTC-AAAAGCGTTTTTAAAAC
*
971823 TATATATTATATAGTTTTCAAAAGCGTTTTTAAAAC
1 TATATATTATATAATTTTCAAAAGCGTTTTTAAAAC
* *
971859 TATATATTATATATATTTTTAAAA-TGTTTTTAGAAAC
1 TATATATTATATA-ATTTTCAAAAGCGTTTTTA-AAAC
*
971896 TATAAATTATATA
1 TATATATTATATA
971909 CGTATTTTCA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
36 45 0.62
37 28 0.38
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (36 bp):
TATATATTATATAATTTTCAAAAGCGTTTTTAAAAC
Found at i:972814 original size:165 final size:163
Alignment explanation
Indices: 972548--973700 Score: 1070
Period size: 165 Copynumber: 7.0 Consensus size: 163
972538 TCTTTCCTTG
* *
972548 AGCTATGTTGTAAATGATGTGCCTTGAAGATGAGCGTAGTCGAACTCGAAGGTCTTTAGTTGGCA
1 AGCTATGCTGTAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTC-TT--TTGGCA
* * * * *
972613 AATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTAAGCGTAGTTGAACT
63 GATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACT
* *
972678 CGAAGGTCTTTTGGTGACAGATAACCCTTCTAGACTTG
128 CGAAGGTC-TTTGGTG-CAGATAACCCTTCTCGACTTA
* * * * *
972716 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGT-GATCAAACTCGAGGGTC-TTTGGCAG
1 AGCTATGCTGTAAATGATGTG-CCTTGAAGCTGAGCGTAG-TCGAACTCGAAGGTCTTTTGGCAG
* * * *
972779 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTC
64 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
* * * *
972844 GAATGTCTTTTGGTGACAGATAACCCTTCTAGCCTTG
129 GAAGGTC-TTTGGTG-CAGATAACCCTTCTCGACTTA
* * * * * **
972881 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGCGGGTC-TTTGGCAGA
1 AGCTATGCTGTAAATGATGTG-CCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGCAGA
* * * * **
972945 TAACCCTTCTTGACTTAAGCTATGTTGCAAATGATGTGCCTTAGAGCCAAGCGTAGTCGAACTCG
65 TAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCG
*
973010 TAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
130 AAGGTCTTTGG-T-GCAGATAACCCTTCTCGACTTA
* * * * * * *
973046 AGTTATGCTGCAAGTGATATGCCTTGGAA-CTGAGCCTAGTCAAACTCGAAGGTCTTTTGATCAC
1 AGCTATGCTGTAAATGATGTGCCTT-GAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTG-GCA-
* * * * ** * * * *
973110 CGATAACCCTTCTAGCCTTGAGCTATGTTTTAAATGATGTACCCTTGAAGCTGAGTGTAATCGAA
63 -GATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT-GCCTTGGAGCTGAGCGTAGTCGAA
*
973175 CTCGAGGGTCTTT-G-GCAGATAACCC-TCATCGACTTA
126 CTCGAAGGTCTTTGGTGCAGATAACCCTTC-TCGACTTA
* *
973211 AGCTATGCT-TCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCAC
1 AGCTATGCTGT-AAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG---C
* * * * * * * * *
973275 AAATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGACCTCGAAGCTGAGTGTAATCGAA
62 AGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAA
* * *
973340 CTTGATGGTCTTT-G-GCAGACAACCCTTCTCGACTTA
126 CTCGAAGGTCTTTGGTGCAGATAACCCTTCTCGACTTA
** * * * *
973376 AGCTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTTGGTCACA
1 AGCTATGCTGTAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG---CA
* * * * * * * *
973441 GATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAAC
63 GATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAAC
* * *
973506 TCGAGGGTCTTCGGT--AGATAGCCCTTCTCGACTTA
127 TCGAAGGTCTTTGGTGCAGATAACCCTTCTCGACTTA
* * * * *
973541 AGCTATACTGCAAATGATGTGTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTAGCA
1 AGCTATGCTGTAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTC-TT--TTGGCA
* * * *
973606 GATAACCCTTCTCGACTTAAGTTATACTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACT
63 GATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACT
* * *
973671 CGAAGGTCTTTGTTGGTAGATAACTCTTCT
128 CGAAGGTCTTTGGT-GCAGATAACCCTTCT
973701 AGCCTTGAGT
Statistics
Matches: 846, Mismatches: 111, Indels: 57
0.83 0.11 0.06
Matches are distributed among these distances:
164 61 0.07
165 651 0.77
166 8 0.01
167 14 0.02
168 58 0.07
169 54 0.06
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (163 bp):
AGCTATGCTGTAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGCAGAT
AACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGA
AGGTCTTTGGTGCAGATAACCCTTCTCGACTTA
Found at i:973304 original size:414 final size:409
Alignment explanation
Indices: 972527--973716 Score: 1519
Period size: 414 Copynumber: 2.9 Consensus size: 409
972517 ATTTTATTGA
* ** * * *
972527 CAGATAGCCCTTCTTTCCTTGAGCTATGTTGTAAATGATGTGCCTTGAAGATGAGCGTAGTCGAA
1 CAGATAACCCTTCTTGACTTAAGCTATGTTGCAAATGATGTGCCTTG-AGCTGAGCGTAGTCGAA
* *
972592 CTCGAAGGTCTTTAGTTGGCAAATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT
65 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT
* * * *
972657 GGAGCTAAGCGTAGTTGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGACTTGAGTTAT
130 GGAACTGAGCGTAGTCGAACTCGAAGGTCTTTTGGT-AC-GATAACCCTTCTAGACTTGAGCTAT
* * * *
972722 GCTGTAAATGATGTGCCCTCGAAGCTGAGTGTGATCAAACTCGAGGGTCTTTGGCAGATAGCCCT
193 GCTGTAAATGATGT-CCCTTGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCT
* * *
972787 TCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAATGTCT
257 TCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT
*
972852 TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGT
322 TTTGGT-ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGACCTCGAAGCTGAGT
*
972917 GTAATCGAACTTGCGGGTCTTTGG
386 GTAATCGAACTTGAGGGTCTTTGG
**
972941 CAGATAACCCTTCTTGACTTAAGCTATGTTGCAAATGATGTGCCTTAGAGCCAAGCGTAGTCGAA
1 CAGATAACCCTTCTTGACTTAAGCTATGTTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGAA
* *
973006 CTCGTAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAGTGATATGCCTT
65 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT
* * * *
973071 GGAACTGAGCCTAGTCAAACTCGAAGGTCTTTTGATCACCGATAACCCTTCTAGCCTTGAGCTAT
130 GGAACTGAGCGTAGTCGAACTCGAAGGTCTTTTGGT-A-CGATAACCCTTCTAGACTTGAGCTAT
* *
973136 GTTTTAAATGATGTACCCTTGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCC-
193 GCTGTAAATGATGT-CCCTTGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCT
*
973200 TCATCGACTTAAGCTATGCTTCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
257 TC-TCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
* *
973265 TTTTGGTCACAAATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGACCTCGAAGCTGAG
321 TTTTGGT-ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGACCTCGAAGCTGAG
*
973330 TGTAATCGAACTTGATGGTCTTTGG
385 TGTAATCGAACTTGAGGGTCTTTGG
* * * * * *
973355 CAGACAACCCTTCTCGACTTAAGCTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCAAA
1 CAGATAACCCTTCTTGACTTAAGCTATGTTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGAA
* ** * * * * * * *
973420 CTCAAAGGTCTTTTGG-TCACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCCC
65 CTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCT
* * * * * * * *
973484 TCGAAGCTGAGTGTAATCGAACTCGAGGGTC-TTCGGTA-GATAGCCCTTCTCGACTTAAGCTAT
129 TGGAA-CTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTACGATAACCCTTCTAGACTTGAGCTAT
* * ** * * * *
973547 ACTGCAAATGATGTGTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTAGCAGATAAC
193 GCTGTAAATGATGTCCCTTGAAGCTGAGTGTAATCGAACTCGAGGGTCTTT-G---GCAGATAAC
* * *
973612 CCTTCTCGACTTAAGTTATACTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGG
254 CCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG
*
973677 TCTTTGTTGGT--AGATAACTCTTCTAGCCTTGAGTTATGCT
319 TC-TT-TTGGTACAGATAACCCTTCTAGCCTTGAGTTATGCT
973717 ACAAATAGTT
Statistics
Matches: 676, Mismatches: 88, Indels: 25
0.86 0.11 0.03
Matches are distributed among these distances:
410 31 0.05
411 32 0.05
413 29 0.04
414 548 0.81
415 31 0.05
416 5 0.01
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (409 bp):
CAGATAACCCTTCTTGACTTAAGCTATGTTGCAAATGATGTGCCTTGAGCTGAGCGTAGTCGAAC
TCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTG
GAACTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTACGATAACCCTTCTAGACTTGAGCTATGCT
GTAAATGATGTCCCTTGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTC
GACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTG
GTACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGACCTCGAAGCTGAGTGTAAT
CGAACTTGAGGGTCTTTGG
Found at i:981421 original size:26 final size:26
Alignment explanation
Indices: 981369--981425 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
981359 AGACTAAATT
* **
981369 TATTTTAATTTATTTTTAATTTGATA
1 TATTTTAATATATTTTTAAAATGATA
981395 TATTTCTAATATATTTTTAAAAT-ATA
1 TATTT-TAATATATTTTTAAAATGATA
981421 TATTT
1 TATTT
981426 AATTTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
TATTTTAATATATTTTTAAAATGATA
Found at i:981439 original size:16 final size:18
Alignment explanation
Indices: 981410--981454 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
981400 CTAATATATT
981410 TTTAAAATATATATTTAA
1 TTTAAAATATATATTTAA
981428 TTTAAAATATATATTTAA
1 TTTAAAATATATATTTAA
981446 TTTAAAATA
1 TTTAAAATA
981455 AGAATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTAAAATATATATTTAA
Found at i:981521 original size:35 final size:34
Alignment explanation
Indices: 981434--981535 Score: 106
Period size: 35 Copynumber: 3.1 Consensus size: 34
981424 TTAATTTAAA
* *
981434 ATATATA-TTTAATTTAAAATAAGAAT-AAA-AT
1 ATATATATTTTAAATAAAAATAAGAATAAAATAT
* *
981465 A-ATAT-TTTTAAGTAAAGATAAGAATAAAATATT
1 ATATATATTTTAAATAAAAATAAGAATAAAATA-T
* *
981498 ATATATATTTTAAATAAAAATAAGAGTAAAATAG
1 ATATATATTTTAAATAAAAATAAGAATAAAATAT
981532 ATAT
1 ATAT
981536 TTTTATACTA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
30 20 0.34
31 4 0.07
32 1 0.02
33 2 0.03
34 8 0.14
35 23 0.40
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (34 bp):
ATATATATTTTAAATAAAAATAAGAATAAAATAT
Found at i:981646 original size:31 final size:31
Alignment explanation
Indices: 981594--981659 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
981584 ATATTTAATA
* * *
981594 ATATATTTTTAAGTGATGATAAAGATAAAAT
1 ATATATTTTTAAGTGAAGATAAAAACAAAAT
*
981625 ATATATTTTTACA-TTAAGATAAAAACAAAAT
1 ATATATTTTTA-AGTGAAGATAAAAACAAAAT
981656 ATAT
1 ATAT
981660 TTAATAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.38
Consensus pattern (31 bp):
ATATATTTTTAAGTGAAGATAAAAACAAAAT
Found at i:981678 original size:29 final size:29
Alignment explanation
Indices: 981637--981721 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 29
981627 ATATTTTTAC
* * *
981637 ATTAAGATAAAAACAAAATATATTTAATAA
1 ATTAAGACAAAAATAAAA-ATAATTAATAA
981667 ATTAAGACAAAAATAAAAATAATTAATAA
1 ATTAAGACAAAAATAAAAATAATTAATAA
* *
981696 GTTAAAACAAAAATAAAGAGATAATT
1 ATTAAGACAAAAATAAA-A-ATAATT
981722 TTAAAATTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
29 25 0.52
30 17 0.35
31 6 0.12
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.26
Consensus pattern (29 bp):
ATTAAGACAAAAATAAAAATAATTAATAA
Found at i:982940 original size:7 final size:7
Alignment explanation
Indices: 982919--982986 Score: 64
Period size: 7 Copynumber: 9.7 Consensus size: 7
982909 GTTAGATTAC
982919 ACCCTAA
1 ACCCTAA
**
982926 ACTTTAA
1 ACCCTAA
982933 ACCCTAA
1 ACCCTAA
*
982940 ATCCTAA
1 ACCCTAA
982947 ACCCTAA
1 ACCCTAA
*
982954 ATCCTAA
1 ACCCTAA
*
982961 GCCCTAA
1 ACCCTAA
* *
982968 GCACTAA
1 ACCCTAA
*
982975 ACTCTAA
1 ACCCTAA
982982 ACCCT
1 ACCCT
982987 TAATATGATT
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.40, C:0.35, G:0.03, T:0.22
Consensus pattern (7 bp):
ACCCTAA
Found at i:983100 original size:14 final size:15
Alignment explanation
Indices: 983082--983121 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
983072 TTATACACTA
983082 TAAACCCTAAATTTC
1 TAAACCCTAAATTTC
*
983097 -AAACCTTAAA-TTC
1 TAAACCCTAAATTTC
983110 TAAACCCTAAAT
1 TAAACCCTAAAT
983122 CCTTAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
13 3 0.14
14 18 0.86
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAACCCTAAATTTC
Found at i:983120 original size:138 final size:138
Alignment explanation
Indices: 982870--983143 Score: 338
Period size: 138 Copynumber: 2.0 Consensus size: 138
982860 CATTGTATAT
* *
982870 TACTAAAAGAAAAATAAAAGCCCAATTAATTAAGCACATGTTAGATTACACCCTAAACTTTAAAC
1 TACTAAAAGAAAAATAAAAGCCCAATTAATTAAGCACATATTAGATTACACCCTAAACTATAAAC
* * * * * *
982935 CCTAAATCCTAAACCCTAAATCCTAAGCCCTAAGCACTAAACTCTAAACCCTTAATAT-GATTAT
66 CATAAATCATAAACCCTAAATCCTAAACCCTAAACACTAAACCCTAAACCCTTAAT-TCAATTAT
982999 GTGATAGGA
130 GTGATAGGA
* * *
983008 TACTAAAAGAAAAATAAAAGCCCATTTAATTAATCACATATTAGATTACACCCTAAACTATAAAT
1 TACTAAAAGAAAAATAAAAGCCCAATTAATTAAGCACATATTAGATTACACCCTAAACTATAAAC
* * * * ** *
983073 TATACA-CTATAAACCCTAAAT-TTCAAACCTTAAATTCTAAACCCTAAATCCTTAATTCAATTA
66 CATAAATC-ATAAACCCTAAATCCT-AAACCCTAAACACTAAACCCTAAACCCTTAATTCAATTA
983136 TGTGATAG
129 TGTGATAG
983144 TGGTTAAGTT
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
137 3 0.03
138 112 0.97
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.28
Consensus pattern (138 bp):
TACTAAAAGAAAAATAAAAGCCCAATTAATTAAGCACATATTAGATTACACCCTAAACTATAAAC
CATAAATCATAAACCCTAAATCCTAAACCCTAAACACTAAACCCTAAACCCTTAATTCAATTATG
TGATAGGA
Found at i:987221 original size:64 final size:65
Alignment explanation
Indices: 987055--987224 Score: 270
Period size: 64 Copynumber: 2.6 Consensus size: 65
987045 TAAATAAATT
* *
987055 ATTTTTTCTTTAACCGTTAATCGAATCGAAATTTATTTGAAAATTATTAACCGAACCAAATTAAC
1 ATTTTTTCTTTAA-CATTAATCGAACCGAAA-TTATTTGAAAATTATTAACCGAACCAAATTAAC
*
987120 TG
64 CG
*
987122 AAATTTTTCTTTAACATTAATCGAACCGAAATTATTTGAAAATTATTAACCGAACCAAATTAACC
1 -ATTTTTTCTTTAACATTAATCGAACCGAAATTATTTGAAAATTATTAACCGAACCAAATTAACC
987187 G
65 G
987188 -TTTTTTCTTTAACATTAATCGAACCGAAATTATTTGA
1 ATTTTTTCTTTAACATTAATCGAACCGAAATTATTTGA
987225 CCATTAATCG
Statistics
Matches: 97, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
64 36 0.37
66 34 0.35
67 15 0.15
68 12 0.12
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (65 bp):
ATTTTTTCTTTAACATTAATCGAACCGAAATTATTTGAAAATTATTAACCGAACCAAATTAACCG
Found at i:987229 original size:26 final size:26
Alignment explanation
Indices: 987200--987332 Score: 99
Period size: 26 Copynumber: 5.0 Consensus size: 26
987190 TTTTCTTTAA
987200 CATTAATCGAACCGAAATTATTTGAC
1 CATTAATCGAACCGAAATTATTTGAC
* *
987226 CATTAATCGAACCTAAATTTATTTGAA
1 CATTAATCGAACCGAAA-TTATTTGAC
* * ** * *
987253 AATT-AT-TAACCGATTTTTTTTCTTTAAC
1 CATTAATCGAACCGA----AATTATTTGAC
*
987281 CATTAATCGAACCAAAATTATTTGAC
1 CATTAATCGAACCGAAATTATTTGAC
* *
987307 CGTTAATCGAACCCAAATTTATTTGA
1 CATTAATCGAACCGAAA-TTATTTGA
987333 AAAGTATTAA
Statistics
Matches: 80, Mismatches: 19, Indels: 15
0.70 0.17 0.13
Matches are distributed among these distances:
25 5 0.06
26 40 0.50
27 19 0.24
28 9 0.11
29 2 0.03
30 5 0.06
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (26 bp):
CATTAATCGAACCGAAATTATTTGAC
Found at i:987299 original size:81 final size:80
Alignment explanation
Indices: 987188--987346 Score: 273
Period size: 81 Copynumber: 2.0 Consensus size: 80
987178 AAATTAACCG
* *
987188 TTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCATTAATCGAACCTAAATTTATTTGAA
1 TTTTTTCTTTAACATTAATCGAACCAAAATTATTTGACCATTAATCGAACCCAAATTTATTTGAA
*
987253 AATTATTAACCGATT
66 AAGTATTAACCGATT
*
987268 TTTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCCAAATTTATTTGA
1 TTTTTTCTTTAA-CATTAATCGAACCAAAATTATTTGACCATTAATCGAACCCAAATTTATTTGA
987333 AAAGTATTAACCGA
65 AAAGTATTAACCGA
987347 ATTAACTGAA
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
80 12 0.16
81 62 0.84
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.39
Consensus pattern (80 bp):
TTTTTTCTTTAACATTAATCGAACCAAAATTATTTGACCATTAATCGAACCCAAATTTATTTGAA
AAGTATTAACCGATT
Found at i:987415 original size:64 final size:66
Alignment explanation
Indices: 987347--987473 Score: 170
Period size: 69 Copynumber: 1.9 Consensus size: 66
987337 TATTAACCGA
* *
987347 ATTAACTGAATAAAAT-AA-A-TTATTTTCTTTAACCGTTAATCGAACCGAAATTTATTTGAAAA
1 ATTAACTGAACAAAATCAACACTTATTTTCTTTAACCATTAATCGAACCGAAA-TTATTTGAAAA
987409 TT
65 TT
* *
987411 ATTAACTGAACCAAATCAACCGACTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGA
1 ATTAACTGAACAAAATCAA-C-ACTTATTTTCTTTAACCATTAATCGAACCGAAATTATTTGA
987474 CCGTTAATAG
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
64 14 0.26
65 2 0.04
68 9 0.17
69 29 0.54
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (66 bp):
ATTAACTGAACAAAATCAACACTTATTTTCTTTAACCATTAATCGAACCGAAATTATTTGAAAAT
T
Found at i:987456 original size:168 final size:169
Alignment explanation
Indices: 987260--987684 Score: 699
Period size: 169 Copynumber: 2.5 Consensus size: 169
987250 GAAAATTATT
* * *
987260 AACCGATTTTTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCCAAAT
1 AACCGAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCGAAAT
* * *
987325 TTATTTGAAAAGTATTAACCGAATTAACTGAATAAAATAAATTA-TTTTCTTTAACCGTTAATCG
66 TTATTTGAAAATTATTAACCGAATTAACCGAATAAAATAAATTATTTTTCCTTAACCGTTAATCG
* *
987389 AACCGAAATTTATTTGAAAATTATTAACTGAACCAAATC
131 AACCAAAATTTATTTGAAAATTATTAACCGAACCAAATC
* * *
987428 AACCGACTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATAGAATCGAAAT
1 AACCGAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCGAAAT
987493 TTATTTGAAAATTATTAACCGAATTAACCGAATAAAATAAATTATTTTTCCTTAACCGTTAATCG
66 TTATTTGAAAATTATTAACCGAATTAACCGAATAAAATAAATTATTTTTCCTTAACCGTTAATCG
* *
987558 AACCAAAATTTATTTGAAAATTATTAACCGAATCAAATT
131 AACCAAAATTTATTTGAAAATTATTAACCGAACCAAATC
* * *
987597 AACCAAATTTTTTTCTTTAACCATTAATCGAACCGAAATCATTTGACTGTTAATCGAACCGAAAT
1 AACCGAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCGAAAT
987662 TTATTTGAAAATTATTAACCGAA
66 TTATTTGAAAATTATTAACCGAA
987685 CCAAATTAAC
Statistics
Matches: 238, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
168 102 0.43
169 136 0.57
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (169 bp):
AACCGAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCGAAAT
TTATTTGAAAATTATTAACCGAATTAACCGAATAAAATAAATTATTTTTCCTTAACCGTTAATCG
AACCAAAATTTATTTGAAAATTATTAACCGAACCAAATC
Found at i:987500 original size:249 final size:238
Alignment explanation
Indices: 987067--987514 Score: 655
Period size: 249 Copynumber: 1.8 Consensus size: 238
987057 TTTTTCTTTA
* * * * *
987067 ACCGTTAATCGAATCGAAATTTATTTGAAAATTATTAACCGAACCAAATTAACTGAAATTTTTCT
1 ACCGTTAATCGAACCCAAATTTATTTGAAAAGTATTAACCGAACCAAATAAAATGAAATTTTTCT
*
987132 TTAACATTAATCGAACCGAAATTATTTGAAAATTATTAACCGAACCAAATTAACCGTTTTTTCTT
66 TTAACATTAATCGAACCGAAATTATTTGAAAATTATTAACCGAACCAAATCAACCGTTTTTTCTT
* *
987197 TAACATTAATCGAACCGAAATTATTTGACCATTAATCGAACCTAAATTTATTTGAAAATTATTAA
131 TAACATTAATCGAACCGAAATTATTTGACCATTAATAGAACCGAAATTTATTTGAAAATTATTAA
987262 CCGATTTTTTTTCTTTAACCATTAATCGAACCAAAATTATTTG
196 CCGATTTTTTTTCTTTAACCATTAATCGAACCAAAATTATTTG
**
987305 ACCGTTAATCGAACCCAAATTTATTTGAAAAGTATTAACCGAATTAACTGAATAAAAT-AAATTA
1 ACCGTTAATCGAACCCAAATTTATTTGAAAAGTATTAACCG----AACCAAATAAAATGAAA-T-
* *
987369 TTTTCTTTAACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACTGAACCAAATCAACCGA
60 TTTTCTTTAA-CATTAATCGAACCGAAA-TTATTTGAAAATTATTAACCGAACCAAATCAACCG-
* *
987434 CTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATAGAATCGAAATTTATTT
122 --TTTTTTCTTTAA-CATTAATCGAACCGAAATTATTTGACCATTAATAGAACCGAAATTTATTT
987499 GAAAATTATTAACCGA
184 GAAAATTATTAACCGA
987515 ATTAACCGAA
Statistics
Matches: 184, Mismatches: 14, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
238 38 0.21
241 3 0.02
242 10 0.05
243 10 0.05
244 16 0.09
245 33 0.18
248 12 0.07
249 62 0.34
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (238 bp):
ACCGTTAATCGAACCCAAATTTATTTGAAAAGTATTAACCGAACCAAATAAAATGAAATTTTTCT
TTAACATTAATCGAACCGAAATTATTTGAAAATTATTAACCGAACCAAATCAACCGTTTTTTCTT
TAACATTAATCGAACCGAAATTATTTGACCATTAATAGAACCGAAATTTATTTGAAAATTATTAA
CCGATTTTTTTTCTTTAACCATTAATCGAACCAAAATTATTTG
Found at i:987758 original size:92 final size:95
Alignment explanation
Indices: 987547--987775 Score: 383
Period size: 92 Copynumber: 2.4 Consensus size: 95
987537 TTTTTCCTTA
* *
987547 ACCGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAATCAAATTAACCAAATTTTTTTC
1 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCAAATTTTTTTC
987612 TTTAACCATTAATCGAACCGAAATCATTTG
66 TTTAACCATTAATCGAACCGAAATCATTTG
* *
987642 ACTGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCGAA-TTTTTT-
1 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCAAATTTTTTTC
* *
987705 TTTAA-CATTAATTGAACCGAAATTATTTG
66 TTTAACCATTAATCGAACCGAAATCATTTG
987734 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGA
1 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGA
987776 TTAACGGTTA
Statistics
Matches: 127, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
92 63 0.50
93 5 0.04
94 6 0.05
95 53 0.42
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (95 bp):
ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCAAATTTTTTTC
TTTAACCATTAATCGAACCGAAATCATTTG
Found at i:987834 original size:19 final size:19
Alignment explanation
Indices: 987810--987849 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
987800 ATAAATTTCA
987810 AATAAATTTCGGTTCGATT
1 AATAAATTTCGGTTCGATT
987829 AATAAATTTCGGTTCGATT
1 AATAAATTTCGGTTCGATT
987848 AA
1 AA
987850 CGGTTAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (19 bp):
AATAAATTTCGGTTCGATT
Found at i:989535 original size:18 final size:18
Alignment explanation
Indices: 989512--989599 Score: 131
Period size: 18 Copynumber: 4.7 Consensus size: 18
989502 AATATTTGTT
989512 CCGAAGGACCACTATGTC
1 CCGAAGGACCACTATGTC
989530 CCGAAGGACCACTGATATGTC
1 CCGAAGGACCAC---TATGTC
*
989551 CCGAAGGACCACTATGTT
1 CCGAAGGACCACTATGTC
*
989569 CCGAAGGACCACTATGTT
1 CCGAAGGACCACTATGTC
989587 CCGAAGGACCACT
1 CCGAAGGACCACT
989600 GATAATCCCT
Statistics
Matches: 66, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
18 48 0.73
21 18 0.27
ACGTcount: A:0.28, C:0.31, G:0.23, T:0.18
Consensus pattern (18 bp):
CCGAAGGACCACTATGTC
Found at i:989556 original size:39 final size:36
Alignment explanation
Indices: 989512--989599 Score: 131
Period size: 39 Copynumber: 2.4 Consensus size: 36
989502 AATATTTGTT
989512 CCGAAGGACCACTATGTCCCGAAGGACCACTGATATGTC
1 CCGAAGGACCACTATGTCCCGAAGGACCAC---TATGTC
* *
989551 CCGAAGGACCACTATGTTCCGAAGGACCACTATGTT
1 CCGAAGGACCACTATGTCCCGAAGGACCACTATGTC
989587 CCGAAGGACCACT
1 CCGAAGGACCACT
989600 GATAATCCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 18 0.38
39 29 0.62
ACGTcount: A:0.28, C:0.31, G:0.23, T:0.18
Consensus pattern (36 bp):
CCGAAGGACCACTATGTCCCGAAGGACCACTATGTC
Found at i:991528 original size:3 final size:3
Alignment explanation
Indices: 991520--991568 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
991510 TGTAAATTGG
991520 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
991568 G
1 G
991569 TATGAAGACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:998046 original size:17 final size:18
Alignment explanation
Indices: 998019--998056 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
998009 TGAAAATTTT
*
998019 ATTATTGTAAAAAATGTA
1 ATTATTGTAAAAAATATA
998037 ATTATT-TAAAAAATATA
1 ATTATTGTAAAAAATATA
998054 ATT
1 ATT
998057 TTGAGTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
ATTATTGTAAAAAATATA
Found at i:1002664 original size:2 final size:2
Alignment explanation
Indices: 1002657--1002734 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
1002647 ATTTGTTTCA
1002657 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1002699 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1002735 CTATTAACCA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1007594 original size:15 final size:15
Alignment explanation
Indices: 1007574--1007602 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1007564 TTATTGGGAG
1007574 TTATTAATCTTCAGT
1 TTATTAATCTTCAGT
1007589 TTATTAATCTTCAG
1 TTATTAATCTTCAG
1007603 CTTCAAGAGT
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:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (15 bp):
TTATTAATCTTCAGT
Found at i:1009812 original size:20 final size:21
Alignment explanation
Indices: 1009783--1009840 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 21
1009773 TCTATATATA
* *
1009783 TATAAATGATATTATATT-AT
1 TATAATTGATAATATATTAAT
* *
1009803 TATCATTGATAATATTTTAAT
1 TATAATTGATAATATATTAAT
*
1009824 TATAATTGA-AAAATATT
1 TATAATTGATAATATATT
1009841 TTTATATTGT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 20 0.67
21 10 0.33
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (21 bp):
TATAATTGATAATATATTAAT
Found at i:1012816 original size:14 final size:15
Alignment explanation
Indices: 1012797--1012826 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1012787 AATCAATGCA
1012797 TTTTTAT-CCCCTCT
1 TTTTTATACCCCTCT
1012811 TTTTTATACCCCTCT
1 TTTTTATACCCCTCT
1012826 T
1 T
1012827 GTTGCCAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.10, C:0.33, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTTATACCCCTCT
Found at i:1021023 original size:79 final size:79
Alignment explanation
Indices: 1020892--1021128 Score: 431
Period size: 79 Copynumber: 3.0 Consensus size: 79
1020882 TGACACAAGT
* *
1020892 TCTATCATTTGATCCACTGCCTCCCCTACTAAAACAGAACCATTTTATTTGAAACTATTATACTT
1 TCTATCATTTGATCCACTGCTTCCCCTACTAAAACAGAACCATTTTATTTGAAACTATTAGACTT
1020957 ATTTGAGTCTCAAC
66 ATTTGAGTCTCAAC
1020971 TCTATCATTTGATCCACTGCTTCCCCTACTAAAACAGAACCATTTTATTTGAAACTATTAGACTT
1 TCTATCATTTGATCCACTGCTTCCCCTACTAAAACAGAACCATTTTATTTGAAACTATTAGACTT
1021036 ATTTGAGTCTCAAC
66 ATTTGAGTCTCAAC
* *
1021050 TCTATCATTTGATCCACTTCTTCCCCTACTAAAACAAAACCATTTTA-TTGAAACTATTAGACTT
1 TCTATCATTTGATCCACTGCTTCCCCTACTAAAACAGAACCATTTTATTTGAAACTATTAGACTT
1021114 ATTTGAGTCTCAAC
66 ATTTGAGTCTCAAC
1021128 T
1 T
1021129 GATCTCAAAT
Statistics
Matches: 154, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
78 32 0.21
79 122 0.79
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (79 bp):
TCTATCATTTGATCCACTGCTTCCCCTACTAAAACAGAACCATTTTATTTGAAACTATTAGACTT
ATTTGAGTCTCAAC
Found at i:1024222 original size:35 final size:36
Alignment explanation
Indices: 1024176--1024275 Score: 132
Period size: 35 Copynumber: 2.8 Consensus size: 36
1024166 AATCCAAAAC
* * *
1024176 AAACCATAAATTCCAAAGTAATTCAATTTTATTCT-
1 AAACCCTAAATTCCAAAATAATTCAATTTCATTCTA
*
1024211 AAACCCTAAATTCCAAAATAATTCAATTACATTCTA
1 AAACCCTAAATTCCAAAATAATTCAATTTCATTCTA
* *
1024247 AAACCC-AAATTCTAAAATACTTCAATTTC
1 AAACCCTAAATTCCAAAATAATTCAATTTC
1024276 TGTCTTTTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
35 51 0.89
36 6 0.11
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (36 bp):
AAACCCTAAATTCCAAAATAATTCAATTTCATTCTA
Found at i:1025379 original size:35 final size:35
Alignment explanation
Indices: 1025331--1025442 Score: 145
Period size: 35 Copynumber: 3.2 Consensus size: 35
1025321 ATTCCTCCTT
* *
1025331 AAATTGAAATATTTTAGAATTTGAGTTTTAGAATG
1 AAATTGAATTATTTTAGAATTTGAGGTTTAGAATG
* *
1025366 TAATTGAATTATTTTGGAATTT-AGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATTTGA-GGTTTAGAATG
* * *
1025401 AAATCGAATTACTTTAGAATTTGGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATTTGAGGTTTAGAATG
1025436 AAATTGA
1 AAATTGA
1025443 GGAATGTTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
34 1 0.02
35 64 0.98
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.41
Consensus pattern (35 bp):
AAATTGAATTATTTTAGAATTTGAGGTTTAGAATG
Found at i:1026974 original size:73 final size:75
Alignment explanation
Indices: 1026889--1027038 Score: 200
Period size: 73 Copynumber: 2.0 Consensus size: 75
1026879 CCCTTAATAA
*
1026889 TTATAAAAAGAAAAATTCATAAATAATTGATACAAAAA-CA-ATGTAATAA-TAT-AAAAAGTAT
1 TTATAAAAAGAAAAAATCATAAATAATTGATA-AAAAATCATAT-TAATAATTATAAAAAAGTAT
1026950 TAAATGCTTATT
64 TAAATGCTTATT
* * * *
1026962 TTATAAAGAGAAAAAATCATAAATTATTGATAAAAAATTATATTAATAATTTTAAAAAAGTATTA
1 TTATAAAAAGAAAAAATCATAAATAATTGATAAAAAATCATATTAATAATTATAAAAAAGTATTA
*
1027027 AATGTTTATT
66 AATGCTTATT
1027037 TT
1 TT
1027039 TGTTTCTAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
72 5 0.07
73 36 0.54
74 4 0.06
75 22 0.33
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (75 bp):
TTATAAAAAGAAAAAATCATAAATAATTGATAAAAAATCATATTAATAATTATAAAAAAGTATTA
AATGCTTATT
Found at i:1028042 original size:20 final size:20
Alignment explanation
Indices: 1028017--1028068 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
1028007 AAGACCTTCA
* *
1028017 GTATCGGTACTGACCTTTGG
1 GTATCGATACTAACCTTTGG
*
1028037 GTATCGATACTAACTTTTGG
1 GTATCGATACTAACCTTTGG
* *
1028057 GTTTTGATACTA
1 GTATCGATACTA
1028069 TTGACTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.40
Consensus pattern (20 bp):
GTATCGATACTAACCTTTGG
Found at i:1046048 original size:195 final size:195
Alignment explanation
Indices: 1045702--1046056 Score: 647
Period size: 195 Copynumber: 1.8 Consensus size: 195
1045692 ATAAATCTAT
* *
1045702 AGATTCCTACAGTTCACATGAAATAAATTTCAGATATGCGAAGACAAAAACACAATTTAACATAA
1 AGATTCCTACAGTTCACAGGAAAGAAATTTCAGATATGCGAAGACAAAAACACAATTTAACATAA
*
1045767 GAAAATGACAGATCAAGAATAAGAAATTAGAAATTCCAAAGCAAAACTTGACCAAATGCAAAAAA
66 GAAAATGACAGATCAAGAATAAGAAATTAGAAACTCCAAAGCAAAACTTGACCAAATGCAAAAAA
*
1045832 CAAATCAAACGAAAGACAAAATCAAATAATGGAAAAAGAAAAACCTAGAAACGGATTGAATCGAG
131 CAAATCAAACGAAAAACAAAATCAAATAATGGAAAAAGAAAAACCTAGAAACGGATTGAATCGAG
* * *
1045897 AGATTCTTATAGTTCACAGGAAAGAAATTTCAGATATGCGAAGACAAAAACACGATTTAACATAA
1 AGATTCCTACAGTTCACAGGAAAGAAATTTCAGATATGCGAAGACAAAAACACAATTTAACATAA
1045962 GAAAATGACAGATCAAGAATAAGAAATTAGAAACTCCAAAGCAAAACTTGACCAAATGCAAAAAA
66 GAAAATGACAGATCAAGAATAAGAAATTAGAAACTCCAAAGCAAAACTTGACCAAATGCAAAAAA
1046027 CAAATCAAACGAAAAACAAAATCAAATAAT
131 CAAATCAAACGAAAAACAAAATCAAATAAT
1046057 AGAGCTGAAC
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
195 153 1.00
ACGTcount: A:0.54, C:0.15, G:0.13, T:0.18
Consensus pattern (195 bp):
AGATTCCTACAGTTCACAGGAAAGAAATTTCAGATATGCGAAGACAAAAACACAATTTAACATAA
GAAAATGACAGATCAAGAATAAGAAATTAGAAACTCCAAAGCAAAACTTGACCAAATGCAAAAAA
CAAATCAAACGAAAAACAAAATCAAATAATGGAAAAAGAAAAACCTAGAAACGGATTGAATCGAG
Found at i:1050161 original size:20 final size:21
Alignment explanation
Indices: 1050112--1050162 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
1050102 TCATGTGGGA
* **
1050112 GTATCGATACCAAAGCCTTTT
1 GTATCGATACCAAACCCTCGT
*
1050133 GTCTCGATACCAAACCCTCGT
1 GTATCGATACCAAACCCTCGT
1050154 -TATCGATAC
1 GTATCGATAC
1050163 TCCTTTAAGG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.29
Consensus pattern (21 bp):
GTATCGATACCAAACCCTCGT
Found at i:1054209 original size:19 final size:19
Alignment explanation
Indices: 1054185--1054223 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1054175 TCCTCGTGGA
1054185 TTGAGATGAGGAATTTATT
1 TTGAGATGAGGAATTTATT
1054204 TTGAGATGAGGAATTTATT
1 TTGAGATGAGGAATTTATT
1054223 T
1 T
1054224 GATGAGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.44
Consensus pattern (19 bp):
TTGAGATGAGGAATTTATT
Found at i:1059706 original size:6 final size:6
Alignment explanation
Indices: 1059695--1059719 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1059685 TTACTTAAAA
1059695 TAATTT TAATTT TAATTT TAATTT T
1 TAATTT TAATTT TAATTT TAATTT T
1059720 TCAGGTACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TAATTT
Found at i:1070453 original size:28 final size:28
Alignment explanation
Indices: 1070419--1070518 Score: 157
Period size: 28 Copynumber: 3.6 Consensus size: 28
1070409 CTATGTCCCA
* *
1070419 AAGGACCACATAGAACACATATGTC-CTG
1 AAGGACCACGTAGAACACATATATCTC-G
*
1070447 AAAGACCACGTAGAACACATATATCTCG
1 AAGGACCACGTAGAACACATATATCTCG
1070475 AAGGACCACGTAGAACACATATATCTCG
1 AAGGACCACGTAGAACACATATATCTCG
1070503 AAGGACCACGTAGAAC
1 AAGGACCACGTAGAAC
1070519 CCTCGACTCT
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 66 0.99
29 1 0.01
ACGTcount: A:0.41, C:0.25, G:0.18, T:0.16
Consensus pattern (28 bp):
AAGGACCACGTAGAACACATATATCTCG
Found at i:1075277 original size:22 final size:22
Alignment explanation
Indices: 1075252--1075308 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
1075242 TTCTATTTTG
1075252 AGTATCGATACTTCTGGTTGGC
1 AGTATCGATACTTCTGGTTGGC
*
1075274 AGTATTGATACTTCTGGTTGGC
1 AGTATCGATACTTCTGGTTGGC
*
1075296 GGTATCGATACTT
1 AGTATCGATACTT
1075309 TCTTAAGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.39
Consensus pattern (22 bp):
AGTATCGATACTTCTGGTTGGC
Found at i:1077250 original size:228 final size:229
Alignment explanation
Indices: 1076853--1077309 Score: 907
Period size: 228 Copynumber: 2.0 Consensus size: 229
1076843 AACGGTTAGA
1076853 GAAGGCGGGAAGTTGAAATCTCTTCATCTCTTTTTTTCTCACCATTATCTTCTTCTTCGTTCAAA
1 GAAGGCGGGAAGTTGAAATCTCTTCATCTCTTTTTTTCTCACCATTATCTTCTTCTTCGTTCAAA
1076918 CCCTTTCTAATTTCTTTTTTTTTTGTATTGAAGAAATGAGCAAACTTTAGTGCCTTGCAAACCTC
66 CCCTTTCTAATTTCTTTTTTTTTTGTATTGAAGAAATGAGCAAACTTTAGTGCCTTGCAAACCTC
1076983 ATTTGAAATTCTAAAGGTAAGGTTTAAAACCTCTATCATTATAGTTTCATTTCAAGCATCCC-AC
131 ATTTGAAATTCTAAAGGTAAGGTTTAAAACCTCTATCATTATAGTTTCATTTCAAGCATCCCAAC
1077047 ACAAGTTTTGAGCCATGGTAGCCATAAATGGGTT
196 ACAAGTTTTGAGCCATGGTAGCCATAAATGGGTT
1077081 GAAGGCGGGAAGTTGAAATCTCTTCATCTCTTTTTTTCTCACCATTATCTTCTTCTTCGTTCAAA
1 GAAGGCGGGAAGTTGAAATCTCTTCATCTCTTTTTTTCTCACCATTATCTTCTTCTTCGTTCAAA
1077146 CCCTTTCTAATTTCTTTTTTTTTTGTATTGAAGAAATGAGCAAACTTTAGTGCCTTGCAAACCTC
66 CCCTTTCTAATTTCTTTTTTTTTTGTATTGAAGAAATGAGCAAACTTTAGTGCCTTGCAAACCTC
1077211 ATTTGAAATTCTAAAGGTAAGGTTTAAAACCTCTATCATTATAGTTTCATTTCAAGCATCCCAAC
131 ATTTGAAATTCTAAAGGTAAGGTTTAAAACCTCTATCATTATAGTTTCATTTCAAGCATCCCAAC
1077276 ACAAGTTTTGAGCCATGGTAGCCATAAATGGGTT
196 ACAAGTTTTGAGCCATGGTAGCCATAAATGGGTT
1077310 TTAGTGGGGT
Statistics
Matches: 228, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
228 192 0.84
229 36 0.16
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (229 bp):
GAAGGCGGGAAGTTGAAATCTCTTCATCTCTTTTTTTCTCACCATTATCTTCTTCTTCGTTCAAA
CCCTTTCTAATTTCTTTTTTTTTTGTATTGAAGAAATGAGCAAACTTTAGTGCCTTGCAAACCTC
ATTTGAAATTCTAAAGGTAAGGTTTAAAACCTCTATCATTATAGTTTCATTTCAAGCATCCCAAC
ACAAGTTTTGAGCCATGGTAGCCATAAATGGGTT
Found at i:1087671 original size:21 final size:20
Alignment explanation
Indices: 1087645--1087693 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
1087635 ATTATAGTAT
*
1087645 TGACGTGGCAGTTCACGGTAC
1 TGACGTAGCAG-TCACGGTAC
*
1087666 TGACGTAGTAGTCACGGTAC
1 TGACGTAGCAGTCACGGTAC
*
1087686 TAACGTAG
1 TGACGTAG
1087694 TAGTTGATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (20 bp):
TGACGTAGCAGTCACGGTAC
Found at i:1087682 original size:20 final size:20
Alignment explanation
Indices: 1087657--1087697 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
1087647 ACGTGGCAGT
*
1087657 TCACGGTACTGACGTAGTAG
1 TCACGGTACTAACGTAGTAG
1087677 TCACGGTACTAACGTAGTAG
1 TCACGGTACTAACGTAGTAG
1087697 T
1 T
1087698 TGATCTGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (20 bp):
TCACGGTACTAACGTAGTAG
Found at i:1088440 original size:11 final size:11
Alignment explanation
Indices: 1088424--1088449 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1088414 CTAAATATAC
1088424 ATTTGTCAATA
1 ATTTGTCAATA
1088435 ATTTGTCAATA
1 ATTTGTCAATA
1088446 ATTT
1 ATTT
1088450 AAATCTTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (11 bp):
ATTTGTCAATA
Found at i:1094523 original size:14 final size:14
Alignment explanation
Indices: 1094472--1094531 Score: 57
Period size: 14 Copynumber: 4.0 Consensus size: 14
1094462 TTTATAGCTA
* * *
1094472 AAAAATGTTTTCTC
1 AAAAATATTTTTTT
1094486 AAAAATAATTTTTAGTT
1 AAAAAT-ATTTTT--TT
1094503 GAAAAATATTTTTTT
1 -AAAAATATTTTTTT
1094518 AAAAATATTTTTTT
1 AAAAATATTTTTTT
1094532 TATATTTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 20 0.51
15 6 0.15
17 7 0.18
18 6 0.15
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (14 bp):
AAAAATATTTTTTT
Found at i:1094573 original size:14 final size:14
Alignment explanation
Indices: 1094554--1094582 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1094544 TTGATAATTA
1094554 AAAAATATTTTTTG
1 AAAAATATTTTTTG
1094568 AAAAATATTTTTTG
1 AAAAATATTTTTTG
1094582 A
1 A
1094583 TGTTTGATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
AAAAATATTTTTTG
Found at i:1094673 original size:18 final size:17
Alignment explanation
Indices: 1094632--1094674 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
1094622 CATTAATTGA
1094632 TAATTGTAATTAATTTTT
1 TAATT-TAATTAATTTTT
1094650 TGAATTTAATTAATTTTT
1 T-AATTTAATTAATTTTT
1094668 CTAATTT
1 -TAATTT
1094675 TTTTGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (17 bp):
TAATTTAATTAATTTTT
Found at i:1094779 original size:22 final size:22
Alignment explanation
Indices: 1094754--1094824 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 22
1094744 TTATACATTT
1094754 AATATTAATATTATTTTAATAA
1 AATATTAATATTATTTTAATAA
1094776 AATATTAATTATTAAAATATTTAATATA
1 AATATTAA-TATT---AT-TTTAATA-A
* *
1094804 CATA-TAATATAATTTTAATAA
1 AATATTAATATTATTTTAATAA
1094825 TATTATATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
21 1 0.02
22 15 0.37
23 6 0.15
26 5 0.12
27 10 0.24
28 4 0.10
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (22 bp):
AATATTAATATTATTTTAATAA
Found at i:1094847 original size:16 final size:16
Alignment explanation
Indices: 1094805--1094849 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
1094795 TTTAATATAC
* *
1094805 ATATAATATAATTTTA
1 ATATTATATATTTTTA
*
1094821 ATAATATTATATTTTTA
1 ATATTA-TATATTTTTA
1094838 ATATTATATATT
1 ATATTATATATT
1094850 AATATATACT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATTATATATTTTTA
Found at i:1094866 original size:12 final size:10
Alignment explanation
Indices: 1094755--1094881 Score: 50
Period size: 11 Copynumber: 12.4 Consensus size: 10
1094745 TATACATTTA
1094755 ATATTAATATT
1 ATATTAATA-T
* *
1094766 ATTTTAATAAA
1 ATATTAAT-AT
1094777 ATATT-A-AT
1 ATATTAATAT
*
1094785 -TATTAAAAT
1 ATATTAATAT
1094794 AT-TTAATAT
1 ATATTAATAT
*
1094803 ACATATAATAT
1 ATAT-TAATAT
*
1094814 AATTTTAATA-
1 -ATATTAATAT
*
1094824 ATATTATATTT
1 ATATTA-ATAT
* * *
1094835 TTAATATTAT
1 ATATTAATAT
1094845 ATATTAATAT
1 ATATTAATAT
1094855 ATACTTAGATAT
1 ATA-TTA-ATAT
1094867 AT-TATAATGAT
1 ATAT-TAAT-AT
1094878 ATAT
1 ATAT
1094882 GATATTAAAT
Statistics
Matches: 85, Mismatches: 17, Indels: 27
0.66 0.13 0.21
Matches are distributed among these distances:
7 4 0.05
8 2 0.02
9 14 0.16
10 20 0.24
11 35 0.41
12 10 0.12
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (10 bp):
ATATTAATAT
Found at i:1094924 original size:18 final size:17
Alignment explanation
Indices: 1094884--1094938 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
1094874 TGATATATGA
*
1094884 TATTAA-ATTTATAATT
1 TATTAATATTTATAAAT
*
1094900 TAGTAATATTTAATAAAT
1 TATTAATATTT-ATAAAT
*
1094918 TATTAATATTTATATAT
1 TATTAATATTTATAAAT
1094935 TATT
1 TATT
1094939 TTTATAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 5 0.15
17 13 0.39
18 15 0.45
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TATTAATATTTATAAAT
Found at i:1096254 original size:21 final size:21
Alignment explanation
Indices: 1096230--1096274 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
1096220 TTAGTAAAAA
* *
1096230 TTTATTTAAAATATTATTATT
1 TTTACTTAAAATATTAATATT
1096251 TTTACTTAAAATATTAATATT
1 TTTACTTAAAATATTAATATT
1096272 TTT
1 TTT
1096275 TAATATTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTACTTAAAATATTAATATT
Found at i:1097769 original size:31 final size:31
Alignment explanation
Indices: 1097733--1097792 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
1097723 ATTTTATCCC
1097733 TTTTATATTTTATTATTAATTATACTTTAGT
1 TTTTATATTTTATTATTAATTATACTTTAGT
*
1097764 TTTTATTTTTTATTATTAATTATACTTTA
1 TTTTATATTTTATTATTAATTATACTTTA
1097793 TCCACTTCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (31 bp):
TTTTATATTTTATTATTAATTATACTTTAGT
Found at i:1100122 original size:13 final size:14
Alignment explanation
Indices: 1100104--1100138 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1100094 AGTACTCTAC
*
1100104 CCCTAACTTA-AAA
1 CCCTAAATTATAAA
1100117 CCCTAAATTATAAA
1 CCCTAAATTATAAA
1100131 CCCTAAAT
1 CCCTAAAT
1100139 CCTAAACCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.26
Consensus pattern (14 bp):
CCCTAAATTATAAA
Found at i:1100144 original size:14 final size:14
Alignment explanation
Indices: 1100114--1100147 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1100104 CCCTAACTTA
*
1100114 AAACCCTAAATTAT
1 AAACCCTAAATCAT
*
1100128 AAACCCTAAATCCT
1 AAACCCTAAATCAT
1100142 AAACCC
1 AAACCC
1100148 AAACTTGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACCCTAAATCAT
Found at i:1100400 original size:13 final size:13
Alignment explanation
Indices: 1100382--1100425 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
1100372 GTATGCTACA
1100382 GTGCTACAGTACC
1 GTGCTACAGTACC
1100395 GTGCT--A-TA--
1 GTGCTACAGTACC
1100403 GTGCTACAGTACC
1 GTGCTACAGTACC
1100416 GTGCTACAGT
1 GTGCTACAGT
1100426 GCACCGATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
8 5 0.19
10 3 0.12
11 3 0.12
13 15 0.58
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (13 bp):
GTGCTACAGTACC
Found at i:1100400 original size:21 final size:21
Alignment explanation
Indices: 1100375--1100427 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
1100365 AAATAATGTA
1100375 TGCTACAGTGCTACAGTACCG
1 TGCTACAGTGCTACAGTACCG
*
1100396 TGCTATAGTGCTACAGTACCG
1 TGCTACAGTGCTACAGTACCG
1100417 TGCTACAGTGC
1 TGCTACAGTGC
1100428 ACCGATGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (21 bp):
TGCTACAGTGCTACAGTACCG
Found at i:1101105 original size:23 final size:23
Alignment explanation
Indices: 1101039--1101124 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 23
1101029 TCGTATAAAT
*
1101039 TTGCGCCGAAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
* *
1101062 TTTGTC-TCGAAG-GACCGCGTAGAA
1 -TTG-CACCGAAGTG-CCACGTAGAA
*
1101086 ATGCACCGAAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
*
1101109 TTGCACCGTAGTGCCA
1 TTGCACCGAAGTGCCA
1101125 TATAATACGT
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
22 1 0.02
23 31 0.61
24 18 0.35
25 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
TTGCACCGAAGTGCCACGTAGAA
Found at i:1101410 original size:30 final size:30
Alignment explanation
Indices: 1101366--1101428 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
1101356 TCATATCGCG
* * **
1101366 TAGACATATTATTTCCATAGTTTTATCACA
1 TAGACACATCATTTCCATACCTTTATCACA
1101396 TAGACACATCATTTCCATACCTTTATCACA
1 TAGACACATCATTTCCATACCTTTATCACA
1101426 TAG
1 TAG
1101429 CTCATATAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.38
Consensus pattern (30 bp):
TAGACACATCATTTCCATACCTTTATCACA
Found at i:1113427 original size:42 final size:42
Alignment explanation
Indices: 1113352--1113451 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
1113342 TGTCTTATGG
* * *
1113352 ATGACCCGAAAGATTT-ATCATCTTGCTCGAAAGACTTACAA
1 ATGACCCGAAGGATTTAATCATCATGCTCCAAAGACTTACAA
**
1113393 ATGACCCGAAGGATTTAATCATCATGCTCCAAAGACTTACCG
1 ATGACCCGAAGGATTTAATCATCATGCTCCAAAGACTTACAA
*
1113435 ATAACCCGAAGGATTTA
1 ATGACCCGAAGGATTTA
1113452 CTGATAGCAC
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 15 0.29
42 37 0.71
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (42 bp):
ATGACCCGAAGGATTTAATCATCATGCTCCAAAGACTTACAA
Found at i:1113601 original size:80 final size:80
Alignment explanation
Indices: 1113466--1113629 Score: 274
Period size: 80 Copynumber: 2.0 Consensus size: 80
1113456 TAGCACTAAT
* * * *
1113466 TGATGGATTTGCTTCATTACTCTTCCGTGAAGGCTTACAAATTACTCGAATGATTTAATCATCAT
1 TGATGGATTTGCTTCACTACTCTTCCGTGAAAGCTTACAAATTACCCGAAGGATTTAATCATCAT
1113531 GATCGAAAGACTTAC
66 GATCGAAAGACTTAC
1113546 TGATGGATTTGCTTCACTACTCTTCCGTGAAAGCTTACAAATTACCCGAAGGATTTAATCATCAT
1 TGATGGATTTGCTTCACTACTCTTCCGTGAAAGCTTACAAATTACCCGAAGGATTTAATCATCAT
* *
1113611 GCTCGAAAGCCTTAC
66 GATCGAAAGACTTAC
1113626 TGAT
1 TGAT
1113630 AGCTCGAAGG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (80 bp):
TGATGGATTTGCTTCACTACTCTTCCGTGAAAGCTTACAAATTACCCGAAGGATTTAATCATCAT
GATCGAAAGACTTAC
Found at i:1113808 original size:42 final size:42
Alignment explanation
Indices: 1113590--1114065 Score: 193
Period size: 42 Copynumber: 11.0 Consensus size: 42
1113580 TTACAAATTA
* * *
1113590 CCCGAAGGATTTAATCATCATGCTCGAAAGCCTTACTGATAG
1 CCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
*
1113632 CTCGAAGGATTTTCATCATCATGCTCGAAAGACTTACTGATGG
1 CCCGAAGGA-TTTCATCATCATGCTCGAAAGACTTACTGATGG
* ** * * ** **
1113675 CACTTACTGACGGATTTGTTTCA-CTACT-CTTCCGTGAAGGCTTACAAATTA
1 C-C---C-GAAGGATTT-CATCATC-A-TGC-T-CG-AAAGACTTACTGATGG
* *
1113726 CCTGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
1 CCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
1113768 CCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
1 CCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
* * * * ** **
1113810 CACTTACTG-ATGAGTTTGCTTCA-CTACT-CTTCCGTGAAGGCTTACAAATTA
1 C-C---C-GAAGGA-TTT-CATCATC-A-TGC-T-CG-AAAGACTTACTGATGG
* * * * *
1113861 CCCAAAGGATTTAATCATCATGCTTGAAAGATTTACTGATGT
1 CCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
* * * *
1113903 ACCAAAGGACTTCATCATTATGCTCGAAAGACTTACTGAT-G
1 CCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
* *** * * * ** **
1113944 --AG-TTTATTTCA-CTACTC-TTCT-GTGAAGGCTTACAAATTA
1 CCCGAAGGATTTCATC-A-TCATGCTCG-AAAGACTTACTGATGG
*
1113983 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
1 CCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
* * * *
1114025 ACCAAAGGACTTCATCATCATGCTCGAAAGGCTTACTGATG
1 CCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATG
1114066 ACACTTACTA
Statistics
Matches: 312, Mismatches: 83, Indels: 78
0.66 0.18 0.16
Matches are distributed among these distances:
37 2 0.01
38 19 0.06
39 1 0.00
41 3 0.01
42 157 0.50
43 37 0.12
44 4 0.01
45 10 0.03
46 17 0.05
47 14 0.04
48 16 0.05
49 4 0.01
50 6 0.02
51 22 0.07
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (42 bp):
CCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
Found at i:1113848 original size:135 final size:135
Alignment explanation
Indices: 1113540--1114171 Score: 898
Period size: 135 Copynumber: 4.8 Consensus size: 135
1113530 TGATCGAAAG
*
1113540 ACTTACTGATG-GATTTGCTTCACTACTCTTCCGTGAAAGCTTACAAATTACCCGAAGGATTTAA
1 ACTTACTGATGAG-TTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCCGAAGGATTTAA
* * * *
1113604 TCATCATGCTCGAAAGCCTTACTGATAGCTCGAAGGATTTTCATCATCATGCTCGAAAGACTTAC
65 TCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA-CTTCATCATCATGCTCGAAAGACTTAC
1113669 TGATGGC
129 TGATGGC
* * *
1113676 ACTTACTGACG-GATTTGTTTCACTACTCTTCCGTGAAGGCTTACAAATTACCTGAAGGATTTAA
1 ACTTACTGATGAG-TTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCCGAAGGATTTAA
*
1113740 TCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTACT
65 TCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTACT
1113805 GATGGC
130 GATGGC
*
1113811 ACTTACTGATGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCCAAAGGATTTAAT
1 ACTTACTGATGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCCGAAGGATTTAAT
* * ** * *
1113876 CATCATGCTTGAAAGATTTACTGATGTACCAAAGGACTTCATCATTATGCTCGAAAGACTTACTG
66 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTG
1113941 AT-G-
131 ATGGC
* *
1113944 A-GT--T--T-A---T--TTCACTACTCTTCTGTGAAGGCTTACAAATTACCCGAAGGATTTAAT
1 ACTTACTGATGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCCGAAGGATTTAAT
* * *
1113998 CATCATGCTCGAAAGACTTACTGATGGACCAAAGGACTTCATCATCATGCTCGAAAGGCTTACTG
66 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTG
*
1114063 ATGAC
131 ATGGC
* **
1114068 ACTTACTAATGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCTAAAGGATTTAAT
1 ACTTACTGATGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCCGAAGGATTTAAT
*
1114133 CATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTT
66 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
1114172 GCTAAGCGTG
Statistics
Matches: 448, Mismatches: 34, Indels: 29
0.88 0.07 0.06
Matches are distributed among these distances:
122 107 0.24
124 2 0.00
125 1 0.00
127 2 0.00
128 1 0.00
129 1 0.00
130 2 0.00
132 1 0.00
133 2 0.00
134 1 0.00
135 233 0.52
136 95 0.21
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (135 bp):
ACTTACTGATGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCCGAAGGATTTAAT
CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTG
ATGGC
Found at i:1113992 original size:257 final size:257
Alignment explanation
Indices: 1113676--1114158 Score: 833
Period size: 257 Copynumber: 1.9 Consensus size: 257
1113666 TACTGATGGC
* *
1113676 ACTTACTGACGGATTTGTTTCACTACTCTTCCGTGAAGGCTTACAAATTACCTGAAGGATTTAAT
1 ACTTACTGACGGATTTATTTCACTACTCTTCCGTGAAGGCTTACAAATTACCCGAAGGATTTAAT
* * *
1113741 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTG
66 CATCATGCTCGAAAGACTTACTGATGGACCAAAGGACTTCATCATCATGCTCGAAAGACTTACTG
* *
1113806 ATGGCACTTACTGATGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCCAAAGGAT
131 ATGACACTTACTAATGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCCAAAGGAT
* *
1113871 TTAATCATCATGCTTGAAAGATTTACTGATGTACCAAAGGACTTCATCATTATGCTCGAAAG
196 TTAATCATCATGCTCGAAAGACTTACTGATGTACCAAAGGACTTCATCATTATGCTCGAAAG
* *
1113933 ACTTACTGA-TGAGTTTATTTCACTACTCTTCTGTGAAGGCTTACAAATTACCCGAAGGATTTAA
1 ACTTACTGACGGA-TTTATTTCACTACTCTTCCGTGAAGGCTTACAAATTACCCGAAGGATTTAA
*
1113997 TCATCATGCTCGAAAGACTTACTGATGGACCAAAGGACTTCATCATCATGCTCGAAAGGCTTACT
65 TCATCATGCTCGAAAGACTTACTGATGGACCAAAGGACTTCATCATCATGCTCGAAAGACTTACT
*
1114062 GATGACACTTACTAATGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCTAAAGGA
130 GATGACACTTACTAATGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCCAAAGGA
1114127 TTTAATCATCATGCTCGAAAGACTTACTGATG
195 TTTAATCATCATGCTCGAAAGACTTACTGATG
1114159 GCCCGAAAGA
Statistics
Matches: 212, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
256 2 0.01
257 210 0.99
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (257 bp):
ACTTACTGACGGATTTATTTCACTACTCTTCCGTGAAGGCTTACAAATTACCCGAAGGATTTAAT
CATCATGCTCGAAAGACTTACTGATGGACCAAAGGACTTCATCATCATGCTCGAAAGACTTACTG
ATGACACTTACTAATGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCCAAAGGAT
TTAATCATCATGCTCGAAAGACTTACTGATGTACCAAAGGACTTCATCATTATGCTCGAAAG
Found at i:1114055 original size:23 final size:22
Alignment explanation
Indices: 1113987--1114059 Score: 55
Period size: 23 Copynumber: 3.4 Consensus size: 22
1113977 AAATTACCCG
*
1113987 AAGGATTTAATCATCATGCTCGA
1 AAGGACTT-ATCATCATGCTCGA
* ** *
1114010 AA-GACTTA-C-TGATGGACCA
1 AAGGACTTATCATCATGCTCGA
1114029 AAGGACTTCATCATCATGCTCGA
1 AAGGACTT-ATCATCATGCTCGA
1114052 AAGG-CTTA
1 AAGGACTTA
1114060 CTGATGACAC
Statistics
Matches: 37, Mismatches: 9, Indels: 10
0.66 0.16 0.18
Matches are distributed among these distances:
19 8 0.22
20 6 0.16
21 3 0.08
22 8 0.22
23 12 0.32
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (22 bp):
AAGGACTTATCATCATGCTCGA
Found at i:1114733 original size:42 final size:41
Alignment explanation
Indices: 1114638--1114737 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 41
1114628 GGTCTTATGA
* * * *
1114638 ATGGCCCGAAGAACTTATCATCTTGCTCTAAAGGCTTACAG
1 ATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTTACAG
* * * **
1114679 ATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTTATTG
1 ATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGACTTACAG
1114721 ATGGCCCGAAGGACTTA
1 ATGGCCCGAAGGACTTA
1114738 CTAAGTGCGA
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
41 13 0.28
42 33 0.72
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (41 bp):
ATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTTACAG
Found at i:1114935 original size:37 final size:37
Alignment explanation
Indices: 1114882--1115006 Score: 178
Period size: 37 Copynumber: 3.4 Consensus size: 37
1114872 TCTTGCTCTA
*
1114882 AAGGCTTACAGATGAATTTGCTTCACTACTCTTCGGTG
1 AAGGCTTA-AAATGAATTTGCTTCACTACTCTTCGGTG
*
1114920 AAGGCTGAAAATGAATTTGCTTCACTACTCTTCGGTG
1 AAGGCTTAAAATGAATTTGCTTCACTACTCTTCGGTG
* ** **
1114957 AAGGTTTAGGATGAATTTGCTTCACTACTCTTTAGTG
1 AAGGCTTAAAATGAATTTGCTTCACTACTCTTCGGTG
1114994 AAGGCTTAAAATG
1 AAGGCTTAAAATG
1115007 GATTCACTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
37 69 0.91
38 7 0.09
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (37 bp):
AAGGCTTAAAATGAATTTGCTTCACTACTCTTCGGTG
Found at i:1115827 original size:26 final size:25
Alignment explanation
Indices: 1115784--1115833 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
1115774 CTTCTCCTTT
**
1115784 TTAACCTTGGGTTGTAGAAAACAACC
1 TTAACCTTGGGTAATAG-AAACAACC
1115810 TTAACCTTGGGTAATAGAAACAAC
1 TTAACCTTGGGTAATAGAAACAAC
1115834 ACATGATCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (25 bp):
TTAACCTTGGGTAATAGAAACAACC
Found at i:1116448 original size:125 final size:125
Alignment explanation
Indices: 1116226--1116469 Score: 364
Period size: 125 Copynumber: 2.0 Consensus size: 125
1116216 CCTTCACTAG
* * * *
1116226 TGCCCCAACATTATCTTACATTGGTACGGGCCTTCAAAATACCCCAACACCGTAAATTGTAAGGC
1 TGCCCCAACATTATCTTACACTGGTACGAGCCTTCAAAATACCCCAACACCGTAAATTATAAGAC
*
1116291 TCATTCTCAATGCCTTCTTGGTCTGAATCTTGTCATCTCAGCATGATATGGGTTCAGTCA
66 TCATTCTCAATGCCTTCTTGGTCTGAATCTTGTCATCTCAACATGATATGGGTTCAGTCA
* **
1116351 TGCCCCAACATTATCTTATACTGGTACGAGCCTTCAAAATGTCCCAACACC-TCAAATTATAAGA
1 TGCCCCAACATTATCTTACACTGGTACGAGCCTTCAAAATACCCCAACACCGT-AAATTATAAGA
** * *
1116415 CTCATTCTCAATTTCTTCTTGGTTTGAATCTTGTCATCTCAACATGATCTGGGTT
65 CTCATTCTCAATGCCTTCTTGGTCTGAATCTTGTCATCTCAACATGATATGGGTT
1116470 TCTGGTCGTG
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
124 1 0.01
125 105 0.99
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (125 bp):
TGCCCCAACATTATCTTACACTGGTACGAGCCTTCAAAATACCCCAACACCGTAAATTATAAGAC
TCATTCTCAATGCCTTCTTGGTCTGAATCTTGTCATCTCAACATGATATGGGTTCAGTCA
Found at i:1117419 original size:40 final size:39
Alignment explanation
Indices: 1117365--1117440 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 39
1117355 TTTTTAGATA
* *
1117365 AACTTGATTTAATTTGCCATTGTCTGGCTAGCTGAAAAC
1 AACTTGATTTAATTTGCCATTATCGGGCTAGCTGAAAAC
* * *
1117404 AACTTTATTGTAATTTGTCTTTATCGGGCTAGCTGAA
1 AACTTGATT-TAATTTGCCATTATCGGGCTAGCTGAA
1117441 GGATTCATCT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
39 8 0.26
40 23 0.74
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (39 bp):
AACTTGATTTAATTTGCCATTATCGGGCTAGCTGAAAAC
Found at i:1120241 original size:178 final size:178
Alignment explanation
Indices: 1119934--1120301 Score: 549
Period size: 178 Copynumber: 2.1 Consensus size: 178
1119924 TTTGATGATG
* **
1119934 TCAGATGTCCTTAAATTGAATCTTGAAATCTTCATTCTTACCTCCAATGCAAAGTGGTCTTCATG
1 TCAGATGTCCTTAAATTGAATCTTGAAATCTCCATTCTTACCTCCAATGCAAAGCAGTCTTCATG
* * *
1119999 TCTTTATGAAGGGTCTTCTCGTCCTTGGTATGGCTATATCTATCTTCTGAGTCAGCAGCTTGGCC
66 TCTCTATGAAGGGTCTTCTCGTCCTTGGTATGACTATATCTATCTTCTGAGTCAACAGCTTGGCC
* * *
1120064 TTTGCACATTTGAAGGAATTCTTCAATAGCTTCAGATTTCTTCATTCA
131 TTTACACATTTAAAAGAATTCTTCAATAGCTTCAGATTTCTTCATTCA
* * * **
1120112 TCAGATGTCCTTAGATTGTATCTTGAGATCTCCATTCTTACCTCCAATGTGAAGCAGTCTTCATG
1 TCAGATGTCCTTAAATTGAATCTTGAAATCTCCATTCTTACCTCCAATGCAAAGCAGTCTTCATG
* * *
1120177 TCTCTATGAAGGGTCTTTTCGTCCTTGGTATGACTGTATCTATC-TCTTGAGTCAACATCTTGGC
66 TCTCTATGAAGGGTCTTCTCGTCCTTGGTATGACTATATCTATCTTC-TGAGTCAACAGCTTGGC
*
1120241 CTTTACACCTTTAAAAGAATTCTTCAATAGCTTCAGATTTCTTCATTCA
130 CTTTACACATTTAAAAGAATTCTTCAATAGCTTCAGATTTCTTCATTCA
*
1120290 TCGGATGTCCTT
1 TCAGATGTCCTT
1120302 CTCCATGGAT
Statistics
Matches: 170, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
177 2 0.01
178 168 0.99
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (178 bp):
TCAGATGTCCTTAAATTGAATCTTGAAATCTCCATTCTTACCTCCAATGCAAAGCAGTCTTCATG
TCTCTATGAAGGGTCTTCTCGTCCTTGGTATGACTATATCTATCTTCTGAGTCAACAGCTTGGCC
TTTACACATTTAAAAGAATTCTTCAATAGCTTCAGATTTCTTCATTCA
Found at i:1127427 original size:4 final size:4
Alignment explanation
Indices: 1127420--1127553 Score: 86
Period size: 4 Copynumber: 37.8 Consensus size: 4
1127410 ACACACAAAT
* *
1127420 TATA TATA TATA TATA TATA TATA TATA TATA TAT- TATA AATA AATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * *
1127467 AATA AATA AATA AATA AATA -ATA TA-A TAT- TAT- TA-A TA-A T-TA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
1127508 -ATA -ATA TA-A TA-A TATA T-TA T-TA TATA TATA -ATA TATA -ATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
1127548 -ATA TAT
1 TATA TAT
1127554 CATTAATAAT
Statistics
Matches: 118, Mismatches: 1, Indels: 22
0.84 0.01 0.16
Matches are distributed among these distances:
3 45 0.38
4 73 0.62
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (4 bp):
TATA
Found at i:1127503 original size:29 final size:29
Alignment explanation
Indices: 1127471--1127589 Score: 111
Period size: 29 Copynumber: 4.0 Consensus size: 29
1127461 TAAATAAATA
1127471 AATAAATAAATAAATAATATAATATTATT
1 AATAAATAAATAAATAATATAATATTATT
*
1127500 AAT-AATTAATAATATAATA-ATATATTATT
1 AATAAATAAATAA-ATAATATA-ATATTATT
* *
1127529 ATATATATAATATATAATAATAT-ATCATTAAT
1 A-ATAAATAA-ATA-AATAATATAAT-ATTATT
*
1127561 AATTAAATATAT-AATAATATAATATTATT
1 AA-TAAATAAATAAATAATATAATATTATT
1127590 TTATATATAA
Statistics
Matches: 73, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
28 9 0.12
29 31 0.42
30 4 0.05
31 8 0.11
32 20 0.27
33 1 0.01
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (29 bp):
AATAAATAAATAAATAATATAATATTATT
Found at i:1127546 original size:58 final size:58
Alignment explanation
Indices: 1127479--1127605 Score: 161
Period size: 58 Copynumber: 2.2 Consensus size: 58
1127469 TAAATAAATA
* *
1127479 AATAAATAAT-ATAATATTATTAATAATT-AATAATATAATAATATATTATTATATATAT
1 AATAAATAATAAT-ATATCATTAATAATTAAAT-ATATAATAATATAATATTATATATAT
* *
1127537 AATATATAATAATATATCATTAATAATTAAATATATAATAATATAATATTAT-TTTAT
1 AATAAATAATAATATATCATTAATAATTAAATATATAATAATATAATATTATATATAT
1127594 ATATAAAATAAT
1 A-AT-AAATAAT
1127606 CCTTAACGGG
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
57 5 0.08
58 44 0.73
59 11 0.18
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (58 bp):
AATAAATAATAATATATCATTAATAATTAAATATATAATAATATAATATTATATATAT
Found at i:1127580 original size:8 final size:8
Alignment explanation
Indices: 1127425--1127584 Score: 99
Period size: 8 Copynumber: 20.0 Consensus size: 8
1127415 CAAATTATAT
1127425 ATATATATA
1 ATATA-ATA
1127434 TATATATATA
1 -ATATA-ATA
1127444 TATATATATA
1 -ATATA-ATA
*
1127454 TTATAAATA
1 ATAT-AATA
1127463 A-ATAAATA
1 ATAT-AATA
1127471 A-ATAAATA
1 ATAT-AATA
1127479 A-ATAAATA
1 ATAT-AATA
1127487 ATATAATA
1 ATATAATA
*
1127495 TTATTAATA
1 ATA-TAATA
1127504 AT-TAATA
1 ATATAATA
1127511 ATATAATA
1 ATATAATA
*
1127519 ATATATTA
1 ATATAATA
*
1127527 TTAT-AT-
1 ATATAATA
1127533 ATATAAT-
1 ATATAATA
1127540 ATATAATA
1 ATATAATA
*
1127548 ATAT-ATC
1 ATATAATA
1127555 AT-TAATA
1 ATATAATA
1127562 AT-TAA-A
1 ATATAATA
1127568 TATATAATA
1 -ATATAATA
1127577 ATATAATA
1 ATATAATA
1127585 TTATTTTATA
Statistics
Matches: 130, Mismatches: 10, Indels: 22
0.80 0.06 0.14
Matches are distributed among these distances:
6 5 0.04
7 30 0.23
8 60 0.46
9 15 0.12
10 20 0.15
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (8 bp):
ATATAATA
Found at i:1127624 original size:13 final size:13
Alignment explanation
Indices: 1127606--1127632 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1127596 ATAAAATAAT
1127606 CCTTAACGGGGTA
1 CCTTAACGGGGTA
1127619 CCTTAACGGGGTA
1 CCTTAACGGGGTA
1127632 C
1 C
1127633 TCGGGTAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.30, T:0.22
Consensus pattern (13 bp):
CCTTAACGGGGTA
Found at i:1136221 original size:61 final size:61
Alignment explanation
Indices: 1136147--1136261 Score: 155
Period size: 61 Copynumber: 1.9 Consensus size: 61
1136137 ATTGGGCCTA
*
1136147 GTAGTAAGACCTTATGGACCCTAT-GGCACTCC-CAT-AGGGTGGCTCCTTTGCTTTTTGCATC
1 GTAGTAAGACCTTATGGA-CCTATGGGCACTCCAC-TCA-GGTGGCTCCTATGCTTTTTGCATC
* *
1136208 GTAGTAAGTCCTTATGGACTTATGGGCACTCCACTCAGGTGGCTCCTATGCTTT
1 GTAGTAAGACCTTATGGACCTATGGGCACTCCACTCAGGTGGCTCCTATGCTTT
1136262 GGCTAGGGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
60 4 0.08
61 42 0.88
62 2 0.04
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.33
Consensus pattern (61 bp):
GTAGTAAGACCTTATGGACCTATGGGCACTCCACTCAGGTGGCTCCTATGCTTTTTGCATC
Done.