Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 24 of 126
Found at i:7847096 original size:80 final size:80
Alignment explanation
Indices: 7846937--7847107 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
7846927 CAATTATAAT
* * *
7846937 TGGCAGTGACACTATAAACACTGCAATGCTATTACTGAATTGGCAATAACACTATAAACACTGCA
1 TGGCAGTGACACTATAAACACTACAATACTATTACTGAATTGACAATAACACTATAAACACTGCA
* *
7847002 ATGCTATTACTGAAC
66 ATACTACTACTGAAC
* * * * * *
7847017 TGGCAGTGACACTGTAAACACTACAATATTATTACTGAATTGACAGTGACACTGTAAACATTGCA
1 TGGCAGTGACACTATAAACACTACAATACTATTACTGAATTGACAATAACACTATAAACACTGCA
* * *
7847082 ATATTGCTATTGAAC
66 ATACTACTACTGAAC
* *
7847097 TAGCCGTGACA
1 TGGCAGTGACA
7847108 TTGTGACCAA
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 75 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (80 bp):
TGGCAGTGACACTATAAACACTACAATACTATTACTGAATTGACAATAACACTATAAACACTGCA
ATACTACTACTGAAC
Found at i:7847106 original size:40 final size:40
Alignment explanation
Indices: 7846939--7847107 Score: 124
Period size: 40 Copynumber: 4.2 Consensus size: 40
7846929 ATTATAATTG
* * ** * * *
7846939 GCAGTGACACTATAAACACTGCAATGCTATTACTGAATTG
1 GCAGTGACACTGTAAACACTACAATATTACTACTGAACTA
* * * * ** * *
7846979 GCAATAACACTATAAACACTGCAATGCTATTACTGAACTG
1 GCAGTGACACTGTAAACACTACAATATTACTACTGAACTA
* *
7847019 GCAGTGACACTGTAAACACTACAATATTATTACTGAA-TT
1 GCAGTGACACTGTAAACACTACAATATTACTACTGAACTA
* * * *
7847058 GACAGTGACACTGTAAACATTGCAATATTGCTATTGAACTA
1 G-CAGTGACACTGTAAACACTACAATATTACTACTGAACTA
*
7847099 GCCGTGACA
1 GCAGTGACA
7847108 TTGTGACCAA
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 106 0.96
41 2 0.02
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (40 bp):
GCAGTGACACTGTAAACACTACAATATTACTACTGAACTA
Found at i:7849427 original size:97 final size:97
Alignment explanation
Indices: 7849201--7849485 Score: 417
Period size: 97 Copynumber: 2.9 Consensus size: 97
7849191 GGGAAGAGGA
* * * * **
7849201 TATTCGATTATCCCGATTTGAAGAAAAGTTGCACCTAGTAAGTTAAGGCACAAATTTTCAAAAAC
1 TATTCGATTATTCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAATT
* * * *
7849266 CAGAGATAAAGAAAAACATTGCCTCGATTTAAGGG
66 C-GAAATAAAG--GAATATTGCCTCGATTGAAGGG
*
7849301 TATTCGATTATTTCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAATT
1 TATTCGATTATTCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAATT
7849366 CGAAATAAAGGAATATTGCCTCGATTGAAGGG
66 CGAAATAAAGGAATATTGCCTCGATTGAAGGG
* *
7849398 TATTCGATTATTCCAATTTGAAGAAAAATCGCGCCTAATAAGTTAAGGCACAAATTTTCAAAATT
1 TATTCGATTATTCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAATT
*
7849463 CGAAATAAAAGAATATTGCCTCG
66 CGAAATAAAGGAATATTGCCTCG
7849486 GTTTTAAAAT
Statistics
Matches: 170, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
97 103 0.61
99 8 0.05
100 59 0.35
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (97 bp):
TATTCGATTATTCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAATT
CGAAATAAAGGAATATTGCCTCGATTGAAGGG
Found at i:7849838 original size:29 final size:29
Alignment explanation
Indices: 7849797--7850150 Score: 158
Period size: 30 Copynumber: 12.1 Consensus size: 29
7849787 ATCCGAGGGT
7849797 AAATGGTAATTTTGGAAAGTTGAGGGTTAA
1 AAATGG-AATTTTGGAAAGTTGAGGGTTAA
7849827 AAATGGAATTTTTGG-AAGTTCG-GAGG-T-A
1 AAATGGAA-TTTTGGAAAGTT-GAG-GGTTAA
*** * * *
7849855 AAATGGTAATTCTCAAAAAAATT-AAGG-TCA
1 AAATGG-AATT-T-TGGAAAGTTGAGGGTTAA
* * * *
7849885 AAATGGAATTTT-TAGAGGTTTAGGGGTAA
1 AAATGGAATTTTGGA-AAGTTGAGGGTTAA
* * *
7849914 AAATGTAATTTTTGGAAA-TTTATGGTTAA
1 AAATGGAA-TTTTGGAAAGTTGAGGGTTAA
*
7849943 AAATAGAATTTTGGAAAGTTTCGA-GG-TAA
1 AAATGGAATTTTGGAAAG-TT-GAGGGTTAA
* * *
7849972 AAATGTAATTTTTGAAAAATTTGA-GGTTAA
1 AAATGGAA-TTTTG-GAAAGTTGAGGGTTAA
** * *
7850002 AAATGGAATTTTAAAAAAGTTTAGGGGTAA
1 AAATGGAATTTT-GGAAAGTTGAGGGTTAA
* * * *
7850032 AAATGTAATTTTTGAAAATTCGA-TGTT-A
1 AAATGGAATTTTGGAAAGTT-GAGGGTTAA
* * *
7850060 AAATGGAATTTTAGAAAGTTCAGGGGTAA
1 AAATGGAATTTTGGAAAGTTGAGGGTTAA
* ** * * *
7850089 AAATGTAATTTTTCAAAAATTTAAGGTTAA
1 AAATGGAA-TTTTGGAAAGTTGAGGGTTAA
7850119 AAATGGAATTTTGGAAAGTTCGAGGGTTAA
1 AAATGGAATTTTGGAAAGTT-GAGGGTTAA
7850149 AA
1 AA
7850151 TATGATTTTT
Statistics
Matches: 243, Mismatches: 54, Indels: 54
0.69 0.15 0.15
Matches are distributed among these distances:
26 1 0.00
27 4 0.02
28 42 0.17
29 91 0.37
30 96 0.40
31 9 0.04
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (29 bp):
AAATGGAATTTTGGAAAGTTGAGGGTTAA
Found at i:7849946 original size:58 final size:59
Alignment explanation
Indices: 7849797--7850138 Score: 310
Period size: 58 Copynumber: 5.8 Consensus size: 59
7849787 ATCCGAGGGT
* * * * * *
7849797 AAATGGTAATTTTGGAAAGTTGAGGGTTAAAAATGGAATTTTT-GGAAG-TTCGGAGGT-A
1 AAAT-GTAATTTTTGAAAATTTATGGTTAAAAATGGAATTTTTAGAAAGTTTAGG-GGTAA
*** * * * *
7849855 AAATGGTAATTCTCAAAAAAATTAAGG-TCAAAATGGAATTTTTAG-AGGTTTAGGGGTAA
1 AAAT-GTAATT-TTTGAAAATTTATGGTTAAAAATGGAATTTTTAGAAAGTTTAGGGGTAA
* * * * *
7849914 AAATGTAATTTTTGGAAATTTATGGTTAAAAATAGAA-TTTTGGAAAGTTTCGAGGTAA
1 AAATGTAATTTTTGAAAATTTATGGTTAAAAATGGAATTTTTAGAAAGTTTAGGGGTAA
* *
7849972 AAATGTAATTTTTGAAAAATTTGA-GGTTAAAAATGGAATTTTAAAAAAGTTTAGGGGTAA
1 AAATGTAATTTTTG-AAAATTT-ATGGTTAAAAATGGAATTTTTAGAAAGTTTAGGGGTAA
* *
7850032 AAATGTAATTTTTGAAAATTCGAT-GTT-AAAATGGAA-TTTTAGAAAGTTCAGGGGTAA
1 AAATGTAATTTTTGAAAATT-TATGGTTAAAAATGGAATTTTTAGAAAGTTTAGGGGTAA
* * *
7850089 AAATGTAATTTTTCAAAAATTTAAGGTTAAAAATGGAA-TTTTGGAAAGTT
1 AAATGTAATTTTT-GAAAATTTATGGTTAAAAATGGAATTTTTAGAAAGTT
7850139 CGAGGGTTAA
Statistics
Matches: 233, Mismatches: 37, Indels: 27
0.78 0.12 0.09
Matches are distributed among these distances:
57 46 0.20
58 89 0.38
59 67 0.29
60 31 0.13
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.35
Consensus pattern (59 bp):
AAATGTAATTTTTGAAAATTTATGGTTAAAAATGGAATTTTTAGAAAGTTTAGGGGTAA
Found at i:7850077 original size:117 final size:117
Alignment explanation
Indices: 7849797--7850130 Score: 399
Period size: 117 Copynumber: 2.9 Consensus size: 117
7849787 ATCCGAGGGT
* * * * * *
7849797 AAATGGTAATTTTGGAAAGTTGAGGGTTAAAAATGGAATTTTTGGAAGTTCGGAGGT-AAAATGG
1 AAAT-GTAATTTTTGAAAATTGATGGTTAAAAATGGAATTTTAGAAAGTTCAGAGGTAAAAAT-G
* * * * * * *
7849861 TAATTCTCAAAAAAATTAAGG-TCAAAATGGAATTTTTAGAGGTTTAGGGGTAA
64 TAATTTTTAAAAAATTTAAGGTTAAAAATGGAATTTTAAAAAGTTTAGGGGTAA
* * * *
7849914 AAATGTAATTTTTGGAAATTTATGGTTAAAAATAGAATTTTGGAAAGTTTC-GAGGTAAAAATGT
1 AAATGTAATTTTTGAAAATTGATGGTTAAAAATGGAATTTTAGAAAG-TTCAGAGGTAAAAATGT
* *
7849978 AATTTTTGAAAAATTTGAGGTTAAAAATGGAATTTTAAAAAAGTTTAGGGGTAA
65 AATTTTTAAAAAATTTAAGGTTAAAAATGGAATTTT-AAAAAGTTTAGGGGTAA
*
7850032 AAATGTAATTTTTGAAAATTCGAT-GTT-AAAATGGAATTTTAGAAAGTTCAGGGGTAAAAATGT
1 AAATGTAATTTTTGAAAATT-GATGGTTAAAAATGGAATTTTAGAAAGTTCAGAGGTAAAAATGT
*
7850095 AATTTTTCAAAAATTTAAGGTTAAAAATGGAATTTT
65 AATTTTTAAAAAATTTAAGGTTAAAAATGGAATTTT
7850131 GGAAAGTTCG
Statistics
Matches: 187, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
116 60 0.32
117 89 0.48
118 36 0.19
119 2 0.01
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.35
Consensus pattern (117 bp):
AAATGTAATTTTTGAAAATTGATGGTTAAAAATGGAATTTTAGAAAGTTCAGAGGTAAAAATGTA
ATTTTTAAAAAATTTAAGGTTAAAAATGGAATTTTAAAAAGTTTAGGGGTAA
Found at i:7850151 original size:29 final size:28
Alignment explanation
Indices: 7849797--7850151 Score: 116
Period size: 29 Copynumber: 12.1 Consensus size: 28
7849787 ATCCGAGGGT
7849797 AAATGGTAATTTTGGAAAGTTGAGGGTTAA
1 AAATGG-AATTTTGGAAAGTTGAGGGTT-A
7849827 AAATGGAATTTTTGG-AAGTTCG-GAGG-TA
1 AAATGGAA-TTTTGGAAAGTT-GAG-GGTTA
*** * * *
7849855 AAATGGTAATTCTCAAAAAAATT-AAGGTCA
1 AAATGG-AATT-T-TGGAAAGTTGAGGGTTA
* * * *
7849885 AAATGGAATTTT-TAGAGGTTTAGGGGTAA
1 AAATGGAATTTTGGA-AAGTTGA-GGGTTA
* * *
7849914 AAATGTAATTTTTGGAAA-TTTATGGTTAA
1 AAATGGAA-TTTTGGAAAGTTGAGGGTT-A
* *
7849943 AAATAGAATTTTGGAAAGTTTCGA-GGTAA
1 AAATGGAATTTTGGAAAG-TT-GAGGGTTA
* * *
7849972 AAATGTAATTTTTGAAAAATTTGA-GGTTAA
1 AAATGGAA-TTTTG-GAAAGTTGAGGGTT-A
** * *
7850002 AAATGGAATTTTAAAAAAGTTTAGGGGTAA
1 AAATGGAATTTT-GGAAAGTTGA-GGGTTA
* * * *
7850032 AAATGTAATTTTTGAAAATTCGA-TGTTA
1 AAATGGAATTTTGGAAAGTT-GAGGGTTA
* * *
7850060 AAATGGAATTTTAGAAAGTTCAGGGGTAA
1 AAATGGAATTTTGGAAAGTTGA-GGGTTA
* ** * * *
7850089 AAATGTAATTTTTCAAAAATTTAAGGTTAA
1 AAATGGAA-TTTTGGAAAGTTGAGGGTT-A
7850119 AAATGGAATTTTGGAAAGTTCGAGGGTTA
1 AAATGGAATTTTGGAAAGTT-GAGGGTTA
7850148 AAAT
1 AAAT
7850152 ATGATTTTTG
Statistics
Matches: 238, Mismatches: 57, Indels: 61
0.67 0.16 0.17
Matches are distributed among these distances:
26 1 0.00
27 4 0.02
28 43 0.18
29 95 0.40
30 83 0.35
31 12 0.05
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (28 bp):
AAATGGAATTTTGGAAAGTTGAGGGTTA
Found at i:7850169 original size:59 final size:59
Alignment explanation
Indices: 7849821--7850170 Score: 294
Period size: 59 Copynumber: 6.0 Consensus size: 59
7849811 GAAAGTTGAG
* * * * ** *
7849821 GGTTAAAAATGGAATTTTTGGAAGTTCG-GAGGT-AAAATGGTAATTCTCAAAAAAATTAA
1 GGTTAAAAATGGAATTTTAGAAAGTTCGAGGGGTAAAAAT-G-AATTTTTGAAAAATTTAA
* * * * *
7849880 GG-TCAAAATGGAATTTTTAG-AGGTT-TAGGGGTAAAAATGTAATTTTTG-GAAATTTAT
1 GGTTAAAAATGGAA-TTTTAGAAAGTTCGAGGGGTAAAAATG-AATTTTTGAAAAATTTAA
* * *
7849937 GGTTAAAAATAGAATTTTGGAAAGTTTCGA--GGTAAAAATGTAATTTTTGAAAAATTTGA
1 GGTTAAAAATGGAATTTTAGAAAG-TTCGAGGGGTAAAAATG-AATTTTTGAAAAATTTAA
* * **
7849996 GGTTAAAAATGGAATTTTAAAAAAGTT-TAGGGGTAAAAATGTAATTTTTG-AAAATTCGA
1 GGTTAAAAATGGAATTTT-AGAAAGTTCGAGGGGTAAAAATG-AATTTTTGAAAAATTTAA
* *
7850055 TGTT-AAAATGGAATTTTAGAAAGTTC-AGGGGTAAAAATGTAATTTTTCAAAAATTTAA
1 GGTTAAAAATGGAATTTTAGAAAGTTCGAGGGGTAAAAATG-AATTTTTGAAAAATTTAA
* * * *
7850113 GGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTTAAAATATG-ATTTTTGTACAATTTA
1 GGTTAAAAATGGAATTTTAGAAAGTTCGAGGGGTAAAA-ATGAATTTTTGAAAAATTTA
7850171 GGGACCTCTA
Statistics
Matches: 240, Mismatches: 35, Indels: 32
0.78 0.11 0.10
Matches are distributed among these distances:
57 41 0.17
58 79 0.33
59 84 0.35
60 33 0.14
61 3 0.01
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (59 bp):
GGTTAAAAATGGAATTTTAGAAAGTTCGAGGGGTAAAAATGAATTTTTGAAAAATTTAA
Found at i:7851299 original size:13 final size:13
Alignment explanation
Indices: 7851258--7851315 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
7851248 ATTTATTTAT
* *
7851258 TTTATTATTAATA
1 TTTATTAATACTA
* *
7851271 TTT-TTATTAATA
1 TTTATTAATACTA
*
7851283 TTTATTAATGCTA
1 TTTATTAATACTA
*
7851296 TTTATTACTACTA
1 TTTATTAATACTA
7851309 TTTATTA
1 TTTATTA
7851316 TTAATGTTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
12 12 0.31
13 27 0.69
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (13 bp):
TTTATTAATACTA
Found at i:7852062 original size:12 final size:12
Alignment explanation
Indices: 7852045--7852131 Score: 65
Period size: 12 Copynumber: 7.4 Consensus size: 12
7852035 TAATTTTACT
7852045 TTTAAATATAAA
1 TTTAAATATAAA
7852057 TTTAAACT-TAAA
1 TTTAAA-TATAAA
*
7852069 -TTAAATTTAAA
1 TTTAAATATAAA
*
7852080 TTTTAAA-ACAAA
1 -TTTAAATATAAA
*
7852092 TTTAAATTTAAA
1 TTTAAATATAAA
** *
7852104 AATAAATTTAAA
1 TTTAAATATAAA
7852116 TTTAAA-ATAAA
1 TTTAAATATAAA
*
7852127 ATTAA
1 TTTAA
7852132 TCTTGAAATA
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
10 1 0.02
11 23 0.38
12 30 0.50
13 6 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (12 bp):
TTTAAATATAAA
Found at i:7852075 original size:17 final size:17
Alignment explanation
Indices: 7852022--7852149 Score: 125
Period size: 18 Copynumber: 7.4 Consensus size: 17
7852012 GACTTTCATC
*
7852022 ATTT-AATTTATAATAA
1 ATTTAAATTTAAAATAA
* **
7852038 TTTTACTTTTAAATATAA
1 ATTTAAATTTAAA-ATAA
* *
7852056 ATTTAAACTTAAATTAA
1 ATTTAAATTTAAAATAA
*
7852073 ATTTAAATTTTAAAACAA
1 ATTTAAA-TTTAAAATAA
7852091 ATTTAAATTTAAAAATAA
1 ATTTAAATTT-AAAATAA
7852109 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
* *
7852126 AATT-AATCTTGAAATAA
1 ATTTAAAT-TTAAAATAA
7852143 ATTTAAA
1 ATTTAAA
7852150 ATGGGTTTAG
Statistics
Matches: 90, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
16 6 0.07
17 39 0.43
18 45 0.50
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:7852086 original size:7 final size:6
Alignment explanation
Indices: 7852045--7852121 Score: 77
Period size: 6 Copynumber: 13.0 Consensus size: 6
7852035 TAATTTTACT
* * **
7852045 TTTAAA TATAAA TTTAAA CTTAAA -TTAAA TTTAAA TTTTAAA -ACAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA
**
7852092 TTTAAA TTTAAA AATAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
7852122 ATAAAATTAA
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
5 8 0.14
6 43 0.75
7 6 0.11
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:7852785 original size:49 final size:49
Alignment explanation
Indices: 7852566--7853149 Score: 391
Period size: 49 Copynumber: 11.9 Consensus size: 49
7852556 TGGTACTAAA
* * * **
7852566 TTCGCCGTTGCGGCTTAAAT-TTTCCTTTCAT-GCTTCTGAGGTTTAAGG
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTCATAGCTTC-GTGGTACAAGG
* * * * *
7852614 TTCGCCATTGCGACTTAAACCTTTCCCTT-TTGAGTCTTCGCGGTAC-TGG
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTCAT-AG-CTTCGTGGTACAAGG
* * * * * *
7852663 ATTTGCCATTGCGACTTAAATCTTTCCCTT-TTGTGTTTTCGTGGTAC-TGG
1 -TTCGCCGTTGCGACTTAAATCTTTCCCTTCAT-AG-CTTCGTGGTACAAGG
** * *
7852713 ATTCGCAATTGCGGCTTAGATCTTTCCCTTCAT-GCTTC-TAAGGTACAAGG
1 -TTCGCCGTTGCGACTTAAATCTTTCCCTTCATAGCTTCGT--GGTACAAGG
* * * *
7852763 TTCGCCGTTGCTACTTAAATCTTTCCCTCCATATCTTCGTGGTAC-TGG
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTCATAGCTTCGTGGTACAAGG
* * * * *
7852811 ATTCGCCGTTGTGGCTTAAATCTTTCCCTTTAT-GCTTTTGAGGTACAAGG
1 -TTCGCCGTTGCGACTTAAATCTTTCCCTTCATAGC-TTCGTGGTACAAGG
* *
7852861 TTCGCCGTTACGACTTAAA-CTTTTCCCTTCATATCTTCGTGGTACTGAA--
1 TTCGCCGTTGCGACTTAAATC-TTTCCCTTCATAGCTTCGTGGTAC--AAGG
*
7852910 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCAT-GCTTC-TAAGGTACAAGG
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTCATAGCTTCGT--GGTACAAGG
* * * * *
7852959 TTCGCCGTTGCGACTTAAACCTATCCCTCCATATCTTCGTGGTAC-TGG
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTCATAGCTTCGTGGTACAAGG
* * * *
7853007 ATTCGCCGTTACGACTTAAACCTTTCCC-TCTATATCTTCGTGGTAC-TGG
1 -TTCGCCGTTGCGACTTAAATCTTTCCCTTC-ATAGCTTCGTGGTACAAGG
** *
7853056 ATTCATCGTTGC-AGCTT-AATCTTTCCCTTCAT-GCTTCTGAGGTACAAGG
1 -TTCGCCGTTGCGA-CTTAAATCTTTCCCTTCATAGCTTC-GTGGTACAAGG
* * * * *
7853105 TTCGCCATTGCAACTTAAACCTTTCCCTCCATATCTTCGTGGTAC
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTCATAGCTTCGTGGTAC
7853150 TGGATTCACA
Statistics
Matches: 431, Mismatches: 71, Indels: 67
0.76 0.12 0.12
Matches are distributed among these distances:
47 8 0.02
48 61 0.14
49 260 0.60
50 93 0.22
51 9 0.02
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (49 bp):
TTCGCCGTTGCGACTTAAATCTTTCCCTTCATAGCTTCGTGGTACAAGG
Found at i:7852827 original size:98 final size:97
Alignment explanation
Indices: 7852700--7853035 Score: 510
Period size: 98 Copynumber: 3.4 Consensus size: 97
7852690 CTTTTGTGTT
** *
7852700 TTCGTGGTACTGGATTCGCAATTGCGGCTTAGATCTTTCCCTTCATGCTTCTAAGGTACAAGGTT
1 TTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTAAGGTACAAGGTT
*
7852765 CGCCGTTGCTACTTAAATCTTTCCCTCCATATC
66 CGCCGTTGCGACTTAAA-CTTTCCCTCCATATC
* * * *
7852798 TTCGTGGTACTGGATTCGCCGTTGTGGCTTAAATCTTTCCCTTTATGCTTTTGAGGTACAAGGTT
1 TTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTAAGGTACAAGGTT
* *
7852863 CGCCGTTACGACTTAAACTTTTCCCTTCATATC
66 CGCCGTTGCGACTTAAAC-TTTCCCTCCATATC
*
7852896 TTCGTGGTACTGAATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTAAGGTACAAGGTT
1 TTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTAAGGTACAAGGTT
*
7852961 CGCCGTTGCGACTTAAACCTATCCCTCCATATC
66 CGCCGTTGCGACTTAAA-CTTTCCCTCCATATC
* * *
7852994 TTCGTGGTACTGGATTCGCCGTTACGACTTAAACCTTTCCCT
1 TTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCT
7853036 CTATATCTTC
Statistics
Matches: 214, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
97 1 0.00
98 212 0.99
99 1 0.00
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (97 bp):
TTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTAAGGTACAAGGTT
CGCCGTTGCGACTTAAACTTTCCCTCCATATC
Found at i:7853141 original size:146 final size:147
Alignment explanation
Indices: 7852861--7853156 Score: 488
Period size: 146 Copynumber: 2.0 Consensus size: 147
7852851 AGGTACAAGG
* * *
7852861 TTCGCCGTTACGACTTAAACTTTTCCCTTCATATCTTCGTGGTACTGAATTCGCCGTTGCGGCTT
1 TTCGCCGTTACGACTTAAACCTTTCCCTTCATATCTTCGTGGTACTGAATTCACCGTTGCAGCTT
* *
7852926 AAATCTTTCCCTTCATGCTTCTAAGGTACAAGGTTCGCCGTTGCGACTTAAACCTATCCCTCCAT
66 AAATCTTTCCCTTCATGCTTCTAAGGTACAAGGTTCGCCATTGCAACTTAAACCTATCCCTCCAT
7852991 ATCTTCGTGGTACTGGA
131 ATCTTCGTGGTACTGGA
* *
7853008 TTCGCCGTTACGACTTAAACCTTTCCC-TCTATATCTTCGTGGTACTGGATTCATCGTTGCAGCT
1 TTCGCCGTTACGACTTAAACCTTTCCCTTC-ATATCTTCGTGGTACTGAATTCACCGTTGCAGCT
* *
7853072 T-AATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCATTGCAACTTAAACCTTTCCCTCCA
65 TAAATCTTTCCCTTCATGCTTCTAAGGTACAAGGTTCGCCATTGCAACTTAAACCTATCCCTCCA
7853136 TATCTTCGTGGTACTGGA
130 TATCTTCGTGGTACTGGA
7853154 TTC
1 TTC
7853157 ACAGTTGCTG
Statistics
Matches: 139, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
146 82 0.59
147 57 0.41
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (147 bp):
TTCGCCGTTACGACTTAAACCTTTCCCTTCATATCTTCGTGGTACTGAATTCACCGTTGCAGCTT
AAATCTTTCCCTTCATGCTTCTAAGGTACAAGGTTCGCCATTGCAACTTAAACCTATCCCTCCAT
ATCTTCGTGGTACTGGA
Found at i:7853346 original size:21 final size:21
Alignment explanation
Indices: 7853331--7853375 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
7853321 AGATTAGTTT
7853331 CTTTGGCTTTGGGATTATCTC
1 CTTTGGCTTTGGGATTATCTC
7853352 CTTTGGCTTTGGGATTATCTC
1 CTTTGGCTTTGGGATTATCTC
7853373 CTT
1 CTT
7853376 ACATATTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.09, C:0.20, G:0.22, T:0.49
Consensus pattern (21 bp):
CTTTGGCTTTGGGATTATCTC
Found at i:7853607 original size:29 final size:29
Alignment explanation
Indices: 7853575--7853630 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
7853565 GGTAGTGTGA
7853575 GAAAGAATGAAATTGTATTAGAGTCAAGG
1 GAAAGAATGAAATTGTATTAGAGTCAAGG
*
7853604 GAAAGAATGAGATTGTATTAGAGTCAA
1 GAAAGAATGAAATTGTATTAGAGTCAA
7853631 AGCTTGAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.27, T:0.25
Consensus pattern (29 bp):
GAAAGAATGAAATTGTATTAGAGTCAAGG
Found at i:7864601 original size:97 final size:97
Alignment explanation
Indices: 7864464--7864712 Score: 324
Period size: 97 Copynumber: 2.6 Consensus size: 97
7864454 AAAAGTTGCA
* ** * * *
7864464 CCTAGTAAGTTAATGCACAAA-TTTCAAAAACCAGAGAT-AAAGAAACATT-GCATCGATTTAAG
1 CCTAGTAAGTTAAGGCACAAATTTTCAAAATTC-GAAATAAAAG-AACATTAAC-TCGATTAAAG
7864526 GGTATTCAATTATTCCGATTTGAAGAAAAATCACG
63 GGTATTCAATTATTCCGATTTGAAGAAAAATCACG
* * *
7864561 CCTAGTAAGTTAAGGCATAAATTTTCAAAATTCGAAATAAAAGAATATTAACTTGATTAAAGGGT
1 CCTAGTAAGTTAAGGCACAAATTTTCAAAATTCGAAATAAAAGAACATTAACTCGATTAAAGGGT
* **
7864626 ATTCGATTATTCCGATTTGAAGAAAAATTGCG
66 ATTCAATTATTCCGATTTGAAGAAAAATCACG
* *
7864658 CCTAGTAAGTTAAGGCACAAATTTTCAAAATTCGAAATAAAAGAATATTACCTCG
1 CCTAGTAAGTTAAGGCACAAATTTTCAAAATTCGAAATAAAAGAACATTAACTCG
7864713 GTTTTAAAAT
Statistics
Matches: 134, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
97 120 0.90
98 14 0.10
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (97 bp):
CCTAGTAAGTTAAGGCACAAATTTTCAAAATTCGAAATAAAAGAACATTAACTCGATTAAAGGGT
ATTCAATTATTCCGATTTGAAGAAAAATCACG
Found at i:7865018 original size:29 final size:29
Alignment explanation
Indices: 7864978--7865063 Score: 77
Period size: 29 Copynumber: 3.0 Consensus size: 29
7864968 GCAACTTTCG
*
7864978 AAAAGTTCGGGGTCAAAAATGAAATTTTT
1 AAAAATTCGGGGTCAAAAATGAAATTTTT
* * * *
7865007 AGATATTCGGGGT--AAAATGGTAATTTTG
1 AAAAATTCGGGGTCAAAAAT-GAAATTTTT
** *
7865035 AAAAATTTAGGGTCAAATATGAAATTTTT
1 AAAAATTCGGGGTCAAAAATGAAATTTTT
7865064 GGAAGTTTAA
Statistics
Matches: 42, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
27 5 0.12
28 16 0.38
29 17 0.40
30 4 0.10
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.35
Consensus pattern (29 bp):
AAAAATTCGGGGTCAAAAATGAAATTTTT
Found at i:7865047 original size:28 final size:28
Alignment explanation
Indices: 7865016--7865120 Score: 90
Period size: 29 Copynumber: 3.7 Consensus size: 28
7865006 TAGATATTCG
7865016 GGGTAAAATGGTAA-TTTTGAAAAATTTA
1 GGGTAAAATGGTAATTTTTG-AAAATTTA
* * *
7865044 GGGTCAAATAT-GAAATTTTTGGAAGTTTAA
1 GGGT-AAA-ATGGTAATTTTTGAAAATTT-A
**
7865074 GGGTAAAATGGTAATTTTTGGAAAATCGA
1 GGGTAAAATGGTAATTTTT-GAAAATTTA
*
7865103 GGTTAAAATGG-AATTTTT
1 GGGTAAAATGGTAATTTTT
7865121 AGAGGTTCGA
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
28 13 0.21
29 33 0.53
30 16 0.26
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (28 bp):
GGGTAAAATGGTAATTTTTGAAAATTTA
Found at i:7866298 original size:22 final size:22
Alignment explanation
Indices: 7866270--7866349 Score: 70
Period size: 22 Copynumber: 3.3 Consensus size: 22
7866260 CTTTTTTTTA
7866270 TTATTAATATTTTTATTAATAT
1 TTATTAATATTTTTATTAATAT
*
7866292 TTATTAATGTTATTTATTACTACTAT
1 TTATTAATATT-TTTATTA--A-TAT
* *
7866318 TTATTATTAATGTTATTATTATTAT
1 TTATTAAT-AT-TT-TTATTAATAT
7866343 TTATTAA
1 TTATTAA
7866350 ATAAATATGT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
22 10 0.22
23 7 0.15
25 10 0.22
26 10 0.22
27 2 0.04
28 7 0.15
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (22 bp):
TTATTAATATTTTTATTAATAT
Found at i:7866319 original size:38 final size:38
Alignment explanation
Indices: 7866266--7866348 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
7866256 TTCCCTTTTT
* * *
7866266 TTTATTATTAATATTT-TTATTAATATTTATTAATGTTA
1 TTTATTACTAATATTTATTATTAAT-GTTATTAATATTA
* *
7866304 TTTATTACTACTATTTATTATTAATGTTATTATTATTA
1 TTTATTACTAATATTTATTATTAATGTTATTAATATTA
7866342 TTTATTA
1 TTTATTA
7866349 AATAAATATG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 31 0.79
39 8 0.21
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (38 bp):
TTTATTACTAATATTTATTATTAATGTTATTAATATTA
Found at i:7866957 original size:17 final size:18
Alignment explanation
Indices: 7866935--7866975 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
7866925 GACTTTCATC
*
7866935 ATTTAAAT-TTATAATAA
1 ATTTAAATCTTAAAATAA
7866952 ATTT-AATCTTAAAATAA
1 ATTTAAATCTTAAAATAA
7866969 ATTTAAA
1 ATTTAAA
7866976 ATGGGTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 16 0.76
18 2 0.10
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTAAATCTTAAAATAA
Found at i:7868697 original size:23 final size:23
Alignment explanation
Indices: 7868654--7868698 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7868644 GTATATTTCA
* *
7868654 AAGATATTATTTTTAAGCAAGTT
1 AAGATAATATTTATAAGCAAGTT
7868677 AAGATAATATGTTATAA-CAAGT
1 AAGATAATAT-TTATAAGCAAGT
7868699 GACGGAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.38
Consensus pattern (23 bp):
AAGATAATATTTATAAGCAAGTT
Found at i:7874502 original size:33 final size:32
Alignment explanation
Indices: 7874458--7874523 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
7874448 TAGGTTGTGT
* * *
7874458 AAGATTTTCGTCTCTTAAAACTTGTGGCTCAA
1 AAGATTTTCGTCGCCTAAAACTTGAGGCTCAA
*
7874490 AAGATTTTTCGTCGCCTAAAACTTGAGGTTCAA
1 AAGA-TTTTCGTCGCCTAAAACTTGAGGCTCAA
7874523 A
1 A
7874524 TCTTCTGCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 4 0.14
33 25 0.86
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (32 bp):
AAGATTTTCGTCGCCTAAAACTTGAGGCTCAA
Found at i:7885558 original size:17 final size:19
Alignment explanation
Indices: 7885525--7885559 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
7885515 GAATAGAATA
7885525 GAAAATAGTGCAAATTGAT
1 GAAAATAGTGCAAATTGAT
7885544 GAAAATA-TG-AAATTGA
1 GAAAATAGTGCAAATTGA
7885560 CTTTGAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.51, C:0.03, G:0.20, T:0.26
Consensus pattern (19 bp):
GAAAATAGTGCAAATTGAT
Found at i:7891782 original size:19 final size:21
Alignment explanation
Indices: 7891758--7891802 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
7891748 GATGATTATG
7891758 ATAAAA-AATTTCT-TATATT
1 ATAAAATAATTTCTGTATATT
* *
7891777 ATAAAATAATTTGTGTATTTT
1 ATAAAATAATTTCTGTATATT
7891798 ATAAA
1 ATAAA
7891803 GTTATAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 6 0.27
21 10 0.45
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (21 bp):
ATAAAATAATTTCTGTATATT
Found at i:7902120 original size:3 final size:3
Alignment explanation
Indices: 7902112--7902149 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
7902102 CCCAATTCTT
7902112 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7902150 TGATAAATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7903997 original size:30 final size:30
Alignment explanation
Indices: 7903934--7904195 Score: 252
Period size: 30 Copynumber: 8.8 Consensus size: 30
7903924 GGATTTAGGG
* * * *
7903934 AAGTTTGAGGGTAAAAATGGTAATTTTTG-A
1 AAGTTTTAGGGTCAAAAT-ATAATTTTAGAA
** * *
7903964 AAGTTTCGGGGTCAAAGTATAATTTTGGAA
1 AAGTTTTAGGGTCAAAATATAATTTTAGAA
*
7903994 AAGTTTT-GGAGTCAAAATGTAATTTTAGAA
1 AAGTTTTAGG-GTCAAAATATAATTTTAGAA
* *
7904024 AAGTTTTAGGGTCAAAATGTATTTTTTAG-A
1 AAGTTTTAGGGTCAAAATATA-ATTTTAGAA
*
7904054 AAGTTTTAGGGTCAAAATAT-ATTTTGGAA
1 AAGTTTTAGGGTCAAAATATAATTTTAGAA
*
7904083 AATTTTTAGGGTCAAAATATAATTTTTAG-A
1 AAGTTTTAGGGTCAAAATATAA-TTTTAGAA
* * *
7904113 AAGTTTTGGGGTCGAAATGTAATTTTAG-A
1 AAGTTTTAGGGTCAAAATATAATTTTAGAA
7904142 AAGTTTTAGGGTCAAAATATAATTTTTAG--
1 AAGTTTTAGGGTCAAAATATAA-TTTTAGAA
* * *
7904171 AAGTTTTGGGGTCGAAATGTAATTT
1 AAGTTTTAGGGTCAAAATATAATTT
7904196 CTGGACAATT
Statistics
Matches: 198, Mismatches: 26, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
28 8 0.04
29 75 0.38
30 102 0.52
31 13 0.07
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.39
Consensus pattern (30 bp):
AAGTTTTAGGGTCAAAATATAATTTTAGAA
Found at i:7904090 original size:59 final size:60
Alignment explanation
Indices: 7903937--7904195 Score: 321
Period size: 59 Copynumber: 4.3 Consensus size: 60
7903927 TTTAGGGAAG
* * ** * *
7903937 TTTGAGGGTAAAAATGGTAATTTTTG-AAAGTTTCGGGGTCAAAGTATAA-TTTTGGAAAAGT
1 TTTG-GGGTCAAAAT-GTAATTTTAGAAAAGTTTTAGGGTCAAAATATAATTTTTAG-AAAGT
* * *
7903998 TTTGGAGTCAAAATGTAATTTTAGAAAAGTTTTAGGGTCAAAATGTATTTTTTAGAAAGT
1 TTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTAGGGTCAAAATATAATTTTTAGAAAGT
* * * *
7904058 TTTAGGGTCAAAATAT-ATTTTGGAAAATTTTTAGGGTCAAAATATAATTTTTAGAAAGT
1 TTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTAGGGTCAAAATATAATTTTTAGAAAGT
*
7904117 TTTGGGGTCGAAATGTAATTTTAG-AAAGTTTTAGGGTCAAAATATAATTTTTAG-AAGT
1 TTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTAGGGTCAAAATATAATTTTTAGAAAGT
*
7904175 TTTGGGGTCGAAATGTAATTT
1 TTTGGGGTCAAAATGTAATTT
7904196 CTGGACAATT
Statistics
Matches: 174, Mismatches: 21, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
58 25 0.14
59 90 0.52
60 50 0.29
61 9 0.05
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.39
Consensus pattern (60 bp):
TTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTAGGGTCAAAATATAATTTTTAGAAAGT
Found at i:7906148 original size:29 final size:29
Alignment explanation
Indices: 7906111--7906180 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
7906101 AAATTTATAA
*
7906111 TAATGTT-AAATTCAAGTTAAATTCAAATT
1 TAATGTTAAAATTCAAGTTAAAAT-AAATT
* * *
7906140 TAATTTTAAAATTGAATTTAAAATAAATT
1 TAATGTTAAAATTCAAGTTAAAATAAATT
**
7906169 TAAAATTAAAAT
1 TAATGTTAAAAT
7906181 AAATTTAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 21 0.62
30 13 0.38
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.41
Consensus pattern (29 bp):
TAATGTTAAAATTCAAGTTAAAATAAATT
Found at i:7906159 original size:12 final size:12
Alignment explanation
Indices: 7906127--7906178 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
7906117 TAAATTCAAG
* *
7906127 TTAAATTCAAAT
1 TTAAATTTAAAA
*
7906139 TTAATTTTAAAA
1 TTAAATTTAAAA
*
7906151 TTGAATTTAAAA
1 TTAAATTTAAAA
7906163 -TAAATTTAAAA
1 TTAAATTTAAAA
7906174 TTAAA
1 TTAAA
7906179 ATAAATTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
11 10 0.30
12 23 0.70
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (12 bp):
TTAAATTTAAAA
Found at i:7906565 original size:38 final size:37
Alignment explanation
Indices: 7906516--7906635 Score: 109
Period size: 38 Copynumber: 3.1 Consensus size: 37
7906506 TCCAACTTAC
* *
7906516 TACTTCAATTTCAAGAGGATGGGAAAAGATCTTGCTCT
1 TACTTTAATTTCAA-AGGATAGGAAAAGATCTTGCTCT
* * * **
7906554 TACTTTAATTTCAAA-GATAAAGACGTAATATCCAGCT-T
1 TACTTTAATTTCAAAGGAT-AGGA--AAAGATCTTGCTCT
7906592 TACTTTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCT
1 TACTTT-AATTTC-AAAGGATAGGAAAAGATCTTGCTCT
7906631 TACTT
1 TACTT
7906636 CAAAGACTTG
Statistics
Matches: 63, Mismatches: 12, Indels: 13
0.72 0.14 0.15
Matches are distributed among these distances:
36 3 0.05
37 3 0.05
38 28 0.44
39 20 0.32
40 6 0.10
41 3 0.05
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (37 bp):
TACTTTAATTTCAAAGGATAGGAAAAGATCTTGCTCT
Found at i:7906634 original size:39 final size:39
Alignment explanation
Indices: 7906519--7906635 Score: 116
Period size: 39 Copynumber: 3.0 Consensus size: 39
7906509 AACTTACTAC
* *
7906519 TTCAATTTCAAGAGGATGGGAAAAGATCTTGCTCTTACT
1 TTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTTACT
* * * **
7906558 TT-AATTTC-AAA-GATAAAGACGTAATATCCAGCT-TTACT
1 TTCAATTTCAAAAGGAT-AGGA--AAAGATCTTGCTCTTACT
7906596 TTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTTACT
1 TTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTTACT
7906635 T
1 T
7906636 CAAAGACTTG
Statistics
Matches: 59, Mismatches: 12, Indels: 14
0.69 0.14 0.16
Matches are distributed among these distances:
36 3 0.05
37 4 0.07
38 21 0.36
39 22 0.37
40 6 0.10
41 3 0.05
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (39 bp):
TTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTTACT
Found at i:7906682 original size:64 final size:65
Alignment explanation
Indices: 7906572--7906700 Score: 224
Period size: 64 Copynumber: 2.0 Consensus size: 65
7906562 TTTCAAAGAT
7906572 AAAGACGTAATATCCAGCTTTACTTTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTTACTTC
1 AAAGACGTAATATCCAGCTTTACTTTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTTACTTC
* * *
7906637 AAAGACTTGATATCCAGCTTTAC-TTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTC
1 AAAGACGTAATATCCAGCTTTACTTTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTTACTTC
7906701 CAATTTCAGA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
64 40 0.66
65 21 0.34
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (65 bp):
AAAGACGTAATATCCAGCTTTACTTTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTTACTTC
Found at i:7906776 original size:38 final size:37
Alignment explanation
Indices: 7906656--7907078 Score: 181
Period size: 38 Copynumber: 11.4 Consensus size: 37
7906646 ATATCCAGCT
*
7906656 TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
1 TTACTTCAATTTCAAGAGGATA-GAGAAGATCTTGCTC
* ** * *
7906694 TTACTTCCAATTTC-AGA-GATAAAG-ACTTGTTGTCCAAC
1 TTACTT-CAATTTCAAGAGGATAGAGAAGATCTTG--C-TC
7906732 TCTACTTCAATTTCAAGAGGATAGGAGAAGATCTTGCTC
1 T-TACTTCAATTTCAAGAGGATA-GAGAAGATCTTGCTC
** * *
7906771 TTACTTCAATTTC-AGA-GATAGAG-ACTTGTTGTCCAAC
1 TTACTTCAATTTCAAGAGGATAGAGAAGATCTTG--C-TC
* *
7906808 TCTACTTCAATTTCAAGAGGATAGAAAATGATCTTGTTC
1 T-TACTTCAATTTCAAGAGGATAGAGAA-GATCTTGCTC
* * * *
7906847 TTACTTCAATTTC-AGA-GATAAAGATG-TGTT-ATCC
1 TTACTTCAATTTCAAGAGGATAGAGAAGATCTTGCT-C
* *
7906881 TCTACTTCAATTTCAAGAGGAT---GACG---TTGCCC
1 T-TACTTCAATTTCAAGAGGATAGAGAAGATCTTGCTC
* * * * *
7906913 TTACTTTCAATTTC-GGA-GATAAAGACG-TGCTATCCAAC
1 TTAC-TTCAATTTCAAGAGGATAGAGAAGAT-CT-TGC-TC
* *
7906951 TCTACTTCAATTTCAAGAGGATAGGAAAAGGTCTTGCTC
1 T-TACTTCAATTTCAAGAGGATA-GAGAAGATCTTGCTC
* * * * *
7906990 TTACTTCAATTTC-AGA-GATAAAGACTTGAT-ATCCAAC
1 TTACTTCAATTTCAAGAGGATAGAGA--AGATCTTGC-TC
7907027 TTTACTTCAATTTCAAGAGGATAG-GAACTGATCTTGCTC
1 -TTACTTCAATTTCAAGAGGATAGAGAA--GATCTTGCTC
7907066 TTACTTCAATTTC
1 TTACTTCAATTTC
7907079 GGAGATAAAG
Statistics
Matches: 290, Mismatches: 50, Indels: 90
0.67 0.12 0.21
Matches are distributed among these distances:
30 3 0.01
31 5 0.02
32 13 0.04
33 5 0.02
34 13 0.04
35 23 0.08
36 22 0.08
37 24 0.08
38 103 0.36
39 38 0.13
40 23 0.08
41 8 0.03
42 10 0.03
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (37 bp):
TTACTTCAATTTCAAGAGGATAGAGAAGATCTTGCTC
Found at i:7906820 original size:76 final size:76
Alignment explanation
Indices: 7906637--7907214 Score: 752
Period size: 76 Copynumber: 7.7 Consensus size: 76
7906627 CTCTTACTTC
* *
7906637 AAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCC
1 AAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTT-C
7906702 AATTTCAGAGAT
65 AATTTCAGAGAT
* * *
7906714 AAAGACTTGTTGTCCAACTCTACTTCAATTTCAAGAGGATAGGAGAAGATCTTGCTCTTACTTCA
1 AAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCA
7906779 ATTTCAGAGAT
66 ATTTCAGAGAT
* * * *
7906790 AGAGACTTGTTGTCCAACTCTACTTCAATTTCAAGAGGATA-GAAAATGATCTTGTTCTTACTTC
1 AAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAA-GATCTTGCTCTTACTTC
7906854 AATTTCAGAGAT
65 AATTTCAGAGAT
* * *
7906866 AAAGA-TGTGTTAT-C--CTCTACTTCAATTTCAAGAGGAT--G--ACG---TTGCCCTTACTTT
1 AAAGACT-TGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTAC-TT
*
7906920 CAATTTCGGAGAT
64 CAATTTCAGAGAT
* * *
7906933 AAAGACGTGCTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGGTCTTGCTCTTACTTCA
1 AAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCA
7906998 ATTTCAGAGAT
66 ATTTCAGAGAT
* **
7907009 AAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGGAACTGATCTTGCTCTTACTTCA
1 AAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCA
*
7907074 ATTTCGGAGAT
66 ATTTCAGAGAT
* * * * *
7907085 AAAGACTTGATATCCAGCTTTACTTCAATTTCAAGTGGATAGGAAATGA-CGCTGCTCTTACTTC
1 AAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATC-TTGCTCTTACTTC
7907149 AATTTCAGAGAT
65 AATTTCAGAGAT
* * *
7907161 AAAGACTCGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATA-ATCTTG
1 AAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA-AGATCTTG
7907215 GTGCGGTCTG
Statistics
Matches: 449, Mismatches: 35, Indels: 35
0.87 0.07 0.07
Matches are distributed among these distances:
66 8 0.02
67 24 0.05
68 1 0.00
69 1 0.00
70 24 0.05
72 2 0.00
73 23 0.05
74 2 0.00
75 7 0.02
76 289 0.64
77 68 0.15
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (76 bp):
AAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCA
ATTTCAGAGAT
Found at i:7906965 original size:219 final size:223
Alignment explanation
Indices: 7906637--7907214 Score: 742
Period size: 219 Copynumber: 2.6 Consensus size: 223
7906627 CTCTTACTTC
* * *
7906637 AAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATC-TTGCTCTTACTTC
1 AAAGACTTGATATCCA-CTCTACTTCAATTTC-A-AGGA-AGG-AATGA-CGTTGCTCTTACTTT
* * *
7906701 CAATTTCAGAGATAAAGACTTGTTGTCCAACTCTACTTCAATTTCAAGAGGATAGGAGAAGATCT
60 CAATTTCAGAGATAAAGAC-TGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCT
* * *
7906766 TGCTCTTACTTCAATTTCAGAGATAGAGACTTGTTGTCCAACTCTACTTCAATTTCAAGAGGATA
124 TGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATA
*
7906831 GAAAATGATCTTGTTCTTACTTCAATTTCAGAGAT
189 GAAAATGATCTTGCTCTTACTTCAATTTCAGAGAT
* *
7906866 AAAGA-TGTGTTAT-C-CTCTACTTCAATTTCAA-G-AGG-ATGACGTTGCCCTTACTTTCAATT
1 AAAGACT-TGATATCCACTCTACTTCAATTTCAAGGAAGGAATGACGTTGCTCTTACTTTCAATT
* * *
7906925 TCGGAGATAAAGACGTGCTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGGTCTTGCTC
65 TCAGAGATAAAGAC-TGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
* * *
7906990 TTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAC
129 TTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGAAAA
*
7907055 TGATCTTGCTCTTACTTCAATTTCGGAGAT
194 TGATCTTGCTCTTACTTCAATTTCAGAGAT
* *
7907085 AAAGACTTGATATCCAGCTTTACTTCAATTTCAAGTGGATAGGAAATGACGCTGCTCTTAC-TTC
1 AAAGACTTGATATCCA-CTCTACTTCAATTTCAA--GGA-AGG-AATGACGTTGCTCTTACTTTC
* *
7907149 AATTTCAGAGATAAAGACTCGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATA-ATCT
61 AATTTCAGAGATAAAGACT-GATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA-AGATCT
7907213 TG
124 TG
7907215 GTGCGGTCTG
Statistics
Matches: 306, Mismatches: 28, Indels: 31
0.84 0.08 0.08
Matches are distributed among these distances:
218 1 0.00
219 175 0.57
220 2 0.01
221 3 0.01
222 16 0.05
223 1 0.00
224 1 0.00
225 2 0.01
226 14 0.05
227 4 0.01
228 62 0.20
229 25 0.08
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (223 bp):
AAAGACTTGATATCCACTCTACTTCAATTTCAAGGAAGGAATGACGTTGCTCTTACTTTCAATTT
CAGAGATAAAGACTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
ACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGAAAATG
ATCTTGCTCTTACTTCAATTTCAGAGAT
Found at i:7907066 original size:295 final size:298
Alignment explanation
Indices: 7906637--7907200 Score: 852
Period size: 295 Copynumber: 1.9 Consensus size: 298
7906627 CTCTTACTTC
* * *
7906637 AAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCC
1 AAAGACGTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCC
* *
7906702 AATTTCAGAGATAAAGACTTGTTGTCCAACTCTACTTCAATTTCAAGAGGATAGGAGAAGATCTT
66 AATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAGAAGATCTT
* * *
7906767 GCTCTTACTTCAATTTCAGAGATAGAGACTTGTTGTCCAACTCTACTTCAATTTCAAGAGGATAG
131 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
* * * *
7906832 AAAATGATC-TTGTTCTTACTTCAATTTCAGAGATAAAGA-TGTGTTAT-C-CTCTACTTCAATT
196 AAAATGA-CGCTGCTCTTACTTCAATTTCAGAGATAAAGACT-CGATATCCACTCTACTTCAATT
7906893 TCAAGAGGATGACGTTGCCCTTACTTTCAATTTCGGAGAT
259 TCAAGAGGATGACGTTGCCCTTACTTTCAATTTCGGAGAT
* *
7906933 AAAGACGTGCTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGGTCTTGCTCTTACTT-C
1 AAAGACGTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCC
* *
7906997 AATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGGA-ACTGATCT
66 AATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAGA-AGATCT
* * * *
7907061 TGCTCTTACTTCAATTTCGGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGTGGATA
130 TGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATA
* *
7907126 GGAAATGACGCTGCTCTTACTTCAATTTCAGAGATAAAGACTCGATATCCAGCTTTACTTCAATT
195 GAAAATGACGCTGCTCTTACTTCAATTTCAGAGATAAAGACTCGATATCCA-CTCTACTTCAATT
7907191 TCAAGAGGAT
259 TCAAGAGGAT
7907201 AGGAAATAAT
Statistics
Matches: 240, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
294 2 0.01
295 156 0.65
296 60 0.25
298 22 0.09
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (298 bp):
AAAGACGTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCC
AATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAGAAGATCTT
GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
AAAATGACGCTGCTCTTACTTCAATTTCAGAGATAAAGACTCGATATCCACTCTACTTCAATTTC
AAGAGGATGACGTTGCCCTTACTTTCAATTTCGGAGAT
Found at i:7907108 original size:38 final size:38
Alignment explanation
Indices: 7906990--7907193 Score: 181
Period size: 38 Copynumber: 5.4 Consensus size: 38
7906980 GGTCTTGCTC
*
7906990 TTACTTCAATTTCAGAGATAAAGACTTGATATCCAACT
1 TTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCT
* **
7907028 TTACTTCAATTTCAAGAGGAT-AGGAAC-TG--ATCTTGCT
1 TTACTTCAATTTC-AGA-GATAAAG-ACTTGATATCCAGCT
*
7907065 CTTACTTCAATTTCGGAGATAAAGACTTGATATCCAGCT
1 -TTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCT
* * ** *
7907104 TTACTTCAATTTCAAGTGGAT-AGGAAATG--A-CGCTGCT
1 TTACTTCAATTTC-AG-AGATAAAGACTTGATATC-CAGCT
*
7907141 CTTACTTCAATTTCAGAGATAAAGACTCGATATCCAGCT
1 -TTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCT
7907180 TTACTTCAATTTCA
1 TTACTTCAATTTCA
7907194 AGAGGATAGG
Statistics
Matches: 130, Mismatches: 20, Indels: 32
0.71 0.11 0.18
Matches are distributed among these distances:
36 9 0.07
37 22 0.17
38 66 0.51
39 24 0.18
40 9 0.07
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (38 bp):
TTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCT
Found at i:7919055 original size:30 final size:30
Alignment explanation
Indices: 7919012--7919197 Score: 241
Period size: 30 Copynumber: 6.2 Consensus size: 30
7919002 GTAAAAATGG
* * * *
7919012 TAATTTTTG-AAAGTTTCGAGGTCAAAGTA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
* *
7919041 TAATTTTGGAAAAGTTTTGGAGTCAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
* * *
7919071 TAATTTTAGAAAAGTTTTAGGGTCAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
7919101 TAATTTT-TAGAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGA-AAAGTTTTGGGGTCAAAATA
7919131 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
* *
7919161 TAATTTTGGAAAAGTTTAGGGGTCAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
7919191 TAATTTT
1 TAATTTT
7919198 AGAGGTCTAT
Statistics
Matches: 139, Mismatches: 15, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
29 9 0.06
30 129 0.93
31 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.38
Consensus pattern (30 bp):
TAATTTTGGAAAAGTTTTGGGGTCAAAATA
Found at i:7919063 original size:90 final size:90
Alignment explanation
Indices: 7918969--7919197 Score: 266
Period size: 90 Copynumber: 2.5 Consensus size: 90
7918959 TGGTGAAATC
* **
7918969 GGAGTTAAAAATGGGA-TTTAGGGAAGTTTGAGGGTAAAAATGGTAATTTTT-GAAAGTTTCGAG
1 GGAG-TAAAAATGGAATTTTAGAAAAGTTTGAGGGTAAAAAT-GTAATTTTTAGAAAGTTTCGAG
*
7919032 GTCAAAGTATAATTTTGGAAAAGTTTT
64 GTCAAAATATAATTTTGGAAAAGTTTT
* * * * * *
7919059 GGAGTCAAAATGTAATTTTAGAAAAGTTTTAGGGTCAAAATGTAATTTTTAGAAAGTTTTGGGGT
1 GGAGTAAAAATGGAATTTTAGAAAAGTTTGAGGGTAAAAATGTAATTTTTAGAAAGTTTCGAGGT
7919124 CAAAATATAATTTTGGAAAAGTTTT
66 CAAAATATAATTTTGGAAAAGTTTT
* * ** * *
7919149 GGGGTCAAAATATAATTTTGGAAAAGTTT-AGGGGTCAAAATGTAATTTT
1 GGAGTAAAAATGGAATTTTAGAAAAGTTTGA-GGGTAAAAATGTAATTTT
7919198 AGAGGTCTAT
Statistics
Matches: 123, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
89 18 0.15
90 105 0.85
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (90 bp):
GGAGTAAAAATGGAATTTTAGAAAAGTTTGAGGGTAAAAATGTAATTTTTAGAAAGTTTCGAGGT
CAAAATATAATTTTGGAAAAGTTTT
Found at i:7920768 original size:12 final size:13
Alignment explanation
Indices: 7920742--7920770 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
7920732 AGTTAAATTC
7920742 AAATTGAATTTTA
1 AAATTGAATTTTA
7920755 AAATTGAA-TTTA
1 AAATTGAATTTTA
7920767 AAAT
1 AAAT
7920771 AAAATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (13 bp):
AAATTGAATTTTA
Found at i:7920775 original size:17 final size:17
Alignment explanation
Indices: 7920753--7920800 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
7920743 AATTGAATTT
*
7920753 TAAAATTGAATTTAAAA
1 TAAAATTAAATTTAAAA
7920770 TAAAATTAAATTTAAAA
1 TAAAATTAAATTTAAAA
* *
7920787 TAAATTTAATTTTA
1 TAAAATTAAATTTA
7920801 GAGTAAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TAAAATTAAATTTAAAA
Found at i:7922780 original size:20 final size:21
Alignment explanation
Indices: 7922742--7922795 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
7922732 ATTTTTTATT
*
7922742 TTGGATTCTTCT-AGATAATGC
1 TTGGACTCTTCTAAGATAAT-C
*
7922763 -TGGAGTCTTCTAAG-TAATC
1 TTGGACTCTTCTAAGATAATC
7922782 TTGGACTCTTCTAA
1 TTGGACTCTTCTAA
7922796 TGCGTTGCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 1 0.03
20 26 0.90
21 2 0.07
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (21 bp):
TTGGACTCTTCTAAGATAATC
Found at i:7939781 original size:69 final size:71
Alignment explanation
Indices: 7939650--7939787 Score: 244
Period size: 69 Copynumber: 2.0 Consensus size: 71
7939640 TATGTGGTTT
*
7939650 AAAAGCTTGTTTTAAATTGTGTGAATTAAAAAAAGGGATTATTAAAATGAAGAAAAATGAGGTAA
1 AAAAGCTTGTTTTAAATTGTGTGAATTAAAAAAA-GAATTATTAAAATGAAGAAAAATGAGGTAA
7939715 TGATTTA
65 TGATTTA
7939722 AAAAGCTTG-TTTAAATTGTGTGAATTAAAAAAA-AATTATTAAAATGAAGAAAAATGAGGTAAT
1 AAAAGCTTGTTTTAAATTGTGTGAATTAAAAAAAGAATTATTAAAATGAAGAAAAATGAGGTAAT
7939785 GAT
66 GAT
7939788 GTCTTTAAGT
Statistics
Matches: 65, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
69 32 0.49
71 24 0.37
72 9 0.14
ACGTcount: A:0.49, C:0.01, G:0.18, T:0.31
Consensus pattern (71 bp):
AAAAGCTTGTTTTAAATTGTGTGAATTAAAAAAAGAATTATTAAAATGAAGAAAAATGAGGTAAT
GATTTA
Found at i:7941408 original size:12 final size:12
Alignment explanation
Indices: 7941391--7941417 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7941381 GTATGAATTG
7941391 ATGAAATGCATA
1 ATGAAATGCATA
7941403 ATGAAATGCATA
1 ATGAAATGCATA
7941415 ATG
1 ATG
7941418 TAACTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (12 bp):
ATGAAATGCATA
Found at i:7944852 original size:30 final size:33
Alignment explanation
Indices: 7944789--7944852 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 33
7944779 TAATAATGAT
*
7944789 AAAATTACATTTTAACTCCTTTCAAAATGATAA
1 AAAATTACATTTTAACTCCTTTAAAAATGATAA
* *
7944822 AAAATTA-A-TTTAA-TCTTTTAAAAATTATAA
1 AAAATTACATTTTAACTCCTTTAAAAATGATAA
7944852 A
1 A
7944853 GATATAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 15 0.54
31 5 0.18
32 1 0.04
33 7 0.25
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (33 bp):
AAAATTACATTTTAACTCCTTTAAAAATGATAA
Found at i:7945426 original size:23 final size:23
Alignment explanation
Indices: 7945400--7945463 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 23
7945390 AAAAAAAATT
*
7945400 AAATTTAAAATTAATATAATCTA
1 AAATTTAAAATTAATATAATCAA
* * *
7945423 AAATAT-AATTTAA-ATACTCAA
1 AAATTTAAAATTAATATAATCAA
*
7945444 AAAATTAAAATTAATATAAT
1 AAATTTAAAATTAATATAAT
7945464 AAATTATACT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
21 10 0.32
22 12 0.39
23 9 0.29
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATTTAAAATTAATATAATCAA
Found at i:7946710 original size:24 final size:24
Alignment explanation
Indices: 7946683--7946729 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
7946673 TGTGTGAAGA
*
7946683 TGATAAT-ATTGATTATGGTAATAT
1 TGATAATAATT-ATTAGGGTAATAT
*
7946707 TGATTATAATTATTAGGGTAATA
1 TGATAATAATTATTAGGGTAATA
7946730 ATTACACTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (24 bp):
TGATAATAATTATTAGGGTAATAT
Found at i:7946848 original size:13 final size:13
Alignment explanation
Indices: 7946830--7946859 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
7946820 TGTTTGGTAG
7946830 TACAAATTATAAT
1 TACAAATTATAAT
7946843 TACAAATTATAAT
1 TACAAATTATAAT
7946856 TACA
1 TACA
7946860 CAGTTGCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
TACAAATTATAAT
Found at i:7948123 original size:33 final size:31
Alignment explanation
Indices: 7948056--7948125 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
7948046 ATTAGAGTTT
* *
7948056 TATATACATAATTACACCAAATTAAAGTTCA
1 TATATACATAATTACACCAAATAAAAATTCA
* * *
7948087 TATATATATAATTACACATGAAATAAAAATTTA
1 TATATACATAATTACAC--CAAATAAAAATTCA
7948120 TATATA
1 TATATA
7948126 ATTTTAAGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 16 0.50
33 16 0.50
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (31 bp):
TATATACATAATTACACCAAATAAAAATTCA
Found at i:7949365 original size:18 final size:18
Alignment explanation
Indices: 7949342--7949385 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
7949332 AATTATTTTT
7949342 AATCGATT-AATCTAATTA
1 AATCGATTCAAT-TAATTA
*
7949360 AATCGATTCAATTGATTA
1 AATCGATTCAATTAATTA
*
7949378 ATTCGATT
1 AATCGATT
7949386 TTAACCGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (18 bp):
AATCGATTCAATTAATTA
Found at i:7952093 original size:7 final size:7
Alignment explanation
Indices: 7952055--7952090 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
7952045 TTTGGGATAT
7952055 CCTTCCA
1 CCTTCCA
7952062 CCTTCCA
1 CCTTCCA
7952069 CCTTCCA
1 CCTTCCA
7952076 CCTTCCA
1 CCTTCCA
*
7952083 CTTTCCA
1 CCTTCCA
7952090 C
1 C
7952091 TTTTATTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.56, G:0.00, T:0.31
Consensus pattern (7 bp):
CCTTCCA
Found at i:7953048 original size:25 final size:25
Alignment explanation
Indices: 7953020--7953069 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
7953010 ACATGCGGTG
* *
7953020 GAAATTAAATTATATATTTT-TTAAT
1 GAAAATAAAATATA-ATTTTATTAAT
7953045 GAAAATAAAATATAATTTTATTAAT
1 GAAAATAAAATATAATTTTATTAAT
7953070 TTATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
GAAAATAAAATATAATTTTATTAAT
Found at i:7953157 original size:23 final size:25
Alignment explanation
Indices: 7953098--7953163 Score: 82
Period size: 23 Copynumber: 2.7 Consensus size: 25
7953088 AAATAATTAA
*
7953098 ATTAAAATATTATTATTATTATTGAT
1 ATTAAAATATAATT-TTATTATTGAT
7953124 ATTAAAATATAATTTTATTA-TG-T
1 ATTAAAATATAATTTTATTATTGAT
**
7953147 ATTAATTTATAATTTTA
1 ATTAAAATATAATTTTA
7953164 AAGGACCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 16 0.43
24 2 0.05
25 6 0.16
26 13 0.35
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (25 bp):
ATTAAAATATAATTTTATTATTGAT
Found at i:7956417 original size:17 final size:17
Alignment explanation
Indices: 7956383--7956425 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
7956373 TTATTGTATT
7956383 TTTTTTATAAATTATATG
1 TTTTTT-TAAATTATATG
* *
7956401 TTTTTTTAGATTTTATG
1 TTTTTTTAAATTATATG
7956418 TATTTTTT
1 T-TTTTTT
7956426 TGAATTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (17 bp):
TTTTTTTAAATTATATG
Found at i:7956432 original size:19 final size:18
Alignment explanation
Indices: 7956382--7956433 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
7956372 ATTATTGTAT
* *
7956382 TTTTTTTATAAATTATATG
1 TTTTTTTA-GAATTTTATG
7956401 TTTTTTTAG-ATTTTATG
1 TTTTTTTAGAATTTTATG
*
7956418 TATTTTTTTGAATTTT
1 T-TTTTTTAGAATTTT
7956434 TGATACATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 8 0.29
18 7 0.25
19 13 0.46
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (18 bp):
TTTTTTTAGAATTTTATG
Found at i:7960362 original size:18 final size:19
Alignment explanation
Indices: 7960335--7960376 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
7960325 ATTAGGTCTT
*
7960335 TTTTATATTTTT-AATTAA
1 TTTTAAATTTTTCAATTAA
*
7960353 TTTTAAATTTTTCCATTAA
1 TTTTAAATTTTTCAATTAA
7960372 TTTTA
1 TTTTA
7960377 TTTCATTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTAAATTTTTCAATTAA
Found at i:7960665 original size:29 final size:29
Alignment explanation
Indices: 7960631--7960807 Score: 128
Period size: 30 Copynumber: 6.0 Consensus size: 29
7960621 TTAAAAATCT
*
7960631 CATTTTTACCCCGAACTTCTCTAAAATTA
1 CATTTTGACCCCGAACTTCTCTAAAATTA
* * * *
7960660 TATTTTGACCCTCAAACTTTTCCAAAATTA
1 CATTTTGACCC-CGAACTTCTCTAAAATTA
**
7960690 CATTTTGACCTAGAACTTCTCTAAAATTA
1 CATTTTGACCCCGAACTTCTCTAAAATTA
* * * * *
7960719 CATTTTAACCCTTGAA-TATTTC-CAAATTT
1 CATTTTGACCC-CGAACT-TCTCTAAAATTA
* *
7960748 CATTTTGACCCCCAAAATAT-TCTAAAATTA
1 CATTTTGA-CCCCGAACT-TCTCTAAAATTA
*
7960778 CATTTTGATCCCC-ATACTTCTGTAAAATTA
1 CATTTTGA-CCCCGA-ACTTCTCTAAAATTA
7960808 TAATTTTACC
Statistics
Matches: 115, Mismatches: 25, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
29 51 0.44
30 64 0.56
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (29 bp):
CATTTTGACCCCGAACTTCTCTAAAATTA
Found at i:7960678 original size:30 final size:30
Alignment explanation
Indices: 7960631--7960807 Score: 136
Period size: 29 Copynumber: 6.0 Consensus size: 30
7960621 TTAAAAATCT
* *
7960631 CATTTTTACCC-CGAACTTCTCTAAAATTA
1 CATTTTGACCCTCAAACTTCTCTAAAATTA
* * *
7960660 TATTTTGACCCTCAAACTTTTCCAAAATTA
1 CATTTTGACCCTCAAACTTCTCTAAAATTA
7960690 CATTTTGA-CCT-AGAACTTCTCTAAAATTA
1 CATTTTGACCCTCA-AACTTCTCTAAAATTA
* * * *
7960719 CATTTTAACCCTTGAATA-TT-TC-CAAATTT
1 CATTTTGACCC-TCAA-ACTTCTCTAAAATTA
* *
7960748 CATTTTGACCCCCAAAATAT-TCTAAAATTA
1 CATTTTGACCCTCAAACT-TCTCTAAAATTA
* *
7960778 CATTTTGATCCC-CATACTTCTGTAAAATTA
1 CATTTTGA-CCCTCAAACTTCTCTAAAATTA
7960808 TAATTTTACC
Statistics
Matches: 118, Mismatches: 19, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
27 1 0.01
28 4 0.03
29 52 0.44
30 52 0.44
31 7 0.06
32 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (30 bp):
CATTTTGACCCTCAAACTTCTCTAAAATTA
Found at i:7960716 original size:59 final size:58
Alignment explanation
Indices: 7960643--7960757 Score: 160
Period size: 59 Copynumber: 2.0 Consensus size: 58
7960633 TTTTTACCCC
* *
7960643 GAACTTCTCTAAAATTATATTTTGACCCTCAAACT-TTTCCAAAATTACATTTTGACCTA
1 GAACTTCTCTAAAATTACATTTTAACCCTCAAA-TATTTCC-AAATTACATTTTGACCTA
** *
7960702 GAACTTCTCTAAAATTACATTTTAACCCTTGAATATTTCCAAATTTCATTTTGACC
1 GAACTTCTCTAAAATTACATTTTAACCCTCAAATATTTCCAAATTACATTTTGACC
7960758 CCCAAAATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 16 0.32
59 34 0.68
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (58 bp):
GAACTTCTCTAAAATTACATTTTAACCCTCAAATATTTCCAAATTACATTTTGACCTA
Found at i:7962468 original size:16 final size:16
Alignment explanation
Indices: 7962449--7962483 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7962439 ATTTGTAAAA
* *
7962449 AAATATAAATAGTTTT
1 AAATAAAAAAAGTTTT
7962465 AAATAAAAAAAGTTTT
1 AAATAAAAAAAGTTTT
7962481 AAA
1 AAA
7962484 AAATATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (16 bp):
AAATAAAAAAAGTTTT
Found at i:7965544 original size:48 final size:48
Alignment explanation
Indices: 7965488--7965598 Score: 222
Period size: 48 Copynumber: 2.3 Consensus size: 48
7965478 TGGTCCCGGA
7965488 TCAAATCCATATAAACGAAAAAATATATTTCTCAAATTTAATCTTAGT
1 TCAAATCCATATAAACGAAAAAATATATTTCTCAAATTTAATCTTAGT
7965536 TCAAATCCATATAAACGAAAAAATATATTTCTCAAATTTAATCTTAGT
1 TCAAATCCATATAAACGAAAAAATATATTTCTCAAATTTAATCTTAGT
7965584 TCAAATCCATATAAA
1 TCAAATCCATATAAA
7965599 TGTAAATTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (48 bp):
TCAAATCCATATAAACGAAAAAATATATTTCTCAAATTTAATCTTAGT
Found at i:7966427 original size:19 final size:18
Alignment explanation
Indices: 7966389--7966447 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
7966379 TATTTATAAG
*
7966389 TTTA-TTCATTTATTTTA
1 TTTACTTCATTTATTTAA
7966406 TTTACTTCATTTAATTTAA
1 TTTACTTCATTT-ATTTAA
* *
7966425 TTTACATGCATTTATTTAC
1 TTTAC-TTCATTTATTTAA
7966444 TTTA
1 TTTA
7966448 TTTAATTCGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 4 0.11
18 7 0.19
19 19 0.53
20 6 0.17
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTACTTCATTTATTTAA
Found at i:7970160 original size:2 final size:2
Alignment explanation
Indices: 7970155--7970187 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7970145 ACACACAGTA
7970155 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7970188 ATTTAGTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7973438 original size:27 final size:27
Alignment explanation
Indices: 7973408--7973462 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
7973398 TTTTCTTTTA
*
7973408 ATTTAGAGTTAAATTGATTTTAAATTT
1 ATTTAAAGTTAAATTGATTTTAAATTT
* *
7973435 ATTTAAATTTAAATTTATTTTAAATTT
1 ATTTAAAGTTAAATTGATTTTAAATTT
7973462 A
1 A
7973463 AATTTAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (27 bp):
ATTTAAAGTTAAATTGATTTTAAATTT
Found at i:7973444 original size:6 final size:6
Alignment explanation
Indices: 7973426--7973525 Score: 73
Period size: 6 Copynumber: 16.8 Consensus size: 6
7973416 TTAAATTGAT
*
7973426 TTTAAA TTT--A TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTTAATTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA--A
* * * ** * *
7973473 TTTAAA TTT-AC CTTGAA TTTAAA TTTAAA TAAAAA TTAAAA CATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA
7973521 TTTAA
1 TTTAA
7973526 CATTAAAAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
4 4 0.05
5 7 0.09
6 53 0.72
7 4 0.05
8 6 0.08
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:7973444 original size:17 final size:17
Alignment explanation
Indices: 7973426--7973499 Score: 84
Period size: 17 Copynumber: 4.6 Consensus size: 17
7973416 TTAAATTGAT
7973426 TTTAAATTTA-TTTAAA
1 TTTAAATTTATTTTAAA
7973442 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
7973459 TTTAAATTTA-ATT--A
1 TTTAAATTTATTTTAAA
** *
7973473 TTTAAATTTACCTTGAA
1 TTTAAATTTATTTTAAA
7973490 TTTAAATTTA
1 TTTAAATTTA
7973500 AATAAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
14 11 0.21
15 2 0.04
16 12 0.23
17 27 0.52
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:7975246 original size:23 final size:23
Alignment explanation
Indices: 7975051--7975228 Score: 209
Period size: 23 Copynumber: 7.7 Consensus size: 23
7975041 CGAAGTACTT
7975051 AACAGTAAGCACAC-AAGTGCTGGGGA
1 AACAGTAAGCACACAAAGTGC----GA
*
7975077 AACAGTAAGCACACACAGTGC-A
1 AACAGTAAGCACACAAAGTGCGA
* * * * *
7975099 ATCAGTAGGCGCACATAGCGC-A
1 AACAGTAAGCACACAAAGTGCGA
* *
7975121 AATCAGTAGGCACACGAAGTGCGA
1 AA-CAGTAAGCACACAAAGTGCGA
*
7975145 AACAGTAGGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
7975168 AACAGTAAGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
7975191 AACAGTAAGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
7975214 AACAGTAAGCACACA
1 AACAGTAAGCACACA
7975229 TAGTTCTGAA
Statistics
Matches: 136, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
22 19 0.14
23 95 0.70
24 3 0.02
26 14 0.10
27 5 0.04
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.10
Consensus pattern (23 bp):
AACAGTAAGCACACAAAGTGCGA
Found at i:7977148 original size:3 final size:3
Alignment explanation
Indices: 7977140--7977171 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
7977130 ATTAATAACG
*
7977140 TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
7977172 CGAAAAAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:7978280 original size:160 final size:161
Alignment explanation
Indices: 7978009--7978325 Score: 503
Period size: 160 Copynumber: 2.0 Consensus size: 161
7977999 AGTTCTCAAT
* *
7978009 TTAGTACTTTGACTGTTTGATCGCACCAGAGACTGCCACGTGTCATTTTTGGCTTATTTCTGCAT
1 TTAGTACTTTGACTGTTTGACCGCACCAGAGACTGCCACGTGTCATTTTTGGCTTATTTCTACAT
* **
7978074 TTGGTCCCTGATATTTTTAATTTGTTTTAATTGAATCCTTAAATCAACTTTTATTTAATTACAAA
66 TTGGTCCCTGATATTTTCAATTTGTTTTAATTGAATCCCCAAATCAACTTTTATTTAATTACAAA
7978139 ATTAGCCCGAA-AATTTTTCAAGATTTATAAA
131 ATT-GCCCGAAGAATTTTTCAAGATTTATAAA
* * *
7978170 TTAGTCCTTTGACTGTTTGACCGCACCAGAGGCTGCCACGTGTCA-TTTTGGCTTATTTTTACAT
1 TTAGTACTTTGACTGTTTGACCGCACCAGAGACTGCCACGTGTCATTTTTGGCTTATTTCTACAT
*
7978234 TTGGTCCCTGATATTTTCAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACAAA
66 TTGGTCCCTGATATTTTCAATTTGTTTTAATTGAATCCCCAAATCAACTTTTATTTAATTACAAA
* * *
7978299 ATTGGCCTAAGAATTTTTCAAGGTTTA
131 ATTGCCCGAAGAATTTTTCAAGATTTA
7978326 CTTAAAAATA
Statistics
Matches: 143, Mismatches: 12, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
159 5 0.03
160 96 0.67
161 42 0.29
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (161 bp):
TTAGTACTTTGACTGTTTGACCGCACCAGAGACTGCCACGTGTCATTTTTGGCTTATTTCTACAT
TTGGTCCCTGATATTTTCAATTTGTTTTAATTGAATCCCCAAATCAACTTTTATTTAATTACAAA
ATTGCCCGAAGAATTTTTCAAGATTTATAAA
Found at i:7978416 original size:29 final size:30
Alignment explanation
Indices: 7978335--7978416 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 30
7978325 ACTTAAAAAT
7978335 ATTTCACCAAAAATTACCATTTT-ACCCCTAA
1 ATTTCACC-AAAATTACCATTTTAACCCC-AA
*
7978366 ACTTT--CCAAAATT-CCATTTTTAACCCC-G
1 A-TTTCACCAAAATTACCA-TTTTAACCCCAA
7978394 ATTTCACCAAAATTACCATTTTA
1 ATTTCACCAAAATTACCATTTTA
7978417 CCCTCGGGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
27 3 0.07
28 4 0.09
29 23 0.52
30 10 0.23
31 1 0.02
32 3 0.07
ACGTcount: A:0.35, C:0.28, G:0.01, T:0.35
Consensus pattern (30 bp):
ATTTCACCAAAATTACCATTTTAACCCCAA
Found at i:7978450 original size:58 final size:59
Alignment explanation
Indices: 7978335--7978457 Score: 142
Period size: 58 Copynumber: 2.1 Consensus size: 59
7978325 ACTTAAAAAT
* * *
7978335 ATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCG
1 ATTTCACCAAAAATTACCATTTTACCCCTAAACTATCCAAAATCCCATTTTCAACCCCG
**** * *
7978394 ATTTCACC-AAAATTACCATTTTA-CCCTCGGGTATCCAAAAGTCCCGTTTTCCACCCCG
1 ATTTCACCAAAAATTACCATTTTACCCCTAAACTATCCAAAA-TCCCATTTTCAACCCCG
7978452 ATTTCA
1 ATTTCA
7978458 TCGTTTATCA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
57 12 0.22
58 34 0.63
59 8 0.15
ACGTcount: A:0.30, C:0.32, G:0.06, T:0.33
Consensus pattern (59 bp):
ATTTCACCAAAAATTACCATTTTACCCCTAAACTATCCAAAATCCCATTTTCAACCCCG
Found at i:7982517 original size:26 final size:26
Alignment explanation
Indices: 7982488--7982540 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
7982478 GATCTTTTTC
*
7982488 ATTTACGCAAGCTTTGCCTTTAATCA
1 ATTTACGCAAGCTTTGCCTTCAATCA
*
7982514 ATTTATGCAAGCTTTGCCTTCAATCA
1 ATTTACGCAAGCTTTGCCTTCAATCA
7982540 A
1 A
7982541 ATTCAGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (26 bp):
ATTTACGCAAGCTTTGCCTTCAATCA
Found at i:7982529 original size:99 final size:99
Alignment explanation
Indices: 7982415--7982606 Score: 357
Period size: 99 Copynumber: 1.9 Consensus size: 99
7982405 ATCTTTTTTC
* *
7982415 ATTTATGCGAGCTTTGCCTTCAATCAAATTCAGTTTCATCCACCTTACGATTGATGAACCAATGA
1 ATTTATGCAAGCTTTGCCTTCAATCAAATTCAGTTTCATCCACCTTACGATTCATGAACCAATGA
7982480 TCTTTTTCATTTACGCAAGCTTTGCCTTTAATCA
66 TCTTTTTCATTTACGCAAGCTTTGCCTTTAATCA
7982514 ATTTATGCAAGCTTTGCCTTCAATCAAATTCAGTTTCATCCACCTTACGATTCATGAACCAATGA
1 ATTTATGCAAGCTTTGCCTTCAATCAAATTCAGTTTCATCCACCTTACGATTCATGAACCAATGA
*
7982579 TCTTTTTCATTTATGCAAGCTTTGCCTT
66 TCTTTTTCATTTACGCAAGCTTTGCCTT
7982607 CAATTAAATT
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 90 1.00
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.39
Consensus pattern (99 bp):
ATTTATGCAAGCTTTGCCTTCAATCAAATTCAGTTTCATCCACCTTACGATTCATGAACCAATGA
TCTTTTTCATTTACGCAAGCTTTGCCTTTAATCA
Found at i:7983244 original size:49 final size:49
Alignment explanation
Indices: 7983105--7983385 Score: 226
Period size: 49 Copynumber: 5.7 Consensus size: 49
7983095 GCTGAGGAAA
** *
7983105 CATGAAGATATGAAGGGGAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
1 CATGAAGATATGAAGGAAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * * *
7983154 C-TTAACATATGTGATGAGAAAGATTGAGGCCGTAACGGCGAATCCGGTAC
1 CATGAAGATATG-AAGGA-AAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * *
7983204 CATGAAGATATGAAGGAAAAGGTTGAGGCCACAACAGCGAACCCGATAC
1 CATGAAGATATGAAGGAAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * * * *
7983253 C-TCAAGAGATGTGATGGAAAAAGTTGAGACTGAAACGGTGAACCCGGTAC
1 CAT-GA-AGATATGAAGGAAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * * * *
7983303 TATGCAGATGTGATAGG-AAAGATTGAGGTCGCAATGGCGAATCCAGTAC
1 CATGAAGATATGA-AGGAAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
*
7983352 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAA
1 CATGAAGATATGAAGGAAAAGGTTGAGGCCGCAA
7983386 TGACTTGAAT
Statistics
Matches: 174, Mismatches: 50, Indels: 16
0.73 0.21 0.07
Matches are distributed among these distances:
48 12 0.07
49 86 0.49
50 67 0.39
51 9 0.05
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.17
Consensus pattern (49 bp):
CATGAAGATATGAAGGAAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
Found at i:7983343 original size:99 final size:99
Alignment explanation
Indices: 7983105--7983343 Score: 248
Period size: 99 Copynumber: 2.4 Consensus size: 99
7983095 GCTGAGGAAA
** * * * * *
7983105 CATGAAGATATGAAGGGGAAGGTTGAGGCCGCAACGGTGAACCCGGTACCTTAACATATGTGATG
1 CATGAAGATATGAAGGAAAAGATTGAGGCCGCAACGGCGAACCCGATACCTCAACAGATGTGATG
* * * *
7983170 AGAAAGATTGAGGCCGTAACGGCGAATCCGGTAC
66 AAAAAGATTGAGACCGAAACGGCGAACCCGGTAC
* * * *
7983204 CATGAAGATATGAAGGAAAAGGTTGAGGCCACAACAGCGAACCCGATACCTCAAGAGATGTGATG
1 CATGAAGATATGAAGGAAAAGATTGAGGCCGCAACGGCGAACCCGATACCTCAACAGATGTGAT-
* *
7983269 GAAAAAG-TTGAGACTGAAACGGTGAACCCGGTAC
65 GAAAAAGATTGAGACCGAAACGGCGAACCCGGTAC
* * * * *
7983303 TATGCAGATGTGATAGG-AAAGATTGAGGTCGCAATGGCGAA
1 CATGAAGATATGA-AGGAAAAGATTGAGGCCGCAACGGCGAA
7983344 TCCAGTACCA
Statistics
Matches: 115, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
99 106 0.92
100 9 0.08
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.18
Consensus pattern (99 bp):
CATGAAGATATGAAGGAAAAGATTGAGGCCGCAACGGCGAACCCGATACCTCAACAGATGTGATG
AAAAAGATTGAGACCGAAACGGCGAACCCGGTAC
Found at i:7984459 original size:26 final size:26
Alignment explanation
Indices: 7984430--7984482 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
7984420 GATCTTTTTC
* *
7984430 ATTTACGCAAGCTTTGCCTTTAATCA
1 ATTTACGCAAGCTTTACCTTCAATCA
*
7984456 ATTTATGCAAGCTTTACCTTCAATCA
1 ATTTACGCAAGCTTTACCTTCAATCA
7984482 A
1 A
7984483 ATTCAGTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (26 bp):
ATTTACGCAAGCTTTACCTTCAATCA
Found at i:7984476 original size:99 final size:99
Alignment explanation
Indices: 7984357--7984548 Score: 348
Period size: 99 Copynumber: 1.9 Consensus size: 99
7984347 ATCTTTTTTC
* * *
7984357 ATTTATGCGAGCTTTGCCTTCAATCAAATTCAGTTTCATCCACCTTACGATTGATGAACCAATGA
1 ATTTATGCAAGCTTTACCTTCAATCAAATTCAGTTTCATCCACCTTACGATTCATGAACCAATGA
7984422 TCTTTTTCATTTACGCAAGCTTTGCCTTTAATCA
66 TCTTTTTCATTTACGCAAGCTTTGCCTTTAATCA
7984456 ATTTATGCAAGCTTTACCTTCAATCAAATTCAGTTTCATCCACCTTACGATTCATGAACCAATGA
1 ATTTATGCAAGCTTTACCTTCAATCAAATTCAGTTTCATCCACCTTACGATTCATGAACCAATGA
*
7984521 TCTTTTTCATTTATGCAAGCTTTGCCTT
66 TCTTTTTCATTTACGCAAGCTTTGCCTT
7984549 CAATTAAATT
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 89 1.00
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (99 bp):
ATTTATGCAAGCTTTACCTTCAATCAAATTCAGTTTCATCCACCTTACGATTCATGAACCAATGA
TCTTTTTCATTTACGCAAGCTTTGCCTTTAATCA
Found at i:7985128 original size:50 final size:50
Alignment explanation
Indices: 7985069--7985272 Score: 150
Period size: 50 Copynumber: 4.1 Consensus size: 50
7985059 AAGGGGAAGG
* *
7985069 TTGAGGCCGTAACGGTGAACCCGGTACCTTAACATATGTGATGAGAAAGA
1 TTGAGGCCGTAACGGCGAACCCGGTACCTTAACAGATGTGATGAGAAAGA
* * * * * *
7985119 TTGAGGCCGTAACGGCGAATCCGGTACCATGA-AGATATGAAG-GAAAAGG
1 TTGAGGCCGTAACGGCGAACCCGGTACCTTAACAGATGTGATGAG-AAAGA
** * * * ** *
7985168 TTGAGGCCACAACAGCGAACCCGATACCTCAGGAGATGTGATGGGAAA-A
1 TTGAGGCCGTAACGGCGAACCCGGTACCTTAACAGATGTGATGAGAAAGA
* * * *
7985217 GTTGAGACTGAAACGGTGAACCCGGTA-C-TATACAGATGTGAT-AGGAAAGA
1 -TTGAGGCCGTAACGGCGAACCCGGTACCTTA-ACAGATGTGATGA-GAAAGA
7985267 TTGAGG
1 TTGAGG
7985273 TCGCAATGGC
Statistics
Matches: 115, Mismatches: 32, Indels: 15
0.71 0.20 0.09
Matches are distributed among these distances:
48 2 0.02
49 53 0.46
50 59 0.51
51 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.19
Consensus pattern (50 bp):
TTGAGGCCGTAACGGCGAACCCGGTACCTTAACAGATGTGATGAGAAAGA
Found at i:7985186 original size:49 final size:49
Alignment explanation
Indices: 7985047--7985327 Score: 194
Period size: 49 Copynumber: 5.7 Consensus size: 49
7985037 TCTGAGGAAA
* ** * *
7985047 CATGAAGATATAAAGGGGAAGGTTGAGGCCGTAACGGTGAACCCGGTAC
1 CATGAAGATATGAAGGAAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * * *
7985096 C-TTAACATATGTGATGAGAAAGATTGAGGCCGTAACGGCGAATCCGGTAC
1 CATGAAGATATG-AAGGA-AAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * *
7985146 CATGAAGATATGAAGGAAAAGGTTGAGGCCACAACAGCGAACCCGATAC
1 CATGAAGATATGAAGGAAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * * *
7985195 C-TCAGGAGATGTGATGGGAAAA-GTTGAGACTGAAACGGTGAACCCGGTAC
1 CAT--GAAGATATGA-AGGAAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * * *
7985245 TAT-ACAGATGTGATAGG-AAAGATTGAGGTCGCAATGGCGAATCCAGTAC
1 CATGA-AGATATGA-AGGAAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
*
7985294 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAA
1 CATGAAGATATGAAGGAAAAGGTTGAGGCCGCAA
7985328 TGACTTGAAT
Statistics
Matches: 175, Mismatches: 46, Indels: 22
0.72 0.19 0.09
Matches are distributed among these distances:
48 14 0.08
49 84 0.48
50 62 0.35
51 15 0.09
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (49 bp):
CATGAAGATATGAAGGAAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
Found at i:7985232 original size:99 final size:99
Alignment explanation
Indices: 7985047--7985244 Score: 218
Period size: 99 Copynumber: 2.0 Consensus size: 99
7985037 TCTGAGGAAA
** ** * * * * *
7985047 CATGAAGATATAAAGGGGAAGGTTGAGGCCGTAACGGTGAACCCGGTACCTTAACATATGTGATG
1 CATGAAGATATAAAGGAAAAGGTTGAGGCCACAACAGCGAACCCGATACCTCAACAGATGTGATG
* * *
7985112 AGAAAGATTGAGGCCGTAACGGCGAATCCGGTAC
66 AGAAAGATTGAGACCGAAACGGCGAACCCGGTAC
* **
7985146 CATGAAGATATGAAGGAAAAGGTTGAGGCCACAACAGCGAACCCGATACCTCAGGAGATGTGATG
1 CATGAAGATATAAAGGAAAAGGTTGAGGCCACAACAGCGAACCCGATACCTCAACAGATGTGATG
* * *
7985211 GGAAA-AGTTGAGACTGAAACGGTGAACCCGGTAC
66 AGAAAGA-TTGAGACCGAAACGGCGAACCCGGTAC
7985245 TATACAGATG
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
98 1 0.01
99 79 0.99
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.17
Consensus pattern (99 bp):
CATGAAGATATAAAGGAAAAGGTTGAGGCCACAACAGCGAACCCGATACCTCAACAGATGTGATG
AGAAAGATTGAGACCGAAACGGCGAACCCGGTAC
Found at i:7986403 original size:26 final size:26
Alignment explanation
Indices: 7986374--7986426 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
7986364 GATCTTTTTC
*
7986374 ATTTACGCAAGCTTTGCCTTTAATCA
1 ATTTACGCAAGCTTTGCCTTCAATCA
*
7986400 ATTTATGCAAGCTTTGCCTTCAATCA
1 ATTTACGCAAGCTTTGCCTTCAATCA
7986426 A
1 A
7986427 ATTCAGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (26 bp):
ATTTACGCAAGCTTTGCCTTCAATCA
Found at i:7986415 original size:99 final size:99
Alignment explanation
Indices: 7986301--7986492 Score: 357
Period size: 99 Copynumber: 1.9 Consensus size: 99
7986291 ATCTTTTTTC
* *
7986301 ATTTATGCGAGCTTTGCCTTCAATCAAATTCAGTTTCATCCACCTTACGATTGATGAACCAATGA
1 ATTTATGCAAGCTTTGCCTTCAATCAAATTCAGTTTCATCCACCTTACGATTCATGAACCAATGA
7986366 TCTTTTTCATTTACGCAAGCTTTGCCTTTAATCA
66 TCTTTTTCATTTACGCAAGCTTTGCCTTTAATCA
7986400 ATTTATGCAAGCTTTGCCTTCAATCAAATTCAGTTTCATCCACCTTACGATTCATGAACCAATGA
1 ATTTATGCAAGCTTTGCCTTCAATCAAATTCAGTTTCATCCACCTTACGATTCATGAACCAATGA
*
7986465 TCTTTTTCATTTATGCAAGCTTTGCCTT
66 TCTTTTTCATTTACGCAAGCTTTGCCTT
7986493 CAATTAAATT
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 90 1.00
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.39
Consensus pattern (99 bp):
ATTTATGCAAGCTTTGCCTTCAATCAAATTCAGTTTCATCCACCTTACGATTCATGAACCAATGA
TCTTTTTCATTTACGCAAGCTTTGCCTTTAATCA
Found at i:7987130 original size:49 final size:49
Alignment explanation
Indices: 7986991--7987271 Score: 219
Period size: 49 Copynumber: 5.7 Consensus size: 49
7986981 GCTGAGGAAA
** *
7986991 CATGAAGATATGAAGGGGAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
1 CATGAAGATATGAAGGAAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * * *
7987040 C-TTAACATATGTGATGAGAAAGATTGAGGCCGTAACGGCGAATCCGGTAC
1 CATGAAGATATG-AAGGA-AAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * *
7987090 CATGAAGATATGAAGGAAAAGGTTGAGGCCACAACAGCGAACCCGATAC
1 CATGAAGATATGAAGGAAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * * *
7987139 C-TCAGGAGATGTGATGGGAAAA-GTTGAGACTGAAACGGTGAACCCGGTAC
1 CAT--GAAGATATGA-AGGAAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * * * *
7987189 TATGCAGATGTGATAGG-AAAGATTGAGGTCGCAATGGCGAATCCAGTAC
1 CATGAAGATATGA-AGGAAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
*
7987238 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAA
1 CATGAAGATATGAAGGAAAAGGTTGAGGCCGCAA
7987272 TGAATTATGT
Statistics
Matches: 176, Mismatches: 47, Indels: 18
0.73 0.20 0.07
Matches are distributed among these distances:
48 15 0.09
49 86 0.49
50 60 0.34
51 15 0.09
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.17
Consensus pattern (49 bp):
CATGAAGATATGAAGGAAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
Found at i:7987166 original size:99 final size:98
Alignment explanation
Indices: 7986991--7987216 Score: 238
Period size: 99 Copynumber: 2.3 Consensus size: 98
7986981 GCTGAGGAAA
* * * * * * *
7986991 CATGAAGATATGAAGGGGAAGGTTGAGGCCGCAACGGTGAACCCGGTACCTTAACATATGTGATG
1 CATGAAGATATGAA-GGAAAGGTTGAGGCCACAACAGCGAACCCGATACCTCAACAGATGTGATG
* * *
7987056 AGAAAGATTGAGGCCGTAACGGCGAATCCGGTAC
65 AGAAAGATTGAGACCGAAACGGCGAACCCGGTAC
**
7987090 CATGAAGATATGAAGGAAAAGGTTGAGGCCACAACAGCGAACCCGATACCTCAGGAGATGTGATG
1 CATGAAGATATGAAGG-AAAGGTTGAGGCCACAACAGCGAACCCGATACCTCAACAGATGTGATG
* * *
7987155 GGAAA-AGTTGAGACTGAAACGGTGAACCCGGTAC
65 AGAAAGA-TTGAGACCGAAACGGCGAACCCGGTAC
* * * *
7987189 TATGCAGATGTGATAGGAAAGATTGAGG
1 CATGAAGATATGA-AGGAAAGGTTGAGG
7987217 TCGCAATGGC
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
98 3 0.03
99 99 0.94
100 3 0.03
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.18
Consensus pattern (98 bp):
CATGAAGATATGAAGGAAAGGTTGAGGCCACAACAGCGAACCCGATACCTCAACAGATGTGATGA
GAAAGATTGAGACCGAAACGGCGAACCCGGTAC
Found at i:7990632 original size:2 final size:2
Alignment explanation
Indices: 7990625--7990670 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
7990615 CATATACGTG
* *
7990625 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7990667 TA TA
1 TA TA
7990671 ATAGATGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:7993419 original size:2 final size:2
Alignment explanation
Indices: 7993412--7993437 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7993402 CATTTACGCT
7993412 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7993438 AACCCTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7993640 original size:33 final size:33
Alignment explanation
Indices: 7993603--7993705 Score: 90
Period size: 33 Copynumber: 3.2 Consensus size: 33
7993593 TTTTTAAAAT
7993603 TTAAAATTTTTTATTCTTCCATTGATTTTGTTA
1 TTAAAATTTTTTATTCTTCCATTGATTTTGTTA
* * * * ****
7993636 TTAAAATTATTGA--CAT-GATT-A-TTAAAAA
1 TTAAAATTTTTTATTCTTCCATTGATTTTGTTA
7993664 TTTAAAATTTTTTATTCTTCCATTGATTTTGTTA
1 -TTAAAATTTTTTATTCTTCCATTGATTTTGTTA
7993698 TTAAAATT
1 TTAAAATT
7993706 ATTGACATGA
Statistics
Matches: 48, Mismatches: 16, Indels: 12
0.63 0.21 0.16
Matches are distributed among these distances:
28 3 0.06
29 12 0.25
30 3 0.06
31 4 0.08
32 3 0.06
33 20 0.42
34 3 0.06
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (33 bp):
TTAAAATTTTTTATTCTTCCATTGATTTTGTTA
Found at i:7993668 original size:62 final size:63
Alignment explanation
Indices: 7993598--7993726 Score: 251
Period size: 62 Copynumber: 2.1 Consensus size: 63
7993588 TATACTTTTT
7993598 AAAATTTAAAATTTTTTATTCTTCCATTGATTTTGTTATTAAAATTATTGACATGATTATTA-
1 AAAATTTAAAATTTTTTATTCTTCCATTGATTTTGTTATTAAAATTATTGACATGATTATTAG
7993660 AAAATTTAAAATTTTTTATTCTTCCATTGATTTTGTTATTAAAATTATTGACATGATTATTAG
1 AAAATTTAAAATTTTTTATTCTTCCATTGATTTTGTTATTAAAATTATTGACATGATTATTAG
7993723 AAAA
1 AAAA
7993727 AAGTAGAATA
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
62 62 0.94
63 4 0.06
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.50
Consensus pattern (63 bp):
AAAATTTAAAATTTTTTATTCTTCCATTGATTTTGTTATTAAAATTATTGACATGATTATTAG
Found at i:7994660 original size:20 final size:20
Alignment explanation
Indices: 7994624--7994665 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7994614 CAATTTTTGA
**
7994624 TATTTTTTTTTGGAAATCTT
1 TATTTTTTTTTAAAAATCTT
*
7994644 TATTTTTTTTTAAAAATGTT
1 TATTTTTTTTTAAAAATCTT
7994664 TA
1 TA
7994666 AAATGATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.64
Consensus pattern (20 bp):
TATTTTTTTTTAAAAATCTT
Found at i:7994682 original size:15 final size:15
Alignment explanation
Indices: 7994662--7994694 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
7994652 TTTAAAAATG
7994662 TTTAAAATGATTT-TT
1 TTTAAAAT-ATTTCTT
7994677 TTTAAAATATTTCTT
1 TTTAAAATATTTCTT
7994692 TTT
1 TTT
7994695 TAACTTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTAAAATATTTCTT
Found at i:8001442 original size:25 final size:25
Alignment explanation
Indices: 8001401--8001452 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
8001391 AAGTCACTAC
*
8001401 ATCAATAATAAAGATAT-AAAAATT
1 ATCAAAAATAAAGATATAAAAAATT
*
8001425 ATCAAAAAGTAAATATATAAAAAATT
1 ATCAAAAA-TAAAGATATAAAAAATT
8001451 AT
1 AT
8001453 TAAATGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 7 0.29
25 8 0.33
26 9 0.38
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (25 bp):
ATCAAAAATAAAGATATAAAAAATT
Found at i:8002946 original size:126 final size:126
Alignment explanation
Indices: 8002764--8003023 Score: 520
Period size: 126 Copynumber: 2.1 Consensus size: 126
8002754 ATATCTCCAT
8002764 AATATGAAAATAAATATCATGTTTCCAGATTTAGTATTTGTTTTACATTTTTCATCTTCCACTTT
1 AATATGAAAATAAATATCATGTTTCCAGATTTAGTATTTGTTTTACATTTTTCATCTTCCACTTT
8002829 CCCACCATCAAAATGCTCTATTCAACTTCCGCAATAAATCTCAATACATCAAAAACCCCAA
66 CCCACCATCAAAATGCTCTATTCAACTTCCGCAATAAATCTCAATACATCAAAAACCCCAA
8002890 AATATGAAAATAAATATCATGTTTCCAGATTTAGTATTTGTTTTACATTTTTCATCTTCCACTTT
1 AATATGAAAATAAATATCATGTTTCCAGATTTAGTATTTGTTTTACATTTTTCATCTTCCACTTT
8002955 CCCACCATCAAAATGCTCTATTCAACTTCCGCAATAAATCTCAATACATCAAAAACCCCAA
66 CCCACCATCAAAATGCTCTATTCAACTTCCGCAATAAATCTCAATACATCAAAAACCCCAA
8003016 AATATGAA
1 AATATGAA
8003024 TTTTCTTCTC
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 134 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.35
Consensus pattern (126 bp):
AATATGAAAATAAATATCATGTTTCCAGATTTAGTATTTGTTTTACATTTTTCATCTTCCACTTT
CCCACCATCAAAATGCTCTATTCAACTTCCGCAATAAATCTCAATACATCAAAAACCCCAA
Found at i:8004142 original size:15 final size:15
Alignment explanation
Indices: 8004122--8004156 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8004112 AAAAAAGTCA
* *
8004122 TTTTAATTTTTTATT
1 TTTTAAATTTATATT
8004137 TTTTAAATTTATATT
1 TTTTAAATTTATATT
8004152 TTTTA
1 TTTTA
8004157 TCAAATCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTAAATTTATATT
Found at i:8005109 original size:18 final size:17
Alignment explanation
Indices: 8005070--8005109 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
8005060 TAGTTTATCC
8005070 TTTTATAAATTGTTTCT
1 TTTTATAAATTGTTTCT
* *
8005087 CTTTATACATTGTTTACT
1 TTTTATAAATTGTTT-CT
8005105 TTTTA
1 TTTTA
8005110 CTCGTAAACC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62
Consensus pattern (17 bp):
TTTTATAAATTGTTTCT
Found at i:8008974 original size:26 final size:26
Alignment explanation
Indices: 8008945--8008995 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
8008935 GCAATAGCAG
*
8008945 TAACTATGTATAACTATATCAAATAA
1 TAACTATGTATAACTATATAAAATAA
*
8008971 TAACTATGTATAATTATATAAAATA
1 TAACTATGTATAACTATATAAAATA
8008996 TAAATAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (26 bp):
TAACTATGTATAACTATATAAAATAA
Found at i:8009704 original size:22 final size:22
Alignment explanation
Indices: 8009679--8009729 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
8009669 TTAACTTTTA
8009679 TATTTTTTTTCAAA-ATTATTAT
1 TATTTTTTTT-AAATATTATTAT
* *
8009701 TATTATTTTTAAATATTTTTAT
1 TATTTTTTTTAAATATTATTAT
*
8009723 AATTTTT
1 TATTTTT
8009730 AAATTATTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTTTTTTAAATATTATTAT
Found at i:8009717 original size:19 final size:19
Alignment explanation
Indices: 8009695--8009733 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
8009685 TTTTCAAAAT
*
8009695 TATTATTATTATTTTTAAA
1 TATTATTATAATTTTTAAA
*
8009714 TATTTTTATAATTTTTAAA
1 TATTATTATAATTTTTAAA
8009733 T
1 T
8009734 TATTTGATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTATTATAATTTTTAAA
Found at i:8010736 original size:18 final size:18
Alignment explanation
Indices: 8010713--8010756 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
8010703 ATTGCTTCTG
8010713 AAAAATACTTTTGAA-ATA
1 AAAAATA-TTTTGAAGATA
*
8010731 AAAAATATTTTTAAGAT-
1 AAAAATATTTTGAAGATA
8010748 AAAAATATT
1 AAAAATATT
8010757 GTTAAACAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (18 bp):
AAAAATATTTTGAAGATA
Found at i:8014961 original size:12 final size:12
Alignment explanation
Indices: 8014944--8014974 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
8014934 CAAAAAATAT
8014944 AAAAAATTATAA
1 AAAAAATTATAA
8014956 AAAAAATTATAA
1 AAAAAATTATAA
8014968 AAAAAAT
1 AAAAAAT
8014975 ATTTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAAATTATAA
Found at i:8015221 original size:2 final size:2
Alignment explanation
Indices: 8015214--8015244 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8015204 TATGGGCTTT
8015214 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 T
8015245 TTACTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8016170 original size:16 final size:16
Alignment explanation
Indices: 8016149--8016180 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8016139 TTGATCAAGG
8016149 GATCGACTCATTTCAT
1 GATCGACTCATTTCAT
8016165 GATCGACTCATTTCAT
1 GATCGACTCATTTCAT
8016181 TAAATGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (16 bp):
GATCGACTCATTTCAT
Found at i:8030227 original size:27 final size:26
Alignment explanation
Indices: 8030172--8030227 Score: 60
Period size: 26 Copynumber: 2.1 Consensus size: 26
8030162 TCTCATCACA
*
8030172 ATTTTACCTTCGATAAAATTATGACG
1 ATTTTACCTTCGATAAAATTATGAAG
* *
8030198 ATTTTACCCTT-GGTAAAATTTTGAGAG
1 ATTTTA-CCTTCGATAAAATTATGA-AG
8030225 ATT
1 ATT
8030228 ATGTTTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.41
Consensus pattern (26 bp):
ATTTTACCTTCGATAAAATTATGAAG
Found at i:8033235 original size:41 final size:41
Alignment explanation
Indices: 8033178--8033312 Score: 200
Period size: 41 Copynumber: 3.3 Consensus size: 41
8033168 CCGAGTTATA
8033178 AGTCTTCCTTTAAATATAATCTCATGCTCATTTCGAGTCACG
1 AGTCTTCCTTT-AATATAATCTCATGCTCATTTCGAGTCACG
*
8033220 AGTCTTCCTTTAATATAATCTCATGCTTATTTCGAGTCACG
1 AGTCTTCCTTTAATATAATCTCATGCTCATTTCGAGTCACG
* * **
8033261 AGTCTTCCTTTAATATAATCTCATACTC-TTCTCGAGACATA
1 AGTCTTCCTTTAATATAATCTCATGCTCATT-TCGAGTCACG
8033302 AGTCTTCCTTT
1 AGTCTTCCTTT
8033313 TAAACATCAA
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
40 2 0.02
41 73 0.85
42 11 0.13
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (41 bp):
AGTCTTCCTTTAATATAATCTCATGCTCATTTCGAGTCACG
Found at i:8037501 original size:2 final size:2
Alignment explanation
Indices: 8037494--8037553 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
8037484 AAGACATGTA
8037494 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
8037536 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
8037554 GTTAATTCAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8048154 original size:3 final size:3
Alignment explanation
Indices: 8048146--8048183 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
8048136 TAGTCCCCAA
*
8048146 ATT ATT ATT A-T ATGC ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT AT
8048184 GATCTCCAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.87
4 2 0.06
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:8054306 original size:23 final size:22
Alignment explanation
Indices: 8054254--8054306 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
8054244 ATTTTAATCG
8054254 AATCA-AATTAATTTTTTATTT
1 AATCATAATTAATTTTTTATTT
*
8054275 AATTTATAATTAATTTTATT-TTT
1 AA-TCATAATTAATTTT-TTATTT
8054298 ATATCATAA
1 A-ATCATAA
8054307 AAATAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 2 0.08
22 2 0.08
23 19 0.73
24 3 0.12
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (22 bp):
AATCATAATTAATTTTTTATTT
Found at i:8054369 original size:17 final size:16
Alignment explanation
Indices: 8054347--8054380 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
8054337 AACAACTTAA
8054347 AATTTTATATAAGAAAT
1 AATTTTATATAA-AAAT
*
8054364 AATTTTTTATAAAAAT
1 AATTTTATATAAAAAT
8054380 A
1 A
8054381 CTATATATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
AATTTTATATAAAAAT
Found at i:8055442 original size:89 final size:88
Alignment explanation
Indices: 8055297--8055638 Score: 395
Period size: 90 Copynumber: 3.8 Consensus size: 88
8055287 GAGACGGTTT
* *
8055297 AAGTACCCAATTGAGTGCAAAAA-AAAAATTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTAAG
1 AAGTACCCAATTGAGTG-AAAAATAAAAA-CAGTGGCTTAATTGCTTTTTTTGAAAAAGTTTAAG
*
8055361 GGTCTTTTTATCCATTTTGAAAGTTG
64 GG-CTTTTTATACATTTTGAAAGTTG
*
8055387 AAGTACCCAATTGAGTGAAAAATAAAAACAGTGGCTTTATTGCTTTTTTTGAAAAAGTTTAAGGG
1 AAGTACCCAATTGAGTGAAAAATAAAAACAGTGGCTTAATTGCTTTTTTTGAAAAAGTTTAAGGG
*
8055452 CTTTTTTGATTCATTTTGAAAGTTG
66 C-TTTTT-ATACATTTTGAAAGTTG
* * * *
8055477 AAGTACTCAATTGAGTAAAAAATAAAAACAGTGGCTTAATTGCTTTTTTTGAAAAAGTTTGATGA
1 AAGTACCCAATTGAGTGAAAAATAAAAACAGTGGCTTAATTGCTTTTTTTGAAAAAGTTT-AAGG
* * * * *
8055542 CCTTTCTGATACATATAGAAAGTTC
65 GCTTT-TTATACATTTTGAAAGTTG
* * ** *
8055567 AAGTACCCAATTGAGTGCAAAATAAAAGCACG-GGCTTAATTTTTTTTTTTTGAAACAA-TTTGA
1 AAGTACCCAATTGAGTGAAAAATAAAAACA-GTGGCTTAA-TTGCTTTTTTTGAAA-AAGTTTAA
8055630 GGG-TTTTTA
63 GGGCTTTTTA
8055639 CACCCTTAAA
Statistics
Matches: 218, Mismatches: 26, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
88 3 0.01
89 47 0.22
90 145 0.67
91 21 0.10
92 2 0.01
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (88 bp):
AAGTACCCAATTGAGTGAAAAATAAAAACAGTGGCTTAATTGCTTTTTTTGAAAAAGTTTAAGGG
CTTTTTATACATTTTGAAAGTTG
Found at i:8057928 original size:5 final size:5
Alignment explanation
Indices: 8057918--8057951 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
8057908 CTCTTTAACA
8057918 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTC
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTC
8057952 ATTGATTACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:8063009 original size:16 final size:17
Alignment explanation
Indices: 8062978--8063010 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8062968 TTTATACCTT
8062978 TCGTAAATACATTAAATA
1 TCGTAAATA-ATTAAATA
8062996 TCGTAAAT-ATTAAAT
1 TCGTAAATAATTAAAT
8063011 TTAGTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (17 bp):
TCGTAAATAATTAAATA
Found at i:8064418 original size:26 final size:25
Alignment explanation
Indices: 8064366--8064418 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
8064356 CAATTATCTT
* * *
8064366 AATTAGAGTGACTAAATTGAAAAAA
1 AATTAAAGTGACAAAATAGAAAAAA
*
8064391 AATTAAAGTGACCAAAATAGAAATAA
1 AATTAAAGTGA-CAAAATAGAAAAAA
8064417 AA
1 AA
8064419 CTATTTTAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.60, C:0.06, G:0.13, T:0.21
Consensus pattern (25 bp):
AATTAAAGTGACAAAATAGAAAAAA
Found at i:8067518 original size:16 final size:16
Alignment explanation
Indices: 8067497--8067549 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
8067487 GAATTGATTA
8067497 TAAATTTATTTAAATT
1 TAAATTTATTTAAATT
* *
8067513 TAAATTTGTTTTGAATT
1 TAAATTT-ATTTAAATT
**
8067530 TAAATTTAAGTAAATT
1 TAAATTTATTTAAATT
8067546 TAAA
1 TAAA
8067550 ATGGCATTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 16 0.53
17 14 0.47
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (16 bp):
TAAATTTATTTAAATT
Found at i:8067529 original size:27 final size:28
Alignment explanation
Indices: 8067461--8067531 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 28
8067451 ATTAAAATTT
* *
8067461 TTGATTTTTGAATTTATATTAAGTTTGAA
1 TTGA-TTTTGAATTTATATTAAATTTAAA
* *
8067490 TTGATTATAAATTTAT-TTAAATTTAAA
1 TTGATTTTGAATTTATATTAAATTTAAA
8067517 TTTG-TTTTGAATTTA
1 -TTGATTTTGAATTTA
8067532 AATTTAAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 18 0.51
28 13 0.37
29 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (28 bp):
TTGATTTTGAATTTATATTAAATTTAAA
Found at i:8069528 original size:30 final size:30
Alignment explanation
Indices: 8069491--8069652 Score: 119
Period size: 29 Copynumber: 5.5 Consensus size: 30
8069481 CCTAAACTGT
*
8069491 TCAAAAATTGTATTTTGACCCTCGAACTTC
1 TCAAAAATTATATTTTGACCCTCGAACTTC
* * * *
8069521 TCCAAAATTACATTTTTGACCC-CAAAATT-
1 TCAAAAATTATA-TTTTGACCCTCGAACTTC
8069550 TCTAAAAATTATATTTT-ACCCTCGAACTTC
1 TC-AAAAATTATATTTTGACCCTCGAACTTC
*
8069580 -CAAAAATTCCAT-TTTTG-CCCCCGAAC-TC
1 TCAAAAATT--ATATTTTGACCCTCGAACTTC
* **
8069608 -CTAAAATTCCAT-TTTTGACCCTAAAACTTC
1 TCAAAAATT--ATATTTTGACCCTCGAACTTC
8069638 -CAAAAATTATATTTT
1 TCAAAAATTATATTTT
8069653 CCCCCAAACT
Statistics
Matches: 107, Mismatches: 15, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
28 31 0.29
29 34 0.32
30 33 0.31
31 9 0.08
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (30 bp):
TCAAAAATTATATTTTGACCCTCGAACTTC
Found at i:8069585 original size:28 final size:29
Alignment explanation
Indices: 8069492--8069652 Score: 127
Period size: 28 Copynumber: 5.5 Consensus size: 29
8069482 CTAAACTGTT
*
8069492 CAAAAATTGTATTTTGACCCTCGAACTTC
1 CAAAAATTATATTTTGACCCTCGAACTTC
* * * *
8069521 TCCAAAATTACATTTTTGACCC-CAAAATTTC
1 -CAAAAATTATA-TTTTGACCCTC-GAACTTC
*
8069552 TAAAAATTATATTTT-ACCCTCGAACTTC
1 CAAAAATTATATTTTGACCCTCGAACTTC
*
8069580 CAAAAATTCCAT-TTTTG-CCCCCGAAC-TC
1 CAAAAATT--ATATTTTGACCCTCGAACTTC
* **
8069608 CTAAAATTCCAT-TTTTGACCCTAAAACTTC
1 CAAAAATT--ATATTTTGACCCTCGAACTTC
8069638 CAAAAATTATATTTT
1 CAAAAATTATATTTT
8069653 CCCCCAAACT
Statistics
Matches: 105, Mismatches: 17, Indels: 19
0.74 0.12 0.13
Matches are distributed among these distances:
28 36 0.34
29 27 0.26
30 28 0.27
31 14 0.13
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (29 bp):
CAAAAATTATATTTTGACCCTCGAACTTC
Found at i:8069629 original size:58 final size:57
Alignment explanation
Indices: 8069503--8069684 Score: 194
Period size: 56 Copynumber: 3.2 Consensus size: 57
8069493 AAAAATTGTA
* * * *
8069503 TTTTGACCCTCGAACTTCTCCAAAATTACATTTTTGACCCCAAAATTTCTAAAAATT--AT
1 TTTTGACCCTCGAACTTC-CAAAAATT-CATTTTTG-CCCCCAAACTCCT-AAAATTCCAT
*
8069562 ATTTT-ACCCTCGAACTTCCAAAAATTCCATTTTTGCCCCCGAACTCCTAAAATTCCAT
1 -TTTTGACCCTCGAACTTCCAAAAATT-CATTTTTGCCCCCAAACTCCTAAAATTCCAT
**
8069620 TTTTGACCCTAAAACTTCCAAAAATT-ATATTTT-CCCCCAAACTCCTAAAATTCCAT
1 TTTTGACCCTCGAACTTCCAAAAATTCAT-TTTTGCCCCCAAACTCCTAAAATTCCAT
*
8069676 TTTTAACCC
1 TTTTGACCC
8069685 AGAAACTCCT
Statistics
Matches: 108, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
56 38 0.35
57 17 0.16
58 36 0.33
59 13 0.12
60 4 0.04
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (57 bp):
TTTTGACCCTCGAACTTCCAAAAATTCATTTTTGCCCCCAAACTCCTAAAATTCCAT
Found at i:8069699 original size:29 final size:29
Alignment explanation
Indices: 8069582--8069708 Score: 113
Period size: 29 Copynumber: 4.4 Consensus size: 29
8069572 CGAACTTCCA
* *
8069582 AAAATTCCATTTTTGCCCCCG-AACTCCT
1 AAAATTCCATTTTTGACCCAGAAACTCCT
*
8069610 AAAATTCCATTTTTGACCCTA-AAACTTCCA
1 AAAATTCCATTTTTGACCC-AGAAAC-TCCT
**
8069640 AAAATT--ATATTTT--CCCCCAAACTCCT
1 AAAATTCCAT-TTTTGACCCAGAAACTCCT
*
8069666 AAAATTCCATTTTTAACCCAGAAACTCCT
1 AAAATTCCATTTTTGACCCAGAAACTCCT
*
8069695 GAAATTACCATTTT
1 AAAATT-CCATTTT
8069709 ACCCCGAAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
26 9 0.11
27 11 0.14
28 22 0.27
29 23 0.28
30 16 0.20
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.34
Consensus pattern (29 bp):
AAAATTCCATTTTTGACCCAGAAACTCCT
Done.