Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 104 of 187
Found at i:30847617 original size:16 final size:16
Alignment explanation
Indices: 30847554--30847618 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
30847544 GTCCAACTGC
30847554 AAAA-AAAAA-AAAGA
1 AAAAGAAAAAGAAAGA
* * *
30847568 GAGAGAAAAAGGAAGA
1 AAAAGAAAAAGAAAGA
* *
30847584 AAAGGAAAAA-AGAGA
1 AAAAGAAAAAGAAAGA
*
30847599 AAAAGAAAAAGAAACA
1 AAAAGAAAAAGAAAGA
30847615 AAAA
1 AAAA
30847619 ATGCCCGAAT
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
14 2 0.05
15 17 0.46
16 18 0.49
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGAAAGA
Found at i:30848054 original size:19 final size:19
Alignment explanation
Indices: 30848030--30848240 Score: 106
Period size: 19 Copynumber: 11.2 Consensus size: 19
30848020 GTAATTTATC
*
30848030 AAAAATTTCTTGTTTTCAA
1 AAAAATTTCGTGTTTTCAA
30848049 AAAAATTTCGTG-TTTC-A
1 AAAAATTTCGTGTTTTCAA
*
30848066 AAAATTTTCGTG-TTTCAA
1 AAAAATTTCGTGTTTTCAA
*
30848084 AAAATTTCTCGTG-TTT-AA
1 AAAAATT-TCGTGTTTTCAA
*
30848102 AAAATTTTCGTGTTTTTC-A
1 AAAAATTTCGTG-TTTTCAA
* *
30848121 AAAATTTTCGTG-ATTCAA
1 AAAAATTTCGTGTTTTCAA
*** *
30848139 AATTTTCGTGTTTTTGTGTTTTC-A
1 AA------AAATTTCGTGTTTTCAA
30848163 AAAAATTCTCGTG-TTTC-A
1 AAAAATT-TCGTGTTTTCAA
* *
30848181 AAAATTTTTGTG-TTTCAA
1 AAAAATTTCGTGTTTTCAA
*
30848199 AAAAATTTC-TCATGTTTC-A
1 AAAAATTTCGT-GT-TTTCAA
*
30848218 AAAATTTTCGTGTTTTCAA
1 AAAAATTTCGTGTTTTCAA
30848237 AAAA
1 AAAA
30848241 TTATGGTATT
Statistics
Matches: 154, Mismatches: 18, Indels: 40
0.73 0.08 0.19
Matches are distributed among these distances:
17 33 0.21
18 49 0.32
19 54 0.35
20 5 0.03
24 10 0.06
25 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (19 bp):
AAAAATTTCGTGTTTTCAA
Found at i:30848159 original size:43 final size:44
Alignment explanation
Indices: 30848106--30848195 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 44
30848096 GTTTAAAAAA
*
30848106 TTTTCGTGTTTTTC-AAAAATTTTCGTGATTC-AAAATTTTCGTG
1 TTTTCGTG-TTTTCAAAAAATTCTCGTGATTCAAAAATTTTCGTG
* * *
30848149 TTTTTGTGTTTTCAAAAAATTCTCGTGTTTCAAAAATTTTTGTG
1 TTTTCGTGTTTTCAAAAAATTCTCGTGATTCAAAAATTTTCGTG
30848193 TTT
1 TTT
30848196 CAAAAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
42 5 0.12
43 22 0.54
44 14 0.34
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.53
Consensus pattern (44 bp):
TTTTCGTGTTTTCAAAAAATTCTCGTGATTCAAAAATTTTCGTG
Found at i:30848166 original size:79 final size:81
Alignment explanation
Indices: 30848070--30848234 Score: 219
Period size: 79 Copynumber: 2.1 Consensus size: 81
30848060 GTTTCAAAAA
* *** *
30848070 TTTTCGTGTTTCAAAAAATTTCTCGTGTTTAAAAAATTTTCGTGTTTTTCAAAAATTT-TCGTGA
1 TTTTCGTGTTTCAAAAAAATTCTCGTGTTTAAAAAATTTTCGTGTTTCAAAAAAATTTCTCATGA
30848134 TTC-AAAATTTTCGTG
66 TTCAAAAATTTTCGTG
* * *
30848149 TTTTTGTGTTTTC-AAAAAATTCTCGTGTTTCAAAAATTTTTGTGTTTCAAAAAAATTTCTCATG
1 TTTTCGTG-TTTCAAAAAAATTCTCGTGTTTAAAAAATTTTCGTGTTTCAAAAAAATTTCTCATG
*
30848213 TTTCAAAAATTTTCGTG
65 ATTCAAAAATTTTCGTG
30848230 TTTTC
1 TTTTC
30848235 AAAAAATTAT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 46 0.63
80 11 0.15
81 16 0.22
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.49
Consensus pattern (81 bp):
TTTTCGTGTTTCAAAAAAATTCTCGTGTTTAAAAAATTTTCGTGTTTCAAAAAAATTTCTCATGA
TTCAAAAATTTTCGTG
Found at i:30848241 original size:19 final size:18
Alignment explanation
Indices: 30848030--30848256 Score: 182
Period size: 18 Copynumber: 13.2 Consensus size: 18
30848020 GTAATTTATC
*
30848030 AAAAA-TTTCTTGTTTTCA
1 AAAAATTTTCGTG-TTTCA
*
30848048 AAAAAATTTCGTGTTTC-
1 AAAAATTTTCGTGTTTCA
30848065 AAAAATTTTCGTGTTTCA
1 AAAAATTTTCGTGTTTCA
30848083 AAAAATTTCTCGTGTTT-A
1 AAAAATTT-TCGTGTTTCA
30848101 AAAAATTTTCGTGTTTTTC-
1 AAAAATTTTCGTG--TTTCA
*
30848120 AAAAATTTTCGTGATTC-
1 AAAAATTTTCGTGTTTCA
30848137 -AAAATTTTCGTGTTT--
1 AAAAATTTTCGTGTTTCA
*
30848152 -----TTGT-GT-TTTCA
1 AAAAATTTTCGTGTTTCA
*
30848163 AAAAATTCTCGTGTTTC-
1 AAAAATTTTCGTGTTTCA
*
30848180 AAAAATTTTTGTGTTTCAA
1 AAAAATTTTCGTGTTTC-A
*
30848199 AAAAATTTCTCATGTTTC-
1 AAAAATTT-TCGTGTTTCA
30848217 AAAAATTTTCGTGTTTTCA
1 AAAAATTTTCGTG-TTTCA
* * *
30848236 AAAAATTATGGTATTTCA
1 AAAAATTTTCGTGTTTCA
30848254 AAA
1 AAA
30848257 TTCTCTTGTT
Statistics
Matches: 175, Mismatches: 14, Indels: 40
0.76 0.06 0.17
Matches are distributed among these distances:
9 3 0.02
10 2 0.01
11 3 0.02
16 17 0.10
17 45 0.26
18 50 0.29
19 48 0.27
20 7 0.04
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTCA
Found at i:30848717 original size:9 final size:9
Alignment explanation
Indices: 30848703--30848728 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
30848693 ACGCGCATTG
30848703 TCAAAATTC
1 TCAAAATTC
30848712 TCAAAATTC
1 TCAAAATTC
30848721 TCAAAATT
1 TCAAAATT
30848729 TCTTGTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (9 bp):
TCAAAATTC
Found at i:30856747 original size:77 final size:75
Alignment explanation
Indices: 30856537--30856975 Score: 569
Period size: 75 Copynumber: 5.8 Consensus size: 75
30856527 CATATTTTTC
* * * *
30856537 AATTTCTGTTTTTCAAAAAATCAACTCATATTGTGAGAGTTGAGTTGAGCCTCCGGTCACATACC
1 AATTTCTGTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATACC
30856602 GAGGTATCTTT
65 GAGGTATCTTT
* * *
30856613 AATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGT-ACGTTGAGCCTCAGGTCACATACC
1 AATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGA-GTTGAGCCTCGGGTCACATACC
30856677 GAGGTATCTTT
65 GAGGTATCTTT
* * *
30856688 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGC
1 AATTTCTGTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATAC
30856753 CGAGGTATCTTT
64 CGAGGTATCTTT
* * ** *
30856765 AATTTCTGTTTTTGAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGTCATGTGCCG
1 AATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCG
*
30856830 AGTTAT-TTT
66 AGGTATCTTT
* * * *
30856839 AAATTTCTATTTTTTTCAAAAATCGACTCATAATGCGAGAGGTGAGTTGAGCGTCGGGTCACACA
1 -AATTTC--TGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATA
30856904 CCGAGGTAT-TTT
63 CCGAGGTATCTTT
* * * *
30856916 CAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGATGTGAGTTGAACCTCGGGTCAC
1 -AATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCAC
30856976 GCGCTGAGGT
Statistics
Matches: 325, Mismatches: 31, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
74 4 0.01
75 175 0.54
76 13 0.04
77 132 0.41
78 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (75 bp):
AATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCG
AGGTATCTTT
Found at i:30856831 original size:152 final size:151
Alignment explanation
Indices: 30856532--30857004 Score: 612
Period size: 152 Copynumber: 3.1 Consensus size: 151
30856522 AGAATCATAT
* * * * *
30856532 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGTGAGAGTTGAGTTGAGCCTCCGGTCAC
1 TTTTAAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* *
30856597 ATACCGAGGTATCTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGT-ACGTTGAG
66 ATACCGAGGTATCTTTAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGA-GTTGAG
* * *
30856661 CCTCAGGTCACATACCGAGGTA
130 CCTCGGGTCACGTGCCGAGGTA
* *
30856683 TCTTT-AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTC
1 T-TTTAAATTTCTATTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
* *
30856747 ACATGCCGAGGTATCTTTAATTTCTGTTTTTGAAAAATCAACTCATAATGCGAGAGGTGAGTTGA
64 ACATACCGAGGTATCTTTAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGA
* * *
30856812 GCCTTGGGTCATGTGCCGAGTTA
129 GCCTCGGGTCACGTGCCGAGGTA
* * *
30856835 TTTTAAATTTCTATTTTTTTC-AAAAATCGACTCATAATGCGAGAGGTGAGTTGAGCGTCGGGTC
1 TTTTAAATTTCTA--TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
* * * *
30856899 ACACACCGAGGTAT-TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGATGTGAGTTG
64 ACATACCGAGGTATCTTT-AATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTG
* * *
30856963 AACCTCGGGTCACGCGCTGAGGTA
128 AGCCTCGGGTCACGTGCCGAGGTA
*
30856987 TTTTCAATTTCTATTTTT
1 TTTTAAATTTCTATTTTT
30857005 TAAACAAGAA
Statistics
Matches: 283, Mismatches: 32, Indels: 15
0.86 0.10 0.05
Matches are distributed among these distances:
150 5 0.02
151 21 0.07
152 250 0.88
153 1 0.00
154 6 0.02
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (151 bp):
TTTTAAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
ATACCGAGGTATCTTTAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGC
CTCGGGTCACGTGCCGAGGTA
Found at i:30857376 original size:30 final size:30
Alignment explanation
Indices: 30857319--30857418 Score: 89
Period size: 30 Copynumber: 3.3 Consensus size: 30
30857309 CAAAAAATAT
30857319 AAATTACATTTT-AGCCCTTAAAC-TTTTTAA
1 AAATTACATTTTGA-CCCTT-AACTTTTTTAA
*
30857349 AAATTACATTTTGACCCTTAACTTTTTTCTA
1 AAATTACATTTTGACCCTTAACTTTTTT-AA
* * * * **
30857380 AATTTACATCTTGACCCCTAA-TATTTTGT
1 AAATTACATTTTGACCCTTAACTTTTTTAA
30857409 AAATTACATT
1 AAATTACATT
30857419 CAGGCCCCTA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
29 11 0.19
30 27 0.47
31 20 0.34
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.45
Consensus pattern (30 bp):
AAATTACATTTTGACCCTTAACTTTTTTAA
Found at i:30857394 original size:31 final size:29
Alignment explanation
Indices: 30857349--30857417 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 29
30857339 AACTTTTTAA
* * *
30857349 AAATTACATTTTGACCCTTAACTTTTTTCT
1 AAATTACATCTTGACCCCTAA-TATTTTCT
*
30857379 AAATTTACATCTTGACCCCTAATATTTTGT
1 AAA-TTACATCTTGACCCCTAATATTTTCT
30857409 AAATTACAT
1 AAATTACAT
30857418 TCAGGCCCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.18
30 12 0.35
31 16 0.47
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (29 bp):
AAATTACATCTTGACCCCTAATATTTTCT
Found at i:30858068 original size:28 final size:29
Alignment explanation
Indices: 30858013--30858067 Score: 87
Period size: 27 Copynumber: 1.9 Consensus size: 29
30858003 GAAGAGAAAT
30858013 AAAGGAGAAAGAAAGAAAAAAAGAAAAAGG
1 AAAGGAG-AAGAAAGAAAAAAAGAAAAAGG
30858043 AAAGGAG-AGAAAG-AAAAAAGAAAAA
1 AAAGGAGAAGAAAGAAAAAAAGAAAAA
30858068 AAGAGAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 12 0.48
28 6 0.24
30 7 0.28
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (29 bp):
AAAGGAGAAGAAAGAAAAAAAGAAAAAGG
Found at i:30858068 original size:35 final size:34
Alignment explanation
Indices: 30858018--30858098 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 34
30858008 GAAATAAAGG
30858018 AGAAAGAAAGAAAAAAAGA-AAAAGGAAAGGAGAGAA
1 AGAAA-AAAGAAAAAAAGAGAAAAGG-AAGGA-AGAA
* *
30858054 AGAAAAAAGAAAAAAAGAGAAGAGGAAGGAAGAG
1 AGAAAAAAGAAAAAAAGAGAAAAGGAAGGAAGAA
30858088 AGAAAAGAAGA
1 AGAAAA-AAGA
30858099 GAGGAGAGAC
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
34 9 0.22
35 22 0.54
36 10 0.24
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (34 bp):
AGAAAAAAGAAAAAAAGAGAAAAGGAAGGAAGAA
Found at i:30858561 original size:7 final size:7
Alignment explanation
Indices: 30858546--30858601 Score: 60
Period size: 7 Copynumber: 7.7 Consensus size: 7
30858536 GTCTAACTAC
30858546 AAAAA-A
1 AAAAAGA
30858552 AAAAAGA
1 AAAAAGA
*
30858559 AAAAGGA
1 AAAAAGA
30858566 AGAAAAGGA
1 A-AAAA-GA
*
30858575 AGAAAGA
1 AAAAAGA
30858582 AAAAAGA
1 AAAAAGA
30858589 GAAAAAGA
1 -AAAAAGA
30858597 AAAAA
1 AAAAA
30858602 AACAAAAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
6 5 0.12
7 21 0.50
8 13 0.31
9 3 0.07
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:30858586 original size:15 final size:14
Alignment explanation
Indices: 30858546--30858601 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
30858536 GTCTAACTAC
30858546 AAAAA-AAAAAA-G
1 AAAAAGAAAAAAGG
30858558 AAAAAGGAAGAAAAGG
1 AAAAA-GAA-AAAAGG
30858574 AAGAAAGAAAAAAGAG
1 AA-AAAGAAAAAAG-G
30858590 AAAAAGAAAAAA
1 AAAAAGAAAAAA
30858602 AACAAAAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
12 5 0.13
14 2 0.05
15 19 0.50
16 9 0.24
17 3 0.08
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAGG
Found at i:30858608 original size:23 final size:24
Alignment explanation
Indices: 30858549--30858609 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 24
30858539 TAACTACAAA
*
30858549 AAAAAAAAGAAAAAGGAAGAAAAGG
1 AAAAAAAA-AAAAAGGAAGAAAAAG
* *
30858574 AAGAAAGAAAAAA-G-AGAAAAAG
1 AAAAAAAAAAAAAGGAAGAAAAAG
30858596 AAAAAAAACAAAAA
1 AAAAAAAA-AAAAA
30858610 AGCCCCGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
22 13 0.43
23 6 0.20
24 5 0.17
25 6 0.20
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAAAAAGGAAGAAAAAG
Found at i:30858609 original size:16 final size:16
Alignment explanation
Indices: 30858549--30858611 Score: 65
Period size: 16 Copynumber: 4.0 Consensus size: 16
30858539 TAACTACAAA
*
30858549 AAAAAAAAGAAAAAGG
1 AAAAAAAAGAAAAAAG
* * *
30858565 AAGAAAAGGAAGAAAG
1 AAAAAAAAGAAAAAAG
*
30858581 AAAAAAGAG-AAAAAG
1 AAAAAAAAGAAAAAAG
*
30858596 AAAAAAAACAAAAAAG
1 AAAAAAAAGAAAAAAG
30858612 CCCCGAATTG
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
15 12 0.33
16 24 0.67
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAAG
Found at i:30858817 original size:28 final size:29
Alignment explanation
Indices: 30858753--30858818 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
30858743 TACTAATAAA
30858753 ACCTTTTTTTCAAAATTTACCGAAATGGG
1 ACCTTTTTTTCAAAATTTACCGAAATGGG
* * * *
30858782 CCCATTTTTT-AATTATTTACCGGAAT-GG
1 ACCTTTTTTTCAA-AATTTACCGAAATGGG
30858810 ACCTTTTTT
1 ACCTTTTTT
30858819 CGGGAAATCG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 11 0.37
29 19 0.63
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (29 bp):
ACCTTTTTTTCAAAATTTACCGAAATGGG
Found at i:30859353 original size:125 final size:124
Alignment explanation
Indices: 30859013--30859390 Score: 576
Period size: 126 Copynumber: 3.0 Consensus size: 124
30859003 TTAGGGTTTT
* * * *
30859013 TAGGTCCTGGAATAAATAATTTTGAGTTGACGTTTCTAATCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCCCGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
*
30859078 AGGATGCTATTTGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
66 AGGATGCTATTTGAGAAGAATTTGTG-AATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *** * * * *
30859138 TAGGTCACGGAAGAAATAATTATTTTTTTGACATTTTTGAGCAAATAGTATAAAATTGCTTGTAG
1 TAGGTCCCGGAAGAAATAATT-TTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAG
30859203 CAGGATGCTATTTGAGAAGAATTTGTGATATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
65 CAGGATGCTATTTGAGAAGAATTTGTGA-ATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
*
30859264 TAGGTCCCGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTGTAAAATCGCTTCTAGC
1 TAGGTCCCGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
** *
30859329 AGGATGCTATTTGAGAAGAATTTGTGAATCGCGCTGTCGTGGACGCGATTTTGCTACAG
66 AGGATGCTATTTGAGAAGAATTTGTGAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
30859388 TAG
1 TAG
30859391 CATGTTTGGG
Statistics
Matches: 226, Mismatches: 25, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
124 32 0.14
125 82 0.36
126 112 0.50
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (124 bp):
TAGGTCCCGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
AGGATGCTATTTGAGAAGAATTTGTGAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
Found at i:30860229 original size:24 final size:24
Alignment explanation
Indices: 30860145--30860233 Score: 74
Period size: 24 Copynumber: 3.5 Consensus size: 24
30860135 ATTAGGGTTT
30860145 TTAGGGTTTTTAATTAAATTAGGTTA
1 TTAGGGTTTTTAATTAAATTAGG--A
* **
30860171 GGGTTAGGGTATTTAATTAGGGTTTAGG-
1 ---TTAGGGTTTTTAATTA--AATTAGGA
30860199 TTA-GGTTTTTAATTAAATTAGGA
1 TTAGGGTTTTTAATTAAATTAGGA
30860222 TTAGGGTTTTTA
1 TTAGGGTTTTTA
30860234 GGGTTTTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
22 5 0.10
23 3 0.06
24 19 0.38
25 3 0.06
29 15 0.30
31 5 0.10
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (24 bp):
TTAGGGTTTTTAATTAAATTAGGA
Found at i:30860244 original size:86 final size:87
Alignment explanation
Indices: 30860107--30860454 Score: 560
Period size: 86 Copynumber: 4.0 Consensus size: 87
30860097 CTACATCCAA
*
30860107 TTAGGTTAGGGTTTTTAATTAAATTAGGATTAGGGTTTTTAGGGTTTTTAATTAAATTAGGTTAG
1 TTAGGTTAGGGTTTTTAATTAAATTAGGATTAGGGTTTTTAGGGTTTTAAATTAAATTAGGTTAG
30860172 GGTTAGGGTATTTAATTAGGGT
66 GGTTAGGGTATTTAATTAGGGT
*
30860194 TTAGGTTA-GGTTTTTAATTAAATTAGGATTAGGGTTTTTAGGGTTTTTAATTAAATTAGGTTAG
1 TTAGGTTAGGGTTTTTAATTAAATTAGGATTAGGGTTTTTAGGGTTTTAAATTAAATTAGGTTAG
30860258 GGTTAGGGTATTTAATTA-GGT
66 GGTTAGGGTATTTAATTAGGGT
30860279 TTAGGTTAGGGTTTTTAATTAAATTAGGATTAGGG-TTTTAGGGTTTTAAATTAAATTAGGTTAG
1 TTAGGTTAGGGTTTTTAATTAAATTAGGATTAGGGTTTTTAGGGTTTTAAATTAAATTAGGTTAG
*
30860343 GGTTAGGGT-TTTAAATTAGGAT
66 GGTTAGGGTATTT-AATTAGGGT
** *
30860365 TACTATTTTTAAGGTTTTTAATTAAATTAGGATTAGGGTTTTTAGGGTTTTAAATTAAATTAGGT
1 T--TA-GGTTAGGGTTTTTAATTAAATTAGGATTAGGGTTTTTAGGGTTTTAAATTAAATTAGGT
* *
30860430 TAAGGTTAGGGTTTTTAATTAGGGT
63 TAGGGTTAGGGTATTTAATTAGGGT
30860455 ATTTAATTAG
Statistics
Matches: 246, Mismatches: 7, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
84 3 0.01
85 53 0.22
86 103 0.42
87 8 0.03
88 2 0.01
89 29 0.12
90 45 0.18
91 3 0.01
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (87 bp):
TTAGGTTAGGGTTTTTAATTAAATTAGGATTAGGGTTTTTAGGGTTTTAAATTAAATTAGGTTAG
GGTTAGGGTATTTAATTAGGGT
Found at i:30860278 original size:24 final size:23
Alignment explanation
Indices: 30860247--30860318 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 23
30860237 TTTTTAATTA
30860247 AATTAGGTTAGGGTTAGGGTATTT
1 AATTAGGTTAGGGTTAGGGT-TTT
30860271 AATTAGGTTTA-GGTTAGGGTTTTT
1 AATTAGG-TTAGGGTTAGGG-TTTT
** *
30860295 AATTAAATTAGGATTAGGGTTTT
1 AATTAGGTTAGGGTTAGGGTTTT
30860318 A
1 A
30860319 GGGTTTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
23 8 0.19
24 30 0.71
25 4 0.10
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (23 bp):
AATTAGGTTAGGGTTAGGGTTTT
Found at i:30860446 original size:38 final size:33
Alignment explanation
Indices: 30860353--30860436 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 33
30860343 GGTTAGGGTT
*** *
30860353 TTAAATTAGGATTACTATTTTTAAGGTTTTTAA
1 TTAAATTAGGATTAGGGTTTTTAAGGTTTTAAA
*
30860386 TTAAATTAGGATTAGGGTTTTTAGGGTTTTAAA
1 TTAAATTAGGATTAGGGTTTTTAAGGTTTTAAA
*
30860419 TTAAATTAGG-TTAAGGTT
1 TTAAATTAGGATTAGGGTT
30860437 AGGGTTTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
32 7 0.16
33 38 0.84
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (33 bp):
TTAAATTAGGATTAGGGTTTTTAAGGTTTTAAA
Found at i:30860453 original size:13 final size:13
Alignment explanation
Indices: 30860435--30860637 Score: 69
Period size: 13 Copynumber: 14.8 Consensus size: 13
30860425 TAGGTTAAGG
30860435 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
*
30860448 TTAGGGTATTTAA
1 TTAGGGTTTTTAA
**
30860461 TTA-GGTTTTTGGG
1 TTAGGGTTTTT-AA
*
30860474 TTAGGGTTAGGGTTAGGGA
1 TTAGGGTT---TTTA---A
*
30860493 TAAG-GTTTTTAA
1 TTAGGGTTTTTAA
*
30860505 TTAGGGTTTTGAA
1 TTAGGGTTTTTAA
*
30860518 TTAGGGTTTAGGTTAGGG
1 TTAGGGTTT---TTA--A
30860536 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
*
30860549 TTAGGGTTTTGAA
1 TTAGGGTTTTTAA
* *
30860562 TTA--ATTTAGCTTAGGG
1 TTAGGGTTT---TTA--A
30860578 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
30860591 TTAGGG--TTTAA
1 TTAGGGTTTTTAA
****
30860602 GTTAGGG-TTAGGG
1 -TTAGGGTTTTTAA
30860615 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
30860628 TTAGGGTTTT
1 TTAGGGTTTT
30860638 AAAGTATTTT
Statistics
Matches: 138, Mismatches: 28, Indels: 48
0.64 0.13 0.22
Matches are distributed among these distances:
11 8 0.06
12 22 0.16
13 68 0.49
14 6 0.04
15 9 0.07
16 5 0.04
17 2 0.01
18 15 0.11
19 3 0.02
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (13 bp):
TTAGGGTTTTTAA
Found at i:30860522 original size:44 final size:43
Alignment explanation
Indices: 30860448--30860685 Score: 235
Period size: 44 Copynumber: 5.7 Consensus size: 43
30860438 GGGTTTTTAA
* * **
30860448 TTAGGGTATTTAATTAGGTTTTTGGGTTAGGGTTAGGGTTAGGG
1 TTAGGGTTTTTAATTAGGGTTTTGAATTAGGGTTA-GGTTAGGG
* *
30860492 ATAAGGTTTTTAATTAGGGTTTTGAATTAGGGTTTAGGTTAGGG
1 TTAGGGTTTTTAATTAGGGTTTTGAATTAGGG-TTAGGTTAGGG
** *
30860536 TTAGGGTTTTTAATTAGGGTTTTGAATTA-ATTTAGCTTAGGG
1 TTAGGGTTTTTAATTAGGGTTTTGAATTAGGGTTAGGTTAGGG
30860578 TTAGGGTTTTTAATTAGGG-TTT--A--A--GTTAGGGTTAGGG
1 TTAGGGTTTTTAATTAGGGTTTTGAATTAGGGTTA-GGTTAGGG
* * ** *
30860615 TTAGGGTTTTTAATTAGGGTTTTAAAGTA-TTTTAGGTTATGG
1 TTAGGGTTTTTAATTAGGGTTTTGAATTAGGGTTAGGTTAGGG
*
30860657 TTAGGGTTTTTAATTGGGGTATTT-AATTA
1 TTAGGGTTTTTAATTAGGGT-TTTGAATTA
30860686 AGTTAGAGTT
Statistics
Matches: 168, Mismatches: 17, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
36 3 0.02
37 27 0.16
38 3 0.02
39 1 0.01
40 1 0.01
41 3 0.02
42 60 0.36
43 6 0.04
44 61 0.36
45 3 0.02
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (43 bp):
TTAGGGTTTTTAATTAGGGTTTTGAATTAGGGTTAGGTTAGGG
Found at i:30860557 original size:57 final size:58
Alignment explanation
Indices: 30860435--30860564 Score: 158
Period size: 57 Copynumber: 2.3 Consensus size: 58
30860425 TAGGTTAAGG
* * *
30860435 TTAGGGTTTTTAATTAGGGTATTTAATTAGGTTTTTGGGTTAGGGTTAGGGTTAGGGA
1 TTAGGGTTTTTAATTAGGGTATTTAATTAGGTGTTTAGGTTAGGGTTAGGGTTAGGAA
* ***
30860493 -TAAGGTTTTTAATTAGGGT-TTTGAATTAGG-GTTTAGGTTAGGGTTAGGGTTTTTAA
1 TTAGGGTTTTTAATTAGGGTATTT-AATTAGGTGTTTAGGTTAGGGTTAGGGTTAGGAA
*
30860549 TTAGGGTTTTGAATTA
1 TTAGGGTTTTTAATTA
30860565 ATTTAGCTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
56 23 0.38
57 38 0.62
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (58 bp):
TTAGGGTTTTTAATTAGGGTATTTAATTAGGTGTTTAGGTTAGGGTTAGGGTTAGGAA
Found at i:30860583 original size:42 final size:41
Alignment explanation
Indices: 30860484--30860691 Score: 228
Period size: 42 Copynumber: 5.0 Consensus size: 41
30860474 TTAGGGTTAG
* * *
30860484 GGTTAGGGATAAGGTTTTTAATTAGGGTTTTGAATTAGGGTTTA
1 GGTTAGGGTTAGGGTTTTTAATTAGGGTTTT-AATTA--ATTTA
30860528 GGTTAGGGTTAGGGTTTTTAATTAGGGTTTTGAATTAATTTA
1 GGTTAGGGTTAGGGTTTTTAATTAGGGTTTT-AATTAATTTA
* *
30860570 GCTTAGGGTTAGGGTTTTTAATTAGGG-TTTAAGTT-A---G
1 GGTTAGGGTTAGGGTTTTTAATTAGGGTTTTAA-TTAATTTA
* *
30860607 GGTTAGGGTTAGGGTTTTTAATTAGGGTTTTAAAGTATTTTA
1 GGTTAGGGTTAGGGTTTTTAATTAGGGTTTT-AATTAATTTA
* * *
30860649 GGTTATGGTTAGGGTTTTTAATTGGGGTATTTAATTAAGTTA
1 GGTTAGGGTTAGGGTTTTTAATTAGGGT-TTTAATTAATTTA
30860691 G
1 G
30860692 AGTTTTTATT
Statistics
Matches: 142, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
37 26 0.18
38 4 0.03
39 2 0.01
40 3 0.02
41 5 0.04
42 64 0.45
43 3 0.02
44 35 0.25
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (41 bp):
GGTTAGGGTTAGGGTTTTTAATTAGGGTTTTAATTAATTTA
Found at i:30860592 original size:29 final size:30
Alignment explanation
Indices: 30860549--30860616 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
30860539 GGGTTTTTAA
30860549 TTAGGGTTTTGAATTA-ATTT-AGCTTAGGG
1 TTAGGGTTTTGAATTAGATTTAAG-TTAGGG
* *
30860578 TTAGGGTTTTTAATTAGGGTTTAAGTTAGGG
1 TTAGGGTTTTGAATTA-GATTTAAGTTAGGG
30860609 TTAGGGTT
1 TTAGGGTT
30860617 AGGGTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 15 0.44
31 17 0.50
32 2 0.06
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.46
Consensus pattern (30 bp):
TTAGGGTTTTGAATTAGATTTAAGTTAGGG
Found at i:30860593 original size:73 final size:75
Alignment explanation
Indices: 30860505--30860679 Score: 237
Period size: 79 Copynumber: 2.3 Consensus size: 75
30860495 AGGTTTTTAA
* * *
30860505 TTAGGGTTTTGAATTAGGGT-TTA-GGTTAGGGTTAGGGTTTTTAATTAGGGTTTTGAATTAATT
1 TTAGGGTTTTTAATTAGGGTATTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTAAAGTAATT
30860568 TAGCTTAGGG
66 TAGCTTAGGG
30860578 TTAGGGTTTTTAATTAGGGTTTAAGTTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTAAAGT
1 TTAGGGTTTTTAATTAGGG--T-A-TTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTAAAGT
* * *
30860643 ATTTTAGGTTATGG
62 AATTTAGCTTAGGG
*
30860657 TTAGGGTTTTTAATTGGGGTATT
1 TTAGGGTTTTTAATTAGGGTATT
30860680 TAATTAAGTT
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
73 18 0.20
75 3 0.03
76 1 0.01
77 1 0.01
78 3 0.03
79 63 0.71
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.47
Consensus pattern (75 bp):
TTAGGGTTTTTAATTAGGGTATTAGGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTAAAGTAATT
TAGCTTAGGG
Found at i:30860637 original size:12 final size:12
Alignment explanation
Indices: 30860578--30860639 Score: 54
Period size: 12 Copynumber: 5.0 Consensus size: 12
30860568 TAGCTTAGGG
30860578 TTAGGGTTTTTAA
1 TTAGGG-TTTTAA
30860591 TTAGGG-TTTAA
1 TTAGGGTTTTAA
****
30860602 GTTAGGGTTAGGG
1 -TTAGGGTTTTAA
30860615 TTAGGGTTTTTAA
1 TTAGGG-TTTTAA
30860628 TTAGGGTTTTAA
1 TTAGGGTTTTAA
30860640 AGTATTTTAG
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
11 5 0.13
12 18 0.47
13 15 0.39
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.47
Consensus pattern (12 bp):
TTAGGGTTTTAA
Found at i:30860659 original size:79 final size:79
Alignment explanation
Indices: 30860528--30860676 Score: 244
Period size: 79 Copynumber: 1.9 Consensus size: 79
30860518 TTAGGGTTTA
* *
30860528 GGTTAGGGTTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGCTTAGGGTTAGGGTTTTTAATT
1 GGTTAGGGTTAGGGTTTTTAATTAGGGTTTTAAAGTAATTTAGCTTAGGGTTAGGGTTTTTAATT
30860593 AGGGTTTAAGTTAG
66 AGGGTTTAAGTTAG
* * *
30860607 GGTTAGGGTTAGGGTTTTTAATTAGGGTTTTAAAGTATTTTAGGTTATGGTTAGGGTTTTTAATT
1 GGTTAGGGTTAGGGTTTTTAATTAGGGTTTTAAAGTAATTTAGCTTAGGGTTAGGGTTTTTAATT
*
30860672 GGGGT
66 AGGGT
30860677 ATTTAATTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 64 1.00
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (79 bp):
GGTTAGGGTTAGGGTTTTTAATTAGGGTTTTAAAGTAATTTAGCTTAGGGTTAGGGTTTTTAATT
AGGGTTTAAGTTAG
Found at i:30860729 original size:25 final size:25
Alignment explanation
Indices: 30860695--30860807 Score: 96
Period size: 25 Copynumber: 4.7 Consensus size: 25
30860685 AAGTTAGAGT
30860695 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
30860720 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *** *
30860743 --AAATAAC-TCGAAA-ATTTTTTTA
1 TTTTATTACATC-AAATAAACTTCTA
30860765 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
30860790 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
30860808 TATTTAAATA
Statistics
Matches: 66, Mismatches: 13, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
20 2 0.03
21 8 0.12
22 2 0.03
23 2 0.03
24 11 0.17
25 41 0.62
ACGTcount: A:0.42, C:0.13, G:0.01, T:0.43
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:30861905 original size:7 final size:7
Alignment explanation
Indices: 30861895--30861926 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
30861885 TTATATACAT
30861895 AATACTA
1 AATACTA
30861902 AATACTA
1 AATACTA
30861909 AATACTA
1 AATACTA
30861916 AATACTA
1 AATACTA
30861923 AATA
1 AATA
30861927 TCAATCGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:30863127 original size:11 final size:11
Alignment explanation
Indices: 30863107--30863211 Score: 65
Period size: 11 Copynumber: 9.1 Consensus size: 11
30863097 GAAATAATTT
30863107 TTGA-AGGAAA
1 TTGAGAGGAAA
30863117 TTGAGAGGAAA
1 TTGAGAGGAAA
* *
30863128 TTGAAATGAAA
1 TTGAGAGGAAA
*
30863139 TATGAGTTTGAGAGAAT
1 T-TGA----GAG-GAAA
*
30863156 TTTAGAAGGAAA
1 TTGAG-AGGAAA
30863168 TTGAGA-GAAA
1 TTGAGAGGAAA
30863178 TTTG-GAAGGAAA
1 -TTGAG-AGGAAA
30863190 TTGAGAGG-AA
1 TTGAGAGGAAA
30863200 TTGAGAGGAAA
1 TTGAGAGGAAA
30863211 T
1 T
30863212 ATTAAAAAGG
Statistics
Matches: 74, Mismatches: 8, Indels: 25
0.69 0.07 0.23
Matches are distributed among these distances:
10 19 0.26
11 30 0.41
12 16 0.22
13 2 0.03
16 3 0.04
17 4 0.05
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:30863174 original size:22 final size:22
Alignment explanation
Indices: 30863146--30863201 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
30863136 AAATATGAGT
30863146 TTGAGAGAATTTTAGAAGGAAA
1 TTGAGAGAATTTTAGAAGGAAA
* *
30863168 TTGAGAGAAATTTGGAAGGAAA
1 TTGAGAGAATTTTAGAAGGAAA
30863190 TTGAGAGGAATT
1 TTGAGA-GAATT
30863202 GAGAGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTAGAAGGAAA
Found at i:30863179 original size:10 final size:11
Alignment explanation
Indices: 30863162--30863211 Score: 61
Period size: 10 Copynumber: 4.6 Consensus size: 11
30863152 GAATTTTAGA
30863162 AGGAAATTGAG
1 AGGAAATTGAG
30863173 A-GAAATTTG-G
1 AGGAAA-TTGAG
30863183 AAGGAAATTGAG
1 -AGGAAATTGAG
30863195 AGG-AATTGAG
1 AGGAAATTGAG
30863205 AGGAAAT
1 AGGAAAT
30863212 ATTAAAAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
10 15 0.44
11 14 0.41
12 5 0.15
ACGTcount: A:0.46, C:0.00, G:0.34, T:0.20
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:30863190 original size:51 final size:51
Alignment explanation
Indices: 30863062--30863179 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 51
30863052 TTTAAAAACA
* * * *
30863062 GAAATTTAGAGAAAATTGAAATTAAATATG-GATTTGAAATAATTTTTGAAG
1 GAAATTGAGAG-AAATTGAAATGAAATATGAGATTTGAAAGAATTTTAGAAG
*
30863113 GAAATTGAGAGGAAATTGAAATGAAATATGAG-TTTGAGAGAATTTTAGAAG
1 GAAATTGAGA-GAAATTGAAATGAAATATGAGATTTGAAAGAATTTTAGAAG
30863164 GAAATTGAGAGAAATT
1 GAAATTGAGAGAAATT
30863180 TGGAAGGAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
50 6 0.10
51 52 0.87
52 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.31
Consensus pattern (51 bp):
GAAATTGAGAGAAATTGAAATGAAATATGAGATTTGAAAGAATTTTAGAAG
Found at i:30863848 original size:24 final size:25
Alignment explanation
Indices: 30863820--30863867 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
30863810 TTTTCGTAAA
*
30863820 TTATCGAAATTTCATG-TTTAAAAT
1 TTATCAAAATTTCATGTTTTAAAAT
*
30863844 TTATCAAAATTTCTTGTTTTAAAA
1 TTATCAAAATTTCATGTTTTAAAA
30863868 AAAAATTCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (25 bp):
TTATCAAAATTTCATGTTTTAAAAT
Found at i:30863874 original size:20 final size:19
Alignment explanation
Indices: 30863858--30863924 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
30863848 CAAAATTTCT
*
30863858 TGTTTTAAAAAAAAATTCG
1 TGTTTCAAAAAAAAATTCG
** *
30863877 TGTTTC--AAAAATTTTAG
1 TGTTTCAAAAAAAAATTCG
*
30863894 TGTTTCAAAAAAAATACTCG
1 TGTTTCAAAAAAAA-ATTCG
30863914 TGTTT-AAAAAA
1 TGTTTCAAAAAA
30863925 TTTCCGTGTT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
17 14 0.38
19 16 0.43
20 7 0.19
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.37
Consensus pattern (19 bp):
TGTTTCAAAAAAAAATTCG
Found at i:30863886 original size:17 final size:17
Alignment explanation
Indices: 30863866--30863943 Score: 68
Period size: 17 Copynumber: 4.4 Consensus size: 17
30863856 CTTGTTTTAA
30863866 AAAAAAATTCGTGTTTC
1 AAAAAAATTCGTGTTTC
** *
30863883 AAAAATTTTAGTGTTTC
1 AAAAAAATTCGTGTTTC
30863900 AAAAAAAATACTCGTGTTT-
1 -AAAAAAAT--TCGTGTTTC
*
30863919 AAAAAATTTCCGTGTTTTC
1 AAAAAAATT-CGTG-TTTC
30863938 AAAAAA
1 AAAAAA
30863944 TTTATGGTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
16 1 0.02
17 18 0.38
18 16 0.33
19 6 0.12
20 7 0.15
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (17 bp):
AAAAAAATTCGTGTTTC
Found at i:30863993 original size:36 final size:35
Alignment explanation
Indices: 30863847--30863994 Score: 145
Period size: 36 Copynumber: 4.1 Consensus size: 35
30863837 TTAAAATTTA
* *
30863847 TCAAAATTTCTTGTTTTAAAAAAAAAT-TCGTGTT
1 TCAAAATTTCGTGTTTTAAAAAAAATTCTCGTGTT
* * *
30863881 TCAAAAATTTTAGTGTTTCAAAAAAAATACTCGTGTT
1 TC-AAAA-TTTCGTGTTTTAAAAAAAATTCTCGTGTT
* * * * * *
30863918 TAAAAAATTTCCGTGTTTTCAAAAAATTTATGGTATT
1 T-CAAAATTT-CGTGTTTTAAAAAAAATTCTCGTGTT
30863955 TCAAAATTCTCGTGTTTTAAAAAAAATTCTCGTGTT
1 TCAAAATT-TCGTGTTTTAAAAAAAATTCTCGTGTT
30863991 TCAA
1 TCAA
30863995 TCGGATCACG
Statistics
Matches: 88, Mismatches: 20, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
34 2 0.02
35 4 0.05
36 50 0.57
37 32 0.36
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (35 bp):
TCAAAATTTCGTGTTTTAAAAAAAATTCTCGTGTT
Found at i:30872528 original size:7 final size:7
Alignment explanation
Indices: 30872518--30872554 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
30872508 AAACATAAAT
30872518 CCCTAAC
1 CCCTAAC
30872525 CCCTAAC
1 CCCTAAC
30872532 CCCTAAC
1 CCCTAAC
**
30872539 CTTTAAC
1 CCCTAAC
30872546 CCCTAAC
1 CCCTAAC
30872553 CC
1 CC
30872555 TTAAACCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.54, G:0.00, T:0.19
Consensus pattern (7 bp):
CCCTAAC
Found at i:30872558 original size:14 final size:14
Alignment explanation
Indices: 30872518--30872558 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
30872508 AAACATAAAT
*
30872518 CCCTAACCCCTAAC
1 CCCTAACCCTTAAC
*
30872532 CCCTAACCTTTAAC
1 CCCTAACCCTTAAC
30872546 CCCTAACCCTTAA
1 CCCTAACCCTTAA
30872559 ACCTTAAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.29, C:0.49, G:0.00, T:0.22
Consensus pattern (14 bp):
CCCTAACCCTTAAC
Found at i:30872565 original size:21 final size:22
Alignment explanation
Indices: 30872521--30872582 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
30872511 CATAAATCCC
*
30872521 TAACCCCTAACCCCT-AACCTT
1 TAACCCCTAACCCTTAAACCTT
30872542 TAACCCCTAACCCTTAAACCTT
1 TAACCCCTAACCCTTAAACCTT
* * *
30872564 AAAACCC-AACCTTTAAACC
1 TAACCCCTAACCCTTAAACC
30872583 ATAAATCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 25 0.69
22 11 0.31
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (22 bp):
TAACCCCTAACCCTTAAACCTT
Found at i:30873888 original size:41 final size:41
Alignment explanation
Indices: 30873646--30873894 Score: 284
Period size: 41 Copynumber: 6.0 Consensus size: 41
30873636 GCTAAAAATA
* *
30873646 GAGCATTAGCGGCGCTTTCTCAAAAAACGCCGCTAAAGCCAC
1 GAGCATTAGCGGCGCTTCCTC-AAAAACGCCGCTAAAGCCCC
* *
30873688 GAGCATTAGCGGCGCTTCCTCAAAAACACTGCTAAAGCCCC
1 GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCC
*
30873729 AAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCC
1 GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCC
* * * *
30873770 GAGCATTAGCGGCGCCTCCTCAAAAATGCCGCTATAGCCCT
1 GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCC
* * * * * * *
30873811 AAGCATTAGCGGTGCTT-TTCTAAAAATGCCGCTAAATCGCT
1 GAGCATTAGCGGCGCTTCCTC-AAAAACGCCGCTAAAGCCCC
* ** * *
30873852 GAGCATTAGCGGTGCTTTATTAAAAACGCCGCTAAATCCCC
1 GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCC
30873893 GA
1 GA
30873895 AAGCTCAGAA
Statistics
Matches: 180, Mismatches: 25, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
40 2 0.01
41 157 0.87
42 21 0.12
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCC
Found at i:30873993 original size:39 final size:40
Alignment explanation
Indices: 30873946--30874037 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 40
30873936 CGCTTTTTGG
* * ** *
30873946 AAAA-CGCCGCTAATGCT-TATTTTTGGCGGCGTTTTTCA
1 AAAAGCGCCGCTAATGCTAGATCTTTAACGGCGTTTTCCA
* *
30873984 TAATGCGCCGCTAATGCTAGATCTTTAACGGCGTTTTCCA
1 AAAAGCGCCGCTAATGCTAGATCTTTAACGGCGTTTTCCA
30874024 AAAAGCGCCGCTAA
1 AAAAGCGCCGCTAA
30874038 AAGCCTGTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
38 2 0.05
39 13 0.30
40 28 0.65
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTAGATCTTTAACGGCGTTTTCCA
Found at i:30879582 original size:44 final size:44
Alignment explanation
Indices: 30879521--30879630 Score: 150
Period size: 44 Copynumber: 2.5 Consensus size: 44
30879511 GATTTGCTCT
* *
30879521 CTGCAACTTCAGAGAGATAAGATCT-ATGGTTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGAT-TAATGGCTTTAATCTGCTCCA
* * * *
30879565 CTGCAACTTCAGGGAGATAGGATTAATTGCTTTCATCTGCTCCG
1 CTGCAACTTCAGGGAGATAAGATTAATGGCTTTAATCTGCTCCA
30879609 CTGCAACTTCAGGGAGATAAGA
1 CTGCAACTTCAGGGAGATAAGA
30879631 CTTGCCATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 1 0.02
44 57 0.98
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATTAATGGCTTTAATCTGCTCCA
Found at i:30892434 original size:27 final size:30
Alignment explanation
Indices: 30892363--30892441 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
30892353 ATGAATATAT
* *
30892363 ATATATACATATTATAAAAAATGTGTAAAC
1 ATATATAAATATTATAAAATATGTGTAAAC
* *
30892393 ATATATATAGATTATAAAATATG-G-AAA-
1 ATATATAAATATTATAAAATATGTGTAAAC
*
30892420 ATGTATAAATATTATAAAATAT
1 ATATATAAATATTATAAAATAT
30892442 AAATATAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
27 19 0.44
28 3 0.07
29 1 0.02
30 20 0.47
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (30 bp):
ATATATAAATATTATAAAATATGTGTAAAC
Found at i:30892585 original size:3 final size:3
Alignment explanation
Indices: 30892577--30892631 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
30892567 ATATGTAGGT
* *
30892577 ATA ATA ATA ATA ATA ATA ATA TATA AT- ATA ATA ATG ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
30892622 ATA TTA ATA A
1 ATA ATA ATA A
30892632 AAAACTTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:30892599 original size:30 final size:27
Alignment explanation
Indices: 30892576--30892630 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
30892566 TATATGTAGG
*
30892576 TATAATAATAATAATAATAATATATAA
1 TATAATAATAATAATAACAATATATAA
*
30892603 TATAATAATGATAATAACAATAT-TAA
1 TATAATAATAATAATAACAATATATAA
30892629 TA
1 TA
30892631 AAAAACTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
TATAATAATAATAATAACAATATATAA
Found at i:30893315 original size:17 final size:18
Alignment explanation
Indices: 30893293--30893338 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
30893283 CACCTTCAAA
*
30893293 CTTTTACTTTTTTG-ATT
1 CTTTTACTTTTGTGTATT
* *
30893310 CTTTTACTTTCGTGTTTT
1 CTTTTACTTTTGTGTATT
30893328 CTTTTACTTTT
1 CTTTTACTTTT
30893339 CAATACAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.09, C:0.15, G:0.07, T:0.70
Consensus pattern (18 bp):
CTTTTACTTTTGTGTATT
Found at i:30896631 original size:16 final size:16
Alignment explanation
Indices: 30896608--30896652 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
30896598 TAAATATTAT
30896608 AAATATTTTATTAGGA
1 AAATATTTTATTAGGA
* *
30896624 ATATATTTTAATTATGA
1 AAATATTTT-ATTAGGA
*
30896641 AAATAATTTATT
1 AAATATTTTATT
30896653 TATTTTAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (16 bp):
AAATATTTTATTAGGA
Found at i:30898043 original size:32 final size:32
Alignment explanation
Indices: 30897987--30898066 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
30897977 ATAAGTATAT
* *
30897987 TAATATGATTGGCACAAAGACATCAGTAGTAG
1 TAATATGATTGGCACAAAGACATCAATAGAAG
* * * *
30898019 TAATATGATCGGCAGAACGGCATCAATAGAAG
1 TAATATGATTGGCACAAAGACATCAATAGAAG
*
30898051 TGATATGATTGGCACA
1 TAATATGATTGGCACA
30898067 CAGCCTGTAG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.24
Consensus pattern (32 bp):
TAATATGATTGGCACAAAGACATCAATAGAAG
Found at i:30898147 original size:26 final size:26
Alignment explanation
Indices: 30898115--30898165 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
30898105 TCAGTAGCAT
30898115 CGTAGCAAAGCTGCCAGCAACAGTAC
1 CGTAGCAAAGCTGCCAGCAACAGTAC
*
30898141 CGTAGCAAAGCTGCCAGTAACAGTA
1 CGTAGCAAAGCTGCCAGCAACAGTA
30898166 TATGTCGCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.27, G:0.24, T:0.14
Consensus pattern (26 bp):
CGTAGCAAAGCTGCCAGCAACAGTAC
Found at i:30898184 original size:27 final size:26
Alignment explanation
Indices: 30898154--30898218 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
30898144 AGCAAAGCTG
*
30898154 CCAGTAACAGTATATGTCGCCA-AGCCA
1 CCAGTAACAGTAT-TGT-GACAGAGCCA
30898181 CCAGTAACAGTGATTGTGACAGAGCCA
1 CCAGTAACAGT-ATTGTGACAGAGCCA
30898208 CCAGT-ACAGTA
1 CCAGTAACAGTA
30898219 CTTCGTCCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 1 0.03
26 8 0.23
27 24 0.69
28 2 0.06
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (26 bp):
CCAGTAACAGTATTGTGACAGAGCCA
Found at i:30898313 original size:24 final size:23
Alignment explanation
Indices: 30898281--30898363 Score: 114
Period size: 24 Copynumber: 3.5 Consensus size: 23
30898271 GCCATGATCA
*
30898281 AAATTAGTCATACAATTCACAGAC
1 AAATCAGTCATACAA-TCACAGAC
30898305 AAATCAGTCATACCAATCACAGAC
1 AAATCAGTCATA-CAATCACAGAC
30898329 AAATCAGTCATTTA-AATCACAGAC
1 AAATCAGTCA--TACAATCACAGAC
30898353 AAATCAGTCAT
1 AAATCAGTCAT
30898364 TTACATCTCG
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
22 1 0.02
24 49 0.89
25 3 0.05
26 2 0.04
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (23 bp):
AAATCAGTCATACAATCACAGAC
Found at i:30898364 original size:24 final size:24
Alignment explanation
Indices: 30898297--30898415 Score: 130
Period size: 24 Copynumber: 5.0 Consensus size: 24
30898287 GTCATACAAT
***
30898297 TCACAGACAAATCAGTCATACCAA
1 TCACAGACAAATCAGTCATTTAAA
30898321 TCACAGACAAATCAGTCATTTAAA
1 TCACAGACAAATCAGTCATTTAAA
*
30898345 TCACAGACAAATCAGTCATTTACA
1 TCACAGACAAATCAGTCATTTAAA
* * * * * *
30898369 TCTCGGACAAATAAATCACTTACA
1 TCACAGACAAATCAGTCATTTAAA
* *
30898393 TCACAGATAAATCAATCATTTAA
1 TCACAGACAAATCAGTCATTTAA
30898416 CCTCGAGGGC
Statistics
Matches: 80, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 80 1.00
ACGTcount: A:0.45, C:0.24, G:0.08, T:0.24
Consensus pattern (24 bp):
TCACAGACAAATCAGTCATTTAAA
Found at i:30898576 original size:27 final size:27
Alignment explanation
Indices: 30898480--30898576 Score: 124
Period size: 27 Copynumber: 3.6 Consensus size: 27
30898470 TAACAGAGGT
30898480 ATTACAATCATTTTAC-CTACAGGGGC
1 ATTACAATCATTTTACACTACAGGGGC
* ** *
30898506 ATCACGGTCATTTTACCCTACAGGGGC
1 ATTACAATCATTTTACACTACAGGGGC
* *
30898533 ATTACAATCATTTTACATTACAGGGGA
1 ATTACAATCATTTTACACTACAGGGGC
*
30898560 ATTACGATCATTTTACA
1 ATTACAATCATTTTACA
30898577 AATATTAAGG
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 13 0.22
27 47 0.78
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (27 bp):
ATTACAATCATTTTACACTACAGGGGC
Found at i:30899746 original size:133 final size:133
Alignment explanation
Indices: 30899508--30899774 Score: 534
Period size: 133 Copynumber: 2.0 Consensus size: 133
30899498 ACAACATTAT
30899508 CTATTAAGCATCAATATCAATAACAAAGGTTAAACAATTACTATCCTAAGGAAAACACACGGCCA
1 CTATTAAGCATCAATATCAATAACAAAGGTTAAACAATTACTATCCTAAGGAAAACACACGGCCA
30899573 ACAAGAGAACTAGACATTCAGCCAGTATTTGAAAGCACATAACAACTTGCCCCTAACAATCAGCC
66 ACAAGAGAACTAGACATTCAGCCAGTATTTGAAAGCACATAACAACTTGCCCCTAACAATCAGCC
30899638 AAC
131 AAC
30899641 CTATTAAGCATCAATATCAATAACAAAGGTTAAACAATTACTATCCTAAGGAAAACACACGGCCA
1 CTATTAAGCATCAATATCAATAACAAAGGTTAAACAATTACTATCCTAAGGAAAACACACGGCCA
30899706 ACAAGAGAACTAGACATTCAGCCAGTATTTGAAAGCACATAACAACTTGCCCCTAACAATCAGCC
66 ACAAGAGAACTAGACATTCAGCCAGTATTTGAAAGCACATAACAACTTGCCCCTAACAATCAGCC
30899771 AAC
131 AAC
30899774 C
1 C
30899775 AAATGAATTA
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 134 1.00
ACGTcount: A:0.43, C:0.25, G:0.12, T:0.19
Consensus pattern (133 bp):
CTATTAAGCATCAATATCAATAACAAAGGTTAAACAATTACTATCCTAAGGAAAACACACGGCCA
ACAAGAGAACTAGACATTCAGCCAGTATTTGAAAGCACATAACAACTTGCCCCTAACAATCAGCC
AAC
Found at i:30900710 original size:16 final size:15
Alignment explanation
Indices: 30900677--30900714 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
30900667 ATGATGTGTA
30900677 AATATAA-TATAAAT
1 AATATAATTATAAAT
*
30900691 AATATAATTAATATAT
1 AATATAATT-ATAAAT
30900707 AATATAAT
1 AATATAAT
30900715 AAGTGATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.33
15 1 0.05
16 13 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AATATAATTATAAAT
Found at i:30902748 original size:21 final size:21
Alignment explanation
Indices: 30902722--30902764 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
30902712 GTGAGATTCT
*
30902722 AACTTTTTATTTATTAAACTA
1 AACTTTTTATTCATTAAACTA
30902743 AACTTTTTATTCATTAAACTA
1 AACTTTTTATTCATTAAACTA
30902764 A
1 A
30902765 GTGAGTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.49
Consensus pattern (21 bp):
AACTTTTTATTCATTAAACTA
Found at i:30903555 original size:17 final size:17
Alignment explanation
Indices: 30903511--30903565 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
30903501 CTTCAATAAA
30903511 TATTATAAATATTTT-AT
1 TATTA-AAATATTTTAAT
** *
30903528 TAGGAATATATTTTAAT
1 TATTAAAATATTTTAAT
*
30903545 TATTAAAATATTTTATT
1 TATTAAAATATTTTAAT
30903562 TATT
1 TATT
30903566 TTAATTAAGT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
16 8 0.27
17 22 0.73
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (17 bp):
TATTAAAATATTTTAAT
Found at i:30907413 original size:17 final size:17
Alignment explanation
Indices: 30907369--30907423 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
30907359 CTTCAATAAA
30907369 TATTATAAATATTTT-AT
1 TATTA-AAATATTTTAAT
** *
30907386 TAGGAATATATTTTAAT
1 TATTAAAATATTTTAAT
*
30907403 TATTAAAATATTTTATT
1 TATTAAAATATTTTAAT
30907420 TATT
1 TATT
30907424 TTAATTAAGT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
16 8 0.27
17 22 0.73
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (17 bp):
TATTAAAATATTTTAAT
Found at i:30909620 original size:12 final size:12
Alignment explanation
Indices: 30909591--30909620 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
30909581 GTTAATTTTC
30909591 ATAAATACTTCA
1 ATAAATACTTCA
30909603 AT-AATACTTCA
1 ATAAATACTTCA
30909614 ATAAATA
1 ATAAATA
30909621 TTATAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAAATACTTCA
Found at i:30913484 original size:17 final size:17
Alignment explanation
Indices: 30913440--30913494 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
30913430 CTTCAATAAA
30913440 TATTATAAATATTTT-AT
1 TATTA-AAATATTTTAAT
** *
30913457 TAGGAATATATTTTAAT
1 TATTAAAATATTTTAAT
*
30913474 TATTAAAATATTTTATT
1 TATTAAAATATTTTAAT
30913491 TATT
1 TATT
30913495 TTAATTAAGT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
16 8 0.27
17 22 0.73
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (17 bp):
TATTAAAATATTTTAAT
Found at i:30914372 original size:32 final size:32
Alignment explanation
Indices: 30914322--30914460 Score: 147
Period size: 32 Copynumber: 4.4 Consensus size: 32
30914312 AACCACTACT
* *
30914322 AGCCATAAGTA-TAGTAATATGATTGGCACAA
1 AGCCATCAGTAGTAGTAATATGATCGGCACAA
*
30914353 AGCCATCAGTAGTGGTAATATGATCGGCACAA
1 AGCCATCAGTAGTAGTAATATGATCGGCACAA
* * *
30914385 AGCCATCAGTAGAAGTGATATGATCGGCACAC
1 AGCCATCAGTAGTAGTAATATGATCGGCACAA
*** *
30914417 AGCCTAT-AGTAACGGTAATATGATCGGCATAA
1 AGCC-ATCAGTAGTAGTAATATGATCGGCACAA
* *
30914449 AACCATTAGTAG
1 AGCCATCAGTAG
30914461 CATCGCAGCA
Statistics
Matches: 90, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
31 12 0.13
32 76 0.84
33 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.23
Consensus pattern (32 bp):
AGCCATCAGTAGTAGTAATATGATCGGCACAA
Found at i:30914434 original size:64 final size:64
Alignment explanation
Indices: 30914338--30914460 Score: 167
Period size: 64 Copynumber: 1.9 Consensus size: 64
30914328 AAGTATAGTA
* ** *
30914338 ATATGATTGGCACAAAGCCATCAGTAGTGGTAATATGATCGGCACAAAGCCATCAGTAGAAGTG
1 ATATGATCGGCACAAAGCCATCAGTAACGGTAATATGATCGGCACAAAACCATCAGTAGAAGTG
* * *
30914402 ATATGATCGGCACACAGCCTAT-AGTAACGGTAATATGATCGGCATAAAACCATTAGTAG
1 ATATGATCGGCACAAAGCC-ATCAGTAACGGTAATATGATCGGCACAAAACCATCAGTAG
30914461 CATCGCAGCA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 49 0.96
65 2 0.04
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (64 bp):
ATATGATCGGCACAAAGCCATCAGTAACGGTAATATGATCGGCACAAAACCATCAGTAGAAGTG
Found at i:30914533 original size:27 final size:26
Alignment explanation
Indices: 30914467--30914567 Score: 96
Period size: 27 Copynumber: 3.8 Consensus size: 26
30914457 GTAGCATCGC
* * **
30914467 AGCAAAGCTGCCAGCAACAGTACCGT
1 AGCAAAGCTACCAGTAACAGTATTGT
* *
30914493 AGCAAAGTTGCCAGTAACAGTATATGT
1 AGCAAAGCTACCAGTAACAGTAT-TGT
30914520 AGCAAAGCTACCAGTAACAGTGATTGT
1 AGCAAAGCTACCAGTAACAGT-ATTGT
* * *
30914547 GGCAGAGCCACCAGT-ACAGTA
1 AGCAAAGCTACCAGTAACAGTA
30914568 CTTCCTCCAT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.02
26 25 0.39
27 36 0.56
28 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.18
Consensus pattern (26 bp):
AGCAAAGCTACCAGTAACAGTATTGT
Found at i:30914715 original size:24 final size:24
Alignment explanation
Indices: 30914630--30914712 Score: 121
Period size: 24 Copynumber: 3.5 Consensus size: 24
30914620 GCCATGCACA
*
30914630 AAATCAGTCATACAATTCACAGAC
1 AAATCAGTCATACAAATCACAGAC
*
30914654 AAATCAGTCATACCAATCACAGAC
1 AAATCAGTCATACAAATCACAGAC
* **
30914678 AAATTAGTCATTTAAATCACAGAC
1 AAATCAGTCATACAAATCACAGAC
30914702 AAATCAGTCAT
1 AAATCAGTCAT
30914713 TTACATCTCG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (24 bp):
AAATCAGTCATACAAATCACAGAC
Found at i:30914726 original size:24 final size:24
Alignment explanation
Indices: 30914630--30914729 Score: 110
Period size: 24 Copynumber: 4.2 Consensus size: 24
30914620 GCCATGCACA
** *
30914630 AAATCAGTCATACAATTCACAGAC
1 AAATCAGTCATTTAAATCACAGAC
***
30914654 AAATCAGTCATACCAATCACAGAC
1 AAATCAGTCATTTAAATCACAGAC
*
30914678 AAATTAGTCATTTAAATCACAGAC
1 AAATCAGTCATTTAAATCACAGAC
* * *
30914702 AAATCAGTCATTTACATCTCGGAC
1 AAATCAGTCATTTAAATCACAGAC
30914726 AAAT
1 AAAT
30914730 TAATCGTCGC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.44, C:0.23, G:0.09, T:0.24
Consensus pattern (24 bp):
AAATCAGTCATTTAAATCACAGAC
Found at i:30915331 original size:19 final size:20
Alignment explanation
Indices: 30915304--30915341 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
30915294 CACGCGAGCC
*
30915304 CATTCGACCCAA-AACGGTA
1 CATTAGACCCAATAACGGTA
*
30915323 CATTAGACCTAATAACGGT
1 CATTAGACCCAATAACGGT
30915342 CAAGTCTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (20 bp):
CATTAGACCCAATAACGGTA
Found at i:30918769 original size:17 final size:17
Alignment explanation
Indices: 30918739--30918788 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
30918729 ATAAAAAGTC
**
30918739 AAAGATATAAGTATCAG
1 AAAGATATGGGTATCAG
*
30918756 AAAGTTATGGGTATCAG
1 AAAGATATGGGTATCAG
30918773 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
30918789 AAATCTGGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:30925300 original size:17 final size:17
Alignment explanation
Indices: 30925278--30925310 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
30925268 GCCCGGTCCA
30925278 ATAAAAGCAA-AAAATAG
1 ATAAAA-CAATAAAATAG
30925295 ATAAAACAATAAAATA
1 ATAAAACAATAAAATA
30925311 AAAGCAGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.15
Consensus pattern (17 bp):
ATAAAACAATAAAATAG
Found at i:30926526 original size:14 final size:14
Alignment explanation
Indices: 30926507--30926537 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
30926497 ATAATTATTA
30926507 TTATATATATAGTT
1 TTATATATATAGTT
*
30926521 TTATATATATATTT
1 TTATATATATAGTT
30926535 TTA
1 TTA
30926538 CTAAAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (14 bp):
TTATATATATAGTT
Found at i:30927641 original size:44 final size:44
Alignment explanation
Indices: 30927461--30927669 Score: 135
Period size: 44 Copynumber: 4.8 Consensus size: 44
30927451 AAAATTCGCC
*
30927461 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * * **
30927505 ATCTTCAACCTTCTCCACTACTGCTCAGGGAGACAAG-GCT-TG
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * *
30927547 GTGGC-TCAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGAT-TCGCC
1 AT--CTTC-AATCTAC-T-CCACTACTGCTTAGG-GAGATAAGATCT-ACA
*
30927593 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTACA
* * ** *
30927637 ATCTTCAACCTTCTCCACCGCTGCTCAGGGAGA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGA
30927670 CAAGGCTTGG
Statistics
Matches: 122, Mismatches: 29, Indels: 28
0.68 0.16 0.16
Matches are distributed among these distances:
42 7 0.06
43 8 0.07
44 93 0.76
45 7 0.06
46 7 0.06
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTACA
Found at i:30927647 original size:132 final size:132
Alignment explanation
Indices: 30927410--30927681 Score: 517
Period size: 132 Copynumber: 2.1 Consensus size: 132
30927400 GGTTTCGACA
30927410 GCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAAATTCGCCATCTTCGATCTACT
1 GCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAAATTCGCCATCTTCGATCTACT
*
30927475 CCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTACTGCTCAGGGAGACA
66 CCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACCACTGCTCAGGGAGACA
30927540 AG
131 AG
*
30927542 GCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCATCTTCGATCTACT
1 GCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAAATTCGCCATCTTCGATCTACT
*
30927607 CCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACCGCTGCTCAGGGAGACA
66 CCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACCACTGCTCAGGGAGACA
30927672 AG
131 AG
30927674 GCTTGGTG
1 GCTTGGTG
30927682 TTTCACCGAT
Statistics
Matches: 137, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 137 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (132 bp):
GCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAAATTCGCCATCTTCGATCTACT
CCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACCACTGCTCAGGGAGACA
AG
Found at i:30944157 original size:14 final size:14
Alignment explanation
Indices: 30944134--30944169 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
30944124 TGTTTTTTAG
30944134 TAAAAATATATATA
1 TAAAAATATATATA
*
30944148 TAAAACTATATATA
1 TAAAAATATATATA
*
30944162 TAATAATA
1 TAAAAATA
30944170 ATTATTTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAAAATATATATA
Found at i:30949388 original size:132 final size:132
Alignment explanation
Indices: 30949163--30951949 Score: 4419
Period size: 132 Copynumber: 21.1 Consensus size: 132
30949153 GATCAACTGC
* * *
30949163 CTTCAACCTTCTCCGCTGCTACTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCTATTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
30949228 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30949293 AT
131 AT
30949295 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
*
30949360 CTTGGAAAGATAAGATTTACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30949425 AT
131 AT
* * *
30949427 C-TCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * *
30949491 CTTGGGAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30949556 AT
131 AT
* * * * *
30949558 CTTTAACCTTCTGCGCTGCTACTCAGAGAGACACGGCTTTGTGGCTTAAATTTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
30949623 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30949688 AT
131 AT
* * *
30949690 CGTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTATGGCTTAAATCTGCTTCCCACAAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * * *
30949755 CTTGGAAAGATAACATTTGCCATCTTTGATCTGCTTCACTATTGCTTAGGGAGAAAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30949820 AT
131 AT
* * * * * * * *
30949822 CTTCAACCTACTTCGCTACTGCTCAGGGAGATAAAGCTTGGAGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* *
30949887 CTTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30949952 AT
131 AT
* *
30949954 CTTCAACCTTCTCCGCTGCTACTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * *
30950019 CTTGGAAAGATAAGATTTGCCATATTTGATCTGCTCCAATACTGCTTAGGGAGATCAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30950084 AT
131 AT
* *
30950086 CTTCAGCCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTACTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * *
30950151 CTTCGAAAGATAAGATTTTCCATCTTTGATCTGCTCCACTACTGCTTAGCGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30950216 AT
131 AT
* ** * * *
30950218 CTTCAACCTACTTTGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * * *
30950283 CTTGGAAAGATAAGATTTGTCAACTTTAATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30950348 AT
131 AT
* *
30950350 CTTCAACCTTCTCCGCTGCTACTCAGAGAGACAAGGCTTTGTGGCTTAAATCTACTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
*
30950415 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGCGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30950480 AT
131 AT
* * * *
30950482 C-TCAACCTACTCTGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
*** *
30950546 CTTGGAAAGATAAGATTTGTTGTCTTGGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30950611 AT
131 AT
* * * *
30950613 CTTCAACCTTCTCTGCTGCTACTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTACCTACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
*
30950678 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30950743 AT
131 AT
* *
30950745 CTTCAGCCTTCTCCGCTGCTGCTCAGGGAGACAAGG-TTTGGTGGCTTAAATCTGCTTCCCACTA
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTT-GTGGCTTAAATCTGCTTCCCACTA
* * *
30950809 TCTTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTAC
65 TCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
30950874 AAT
130 AAT
* * *
30950877 CTTCAACCTTCTCCGCTGCTACTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
*
30950942 CTTGGAAAGATAAGATTTGTCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30951007 AT
131 AT
* *
30951009 CTTCAACCTTCTCCGCTGCTACTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCACACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * *
30951074 CTTGGAAAGATAATATTTGCCATCTTTGATCTGCTCCACTATTGCTTAGGGAGAAAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30951139 AT
131 AT
* * * * **
30951141 CTTCAACCTACTCCGCTACTGCTCAGGGAGACAAGGCTTGGTTTCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * * *
30951206 CTTGGAAGGATAAGATTTGTCGTCTTTGATCTGCTCAACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30951271 AT
131 AT
* * *
30951273 CTTCAACTTTCTCCGCTGCTACTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCTACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
30951338 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30951403 AT
131 AT
* * * * *
30951405 CTTTAACCTACTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* *
30951470 CTTGGGAAGATAAGATTTGCCATCTTTGATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30951535 AT
131 AT
* * * * *
30951537 CTTCAACCTACTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCGCTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* ***
30951602 CTTGGGAAGATAAGATTTGTTGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30951667 AT
131 AT
* * * * * *
30951669 CTTTAACCTTCTGCGCTGCTACTCAGAGAGACACGACTTTGTGGCTTAAATTTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
30951734 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30951799 AT
131 AT
* * * *
30951801 CGTCAACCTTCTCCGCTGCTGCTCGGAGAGATAAGGCTTTATGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * *
30951866 CTTGGAAAGATAAGATTTGCCATATTTGATCTGCTCCACTATTGCTTAGGGAGAAAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
30951931 AT
131 AT
*
30951933 CTTCAACCTACTCCGCT
1 CTTCAACCTTCTCCGCT
30951950 NNNNNNNNNN
Statistics
Matches: 2431, Mismatches: 220, Indels: 8
0.91 0.08 0.00
Matches are distributed among these distances:
131 247 0.10
132 2182 0.90
133 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
AT
Found at i:30954502 original size:132 final size:132
Alignment explanation
Indices: 30954210--30955185 Score: 1460
Period size: 132 Copynumber: 7.4 Consensus size: 132
30954200 NNNNNNNNNN
* *
30954210 GCTCAGGGAGAAAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCATGGAAAGATAAGATTTGC
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGC
* *
30954275 CATCTTTGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTG
66 CATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTG
30954340 CT
131 CT
* * * * *
30954342 GCTTAGAGG-GACAAGACTTTGTGGCTTAAATCTGCTTCCCCACTAACTGGGAAAGATAAGATTT
1 GCTCAG-GGAGACAAGGCTTGGTGGCTTAAATCTGCTT-CCCACTATCTTGGAAAGATAAGATTT
* * *
30954406 ACCATCTTTGATCTGCTCCACTACTGCTTA-GGAGGAGAAGATC-ACCAATC-TCAACCTACTCC
64 GCCATCTTTGATCTGCTCCACTACTGCTTAGGGA-GATAAGATCTA-CAATCTTCAACCTTCTCC
30954468 GCTGCT
127 GCTGCT
* *
30954474 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCCTGGAAAGATAAGATTTGT
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGC
* * *
30954539 CGTCTTTGATCGGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTGCGCTG
66 CATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTG
30954604 CT
131 CT
* * *
30954606 ACTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGC
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGC
*
30954671 CATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC-TCAACCTACTCCGCTG
66 CATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTG
30954735 CT
131 CT
* * *
30954737 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGCTAAGACTTGT
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGC
* * *
30954802 CGTCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTTCTGCGCTG
66 CATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTG
30954867 CT
131 CT
* * **
30954869 GCTTAGAGAGACAAGGCTTTATGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGC
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGC
*
30954934 CATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCGTCAACCTTCTCCGCTG
66 CATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTG
30954999 CT
131 CT
* * * **
30955001 GCTTAGAGAGATAAGGCTTTATGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGC
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGC
* * * * *
30955066 CATCTTTGATCTGCTCCACTATTGCTTAGGGAGAAAAGATCTACAATCTTCAACCTACTCGGCTA
66 CATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTG
30955131 CT
131 CT
* * **
30955133 GCTCAGGGAGA-AAGGCTTGGGGGCTTACATCTGCCCCCCACTATCTTGGAAAG
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAG
30955186 NNNNNNNNNN
Statistics
Matches: 765, Mismatches: 70, Indels: 19
0.90 0.08 0.02
Matches are distributed among these distances:
131 221 0.29
132 479 0.63
133 65 0.08
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (132 bp):
GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGC
CATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTG
CT
Found at i:30954706 original size:44 final size:44
Alignment explanation
Indices: 30954658--30955105 Score: 145
Period size: 44 Copynumber: 10.2 Consensus size: 44
30954648 TATCTTGGAA
*
30954658 AGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
* * * * * * * * *
30954702 AGATAAGATCTACAATC-TCAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
* ** **** * *
30954745 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCATCTTTAATCTGC-T-CCACTACTGCTTAGG-G
* * * * * *
30954789 AGCTAAGACTTGTCGTCTTTGATCTGCTCCACTACTACTTAGGG
1 AGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
* * * * * * * * * *
30954833 AGATAAGATCTACAATCTTCAACCTTCTGCGCTGCTGCTTAGAG
1 AGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
* * * *
30954877 AGACAAGGCTTT---ATGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTTGCCAT--CTTTAATCTGC-T-CCACTACTGCTTAGG-G
*
30954921 AGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
* * * * * * * * * *
30954965 AGATAAGATCTACAATCGTCAACCTTCTCCGCTGCTGCTTAGAG
1 AGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
* * *
30955009 AGATAAGGCTTT---ATGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTTGCCAT--CTTTAATCTGC-T-CCACTACTGCTTAGG-G
* *
30955053 AGATAAGATTTGCCATCTTTGATCTGCTCCACTATTGCTTAGGG
1 AGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
*
30955097 AGAAAAGAT
1 AGATAAGAT
30955106 CTACAATCTT
Statistics
Matches: 280, Mismatches: 93, Indels: 62
0.64 0.21 0.14
Matches are distributed among these distances:
42 22 0.08
43 45 0.16
44 180 0.64
45 18 0.06
46 15 0.05
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
AGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
Found at i:30954790 original size:263 final size:263
Alignment explanation
Indices: 30954210--30955185 Score: 1519
Period size: 263 Copynumber: 3.7 Consensus size: 263
30954200 NNNNNNNNNN
* *
30954210 GCTCAGGGAGAAAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCATGGAAAGATAAGATTTGC
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGC
* * *
30954275 CATCTTTGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTG
66 CATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTGCGCTG
* * * * *
30954340 CTGCTTAGAGGGACAAGACTTTGTGGCTTAAATCTGCTTCCCCACTAACTGGGAAAGATAAGATT
131 CTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTT-CCCACTATCTTGGAAAGATAAGATT
* *
30954405 TACCATCTTTGATCTGCTCCACTACTGCTTA-GGAGGAGAAGATC-ACCAATCTCAACCTACTCC
195 TGCCATCTTTGATCTGCTCCACTACTGCTTAGGGA-GATAAGATCTA-CAATCTCAACCTACTCC
30954468 GCTGCT
258 GCTGCT
* *
30954474 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCCTGGAAAGATAAGATTTGT
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGC
* *
30954539 CGTCTTTGATCGGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTGCGCTG
66 CATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTGCGCTG
*
30954604 CTACTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT
131 CTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT
30954669 GCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTCAACCTACTCCGCT
196 GCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTCAACCTACTCCGCT
30954734 GCT
261 GCT
* * *
30954737 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGCTAAGACTTGT
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGC
* *
30954802 CGTCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTTCTGCGCTG
66 CATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTGCGCTG
* *
30954867 CTGCTTAGAGAGACAAGGCTTTATGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT
131 CTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT
*
30954932 GCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCGTCAACCTTCTCCGC
196 GCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC-TCAACCTACTCCGC
30954997 TGCT
260 TGCT
* * * **
30955001 GCTTAGAGAGATAAGGCTTTATGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGC
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGC
* * *
30955066 CATCTTTGATCTGCTCCACTATTGCTTAGGGAGAAAAGATCTACAATCTTCAACCTACT-CGGCT
66 CATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTGC-GCT
* * * * * **
30955130 ACTGCTCAGGGAGA-AAGGCTTGGGGGCTTACATCTGCCCCCCACTATCTTGGAAAG
130 GCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAG
30955186 NNNNNNNNNN
Statistics
Matches: 661, Mismatches: 47, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
263 358 0.54
264 303 0.46
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (263 bp):
GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGC
CATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTGCGCTG
CTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT
GCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTCAACCTACTCCGCT
GCT
Found at i:30954953 original size:395 final size:394
Alignment explanation
Indices: 30954211--30955185 Score: 1481
Period size: 395 Copynumber: 2.5 Consensus size: 394
30954201 NNNNNNNNNG
* * *
30954211 CTCAGGGAGAAAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCATGGAAAGATAAGATTTGCC
1 CTCAGAGAGAAAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCC
* *
30954276 ATCTTTGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGC
66 ATCTTTGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTACAA-TCTCAACCTACTCCGCTGC
* * * * * *
30954341 TGCTTAGAGG-GACAAGACTTTGTGGCTTAAATCTGCTTCCCCACTAACTGGGAAAGATAAGATT
130 TGCTCAG-GGAGACAAGGCTTGGTGGCTTAAATCTGCTT-CCCACTATCTTGGAAAGATAAGACT
*
30954405 TACCATCTTTGATCTGCTCCACTACTGCTTAGGAGGAGAAGATCACCAATCTCAACCTACTCCGC
193 TACCATCTTTGATCTGCTCCACTACTACTTAGGAGGAGAAGATCACCAATCTCAACCTACTCCGC
* *
30954470 TGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCCTGGAAAGATAAGAT
258 TGCTGCTCAGAGAGACAAGGCTTGATGGCTTAAATCTGCTTCCCACTATCCTGGAAAGATAAGAT
* * * *
30954535 TTGTCGTCTTTGATCGGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTGC
323 TTGCCATCTTTGATCGGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCGTCAACCTTCTCC
30954600 GCTGCTA
388 GCTGCTA
*
30954607 CTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCC
1 CTCAGAGAGAAAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCC
*
30954672 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTCAACCTACTCCGCTGCT
66 ATCTTTGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTACAATCTCAACCTACTCCGCTGCT
* **
30954737 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGCTAAGACTTGT
131 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGACTTAC
* * * *
30954802 CGTCTTTGATCTGCTCCACTACTACTTAGG-GAGATAAGATCTA-CAATCTTCAACCTTCTGCGC
196 CATCTTTGATCTGCTCCACTACTACTTAGGAG-GAGAAGATC-ACCAATC-TCAACCTACTCCGC
* * *
30954865 TGCTGCTTAGAGAGACAAGGCTTTATGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGAT
258 TGCTGCTCAGAGAGACAAGGCTTGATGGCTTAAATCTGCTTCCCACTATCCTGGAAAGATAAGAT
*
30954930 TTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCGTCAACCTTCTCC
323 TTGCCATCTTTGATCGGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCGTCAACCTTCTCC
*
30954995 GCTGCTG
388 GCTGCTA
* * *
30955002 CTTAGAGAGATAAGGCTTTATGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCC
1 CTCAGAGAGAAAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCC
* * *
30955067 ATCTTTGATCTGCTCCACTATTGCTTAGGGAGAAAAGATCTACAATCTTCAACCTACTCGGCTAC
66 ATCTTTGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTACAATC-TCAACCTACTCCGCTGC
* * **
30955132 TGCTCAGGGAGA-AAGGCTTGGGGGCTTACATCTGCCCCCCACTATCTTGGAAAG
130 TGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAG
30955186 NNNNNNNNNN
Statistics
Matches: 531, Mismatches: 43, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
393 1 0.00
394 65 0.12
395 333 0.63
396 132 0.25
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (394 bp):
CTCAGAGAGAAAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCC
ATCTTTGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTACAATCTCAACCTACTCCGCTGCT
GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGACTTAC
CATCTTTGATCTGCTCCACTACTACTTAGGAGGAGAAGATCACCAATCTCAACCTACTCCGCTGC
TGCTCAGAGAGACAAGGCTTGATGGCTTAAATCTGCTTCCCACTATCCTGGAAAGATAAGATTTG
CCATCTTTGATCGGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCGTCAACCTTCTCCGCT
GCTA
Found at i:30957092 original size:132 final size:132
Alignment explanation
Indices: 30956855--30958575 Score: 2697
Period size: 132 Copynumber: 13.0 Consensus size: 132
30956845 GCGAACACCA
*
30956855 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCGTCAAC
1 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
* * * *
30956920 CTTCTCCGCTGCTGCTTAGAGAGATAAGGCTTTATGGCTTAAATCTGCTTCCCACTATCTTGGAA
66 CTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAA
30956985 AG
131 AG
* *
30956987 ATAAGATTTGCCATCTTTGATCTGCTCCACTATTGCTTAGGGAGAAAAGATCTACAATCTTCAAC
1 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
* * *
30957052 CTACTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAA
66 CTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAA
30957117 AG
131 AG
* *
30957119 ATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
1 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
* * *
30957184 CTTCTCCGCTGCTGCTAAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCTACTATCTTGGAA
66 CTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAA
30957249 AG
131 AG
30957251 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
1 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
* *
30957316 CTACTCCGCTGCTGCTCAGGGAGACAAGGCTTAGTGGCTTAAATCTGCTTCCCACTATCTTGGAA
66 CTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAA
30957381 AG
131 AG
* *
30957383 ATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
1 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
* * *
30957448 CTTCTGCGCTGCTACTCAGAGGAGACACGGCTTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
66 CTTCTCCGCTGCTGCTCAG-GGAGACAAGGCTTT-GTGGCTTAAATCTGCTTCCCACTATCTTGG
30957513 AAAG
129 AAAG
*
30957517 ATAAGAATTTGTCCATCTTTGATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACAATCTTCA
1 ATAAG-ATTTG-CCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
* * * * *
30957582 TCCTTCTCCGCTGCTGCTCAGAGAGATAAGGCCTTATGGCTTAAATCTGCTTCCCACTATCTTGG
64 ACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGG
30957647 AAAG
129 AAAG
** * * *
30957651 ATAAGATTTGCCATAATTGATCTGCTCCACTATTGCTTAGGGAGAAAAGATCTATAATCTTCAAC
1 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
* * * * * *
30957716 CTACTCCGCTACTGCTCAGGGAGATAAAGCTTGGAGGCTTAAATCTGCTTCCCACTATCTTGGAA
66 CTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAA
30957781 AG
131 AG
* *
30957783 ATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
1 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
*
30957848 CTTCTCCGCTGCTACTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAA
66 CTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAA
30957913 AG
131 AG
* *
30957915 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATATTCAGC
1 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
* * *
30957980 CTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTACTTCCCACTTTCTTGGAA
66 CTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAA
30958045 AG
131 AG
* **
30958047 ATAAGATTTTCCATCTTTGATCTGCTCCACTACTGCTTAGCAAGATAAGATCTACAATCTTCAAC
1 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
** ** * *
30958112 CCACTTTGCTACTGCTCAGGGAGACAAGGCTTAGTGGCTTAAATCTGCTTCCCACTATCTTGGAA
66 CTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAA
30958177 AG
131 AG
* ** *
30958179 ATAAGATTTGTCATCTTTGATCTGCTCCACTACTGCTTAATGAGATAAGATCTACAATCTTCAAT
1 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
* * *
30958244 CTTCTCCGCTGCTACTCAGAGAGACAAGGCTTTGTGGCTTAAATCTACTTCCCACTATCTTGGAA
66 CTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAA
30958309 AG
131 AG
* *
30958311 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTACTTAGCGAGATAAGATCTACAATC-TCAAC
1 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
* ** *
30958375 CTACTCTACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAA
66 CTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAA
30958440 AG
131 AG
***
30958442 ATAAGATTTGTTGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
1 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
* * ** * *
30958507 CTTCTCTGCTGCTACTCATAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCTACTATCATGGAA
66 CTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAA
30958572 AG
131 AG
30958574 AT
1 AT
30958576 NNNNNNNNNN
Statistics
Matches: 1448, Mismatches: 136, Indels: 10
0.91 0.09 0.01
Matches are distributed among these distances:
131 118 0.08
132 1153 0.80
133 17 0.01
134 77 0.05
135 15 0.01
136 68 0.05
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAAC
CTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAA
AG
Found at i:30957165 original size:44 final size:44
Alignment explanation
Indices: 30956855--30957965 Score: 247
Period size: 44 Copynumber: 25.2 Consensus size: 44
30956845 GCGAACACCA
* *
30956855 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
1 ATAAGATTTGTCATCTTTAATCTGCTCCACTACTGCTTAGGGAG
* * * * * * * * *
30956899 ATAAGATCT-ACAATCGTCAACCTTCTCCGCTGCTGCTTAGAGAG
1 ATAAGATTTGTC-ATCTTTAATCTGCTCCACTACTGCTTAGGGAG
** * *
30956943 ATAAGGCTT-T-ATGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAG
1 ATAAGATTTGTCAT--CTTTAATCTGC-T-CCACTACTGCTTAGG-GAG
* * *
30956987 ATAAGATTTGCCATCTTTGATCTGCTCCACTATTGCTTAGGGAG
1 ATAAGATTTGTCATCTTTAATCTGCTCCACTACTGCTTAGGGAG
* * * * * * * *
30957031 AAAAGATCT-ACAATCTTCAACCTACTCCGCTACTGCTCAGGGAG
1 ATAAGATTTGTC-ATCTTTAATCTGCTCCACTACTGCTTAGGGAG
* * * ** * *
30957075 ACAAGGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAG
1 ATAA-GATTTGTCATCTTTAATCTGC-T-CCACTACTGCTTAGG-GAG
* *
30957119 ATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAG
1 ATAAGATTTGTCATCTTTAATCTGCTCCACTACTGCTTAGGGAG
* * * * * * * * *
30957163 ATAAGATCT-ACAATCTTCAACCTTCTCCGCTGCTGCTAAGAGAG
1 ATAAGATTTGTC-ATCTTTAATCTGCTCCACTACTGCTTAGGGAG
* * ** * *
30957207 ACAAGGCTTTGT-GGCTTAAATCTGCTTCCTACTA-T-CTT-GGAAAG
1 ATAA-GATTTGTCATCTTTAATCTGC-TCC-ACTACTGCTTAGG-GAG
* *
30957251 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
1 ATAAGATTTGTCATCTTTAATCTGCTCCACTACTGCTTAGGGAG
* * * * * * * *
30957295 ATAAGATCT-ACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAG
1 ATAAGATTTGTC-ATCTTTAATCTGCTCCACTACTGCTTAGGGAG
* * * ** * *
30957339 ACAAGGCTTAGT-GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAG
1 ATAA-GATTTGTCATCTTTAATCTGC-T-CCACTACTGCTTAGG-GAG
* *
30957383 ATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAG
1 ATAAGATTTGTCATCTTTAATCTGCTCCACTACTGCTTAGGGAG
* * * * * * * * * *
30957427 ATAAGATCT-ACAATCTTCAACCTTCTGCGCTGCTACTCAGAGGAG
1 ATAAGATTTGTC-ATCTTTAATCTGCTCCACTACTGCTTAG-GGAG
* * * ** * *
30957472 ACACGGCTTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAG
1 ATA-AGATTT-GTCATCTTTAATCTGC-T-CCACTACTGCTTAGG-GAG
* *
30957517 ATAAGAATTTGTCCATCTTTGATCTGCTCCACTACTGCTTAGGAAG
1 ATAAG-ATTTGT-CATCTTTAATCTGCTCCACTACTGCTTAGGGAG
* * * * * * * *
30957563 ATAAGATCT-ACAATC-TTCATCCTTCTCCGCTGCTGCTCAGAGAG
1 ATAAGATTTGTC-ATCTTTAAT-CTGCTCCACTACTGCTTAGGGAG
*** * *
30957607 ATAAGGCCT-T-ATGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAG
1 ATAAGATTTGTCAT--CTTTAATCTGC-T-CCACTACTGCTTAGG-GAG
* ** * *
30957651 ATAAGATTTGCCATAATTGATCTGCTCCACTATTGCTTAGGGAG
1 ATAAGATTTGTCATCTTTAATCTGCTCCACTACTGCTTAGGGAG
* * * * * * * * *
30957695 AAAAGATCTATAATCTTCAACCTACTCCGCTACTGCTCAGGGAG
1 ATAAGATTTGTCATCTTTAATCTGCTCCACTACTGCTTAGGGAG
* * * * *
30957739 ATAA-AGCTTG-GAGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAG
1 ATAAGA-TTTGTCA-TCTTTAATCTGC-T-CCACTACTGCTTAGG-GAG
* *
30957783 ATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAG
1 ATAAGATTTGTCATCTTTAATCTGCTCCACTACTGCTTAGGGAG
* * * * * * * * *
30957827 ATAAGATCT-ACAATCTTCAACCTTCTCCGCTGCTACTCAGGGAG
1 ATAAGATTTGTC-ATCTTTAATCTGCTCCACTACTGCTTAGGGAG
* * ** * *
30957871 ACAAGGCTTTGT-GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAG
1 ATAA-GATTTGTCATCTTTAATCTGC-T-CCACTACTGCTTAGG-GAG
* *
30957915 ATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
1 ATAAGATTTGTCATCTTTAATCTGCTCCACTACTGCTTAGGGAG
30957959 ATAAGAT
1 ATAAGAT
30957966 CTACAATATT
Statistics
Matches: 730, Mismatches: 249, Indels: 176
0.63 0.22 0.15
Matches are distributed among these distances:
42 44 0.06
43 60 0.08
44 491 0.67
45 63 0.09
46 65 0.09
47 4 0.01
48 3 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
ATAAGATTTGTCATCTTTAATCTGCTCCACTACTGCTTAGGGAG
Found at i:30958844 original size:44 final size:44
Alignment explanation
Indices: 30958796--30959377 Score: 117
Period size: 44 Copynumber: 13.2 Consensus size: 44
30958786 TATCTTGGAA
* *
30958796 AGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTACTTAGGG
1 AGATAAGATTTGTCATCTTTAATCTGCTCCACTACTACTTAGGG
* * * * * * * *
30958840 AGATAAGATCT-ACAATCTTCAACCTTTCTCCGCTGCTACTCAGGG
1 AGATAAGATTTGTC-ATCTTTAATC-TGCTCCACTACTACTTAGGG
* * ** * *
30958885 AGACAAGGCTTTGT-GGCTTAAATCTGCTTCC-C-ACTATCTT-GGAA
1 AGATAA-GATTTGTCATCTTTAATCTGC-TCCACTACTA-CTTAGG-G
* * *
30958929 AGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCATCTTTAATCTGCTCCACTACTACTTAGGG
* * * * * * * * * *
30958973 AGATAAGATCT-ACAATCTTCAACCTTCTCCGCTGCTGCTCAGAG
1 AGATAAGATTTGTC-ATCTTTAATCTGCTCCACTACTACTTAGGG
* * ** * *
30959017 AGACAAGGCTTTGT-GGCTTAAATCTGCTTCC-C-ACTATCTT-GGAA
1 AGATAA-GATTTGTCATCTTTAATCTGC-TCCACTACTA-CTTAGG-G
* * * *
30959061 AGAGAAGATTTGTCATCTTTGATTTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCATCTTTAATCTGCTCCACTACTACTTAGGG
* ** * * * *** *
30959105 AGATAAGATCTACCATCTTCAACCTACTTTGCTACTGA-TCAGGG
1 AGATAAGATTTGTCATCTTTAATCTGCTCCACTACT-ACTTAGGG
* * * * ** * * *
30959149 AGACAGGGCTTGGT-GGCTTAAATCTGCTTC-CTACTATCTT-GGAA
1 AGATA-AGATTTGTCATCTTTAATCTGCTCCACTACTA-CTTAGG-G
* * * *
30959193 AGATAAGATTTGCCATCTTTGATCTGCTCCACTATTGCTTAGGG
1 AGATAAGATTTGTCATCTTTAATCTGCTCCACTACTACTTAGGG
* * * * * * *
30959237 AGATAAGATCT-ACAAT-TTTCAACCTTCTCCGCTGCTGCTTAGAGG
1 AGATAAGATTTGTC-ATCTTT-AATCTGCTCCACTACTACTTAG-GG
* ** * *
30959282 -GACAAGACTTTGT-GGCTTAAATCTGCTTCC-C-ACTATCTT-GGAA
1 AGATAAGA-TTTGTCATCTTTAATCTGC-TCCACTACTA-CTTAGG-G
** * *
30959325 AGATAAGATTTACCATCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCATCTTTAATCTGCTCCACTACTACTTAGGG
30959369 AGATAAGAT
1 AGATAAGAT
30959378 CTACAATCTC
Statistics
Matches: 361, Mismatches: 134, Indels: 86
0.62 0.23 0.15
Matches are distributed among these distances:
42 2 0.01
43 51 0.14
44 237 0.66
45 68 0.19
46 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (44 bp):
AGATAAGATTTGTCATCTTTAATCTGCTCCACTACTACTTAGGG
Found at i:30959078 original size:132 final size:132
Alignment explanation
Indices: 30958676--30959523 Score: 1342
Period size: 132 Copynumber: 6.4 Consensus size: 132
30958666 NNNNNNNNNN
*
30958676 CCATCTTTGATCTGCTCCACTACTGC-TAGGGAGAATAAGATGTACAATCTTCAACCTACTCCGC
1 CCATCTTTGATCTGCTCCACTACTGCTTAGGGAG-ATAAGATCTACAATCTTCAACCTACTCCGC
* * *
30958740 TGTTGCTCACGGAGACAAGGCTTGGAGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGAT
65 TGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGAT
30958805 TTG
130 TTG
* * * *
30958808 TCGTCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTTTCTCCGC
1 CCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACC-TACTCCGC
* *
30958873 TGCTACTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGAT
65 TGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGAT
30958938 TTG
130 TTG
*
30958941 CCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCT
1 CCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCT
* * *
30959006 GCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGAGAAGATT
66 GCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATT
30959071 TG
131 TG
* * * **
30959073 TCATCTTTGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCAACCTACTTTGCT
1 CCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCT
* * * *
30959138 ACTGATCAGGGAGACAGGGCTTGGTGGCTTAAATCTGCTTCCTACTATCTTGGAAAGATAAGATT
66 GCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATT
30959203 TG
131 TG
* * *
30959205 CCATCTTTGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTACAATTTTCAACCTTCTCCGCT
1 CCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCT
* * *
30959270 GCTGCTTAGAGG-GACAAGACTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGAT
66 GCTGCTCAG-GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGAT
*
30959334 TTA
130 TTG
30959337 CCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC-TCAACCTACTCCGCT
1 CCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCT
*
30959401 GCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCATTATCTTGGAAAGATAAGATT
66 GCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATT
30959466 TG
131 TG
***
30959468 TTGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACC
1 CCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACC
30959524 NNNNNNNNNN
Statistics
Matches: 655, Mismatches: 56, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
130 2 0.00
131 119 0.18
132 402 0.61
133 132 0.20
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
CCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCT
GCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATT
TG
Found at i:30970641 original size:114 final size:113
Alignment explanation
Indices: 30970391--30970648 Score: 274
Period size: 113 Copynumber: 2.3 Consensus size: 113
30970381 TATCTCAATA
* * * * *
30970391 TTTTGCGGCGTTTTTTAATAAGCGCCACTAACTCTAATCTACCTCAAGACCAAACGGTGCGTTTT
1 TTTTACGGCGTTTTTTAATAAACGCCACTAACTCTAATATACCTCAAAACCAAACGCTGCGTTTT
** * * **
30970456 GATTAACATATTTGCGGCGCTTTTTGTAATACGCTGCTAATACTGTTC
66 GATTAACATATTTGCGGCGCTTCATATAATACACCACTAATACTGTTC
* **
30970504 -TTTAGCGGCGTTTTCTCGTAAACGCCACTAA-TACTAATATACCTCAAAACCAAACGCTGCGTT
1 TTTTA-CGGCGTTTTTTAATAAACGCCACTAACT-CTAATATACCTCAAAACCAAACGCTGCG-T
**
30970567 TTTG-TTAAGGTATTTTGCGGCGCTTACATATAA-ACACCACTAATGA-TGTTC
63 TTTGATTAACATA-TTTGCGGCGCTT-CATATAATACACCACTAAT-ACTGTTC
*
30970618 TTTTACGGCGTTTTTTAAAAAACGCCACTAA
1 TTTTACGGCGTTTTTTAATAAACGCCACTAA
30970649 ATGTTCAGGT
Statistics
Matches: 118, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
112 4 0.03
113 53 0.45
114 52 0.44
115 9 0.08
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (113 bp):
TTTTACGGCGTTTTTTAATAAACGCCACTAACTCTAATATACCTCAAAACCAAACGCTGCGTTTT
GATTAACATATTTGCGGCGCTTCATATAATACACCACTAATACTGTTC
Found at i:30970804 original size:2 final size:2
Alignment explanation
Indices: 30970797--30970826 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30970787 CCATAGAAGG
30970797 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
30970827 TCACCTTACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:30981431 original size:13 final size:13
Alignment explanation
Indices: 30981415--30981440 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30981405 TGAATTTTCG
30981415 AATAAAATAGGAT
1 AATAAAATAGGAT
30981428 AATAAAATAGGAT
1 AATAAAATAGGAT
30981441 TCATCAACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (13 bp):
AATAAAATAGGAT
Found at i:30982471 original size:2 final size:2
Alignment explanation
Indices: 30982458--30982498 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
30982448 AGCGTTATGG
*
30982458 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30982499 GAGATTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30985504 original size:31 final size:31
Alignment explanation
Indices: 30985466--30985528 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
30985456 GGCTGTAAAT
*
30985466 CGTCTCATGAGTAAGCTGAAAGAAATAGGTC
1 CGTCTCATGAATAAGCTGAAAGAAATAGGTC
30985497 CGTCTCATGAATAAGCTGAAAGAAATAGGTC
1 CGTCTCATGAATAAGCTGAAAGAAATAGGTC
30985528 C
1 C
30985529 CCAAAGTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (31 bp):
CGTCTCATGAATAAGCTGAAAGAAATAGGTC
Found at i:30990095 original size:63 final size:63
Alignment explanation
Indices: 30989994--30990147 Score: 272
Period size: 63 Copynumber: 2.4 Consensus size: 63
30989984 GAGGATTAAG
*
30989994 ATAAGCAGATAAGAAGGAATCTGCTTTTTCAGACACAAAGGACATGACTCATACATAAAGGAC
1 ATAAGCAGATAAGGAGGAATCTGCTTTTTCAGACACAAAGGACATGACTCATACATAAAGGAC
* * *
30990057 ATAAGCAAATAAGGAGGAATCTGTTTTTTCAGATACAAAGGACATGACTCATACATAAAGGAC
1 ATAAGCAGATAAGGAGGAATCTGCTTTTTCAGACACAAAGGACATGACTCATACATAAAGGAC
30990120 ATAAGCAGATAAGGAGGAATCTGCTTTT
1 ATAAGCAGATAAGGAGGAATCTGCTTTT
30990148 ACATTAACCT
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 85 1.00
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (63 bp):
ATAAGCAGATAAGGAGGAATCTGCTTTTTCAGACACAAAGGACATGACTCATACATAAAGGAC
Found at i:31003753 original size:20 final size:21
Alignment explanation
Indices: 31003715--31003760 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
31003705 ATCTTTAAAA
*
31003715 TTAATTTTTTGAAAATATTTT
1 TTAATTTTTTGAAAATATTGT
* *
31003736 TTAATTTTTTG-GATTATTGT
1 TTAATTTTTTGAAAATATTGT
31003756 TTAAT
1 TTAAT
31003761 CGATTTTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (21 bp):
TTAATTTTTTGAAAATATTGT
Found at i:31007044 original size:6 final size:6
Alignment explanation
Indices: 31007026--31007064 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
31007016 TAAGTCTAAG
* * *
31007026 AAAATA ACAATA AATATA AACATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
31007065 CAAATAAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:31008730 original size:18 final size:17
Alignment explanation
Indices: 31008684--31008733 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
31008674 TAATATAACT
*
31008684 AAGAATAGAAAATAATA
1 AAGAATAAAAAATAATA
*
31008701 GAGAATAAAAAATGAATA
1 AAGAATAAAAAAT-AATA
31008719 AAGAA-AATAAAATAA
1 AAGAATAA-AAAATAA
31008734 GTAATAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (17 bp):
AAGAATAAAAAATAATA
Found at i:31008748 original size:21 final size:19
Alignment explanation
Indices: 31008696--31008749 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 19
31008686 GAATAGAAAA
31008696 TAATAGAGAATAA-AAAATG
1 TAATA-AGAATAATAAAATG
31008715 -AATAAAGAA-AATAAAATAAG
1 TAAT-AAGAATAATAAAAT--G
31008735 TAATAAGAATAATAA
1 TAATAAGAATAATAA
31008750 TAGACAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
17 2 0.07
18 12 0.41
19 1 0.03
20 6 0.21
21 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (19 bp):
TAATAAGAATAATAAAATG
Found at i:31008772 original size:52 final size:48
Alignment explanation
Indices: 31008666--31008772 Score: 117
Period size: 51 Copynumber: 2.1 Consensus size: 48
31008656 CAGACCAGAA
* * * *
31008666 AAATAAAATAATATAACTAAGAATAGAAAATAATAGAGAATAAAAAAT
1 AAATAAAAAAATATAAATAAGAATAGAAAATAATAGACAAGAAAAAAT
*
31008714 GAATAAAGAAAATA-AAATAAGTAATAAGAATAATAATAGACAAGAAACAAAT
1 AAATAAA-AAAATATAAATAAG-AAT-AGAA-AATAATAGACAAGAAA-AAAT
31008766 AAATAAA
1 AAATAAA
31008773 TAATAAAGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
48 12 0.25
49 8 0.17
50 4 0.08
51 14 0.29
52 10 0.21
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.19
Consensus pattern (48 bp):
AAATAAAAAAATATAAATAAGAATAGAAAATAATAGACAAGAAAAAAT
Found at i:31012675 original size:11 final size:11
Alignment explanation
Indices: 31012635--31012683 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 11
31012625 GAAAAATTAG
*
31012635 AAAACAAAAATT
1 AAAATAAAAA-T
*
31012647 AAACTAAAAAT
1 AAAATAAAAAT
31012658 GAAAATAAAAAT
1 -AAAATAAAAAT
*
31012670 ATAATAAAAAT
1 AAAATAAAAAT
31012681 AAA
1 AAA
31012684 TTGCTAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 13 0.42
12 18 0.58
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:31017221 original size:25 final size:25
Alignment explanation
Indices: 31017193--31017274 Score: 77
Period size: 23 Copynumber: 3.5 Consensus size: 25
31017183 CTAAAAATAT
31017193 AAAT-TTATTATCATAAATTATATTA
1 AAATATTATTAT-ATAAATTATATTA
* * *
31017218 AAAT-TCATTA-ATACATTTTATTA
1 AAATATTATTATATAAATTATATTA
31017241 AAATATT-TT-TAT-AATTATATTA
1 AAATATTATTATATAAATTATATTA
*
31017263 AAATATAATTAT
1 AAATATTATTAT
31017275 CAAAATAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
22 14 0.30
23 21 0.46
24 2 0.04
25 9 0.20
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.49
Consensus pattern (25 bp):
AAATATTATTATATAAATTATATTA
Found at i:31017274 original size:22 final size:22
Alignment explanation
Indices: 31017208--31017274 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
31017198 TATTATCATA
*
31017208 AATTATATTAAAAT-TCATTAAT
1 AATTATATTAAAATATAATT-AT
* **
31017230 ACATTTTATTAAAATATTTTTAT
1 A-ATTATATTAAAATATAATTAT
31017253 AATTATATTAAAATATAATTAT
1 AATTATATTAAAATATAATTAT
31017275 CAAAATAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
22 19 0.51
23 15 0.41
24 3 0.08
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTATATTAAAATATAATTAT
Found at i:31017663 original size:12 final size:12
Alignment explanation
Indices: 31017646--31017671 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31017636 GACTAGTGCA
31017646 AACTCTATATAT
1 AACTCTATATAT
31017658 AACTCTATATAT
1 AACTCTATATAT
31017670 AA
1 AA
31017672 ATGATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AACTCTATATAT
Found at i:31020803 original size:21 final size:21
Alignment explanation
Indices: 31020779--31020825 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
31020769 ATAACCTTGA
*
31020779 TCAAAATAGTTATGGTGATGG
1 TCAAAATAGTTATGATGATGG
*
31020800 TCAAAATTGTTATGATGATGG
1 TCAAAATAGTTATGATGATGG
31020821 TCAAA
1 TCAAA
31020826 GGTGGGGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.34
Consensus pattern (21 bp):
TCAAAATAGTTATGATGATGG
Found at i:31023690 original size:3 final size:3
Alignment explanation
Indices: 31023682--31023734 Score: 63
Period size: 3 Copynumber: 17.3 Consensus size: 3
31023672 ATAACCAAAT
* *
31023682 ATA ATA AT- ATCA ATA ATA ATA AGA GTA ATA ATA ATAA ATA ATA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
31023728 ATA ATA A
1 ATA ATA A
31023735 ATTAATTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
2 2 0.05
3 36 0.84
4 5 0.12
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:31025401 original size:86 final size:85
Alignment explanation
Indices: 31025256--31025717 Score: 300
Period size: 86 Copynumber: 5.4 Consensus size: 85
31025246 TCAATCTAAG
* * * * * * *
31025256 CCACTGCAACTTCAGGGGGATAGGACTTGTTATGGTCTGCTCTACTACAACTTTAGAGAGATAAG
1 CCACTGCAACTTCAGGGAGATAAGACTTGTCATGATCTGCTCCACTGCAACTTCAGAGAGATAAG
*
31025321 ACCCGCTATTTTCAGTCTGCT
66 A-CTGCTATTTTCAGTCTGCT
* *
31025342 CCACTGCAACTTCAGGGAGATAAGATTTGTCATGATCTGCTCTACTGCAACTTCAGAGAGATAAG
1 CCACTGCAACTTCAGGGAGATAAGACTTGTCATGATCTGCTCCACTGCAACTTCAGAGAGATAAG
* * *
31025407 ATCTG-TGATAGCTTT-AATTTGTT
66 A-CTGCT-AT---TTTCAGTCTGCT
* * * * * *
31025430 CCACCGCAGCTTCAGGGAAATAAGA-TTCG-CTATCAT-TAG-T-CACTGCAACTTTAGGGAGAT
1 CCACTGCAACTTCAGGGAGATAAGACTT-GTC-ATGATCT-GCTCCACTGCAACTTCAGAGAGAT
* * * * *
31025490 AACACTTC-A-CTTCAATCCGCT
63 AAGACTGCTATTTTCAGTCTGCT
* * * * * * * *
31025511 CCACTGTAACTTCAGAGAGATAGGATTATTGGCTTTAGTCTACTCCACTGCAACTTCAG-GAGGA
1 CCACTGCAACTTCAGGGAGATAAGA--CTTGTCATGA-TCTGCTCCACTGCAACTTCAGAGA-GA
*
31025575 TAAGACTTGCT-TTCTTCAGTTTGCT
62 TAAGAC-TGCTATT-TTCAGTCTGCT
* * * * *
31025600 CCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGAAACTTCAGGGAGAT
1 CCACTGCAACTTCAGGGAGATAAGACTTGT--C-ATGATCTGCTCCACTGCAACTTCAGAGAGAT
* * *
31025665 AGGATTACT-TTCTTCAGTCTGCT
63 AAGACTGCTATT-TTCAGTCTGCT
31025688 CCACTGCAACTTCAGGGAGATAAGACTTGT
1 CCACTGCAACTTCAGGGAGATAAGACTTGT
31025718 AACTTTAATC
Statistics
Matches: 296, Mismatches: 54, Indels: 50
0.74 0.14 0.12
Matches are distributed among these distances:
80 2 0.01
81 24 0.08
83 3 0.01
84 5 0.02
85 7 0.02
86 103 0.35
87 10 0.03
88 79 0.27
89 58 0.20
90 5 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (85 bp):
CCACTGCAACTTCAGGGAGATAAGACTTGTCATGATCTGCTCCACTGCAACTTCAGAGAGATAAG
ACTGCTATTTTCAGTCTGCT
Found at i:31025566 original size:44 final size:44
Alignment explanation
Indices: 31025498--31025982 Score: 268
Period size: 44 Copynumber: 10.9 Consensus size: 44
31025488 ATAACACTTC
* * * * *
31025498 ACTTCAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTATTG
1 ACTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTATTA
* * * *
31025542 GCTTTAGTCTACTCCACTGCAACTTCAG-GAGGATAAGACTTGCTT-
1 ACTTTAATCTGCTCCACTGCAACTTCAGAGA-GATAAGA-TT-ATTA
* * * * * *
31025587 TCTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTA
1 ACTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TTATTA
* * * *
31025631 ACTTTAATCCGCTCCACTGAAACTTCAGGGAGATAGGATTACTT-
1 ACTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTA-TTA
* * * * *
31025675 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTA
1 ACTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TTATTA
** * *
31025719 ACTTTAATCCACTCCAC-GTAACTTCA-AGGAGATAGGATTATTA
1 ACTTTAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTATTA
* * * **
31025762 GCTTTAATCTGCTCTACTGCAACTTCAAAGAGATAAGATTCACCA
1 ACTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATT-ATTA
* * ** * * * * * *
31025807 TCTTCTTCAATTTATTCCACTGCAAATTTAGGGGGATAAGACTTGTTT
1 AC-T-TT-AATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TTATTA
* * *
31025855 TCTTCAATCTGCTCCACTGCAACTTCA-AGGAGATAAGACTT-GTA
1 ACTTTAATCTGCTCCACTGCAACTTCAGA-GAGATAAGA-TTATTA
* * * * *
31025899 ACTTTAATCTGATCCACTGTAACTTCAGGGAGATAGGATTATTG
1 ACTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTATTA
* * * * * *
31025943 GCTTTAATCTACTCTACTGTACCTTCAGCGAGATAAGATT
1 ACTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
31025983 TGCCATCTTC
Statistics
Matches: 336, Mismatches: 84, Indels: 42
0.73 0.18 0.09
Matches are distributed among these distances:
42 2 0.01
43 39 0.12
44 187 0.56
45 71 0.21
46 6 0.02
47 3 0.01
48 26 0.08
49 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (44 bp):
ACTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTATTA
Found at i:31025605 original size:45 final size:45
Alignment explanation
Indices: 31025256--31025933 Score: 311
Period size: 44 Copynumber: 15.5 Consensus size: 45
31025246 TCAATCTAAG
* * * *
31025256 CCACTGCAACTTCAGGGGGATAGGACTTG--TT-AT-GGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTCAGTCTGCT
* * * * **
31025297 CTACTACAACTTTAGAGAGATAAGACCCGCTATT-TTCAGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCT-TTCTTCAGTCTGCT
* * *
31025342 CCACTGCAACTTCAGGGAGATAAGA-TT--TGTCATGA-TCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTCAGTCTGCT
* * * ** * * * *
31025383 CTACTGCAACTTCAGAGAGATAAGATCTGTGATAGCTTTAATTTGTT
1 CCACTGCAACTTCAGGGAGATAAGA-CT-TGCTTTCTTCAGTCTGCT
* * * *
31025430 CCACCGCAGCTTCAGGGAAATAAGA-TTCGC--T-ATCA-T-TAG-T
1 CCACTGCAACTTCAGGGAGATAAGACTT-GCTTTCTTCAGTCT-GCT
* * * * *
31025470 -CACTGCAACTTTAGGGAGATAACACTT-C--ACTTCAATCCGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTCAGTCTGCT
* * * * * * *
31025511 CCACTGTAACTTCAGAGAGATAGGA-TT-ATTGGCTTTAGTCTACT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTT-TCTTCAGTCTGCT
*
31025555 CCACTGCAACTTCA-GGAGGATAAGACTTGCTTTCTTCAGTTTGCT
1 CCACTGCAACTTCAGGGA-GATAAGACTTGCTTTCTTCAGTCTGCT
** * * *
31025600 CCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTTAATCCGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTCAGTCTGCT
* * *
31025644 CCACTGAAACTTCAGGGAGATAGGA-TTACTTTCTTCAGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTCAGTCTGCT
** * * **
31025688 CCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTTAATCCACT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTCAGTCTGCT
* * * * * * *
31025732 CCAC-GTAACTTCAAGGAGATAGGA-TT-ATTAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTT-TCTTCAGTCTGCT
* ** * * * **
31025775 CTACTGCAACTTCAAAGAGATAAGA-TTCACCATCTTCTTCAATTTATT
1 CCACTGCAACTTCAGGGAGATAAGACTT--GC-T-TTCTTCAGTCTGCT
* * * * *
31025823 CCACTGCAAATTTAGGGGGATAAGACTTGTTTTCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTCAGTCTGCT
* ** * * *
31025868 CCACTGCAACTTCAAGGAGATAAGACTTG-TAACTTTAATCTGAT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTCAGTCTGCT
*
31025912 CCACTGTAACTTCAGGGAGATA
1 CCACTGCAACTTCAGGGAGATA
31025934 GGATTATTGG
Statistics
Matches: 476, Mismatches: 124, Indels: 71
0.71 0.18 0.11
Matches are distributed among these distances:
38 1 0.00
39 22 0.05
40 6 0.01
41 56 0.12
42 27 0.06
43 35 0.07
44 160 0.34
45 104 0.22
46 10 0.02
47 24 0.05
48 28 0.06
49 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTCAGTCTGCT
Found at i:31025703 original size:88 final size:88
Alignment explanation
Indices: 31025499--31025939 Score: 387
Period size: 89 Copynumber: 5.0 Consensus size: 88
31025489 TAACACTTCA
* * * * ** * * *
31025499 CTTCAATCCGCTCCACTGTAACTTC-AGAGAGATAGGA-TTATTGGCTTTAGTCTACTCCACTGC
1 CTTCAATCTGCTCCACTGCAACTTCAAG-GAGATAAGACTT-GTAACTTTAATCCACTCCACTGA
* *
31025562 AACTTCA-GGAGGATAAGACTTGCTTT
64 AACTTCAGGGA-GATAGGA-TTACTTT
* * * *
31025588 CTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGAAA
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTTAATCCACTCCACTGAAA
31025653 CTTCAGGGAGATAGGATTACTTT
66 CTTCAGGGAGATAGGATTACTTT
* * *
31025676 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCACTCCAC-GTAA
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTTAATCCACTCCACTGAAA
* *
31025740 CTTCAAGGAGATAGGATTA-TTAG
66 CTTCAGGGAGATAGGATTACTT-T
* * * * ** *
31025763 CTTTAATCTGCTCTACTGCAACTTCAAAGAGATAAGA-TT-CACCATCTTCTTCAATTTATTCCA
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTA--A-C-T-TT-AATCCACTCCA
* * * **
31025826 CTGCAAA-TTTAGGGGGATAAGACTTGTTTT
60 CTG-AAACTTCAGGGAGATAGGA-TTACTTT
* *
31025856 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTTAATCTGA-TCCACTGTA
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTTAATC-CACTCCACTGAA
31025920 ACTTCAGGGAGATAGGATTA
65 ACTTCAGGGAGATAGGATTA
31025940 TTGGCTTTAA
Statistics
Matches: 287, Mismatches: 47, Indels: 37
0.77 0.13 0.10
Matches are distributed among these distances:
85 1 0.00
86 4 0.01
87 54 0.19
88 69 0.24
89 81 0.28
90 11 0.04
91 10 0.03
92 13 0.05
93 39 0.14
94 4 0.01
95 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (88 bp):
CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTTAATCCACTCCACTGAAA
CTTCAGGGAGATAGGATTACTTT
Found at i:31025874 original size:180 final size:181
Alignment explanation
Indices: 31025673--31026012 Score: 531
Period size: 181 Copynumber: 1.9 Consensus size: 181
31025663 ATAGGATTAC
* *
31025673 TTTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATC-CACTCCAC-
1 TTTCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTTAATCTCA-TCCACT
*
31025736 GTAACTTCAAGGAGATAGGATTATTAGCTTTAATCTGCTCTACTGCAACTTCAAAGAGATAAGAT
65 GTAACTTCAAGGAGATAGGATTATTAGCTTTAATCTACTCTACTGCAACTTCAAAGAGATAAGAT
* *
31025801 TCACCATCTTCTTCAATTTATTCCACTGCAAATTTAGGGGGATAAGACTTGT
130 TCACCATCTTCTTCAATTCATTCCACAGCAAATTTAGGGGGATAAGACTTGT
*
31025853 TTTCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTTAATCTGATCCACTG
1 TTTCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTTAATCTCATCCACTG
* * * * **
31025918 TAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCTACTGTACCTTCAGCGAGATAAGATT
66 TAACTTCAAGGAGATAGGATTATTAGCTTTAATCTACTCTACTGCAACTTCAAAGAGATAAGATT
**
31025983 TGCCATCTTCTTCAATTCATTCCACAGCAA
131 CACCATCTTCTTCAATTCATTCCACAGCAA
31026013 CTTCAGTGGT
Statistics
Matches: 144, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
180 58 0.40
181 86 0.60
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (181 bp):
TTTCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTTAATCTCATCCACTG
TAACTTCAAGGAGATAGGATTATTAGCTTTAATCTACTCTACTGCAACTTCAAAGAGATAAGATT
CACCATCTTCTTCAATTCATTCCACAGCAAATTTAGGGGGATAAGACTTGT
Found at i:31027343 original size:45 final size:49
Alignment explanation
Indices: 31027245--31027365 Score: 160
Period size: 45 Copynumber: 2.5 Consensus size: 49
31027235 TCTCAAGACA
*
31027245 CCCTTTGCGGGTTTTCACATTGGTCTATCCTTTTTTTTAGGACTCAAATCG
1 CCCTTTGCGGGTTTTCACATTGGTCTATCC--TTTTTTAGGACTCAAAGCG
*
31027296 CCCTTTGCGAGTTTTCACATTGGT-T-T-C-TTTTTAGGACTCAAAGCG
1 CCCTTTGCGGGTTTTCACATTGGTCTATCCTTTTTTAGGACTCAAAGCG
* *
31027341 CCCTTTACGGGTTTTCACCTTGGTC
1 CCCTTTGCGGGTTTTCACATTGGTC
31027366 CCTTCTCCTT
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
45 38 0.59
48 1 0.02
49 1 0.02
50 1 0.02
51 23 0.36
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.41
Consensus pattern (49 bp):
CCCTTTGCGGGTTTTCACATTGGTCTATCCTTTTTTAGGACTCAAAGCG
Found at i:31027907 original size:21 final size:21
Alignment explanation
Indices: 31027881--31027923 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
31027871 AATCCTTGTA
31027881 AGTCTTAGTCATTTTCCCCAC
1 AGTCTTAGTCATTTTCCCCAC
31027902 AGTCTTAGTCATTTTCCCCAC
1 AGTCTTAGTCATTTTCCCCAC
31027923 A
1 A
31027924 ATATTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.33, G:0.09, T:0.37
Consensus pattern (21 bp):
AGTCTTAGTCATTTTCCCCAC
Found at i:31028351 original size:12 final size:12
Alignment explanation
Indices: 31028336--31028376 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
31028326 CTTTGCCCTC
31028336 TCCTTTTTCTTT
1 TCCTTTTTCTTT
31028348 TCCTTTTT-TTT
1 TCCTTTTTCTTT
*
31028359 TCC-TTCTCTTT
1 TCCTTTTTCTTT
*
31028370 TTCTTTT
1 TCCTTTT
31028377 CTTCTTCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
10 3 0.12
11 11 0.46
12 10 0.42
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TCCTTTTTCTTT
Found at i:31028380 original size:16 final size:16
Alignment explanation
Indices: 31028338--31028381 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
31028328 TTGCCCTCTC
31028338 CTTTTTCTTTTC--CT
1 CTTTTTCTTTTCTTCT
*
31028352 -TTTTT-TTTCCTTCT
1 CTTTTTCTTTTCTTCT
31028366 CTTTTTCTTTTCTTCT
1 CTTTTTCTTTTCTTCT
31028382 TCAATCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
12 4 0.17
13 5 0.21
14 2 0.08
15 5 0.21
16 8 0.33
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (16 bp):
CTTTTTCTTTTCTTCT
Found at i:31030298 original size:19 final size:20
Alignment explanation
Indices: 31030274--31030320 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
31030264 TGGTGGACTT
* *
31030274 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
31030293 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
31030313 -AATGCAAA
1 TAATGCAAA
31030321 AAGGTGTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:31032731 original size:3 final size:3
Alignment explanation
Indices: 31032723--31032778 Score: 69
Period size: 3 Copynumber: 18.3 Consensus size: 3
31032713 ATAACCAAAT
* *
31032723 ATA ATA AT- ATCA ATA ATA ATA AGA GTA ATA ATA ATA ATAA ATA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
31032769 ATA ATA ATA A
1 ATA ATA ATA A
31032779 ATTAATTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 2 0.04
3 39 0.85
4 5 0.11
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:31032788 original size:28 final size:28
Alignment explanation
Indices: 31032723--31032789 Score: 55
Period size: 28 Copynumber: 2.3 Consensus size: 28
31032713 ATAACCAAAT
** * *
31032723 ATAATAATATCAATAATAATAAGAGT-A
1 ATAATAATAAGAATAATAATAATAATAA
*
31032750 ATAATAATAATAAATAATAATAATAATAA
1 ATAATAATAA-GAATAATAATAATAATAA
31032779 ATTAATTAATA
1 A-TAA-TAATA
31032790 GCAAAGATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 9 0.28
28 13 0.41
29 2 0.06
30 3 0.09
31 5 0.16
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (28 bp):
ATAATAATAAGAATAATAATAATAATAA
Found at i:31033549 original size:13 final size:13
Alignment explanation
Indices: 31033533--31033557 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31033523 GAAATAACAA
31033533 AAAAATATAAAAG
1 AAAAATATAAAAG
31033546 AAAAATATAAAA
1 AAAAATATAAAA
31033558 AATCTGTCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATATAAAAG
Found at i:31033926 original size:8 final size:7
Alignment explanation
Indices: 31033903--31033949 Score: 60
Period size: 7 Copynumber: 6.6 Consensus size: 7
31033893 ATAAATAGAC
31033903 TTTTATT
1 TTTTATT
31033910 TTTTATT
1 TTTTATT
31033917 TTTTATT
1 TTTTATT
31033924 TTTTCATT
1 TTTT-ATT
31033932 TTGTT-TT
1 TT-TTATT
*
31033939 TTTGATT
1 TTTTATT
31033946 TTTT
1 TTTT
31033950 TGTGCTTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 1 0.03
7 27 0.77
8 5 0.14
9 2 0.06
ACGTcount: A:0.11, C:0.02, G:0.04, T:0.83
Consensus pattern (7 bp):
TTTTATT
Found at i:31034446 original size:27 final size:27
Alignment explanation
Indices: 31034416--31034468 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
31034406 TTCATCGTCT
*
31034416 ACTACACCT-TCTGCTGATGTTCAATCC
1 ACTACACCTAT-TGCTGAAGTTCAATCC
*
31034443 ACTACGCCTATTGCTGAAGTTCAATC
1 ACTACACCTATTGCTGAAGTTCAATC
31034469 TGCTCCTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (27 bp):
ACTACACCTATTGCTGAAGTTCAATCC
Found at i:31037642 original size:18 final size:18
Alignment explanation
Indices: 31037605--31037642 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
31037595 AAAAACGTAC
*
31037605 ATTTTTTACATTTAATAT
1 ATTTTTTACATTTAAAAT
31037623 ATTTTTTA-ATTTCAAAAT
1 ATTTTTTACATTT-AAAAT
31037641 AT
1 AT
31037643 ATAGTGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTTACATTTAAAAT
Found at i:31045021 original size:16 final size:16
Alignment explanation
Indices: 31045000--31045044 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
31044990 ATTTTTTGAT
31045000 TTATTTTTGTAAGGTA
1 TTATTTTTGTAAGGTA
31045016 TTATTTTTGTAAGGTA
1 TTATTTTTGTAAGGTA
*
31045032 TTAGTTTTGTAAG
1 TTATTTTTGTAAG
31045045 AAAGGAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (16 bp):
TTATTTTTGTAAGGTA
Found at i:31045116 original size:3 final size:3
Alignment explanation
Indices: 31045108--31045154 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
31045098 GATCGGCATG
31045108 TTA TTA TTA 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 TTA TTA TTA TT
31045155 CGATGCAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Done.