Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1079
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: 410574
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 3
Found at i:6411 original size:13 final size:13
Alignment explanation
Indices: 6393--6417 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6383 CATAAAATGT
6393 TGTATCGATACAA
1 TGTATCGATACAA
6406 TGTATCGATACA
1 TGTATCGATACA
6418 TATTTTTTTT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:6499 original size:13 final size:13
Alignment explanation
Indices: 6481--6505 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6471 ATTACTCAAA
6481 TGTATCGATACAT
1 TGTATCGATACAT
6494 TGTATCGATACA
1 TGTATCGATACA
6506 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6607 original size:52 final size:52
Alignment explanation
Indices: 6514--6641 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
6504 CACTGATCTT
* *
6514 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATT-AAA
6565 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATTAAA
6617 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
6642 TCATATTTCG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 19 0.26
52 51 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATTAAA
Found at i:12263 original size:13 final size:13
Alignment explanation
Indices: 12245--12281 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
12235 AAGGATCTTA
*
12245 GTATCGATACGTT
1 GTATCGATACATT
12258 GTATCGATACATT
1 GTATCGATACATT
12271 GTATCGATACA
1 GTATCGATACA
12282 AAGGCACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:14727 original size:20 final size:22
Alignment explanation
Indices: 14692--14734 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
14682 ACAAAGGTTA
14692 AAACCCTAGAAAGTATCGATAC
1 AAACCCTAGAAAGTATCGATAC
14714 AAACCC-AG-AAGTATCGATAC
1 AAACCCTAGAAAGTATCGATAC
14734 A
1 A
14735 TGAAGAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 13 0.62
21 2 0.10
22 6 0.29
ACGTcount: A:0.47, C:0.23, G:0.14, T:0.16
Consensus pattern (22 bp):
AAACCCTAGAAAGTATCGATAC
Found at i:18784 original size:41 final size:44
Alignment explanation
Indices: 18726--18845 Score: 138
Period size: 45 Copynumber: 2.8 Consensus size: 44
18716 TTGGGTTATG
*
18726 ATAAAGTGCATCCTGCTCTTTGAGGAC-AAA-GGGAA-AAGGAA
1 ATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGGAAGAAGGAA
* * *
18767 ATAAAGTGTGTCTTGCTCTTTGATGACAAAAGGGGAAGGAAGGAA
1 ATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGGAA-GAAGGAA
* * *
18812 ATGAAGTGCGTCCTACTTTTTGAGGACTAAAAGG
1 ATAAAGTGCGTCCTGCTCTTTGAGGAC-AAAAGG
18846 TGCCACCAAC
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 23 0.36
42 3 0.05
43 5 0.08
45 27 0.42
46 6 0.09
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.24
Consensus pattern (44 bp):
ATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGGAAGAAGGAA
Found at i:18912 original size:66 final size:62
Alignment explanation
Indices: 18821--19454 Score: 527
Period size: 61 Copynumber: 10.3 Consensus size: 62
18811 AATGAAGTGC
* * * * *
18821 GTCCTACTTTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAATAAAAG
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG----AGAAAAG
18886 T
62 T
* *
18887 GTCTTGCTCTTTG-GAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA-AAAAGGAA
1 GTCCTGCTCTTTGAG-GACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAA-G--
*
18950 A
62 T
* * ** *
18951 GTGCACTGCTTTTTG-GAGACTAGAAGGTGCCACCAACTTGCGTGGGCTTTGCAAGGAGAAAA-C
1 GT-C-CTGCTCTTTGAG-GACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAAGT
* * *
19014 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-G-G-ATAGT
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAAGT
* * * * * *
19073 GTCTTCCTCTTTGAGGATTAGAAGGTGCCACCAACTTGTGTGGGCTTTCAAAGGA-AAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAAGT
19134 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA--AGAAAAG-
1 GTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAAGT
* * * **
19193 GTGCAATGCTTTTTGAGGAGT-GAAAGGTGCTGCCAACTTGTGT-GGCTTTAAAA-G-GAAAAGA
1 GT-C-CTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAAG-
*
19254 C
62 T
* * * * *
19255 ATCCTGCTCTTTGAGGATTAGAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGA-AAAGGT
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAAGT
* * * ** * * *
19316 ATCCTACTCTTTGAGGACTGGAAATTGCCACCAACTTGTGTGGACTTTAAAAGGA-AAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAAGT
* * * * * ** *
19377 ATCTTGCTCTTTAAGGATTAGAAGGTGCCACCAACTTATGTGGGAGTTGAAA-G-G-AAAGT
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAAGT
*
19436 GTCCTGCTCTTTAAGGACT
1 GTCCTGCTCTTTGAGGACT
19455 GAAAGAATAA
Statistics
Matches: 472, Mismatches: 72, Indels: 55
0.79 0.12 0.09
Matches are distributed among these distances:
58 2 0.00
59 70 0.15
60 54 0.11
61 234 0.50
62 10 0.02
63 2 0.00
64 2 0.00
65 2 0.00
66 92 0.19
67 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (62 bp):
GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAAGT
Found at i:19137 original size:120 final size:120
Alignment explanation
Indices: 18821--19454 Score: 591
Period size: 120 Copynumber: 5.2 Consensus size: 120
18811 AATGAAGTGC
* * * * *
18821 GTCCTACTTTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAATAAAAG
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG----A-AAAGG
* * *
18886 TGTCTTGCTCTTTG-GAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGAA
61 CGTCCTGCTCTTTGAG-GACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-----G--AAAGGAA
18950 AGT
118 AGT
* * ** *
18953 G-CACTGCTTTTTG-GAGACTAGAAGGTGCCACCAACTTGCGTGGGCTTTGCAAGGAGAAA-ACG
1 GTC-CTGCTCTTTGAG-GACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCG
*
19015 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGATAGT
63 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGT
* * * *
19073 GTCTTCCTCTTTGAGGATTAGAAGGTGCCACCAACTTGTGTGGGCTTTCAAAGGAAAAGGCGTCC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * *
19138 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG-
66 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-GAAAGGAAAGT
* * * ** * *
19193 GTGCAATGCTTTTTGAGGAGT-GAAAGGTGCTGCCAACTTGTGT-GGCTTTAAAAGGAAAAGACA
1 GT-C-CTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * *
19256 TCCTGCTCTTTGAGGATTAGAAA-GTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGT
63 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA-GT
* * * ** * * *
19316 ATCCTACTCTTTGAGGACTGGAAATTGCCACCAACTTGTGTGGACTTTAAAAGGAAAAGGCATCT
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * * **
19381 TGCTCTTTAAGGATTAGAAGGTGCCACCAACTTATGTGGGAGTTGAAAGGAAAGT
66 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGT
*
19436 GTCCTGCTCTTTAAGGACT
1 GTCCTGCTCTTTGAGGACT
19455 GAAAGAATAA
Statistics
Matches: 426, Mismatches: 59, Indels: 46
0.80 0.11 0.09
Matches are distributed among these distances:
119 3 0.01
120 126 0.30
121 104 0.24
122 97 0.23
123 1 0.00
127 44 0.10
128 5 0.01
131 2 0.00
132 44 0.10
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (120 bp):
GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGT
Found at i:19328 original size:182 final size:181
Alignment explanation
Indices: 18827--19420 Score: 617
Period size: 182 Copynumber: 3.2 Consensus size: 181
18817 GTGCGTCCTA
* *
18827 CTTTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAATAAAAGTGTCTT
1 CTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAA-GAAA---TCTT
* *
18892 GCTCTTTG-GAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGAAAGTGCA
61 GCTCTTTGAG-GATTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGG-AA-T-C-
* * ** * *
18956 CTGCTTTTTG-GAGACT-AGAAGGTGCCACCAACTTGCGTGGGCTTTGCAAGGAGAAAACGTCCT
120 CTGCTCTTTGAG-GACTGA-AAGGTGCCACCAACTTGTGTGGGCTTT--AAAAAGAAAAGGTCAT
19019 G
181 G
* * * ** *
19020 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-ATAG-TGTCTTCCTCT
1 CTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAAATCTTGCTCT
* **
19083 TTGAGGATTAGAAGGTGCCACCAACTTGTGTGGGCTTTCAAAGGAAAAGGCGTCCTGCTCTTTGA
66 TTGAGGATTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGAATCCTGCTCTTTGA
19148 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGCAATG
131 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGT-C-ATG
* * ** * *
19201 CTTTTTGAGGAGTGAAAGGTGCTGCCAACTTGTGT-GGCTTTAAAAGGAAAAGACATCCTGCTCT
1 CTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAAATCTTGCTCT
* * * *
19265 TTGAGGATTAGAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGTATCCTACTCTTTGA
66 TTGAGGATTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGAATCCTGCTCTTTGA
* * * *
19330 GGACTGGAAA-TTGCCACCAACTTGTGTGGACTTTAAAAGGAAAAGGCATCTTG
131 GGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGG--TCATG
* * * * *
19383 CTCTTTAAGGATTAGAAGGTGCCACCAACTTATGTGGG
1 CTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGG
19421 AGTTGAAAGG
Statistics
Matches: 342, Mismatches: 48, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
179 10 0.03
180 12 0.04
181 74 0.22
182 136 0.40
183 8 0.02
184 1 0.00
185 10 0.03
186 43 0.13
187 1 0.00
191 2 0.01
193 45 0.13
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (181 bp):
CTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAAATCTTGCTCT
TTGAGGATTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGAATCCTGCTCTTTGA
GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTCATG
Found at i:20447 original size:12 final size:12
Alignment explanation
Indices: 20430--20489 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
20420 CTTAAACATG
20430 TTCTTTTTTTCT
1 TTCTTTTTTTCT
20442 TTCTTTTTTTCT
1 TTCTTTTTTTCT
* *
20454 TTTTTTCTTTTTT
1 TTCTTT-TTTTCT
* *
20467 TTATTGTTTTTAT
1 TTCTT-TTTTTCT
*
20480 TGCTTTTTTT
1 TTCTTTTTTT
20490 AAAAAAGAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
12 22 0.55
13 17 0.43
14 1 0.03
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.83
Consensus pattern (12 bp):
TTCTTTTTTTCT
Found at i:20453 original size:20 final size:19
Alignment explanation
Indices: 20430--20489 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 19
20420 CTTAAACATG
20430 TTCTTTTTTTCTTTCTTTTT
1 TTCTTTTTTTCTTT-TTTTT
20450 TTCTTTTTTTCTTTTTTTT
1 TTCTTTTTTTCTTTTTTTT
*
20469 ATTGTTTTTATTGCTTTTTTT
1 -TTCTTTTT-TT-CTTTTTTT
20490 AAAAAAGAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 5 0.14
20 21 0.58
21 2 0.06
22 8 0.22
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.83
Consensus pattern (19 bp):
TTCTTTTTTTCTTTTTTTT
Found at i:20458 original size:7 final size:8
Alignment explanation
Indices: 20436--20467 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
20426 CATGTTCTTT
20436 TTTTCTTTC
1 TTTT-TTTC
20445 TTTTTTTC
1 TTTTTTTC
20453 TTTTTTTC
1 TTTTTTTC
20461 TTTTTTT
1 TTTTTTT
20468 TATTGTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 19 0.83
9 4 0.17
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTC
Found at i:22818 original size:51 final size:51
Alignment explanation
Indices: 22703--22822 Score: 134
Period size: 51 Copynumber: 2.4 Consensus size: 51
22693 GAAATAAGGC
* ** * * *
22703 CGGGGTTGGAGTATCCCCGATTGTGGGAAATTAGTGTTTTGGAAATAAAAT
1 CGGGGTTGAAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAAGAAAAT
** * *
22754 CGAAGCT-AGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAAGAAAAT
1 CGGGGTTGA-AGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAAGAAAAT
22805 CGGGGTTGAAGTATCCCC
1 CGGGGTTGAAGTATCCCC
22823 TCGAAAATAA
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
51 53 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (51 bp):
CGGGGTTGAAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAAGAAAAT
Found at i:22947 original size:28 final size:28
Alignment explanation
Indices: 22890--22962 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
22880 ATAAAGCCGA
22890 GGTTGGAGTATCCCTCG--GAAATAACAG
1 GGTTGGAGTATCCCT-GATGAAATAACAG
*
22917 GGTTGGAGTATCCCTGATGAAATAACGG
1 GGTTGGAGTATCCCTGATGAAATAACAG
*
22945 GGTTGGAGTACCCCTGAT
1 GGTTGGAGTATCCCTGAT
22963 TATGAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
26 1 0.02
27 15 0.36
28 26 0.62
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.25
Consensus pattern (28 bp):
GGTTGGAGTATCCCTGATGAAATAACAG
Found at i:23003 original size:109 final size:110
Alignment explanation
Indices: 22827--23040 Score: 351
Period size: 109 Copynumber: 2.0 Consensus size: 110
22817 ATCCCCTCGA
22827 AAATAACGGAATTGGAGTACCCCCGATTATGAAAAAAGATCAATATTTTAGATATAAAGCCGAGG
1 AAATAACGGAATTGGAGTACCCCCGATTATGAAAAAAGATCAATATTTTAGATATAAAGCCGAGG
*
22892 TTGGAGTAT-CCCTCGGAAATAACAGGGTTGGAGTATCCCTGATG
66 TTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATG
** * *
22936 AAATAACGGGGTTGGAGTACCCCTGATTATGAAAAAA-ATCAATATTTTTAGATATAAAGCCGGG
1 AAATAACGGAATTGGAGTACCCCCGATTATGAAAAAAGATCAATA-TTTTAGATATAAAGCCGAG
*
23000 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCC
65 GTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCC
23041 CGATTGTGAA
Statistics
Matches: 97, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
108 7 0.07
109 62 0.64
110 28 0.29
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (110 bp):
AAATAACGGAATTGGAGTACCCCCGATTATGAAAAAAGATCAATATTTTAGATATAAAGCCGAGG
TTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATG
Found at i:23120 original size:51 final size:51
Alignment explanation
Indices: 23026--23145 Score: 134
Period size: 51 Copynumber: 2.4 Consensus size: 51
23016 GAAAATAACG
* * * * * *
23026 GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATC-
1 GGGTTGGAGTATCCCCGATTGCGAAAAATCGATGCTTTAGAAATAAAACCA
** **
23076 GGAGTTGGAGTATCCCCGATTGCGGTAAATCGATGCTTTAGAAATGGAACCA
1 GG-GTTGGAGTATCCCCGATTGCGAAAAATCGATGCTTTAGAAATAAAACCA
23128 GGGTTGGAGTATCCCCGA
1 GGGTTGGAGTATCCCCGA
23146 GATGAAAAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
50 2 0.03
51 54 0.93
52 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTGCGAAAAATCGATGCTTTAGAAATAAAACCA
Found at i:25503 original size:33 final size:33
Alignment explanation
Indices: 25459--25559 Score: 148
Period size: 33 Copynumber: 3.1 Consensus size: 33
25449 TACATTGTAA
* * *
25459 AATGTATCGATAAAATGAGTAGTGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
* *
25492 ATTGTATCGATACAATGAGCAATGTATCAATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
*
25525 AATGTATCGATACAATGAACAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
25558 AA
1 AA
25560 ATTGTGAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:25519 original size:20 final size:19
Alignment explanation
Indices: 25494--25559 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
25484 ATCGATACAT
25494 TGTATCGATACAATGAGCAA
1 TGTATCGATACAATGA-CAA
25514 TG--T--AT-CAAT-ACAA
1 TGTATCGATACAATGACAA
25527 TGTATCGATACAATGAACAA
1 TGTATCGATACAATG-ACAA
25547 TGTATCGATACAA
1 TGTATCGATACAA
25560 ATTGTGAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 5 0.13
14 1 0.03
15 5 0.13
16 2 0.05
17 2 0.05
18 5 0.13
20 19 0.49
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (19 bp):
TGTATCGATACAATGACAA
Found at i:25559 original size:13 final size:13
Alignment explanation
Indices: 25481--25541 Score: 62
Period size: 13 Copynumber: 5.2 Consensus size: 13
25471 AAATGAGTAG
*
25481 TGTATCGATACAT
1 TGTATCGATACAA
25494 TGTATCGATACAA
1 TGTATCGATACAA
25507 TG-A--G---CAA
1 TGTATCGATACAA
*
25514 TGTATCAATACAA
1 TGTATCGATACAA
25527 TGTATCGATACAA
1 TGTATCGATACAA
25540 TG
1 TG
25542 AACAATGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
7 5 0.13
8 1 0.03
10 1 0.03
12 1 0.03
13 31 0.79
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:27265 original size:194 final size:194
Alignment explanation
Indices: 26936--27300 Score: 703
Period size: 194 Copynumber: 1.9 Consensus size: 194
26926 CATAAACAAG
26936 TTTTATTCACTCAAAAACACTCTAAAAACATGTTTTAAGTAATTTTCTATCAATAGAAGTTTTAG
1 TTTTATTCACTCAAAAACACTCTAAAAACATGTTTTAAGTAATTTTCTATCAATAGAAGTTTTAG
27001 AGTTATAAACAAGTGTTTTTGAAACCTTAATTCAAATGTTTTTAAGTAAAAAATACTTCAAAGTA
66 AGTTATAAACAAGTGTTTTTGAAACCTTAATTCAAATGTTTTTAAGTAAAAAATACTTCAAAGTA
*
27066 TCGATACATAGGTATTTGTATCGATACATTATGGTTGACTTGTACTCAAAAATACTTCAAGTGT
131 TCGATACATAGGTATTTGTATCGATACATTATGATTGACTTGTACTCAAAAATACTTCAAGTGT
*
27130 TTTTATTCACTCAAAAACACTCTAAAAACATGTTTTAAGTAATTTTCTATCAATGGAAGTTTTAG
1 TTTTATTCACTCAAAAACACTCTAAAAACATGTTTTAAGTAATTTTCTATCAATAGAAGTTTTAG
27195 AGTTATAAACAAGTGTTTTTGAAACCTTAATTCAAATGTTTTTAAGTAAAAAATACTTCAAAGTA
66 AGTTATAAACAAGTGTTTTTGAAACCTTAATTCAAATGTTTTTAAGTAAAAAATACTTCAAAGTA
*
27260 TCGATACATAGGTATTTGTATCGATACATTGTGATTGACTT
131 TCGATACATAGGTATTTGTATCGATACATTATGATTGACTT
27301 AAGCTACAAA
Statistics
Matches: 168, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
194 168 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (194 bp):
TTTTATTCACTCAAAAACACTCTAAAAACATGTTTTAAGTAATTTTCTATCAATAGAAGTTTTAG
AGTTATAAACAAGTGTTTTTGAAACCTTAATTCAAATGTTTTTAAGTAAAAAATACTTCAAAGTA
TCGATACATAGGTATTTGTATCGATACATTATGATTGACTTGTACTCAAAAATACTTCAAGTGT
Found at i:32744 original size:157 final size:157
Alignment explanation
Indices: 32454--32765 Score: 428
Period size: 157 Copynumber: 2.0 Consensus size: 157
32444 TCATTGATGT
* * * **
32454 TTTTATTTCCAAAACACTAATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGG
1 TTTTATTTCAAAAACACTAATTTTCCACAATCGGAGATACTCCAACCCCGTTATTTTCGAGGGAA
* * * * * * *
32519 TACTCCAACCCCGACTTTATTTCTAAATCATCAATTTTTCATAATCGGGGATACTCTAATCCCGT
66 TACTCCAACCCCAACTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCTAACCCCAT
32584 TATTTCT-GAGGGGATACTCCAACCCAG
131 TATTT-TAGAGGGGATACTCCAACCCAG
* * * *
32611 TTTTATTTCAAAAACAGTGATTTTTCACAATCGGAGATACTCCAACCCCGTTATTTTTGAGGGAA
1 TTTTATTTCAAAAACACTAATTTTCCACAATCGGAGATACTCCAACCCCGTTATTTTCGAGGGAA
* * * *
32676 TACTCCAACCCCAATTTTATTTCCAAAACACCGATTTTTCACCATTGGGGATACTCTAACCCCAT
66 TACTCCAACCCCAACTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCTAACCCCAT
32741 TATTTTAGAGGGGATACTCCAACCC
131 TATTTTAGAGGGGATACTCCAACCC
32766 CATTATTTTC
Statistics
Matches: 134, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
156 1 0.01
157 133 0.99
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (157 bp):
TTTTATTTCAAAAACACTAATTTTCCACAATCGGAGATACTCCAACCCCGTTATTTTCGAGGGAA
TACTCCAACCCCAACTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCTAACCCCAT
TATTTTAGAGGGGATACTCCAACCCAG
Found at i:32764 original size:28 final size:28
Alignment explanation
Indices: 32722--32793 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
32712 TTTCACCATT
*
32722 GGGGATACTCTAACCCCATTATTTTAGA
1 GGGGATACTCCAACCCCATTATTTTAGA
*
32750 GGGGATACTCCAACCCCATTATTTTCGA
1 GGGGATACTCCAACCCCATTATTTTAGA
*
32778 AGGGATACTCCAACCC
1 GGGGATACTCCAACCC
32794 TGACTTTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (28 bp):
GGGGATACTCCAACCCCATTATTTTAGA
Found at i:32767 original size:79 final size:78
Alignment explanation
Indices: 32454--32767 Score: 369
Period size: 79 Copynumber: 4.0 Consensus size: 78
32444 TCATTGATGT
* * * *
32454 TTTTATTTCCAAAACACTAATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGG
1 TTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTT-GAGGGGA
*
32519 TACTCCAACCCCGA
65 TACTCCAACCCCAA
* * * * * * *
32533 CTTTATTTCTAAATCATCAATTTTTCATAATCGGGGATACTCTAATCCCGTTATTTCTGAGGGGA
1 TTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTT-TGAGGGGA
*
32598 TACTCCAA-CCCAG
65 TACTCCAACCCCAA
* *** * *
32611 TTTTATTTCAAAAACAGTGATTTTTCACAATCGGAGATACTCCAACCCCGTTATTTTTGAGGGAA
1 TTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTA-TTTTGAGGGGA
32676 TACTCCAACCCCAA
65 TACTCCAACCCCAA
* * * * *
32690 TTTTATTTCCAAAACACCGATTTTTCACCATTGGGGATACTCTAACCCCATTATTTTAGAGGGGA
1 TTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTT-GAGGGGA
32755 TACTCCAACCCCA
65 TACTCCAACCCCA
32768 TTATTTTCGA
Statistics
Matches: 197, Mismatches: 34, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
78 65 0.33
79 131 0.66
80 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (78 bp):
TTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTGAGGGGAT
ACTCCAACCCCAA
Found at i:32772 original size:107 final size:107
Alignment explanation
Indices: 32646--32873 Score: 334
Period size: 107 Copynumber: 2.1 Consensus size: 107
32636 CACAATCGGA
* * *
32646 GATACTCCAACCCCGTTATTTTTG-AGGGAATACTCCAACCCCAATTTTATTTCCAAAACACCGA
1 GATACTCCAACCCCATTATTTTCGAAGGG-ATACTCCAACCCCAACTTTATTTCCAAAACACCGA
* *
32710 TTTTTCACCATTGGGGATACTCTAACCCCATTATTT-TAGAGGG
65 TTTTTCACAATCGGGGATACTCTAACCCCATTATTTCT-GAGGG
** * *
32753 GATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCTGACTTTATTTCTAAAACATCGAT
1 GATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCAACTTTATTTCCAAAACACCGAT
*
32818 TTTTCACAATCGGGGATACTCTAACCCCGTTATTTCTGAGGG
66 TTTTCACAATCGGGGATACTCTAACCCCATTATTTCTGAGGG
32860 GATACTCCAACCCC
1 GATACTCCAACCCC
32874 GGTTTTATTT
Statistics
Matches: 109, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
107 104 0.95
108 5 0.05
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (107 bp):
GATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCAACTTTATTTCCAAAACACCGAT
TTTTCACAATCGGGGATACTCTAACCCCATTATTTCTGAGGG
Found at i:32833 original size:79 final size:79
Alignment explanation
Indices: 32750--33089 Score: 432
Period size: 79 Copynumber: 4.3 Consensus size: 79
32740 TTATTTTAGA
* * *
32750 GGGGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCTGACTTTATTTCTAAAACATC
1 GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCTGGCTTTATTTCCAAAACATC
*
32815 GATTTTTCACAATC
66 AATTTTTCACAATC
* * * *
32829 GGGGATACTCTAACCCCGTTA-TTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACAT
1 GGGGATACTCCAACCCCGTTATTTTC-GAAGGGATACTCCAACCCTGGCTTTATTTCCAAAACAT
* *
32893 CTATTTTTCACCATC
65 CAATTTTTCACAATC
** * * * *
32908 GGGGATGTTCCAACCCTGTTATTTCCGAAGGGATACTCCAACCCTGGCTTTATTTCTAAAACAAC
1 GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCTGGCTTTATTTCCAAAACATC
* *
32973 AATTTTCCACATTC
66 AATTTTTCACAATC
* * *
32987 GGGGATACTCCAACCCCGTTA-TTTCCAAGGGAATGCTCCAACCCTGGTTTTATTTCCAAAACAT
1 GGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCCTGGCTTTATTTCCAAAACAT
* *
33051 CAATTTTTCACGATT
65 CAATTTTTCACAATC
*
33066 GGGGATACTCTAACCCCGTTATTT
1 GGGGATACTCCAACCCCGTTATTT
33090 CTGAGGGGGT
Statistics
Matches: 220, Mismatches: 37, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
78 12 0.05
79 203 0.92
80 5 0.02
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCTGGCTTTATTTCCAAAACATC
AATTTTTCACAATC
Found at i:32846 original size:186 final size:185
Alignment explanation
Indices: 32565--32951 Score: 517
Period size: 186 Copynumber: 2.1 Consensus size: 185
32555 TTTCATAATC
* * * * *
32565 GGGGATACTCTAATCCCGTTATTTCTGAGGGGATACTCCAACCCAGTTTTATTTCAAAAACAGTG
1 GGGGATACTCCAACCCCATTATTTCTGAAGGGATACTCCAACCCAGCTTTATTTCAAAAACAGTG
*
32630 ATTTTTCACAATCGGAGATACTCCAACCCCGTTATTTTTGAGGGAATACTCCAACCCCAATTTTA
66 ATTTTTCACAATCGGAGATACTCCAACCCCGTTATTTCTGAGGGAATACTCCAACCCCAATTTTA
* * *
32695 TTTCCAAAACACCGATTTTTCACCATTGGGGATACTCTAACCCCATTATTTTAGA
131 TTTCCAAAACACCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCAGA
* *
32750 GGGGATACTCCAACCCCATTATTT-TCGAAGGGATACTCCAACCCTGACTTTATTTCTAAAACA-
1 GGGGATACTCCAACCCCATTATTTCT-GAAGGGATACTCCAACCCAG-CTTTATTTCAAAAACAG
* * * **
32813 TCGATTTTTCACAATCGGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTT
64 T-GATTTTTCACAATCGGAGATACTCCAACCCCGTTATTTCTGAGGGAATACTCCAACCCCAATT
* * ** ** *
32878 TTATTTCCAAAACATCTATTTTTCACCATCGGGGATGTTCCAACCCTGTTATTTCCGA
128 TTATTTCCAAAACACCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCAGA
*
32936 AGGGATACTCCAACCC
1 GGGGATACTCCAACCC
32952 TGGCTTTATT
Statistics
Matches: 175, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
184 1 0.01
185 40 0.23
186 134 0.77
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (185 bp):
GGGGATACTCCAACCCCATTATTTCTGAAGGGATACTCCAACCCAGCTTTATTTCAAAAACAGTG
ATTTTTCACAATCGGAGATACTCCAACCCCGTTATTTCTGAGGGAATACTCCAACCCCAATTTTA
TTTCCAAAACACCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCAGA
Found at i:32963 original size:158 final size:158
Alignment explanation
Indices: 32750--33090 Score: 502
Period size: 158 Copynumber: 2.2 Consensus size: 158
32740 TTATTTTAGA
* * *
32750 GGGGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCTGACTTTATTTCTAAAACATC
1 GGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCTGACTTTATTTCTAAAACAAC
* * * ** *
32815 GATTTTTCACAATCGGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTT
66 AATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTCCAAGGGAATACTCCAACCCCGGTTTT
*
32880 ATTTCCAAAACATCTATTTTTCACCATC
131 ATTTCCAAAACATCAATTTTTCACCATC
** * *
32908 GGGGATGTTCCAACCCTGTTATTTCCGAAGGGATACTCCAACCCTGGCTTTATTTCTAAAACAAC
1 GGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCTGACTTTATTTCTAAAACAAC
* * *
32973 AATTTTCCACATTCGGGGATACTCCAACCCCGTTATTTCCAAGGGAATGCTCCAACCCTGGTTTT
66 AATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTCCAAGGGAATACTCCAACCCCGGTTTT
* *
33038 ATTTCCAAAACATCAATTTTTCACGATT
131 ATTTCCAAAACATCAATTTTTCACCATC
*
33066 GGGGATACTCTAACCCCGTTATTTC
1 GGGGATACTCCAACCCCGTTATTTC
33091 TGAGGGGGTA
Statistics
Matches: 160, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
158 160 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (158 bp):
GGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCTGACTTTATTTCTAAAACAAC
AATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTCCAAGGGAATACTCCAACCCCGGTTTT
ATTTCCAAAACATCAATTTTTCACCATC
Found at i:35624 original size:6 final size:6
Alignment explanation
Indices: 35608--35662 Score: 53
Period size: 6 Copynumber: 9.3 Consensus size: 6
35598 AAAAAAAGGC
* *
35608 AAAAC- AAAACA AAAACAA AAAACA AAAA-A TAAA-A AAAACA AAAAAA
1 AAAACA AAAACA AAAAC-A AAAACA AAAACA AAAACA AAAACA AAAACA
35654 AAAAGCA AA
1 AAAA-CA AA
35663 CTTTGATGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
5 13 0.31
6 20 0.48
7 9 0.21
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (6 bp):
AAAACA
Found at i:35628 original size:7 final size:7
Alignment explanation
Indices: 35613--35662 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
35603 AAGGCAAAAC
35613 AAAAC-A
1 AAAACAA
35619 AAAACAA
1 AAAACAA
35626 AAAACAAA
1 AAAAC-AA
*
35634 AAATAAAA
1 AAA-ACAA
35642 AAAACAA
1 AAAACAA
35649 AAAA-AA
1 AAAACAA
*
35655 AAAGCAA
1 AAAACAA
35662 A
1 A
35663 CTTTGATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
6 10 0.27
7 16 0.43
8 10 0.27
9 1 0.03
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (7 bp):
AAAACAA
Found at i:35629 original size:13 final size:12
Alignment explanation
Indices: 35608--35662 Score: 60
Period size: 12 Copynumber: 4.7 Consensus size: 12
35598 AAAAAAAGGC
*
35608 AAAAC-AAAACA
1 AAAACAAAAAAA
*
35619 AAAACAAAAAAC
1 AAAACAAAAAAA
*
35631 AAAA-AATAAAA
1 AAAACAAAAAAA
35642 AAAACAAAAAAA
1 AAAACAAAAAAA
35654 AAAAGCAAA
1 AAAA-CAAA
35663 CTTTGATGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 14 0.39
12 18 0.50
13 4 0.11
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (12 bp):
AAAACAAAAAAA
Found at i:37034 original size:28 final size:28
Alignment explanation
Indices: 36956--37034 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
36946 TTATCAAAAG
* *
36956 GAAGCCCACATTAGTTGTCACAAGAATC
1 GAAGCCCACATTAGTTGGCACATGAATC
* * *
36984 AAAGCCCATATTAGATGGCACATGAATC
1 GAAGCCCACATTAGTTGGCACATGAATC
*
37012 GAAGCCCACACTAGTTGGCACAT
1 GAAGCCCACATTAGTTGGCACAT
37035 AAGCCAAAGC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.20
Consensus pattern (28 bp):
GAAGCCCACATTAGTTGGCACATGAATC
Found at i:37043 original size:56 final size:55
Alignment explanation
Indices: 36956--37133 Score: 171
Period size: 56 Copynumber: 3.2 Consensus size: 55
36946 TTATCAAAAG
* * *
36956 GAAGCCCACATTAGTTGTCACAAGAATCAAAGCCCATATTAGATGGCACATGAATC
1 GAAGCCCACACTAGTTGGCACAA-AGTCAAAGCCCATATTAGATGGCACATGAATC
* * * * *
37012 GAAGCCCACACTAGTTGGCACATAAGCCAAAGCCCATGTTCGTTGGCACA--AGTC
1 GAAGCCCACACTAGTTGGCACA-AAGTCAAAGCCCATATTAGATGGCACATGAATC
** ** * * *
37066 GAAGCTTACACTAACTAGCACACAAGTCTAAGCCCATATTTGATGGCACATGAATC
1 GAAGCCCACACTAGTTGGCACA-AAGTCAAAGCCCATATTAGATGGCACATGAATC
*
37122 GAAACCCACACT
1 GAAGCCCACACT
37134 TGCTTGCATA
Statistics
Matches: 96, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
54 42 0.44
56 53 0.55
57 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (55 bp):
GAAGCCCACACTAGTTGGCACAAAGTCAAAGCCCATATTAGATGGCACATGAATC
Found at i:37113 original size:54 final size:55
Alignment explanation
Indices: 36983--37133 Score: 151
Period size: 54 Copynumber: 2.7 Consensus size: 55
36973 TCACAAGAAT
** * *
36983 CAAAGCCCATATTAGATGGCACATGAATCGAAGCCCACACTAGTTGGCACATAAGC
1 CAAAGCCCATATTAGATGGCACA-GAATCGAAGCCCACACTAACTAGCACACAAGC
* * * * ** *
37039 CAAAGCCCATGTTCGTTGGCACA-AGTCGAAGCTTACACTAACTAGCACACAAGT
1 CAAAGCCCATATTAGATGGCACAGAATCGAAGCCCACACTAACTAGCACACAAGC
* * *
37093 CTAAGCCCATATTTGATGGCACATGAATCGAAACCCACACT
1 CAAAGCCCATATTAGATGGCACA-GAATCGAAGCCCACACT
37134 TGCTTGCATA
Statistics
Matches: 74, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
54 42 0.57
56 32 0.43
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (55 bp):
CAAAGCCCATATTAGATGGCACAGAATCGAAGCCCACACTAACTAGCACACAAGC
Found at i:37183 original size:26 final size:26
Alignment explanation
Indices: 37143--37303 Score: 133
Period size: 26 Copynumber: 6.0 Consensus size: 26
37133 TTGCTTGCAT
37143 AAGTCAAAGCCTACATTCATTGGCAC
1 AAGTCAAAGCCTACATTCATTGGCAC
*
37169 AAGTCAAAGCTTACATTCATTGGCAC
1 AAGTCAAAGCCTACATTCATTGGCAC
* * ** *
37195 ATAAGTCTAAGCCCACATTCGCTAGCAC
1 --AAGTCAAAGCCTACATTCATTGGCAC
* * * *
37223 ATAAGTCAAAGCCCACGTTCGTCGGCAC
1 --AAGTCAAAGCCTACATTCATTGGCAC
* * *
37251 AAGTCAAAACCTACATTTATTGGCAT
1 AAGTCAAAGCCTACATTCATTGGCAC
* * **
37277 AACTCAAAGCCCACATTTGTTGGCAC
1 AAGTCAAAGCCTACATTCATTGGCAC
37303 A
1 A
37304 CAAGTAAGCC
Statistics
Matches: 109, Mismatches: 24, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
26 66 0.61
28 43 0.39
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.24
Consensus pattern (26 bp):
AAGTCAAAGCCTACATTCATTGGCAC
Found at i:37195 original size:108 final size:109
Alignment explanation
Indices: 36985--37209 Score: 292
Period size: 108 Copynumber: 2.1 Consensus size: 109
36975 ACAAGAATCA
* **
36985 AAGCCCATATTAGATGGCACATGAATCGAAGCCCACACTAGTTGGCACATAAGCCAAAGCCCATG
1 AAGCCCATATTAGATGGCACATGAATCGAAACCCACACTAGTTGG-ACATAAGCCAAAGCCCACA
* *
37050 TTCGTTGGCACAAGTCGAAGCTTACACTAACTAGCACACAAGTCT
65 TTCATTGGCACAAGTCAAAGCTTACACTAACTAGCACACAAGTCT
* * * *
37095 AAGCCCATATTTGATGGCACATGAATCGAAACCCACACTTGCTT-G-CATAAGTCAAAGCCTACA
1 AAGCCCATATTAGATGGCACATGAATCGAAACCCACACTAG-TTGGACATAAGCCAAAGCCCACA
* * * * *
37158 TTCATTGGCACAAGTCAAAGCTTACATTCATTGGCACATAAGTCT
65 TTCATTGGCACAAGTCAAAGCTTACACTAACTAGCACACAAGTCT
37203 AAGCCCA
1 AAGCCCA
37210 CATTCGCTAG
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
108 59 0.59
110 39 0.39
111 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (109 bp):
AAGCCCATATTAGATGGCACATGAATCGAAACCCACACTAGTTGGACATAAGCCAAAGCCCACAT
TCATTGGCACAAGTCAAAGCTTACACTAACTAGCACACAAGTCT
Found at i:37223 original size:108 final size:108
Alignment explanation
Indices: 36985--37327 Score: 277
Period size: 108 Copynumber: 3.2 Consensus size: 108
36975 ACAAGAATCA
* * * * * * * *
36985 AAGCCCATATTAGATGGCACATGAATCGAAGCCCACACTAG-TTGGCACATAAGCCAAAGCCCAT
1 AAGCCCACATTAGCTAGCACATGAATCGAAACCCACACTTGCTT-G--CATAAGTCAAAGCCTAC
* * * * * *
37049 GTTCGTTGGCACAAGTCGAAGCTTACACTAACTAGCACACAAGTCT
63 ATTCATTGGCACAAGTCAAAGCTTACATTAATTGGCACACAAGTCT
* * * *
37095 AAGCCCATATTTGATGGCACATGAATCGAAACCCACACTTGCTTGCATAAGTCAAAGCCTACATT
1 AAGCCCACATTAGCTAGCACATGAATCGAAACCCACACTTGCTTGCATAAGTCAAAGCCTACATT
* *
37160 CATTGGCACAAGTCAAAGCTTACATTCATTGGCACATAAGTCT
66 CATTGGCACAAGTCAAAGCTTACATTAATTGGCACACAAGTCT
* * * * *
37203 AAGCCCACATTCGCTAGCACAT-AAGTC-AAAGCCCAC-GTT-CGTCGGCACAAGTCAAAACCTA
1 AAGCCCACATTAGCTAGCACATGAA-TCGAAA-CCCACACTTGC-T-TGCATAAGTCAAAGCCTA
* * * ** **
37264 CATTTATTGGCATAACTCAAAGCCCACATTTGTTGGCACACAAG--T
62 CATTCATTGGCACAAGTCAAAGCTTACATTAATTGGCACACAAGTCT
*
37309 AAGCCCACACTAGCTAGCA
1 AAGCCCACATTAGCTAGCA
37328 TGTGAGTCAA
Statistics
Matches: 196, Mismatches: 32, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
106 19 0.10
107 8 0.04
108 128 0.65
110 39 0.20
111 2 0.01
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.22
Consensus pattern (108 bp):
AAGCCCACATTAGCTAGCACATGAATCGAAACCCACACTTGCTTGCATAAGTCAAAGCCTACATT
CATTGGCACAAGTCAAAGCTTACATTAATTGGCACACAAGTCT
Found at i:37250 original size:82 final size:80
Alignment explanation
Indices: 37140--37293 Score: 209
Period size: 82 Copynumber: 1.9 Consensus size: 80
37130 CACTTGCTTG
* * * * * *
37140 CATAAGTCAAAGCCTACATTCATTGGCACAAGTCAAAGCTTACATTCATTGGCACATAAGTCTAA
1 CATAAGTCAAAGCCCACATTCATCGGCACAAGTCAAAACCTACATTCATTGG--CATAACTCAAA
37205 GCCCACATTCGCTAGCA
64 GCCCACATTCGCTAGCA
* * *
37222 CATAAGTCAAAGCCCACGTTCGTCGGCACAAGTCAAAACCTACATTTATTGGCATAACTCAAAGC
1 CATAAGTCAAAGCCCACATTCATCGGCACAAGTCAAAACCTACATTCATTGGCATAACTCAAAGC
37287 CCACATT
66 CCACATT
37294 TGTTGGCACA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
80 18 0.29
82 45 0.71
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.23
Consensus pattern (80 bp):
CATAAGTCAAAGCCCACATTCATCGGCACAAGTCAAAACCTACATTCATTGGCATAACTCAAAGC
CCACATTCGCTAGCA
Found at i:37405 original size:28 final size:28
Alignment explanation
Indices: 37280--37409 Score: 104
Period size: 28 Copynumber: 4.7 Consensus size: 28
37270 TTGGCATAAC
* * *
37280 TCAAAGCCCACATTTGTTGGCACACAAG
1 TCAAAGCCCACACTAGTTGGCATACAAG
* * ***
37308 T--AAGCCCACACTAGCTAGCATGTGAG
1 TCAAAGCCCACACTAGTTGGCATACAAG
*
37334 TCAAAGCCCACACTAGTTGGCA-CCTAAG
1 TCAAAGCCCACACTAGTTGGCATAC-AAG
* * * *
37362 TTACAGCTCACGCTAGTTGGCATACAAG
1 TCAAAGCCCACACTAGTTGGCATACAAG
*
37390 TCAAAGCCTACACTAGTTGG
1 TCAAAGCCCACACTAGTTGG
37410 TACCTCATAG
Statistics
Matches: 75, Mismatches: 23, Indels: 8
0.71 0.22 0.08
Matches are distributed among these distances:
26 18 0.24
28 56 0.75
29 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (28 bp):
TCAAAGCCCACACTAGTTGGCATACAAG
Found at i:37679 original size:17 final size:17
Alignment explanation
Indices: 37657--37692 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
37647 TAGTTTATTA
37657 TACAAAATTTGATTCAT
1 TACAAAATTTGATTCAT
37674 TACAAAATTTGATTCAT
1 TACAAAATTTGATTCAT
37691 TA
1 TA
37693 AGACTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.42
Consensus pattern (17 bp):
TACAAAATTTGATTCAT
Found at i:38353 original size:22 final size:22
Alignment explanation
Indices: 38325--38367 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
38315 AGAAAGGGAA
*
38325 AAGGAAA-GAAGAAAGAAAGAAG
1 AAGGAAAGGAA-AAAAAAAGAAG
38347 AAGGAAAGGAAAAAAAAAGAA
1 AAGGAAAGGAAAAAAAAAGAA
38368 AAAAAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (22 bp):
AAGGAAAGGAAAAAAAAAGAAG
Found at i:39147 original size:110 final size:110
Alignment explanation
Indices: 38930--39508 Score: 592
Period size: 110 Copynumber: 5.2 Consensus size: 110
38920 ATAAATATAG
*
38930 CTTTATATAGGATAATTCA-TCTTTTGCATTAATTACGTAAATTCGGGCACCAAAAGATT-GCCC
1 CTTTATATAGGATAATTCATTTTTTTGCATTAATTACGTAAATTCGGGCACCAAAAGATTGGCCC
* * *
38993 TCGAAATAGTTCA-CTGTCTAGATTTATAAAGTGGCGTACAAATGCC
66 T-GAAATAGGTCATC-GTCTAGAGTCATAAAGTGGCGTACAAATGCC
* * * *
39039 CTTTACATAGGATAATTTA-TTTTTTGCATTAACTACGTAAATTTCGGGCACCAAAGGATTGGCC
1 CTTTATATAGGATAATTCATTTTTTTGCATTAATTACGTAAA-TTCGGGCACCAAAAGATTGGCC
* * * * *
39103 CTGAAATTGGTCATGGTTTAGAGTCATAAAGTGGCATACCAATGCC
65 CTGAAATAGGTCATCGTCTAGAGTCATAAAGTGGCGTACAAATGCC
* * * **
39149 CTTTATATAGGATAATTCATTTTTTTGCATTAATTATGTAGATTCGGGCACCGAAAGATTGGCGT
1 CTTTATATAGGATAATTCATTTTTTTGCATTAATTACGTAAATTCGGGCACCAAAAGATTGGCCC
* * * **
39214 TCAAATAGGTCATCGTCTAGAGTCATAAAGTGGTGTATAAACACC
66 TGAAATAGGTCATCGTCTAGAGTCATAAAGTGGCGTACAAATGCC
* * * * *
39259 CTTTATATAGGACAATTCATTTCATTTTTTTGCATTAATTACATAGATTCGGGTACTAAAAGATT
1 CTTTATATAGG---A-T-AATTCATTTTTTTGCATTAATTACGTAAATTCGGGCACCAAAAGATT
* * **
39324 GG-TCTCGAAATAGGTCATCGTCTAGAGTCATAAAGTGGCATATGAATGCC
61 GGCCCT-GAAATAGGTCATCGTCTAGAGTCATAAAGTGGCGTACAAATGCC
* * * * ** * * *
39374 TTTTATATAGGACAATTCATTTTTTTGCATTAATAACATAAATTCAAGCACTACAGGATTGGCCC
1 CTTTATATAGGATAATTCATTTTTTTGCATTAATTACGTAAATTCGGGCACCAAAAGATTGGCCC
* ** * * *
39439 CGAAATAAATCATCGTATAGAGTCTTAAAGTGGCGTACGAATGCC
66 TGAAATAGGTCATCGTCTAGAGTCATAAAGTGGCGTACAAATGCC
* * *
39484 TTTTATGTACGATAATTCATTTTTT
1 CTTTATATAGGATAATTCATTTTTT
39509 CATATAAATT
Statistics
Matches: 392, Mismatches: 67, Indels: 21
0.82 0.14 0.04
Matches are distributed among these distances:
109 37 0.09
110 235 0.60
111 25 0.06
112 1 0.00
113 1 0.00
114 2 0.01
115 91 0.23
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (110 bp):
CTTTATATAGGATAATTCATTTTTTTGCATTAATTACGTAAATTCGGGCACCAAAAGATTGGCCC
TGAAATAGGTCATCGTCTAGAGTCATAAAGTGGCGTACAAATGCC
Found at i:39436 original size:225 final size:226
Alignment explanation
Indices: 38930--39471 Score: 534
Period size: 225 Copynumber: 2.4 Consensus size: 226
38920 ATAAATATAG
* * * * ** *
38930 CTTTATATAGGATAATTCA-TCTTTTGCATTAATTACGTAAATTCGGGCACCAAAAGATT-GCCC
1 CTTTATATAGGACAATTCATTTTTTTGCATTAATAACATAAATTCAAGCACCGAAAGATTGGCCC
** * * * * * ** * *
38993 TCGAAATAGTTCA-CTGTCTAGATTTATAAAGTGGCGTACAAATGCCCTTTACATAGG---A-TA
66 -CGAAATAAATCATC-GTATAGAGTCATAAAGTGGTGTATAAACACCCTTTATATAGGACAATTC
* * *
39053 ATTT-A-TTTTTTGCATTAACTACGTAAATTTCGGGCACCAAAGGATTGGCCCTGAAATTGGTCA
129 ATTTCATTTTTTTGCATTAACTACATAAATTTCGGGCACCAAAAGATTGGCCCTGAAATAGGTCA
* *
39116 TGGTTTAGAGTCATAAAGTGGCATACCAATGCC
194 TCGTCTAGAGTCATAAAGTGGCATACCAATGCC
* * ** * ** *
39149 CTTTATATAGGATAATTCATTTTTTTGCATTAATTATGTAGATTCGGGCACCGAAAGATTGGCGT
1 CTTTATATAGGACAATTCATTTTTTTGCATTAATAACATAAATTCAAGCACCGAAAGATTGGC-C
* ** *
39214 TC-AAATAGGTCATCGTCTAGAGTCATAAAGTGGTGTATAAACACCCTTTATATAGGACAATTCA
65 CCGAAATAAATCATCGTATAGAGTCATAAAGTGGTGTATAAACACCCTTTATATAGGACAATTCA
* * * * *
39278 TTTCATTTTTTTGCATTAATTACATAGA-TTCGGGTACTAAAAGATTGG-TCTCGAAATAGGTCA
130 TTTCATTTTTTTGCATTAACTACATAAATTTCGGGCACCAAAAGATTGGCCCT-GAAATAGGTCA
**
39341 TCGTCTAGAGTCATAAAGTGGCATATGAATGCC
194 TCGTCTAGAGTCATAAAGTGGCATACCAATGCC
* * *
39374 TTTTATATAGGACAATTCATTTTTTTGCATTAATAACATAAATTCAAGCA-CTACAGGATTGGCC
1 CTTTATATAGGACAATTCATTTTTTTGCATTAATAACATAAATTCAAGCACCGA-AAGATTGGCC
*
39438 CCGAAATAAATCATCGTATAGAGTCTTAAAGTGG
65 CCGAAATAAATCATCGTATAGAGTCATAAAGTGG
39472 CGTACGAATG
Statistics
Matches: 267, Mismatches: 43, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
219 19 0.07
220 80 0.30
221 4 0.01
223 1 0.00
224 10 0.04
225 134 0.50
226 19 0.07
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (226 bp):
CTTTATATAGGACAATTCATTTTTTTGCATTAATAACATAAATTCAAGCACCGAAAGATTGGCCC
CGAAATAAATCATCGTATAGAGTCATAAAGTGGTGTATAAACACCCTTTATATAGGACAATTCAT
TTCATTTTTTTGCATTAACTACATAAATTTCGGGCACCAAAAGATTGGCCCTGAAATAGGTCATC
GTCTAGAGTCATAAAGTGGCATACCAATGCC
Found at i:39783 original size:9 final size:9
Alignment explanation
Indices: 39765--39808 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
39755 TTTTTTAAAC
*
39765 AATAATAAT
1 AATAAAAAT
39774 AATAAAAAT
1 AATAAAAAT
39783 AATAAAAAAAT
1 AAT--AAAAAT
39794 AATAAAAA-
1 AATAAAAAT
39802 AATAAAA
1 AATAAAA
39809 TACTTTTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
8 7 0.22
9 16 0.50
11 9 0.28
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AATAAAAAT
Found at i:39793 original size:11 final size:11
Alignment explanation
Indices: 39768--39806 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
39758 TTTAAACAAT
39768 AATAATAATAAA
1 AATAATAA-AAA
39780 AATAATAAAAA
1 AATAATAAAAA
39791 AATAATAAAAA
1 AATAATAAAAA
39802 AATAA
1 AATAA
39807 AATACTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 19 0.70
12 8 0.30
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AATAATAAAAA
Found at i:39796 original size:20 final size:19
Alignment explanation
Indices: 39771--39808 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
39761 AAACAATAAT
39771 AATAATAAAAATAATAAAAA
1 AATAATAAAAA-AATAAAAA
39791 AATAATAAAAAAATAAAA
1 AATAATAAAAAAATAAAA
39809 TACTTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (19 bp):
AATAATAAAAAAATAAAAA
Found at i:41265 original size:13 final size:13
Alignment explanation
Indices: 41247--41272 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41237 CAATTTTTTG
41247 TGTATCGATACAT
1 TGTATCGATACAT
41260 TGTATCGATACAT
1 TGTATCGATACAT
41273 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:41284 original size:32 final size:33
Alignment explanation
Indices: 41227--41290 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
41217 TACAAGCCAA
**
41227 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
41260 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
41291 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:43847 original size:13 final size:13
Alignment explanation
Indices: 43831--43867 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
43821 AATCCCCCTA
*
43831 TATCGATACAGTG
1 TATCGATACAATG
43844 TATCGATACAATG
1 TATCGATACAATG
43857 TATCGATACAA
1 TATCGATACAA
43868 AGAAAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:45957 original size:15 final size:15
Alignment explanation
Indices: 45937--45967 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45927 ATTTCGTTTG
*
45937 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
45952 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
45967 G
1 G
45968 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:50017 original size:20 final size:20
Alignment explanation
Indices: 49992--50043 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
49982 TACAAGCCAA
**
49992 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
50012 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
50031 TGTATCGATACAA
1 TGTATCGATACAA
50044 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:51093 original size:23 final size:22
Alignment explanation
Indices: 51054--51107 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
51044 GGGAATTTTA
*
51054 TGAAATTTTTAGGAAAAATATT
1 TGAAAATTTTAGGAAAAATATT
51076 TGAAAATTTTAGGAAAAATATT
1 TGAAAATTTTAGGAAAAATATT
51098 TGAAAATTTT
1 TGAAAATTTT
51108 GAAAAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (22 bp):
TGAAAATTTTAGGAAAAATATT
Found at i:51113 original size:10 final size:11
Alignment explanation
Indices: 51066--51113 Score: 50
Period size: 10 Copynumber: 4.5 Consensus size: 11
51056 AAATTTTTAG
51066 GAAAAATATTT
1 GAAAAATATTT
51077 G-AAAAT-TTT
1 GAAAAATATTT
51086 AGGAAAAATATTT
1 --GAAAAATATTT
51099 G-AAAAT-TTT
1 GAAAAATATTT
51108 GAAAAA
1 GAAAAA
51114 AATCATATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
9 7 0.22
10 14 0.44
11 3 0.09
12 5 0.16
13 3 0.09
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.33
Consensus pattern (11 bp):
GAAAAATATTT
Found at i:51116 original size:22 final size:22
Alignment explanation
Indices: 51054--51114 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
51044 GGGAATTTTA
* *
51054 TGAAATTTTTAGGAAAAATATT
1 TGAAAATTTTAGAAAAAATATT
*
51076 TGAAAATTTTAGGAAAAATATT
1 TGAAAATTTTAGAAAAAATATT
51098 TGAAAATTTT-GAAAAAA
1 TGAAAATTTTAGAAAAAA
51115 ATCATATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
21 6 0.16
22 31 0.84
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (22 bp):
TGAAAATTTTAGAAAAAATATT
Found at i:53173 original size:21 final size:20
Alignment explanation
Indices: 53126--53179 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
53116 TATTTCAAGC
*
53126 ATGTATCGATATATTCACTT
1 ATGTATCGATACATTCACTT
53146 ATGTATCGATACATTGC-CTT
1 ATGTATCGATACATT-CACTT
*
53166 ATTGTATCAATACA
1 A-TGTATCGATACA
53180 AATTGCTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:54516 original size:13 final size:13
Alignment explanation
Indices: 54498--54522 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54488 CATTTTATGG
54498 TGTATCGATACAA
1 TGTATCGATACAA
54511 TGTATCGATACA
1 TGTATCGATACA
54523 TACTTTGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:54538 original size:32 final size:33
Alignment explanation
Indices: 54475--54542 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
54465 CGTTGCAAGC
*
54475 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATCTTATGGTGTATCGATA
54508 CAATGTATCGATACATACTT-T-GTGTATCGATA
1 CAATGTATCGATACAT-CTTATGGTGTATCGATA
54540 CAA
1 CAA
54543 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 17 0.52
34 2 0.06
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACATCTTATGGTGTATCGATA
Found at i:54618 original size:20 final size:20
Alignment explanation
Indices: 54593--54649 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
54583 ACATCTTTTT
*
54593 CATGTATCGATACAATGCAA
1 CATGTATCGATACAATGAAA
** *
54613 CATGTATCGATACTTTTAAA
1 CATGTATCGATACAATGAAA
*
54633 TATGTATCGATACAATG
1 CATGTATCGATACAATG
54650 TATCGATACA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATGAAA
Found at i:54652 original size:13 final size:13
Alignment explanation
Indices: 54634--54659 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54624 ACTTTTAAAT
54634 ATGTATCGATACA
1 ATGTATCGATACA
54647 ATGTATCGATACA
1 ATGTATCGATACA
54660 TACTTTGTGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:54680 original size:137 final size:137
Alignment explanation
Indices: 54477--54782 Score: 562
Period size: 137 Copynumber: 2.2 Consensus size: 137
54467 TTGCAAGCCA
54477 ATGTATCGATACATTTT--ATGGTGTATCGATACAATGTATCGATACATACTTTGTGTATCGATA
1 ATGTATCGATAC-TTTTAAAT-GTGTATCGATACAATGTATCGATACATACTTTGTGTATCGATA
*
54540 CAAGTTTGGCTACTGCCAAGAAATCCCAATGACATGTATCGATACATCTTTTTCATGTATCGATA
64 CAAGTTTGGCTACTGCCAAGAAATCCCAAAGACATGTATCGATACATCTTTTTCATGTATCGATA
54605 CAATGCAAC
129 CAATGCAAC
*
54614 ATGTATCGATACTTTTAAATATGTATCGATACAATGTATCGATACATACTTTGTGTATCGATACA
1 ATGTATCGATACTTTTAAATGTGTATCGATACAATGTATCGATACATACTTTGTGTATCGATACA
54679 AGTTTGGCTACTGCCAAGAAATCCCAAAGACATGTATCGATACATCTTTTTCATGTATCGATACA
66 AGTTTGGCTACTGCCAAGAAATCCCAAAGACATGTATCGATACATCTTTTTCATGTATCGATACA
54744 ATGCAAC
131 ATGCAAC
54751 ATGTATCGATACTTTTAAATGTGTATCGATAC
1 ATGTATCGATACTTTTAAATGTGTATCGATAC
54783 TTTTCAGGGT
Statistics
Matches: 164, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
136 4 0.02
137 158 0.96
138 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (137 bp):
ATGTATCGATACTTTTAAATGTGTATCGATACAATGTATCGATACATACTTTGTGTATCGATACA
AGTTTGGCTACTGCCAAGAAATCCCAAAGACATGTATCGATACATCTTTTTCATGTATCGATACA
ATGCAAC
Found at i:58594 original size:19 final size:19
Alignment explanation
Indices: 58569--58625 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
58559 TTGTATTGAT
*
58569 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* * *
58588 TCATTGTATCGACACGTGG
1 ACATTGTATCGATACATGG
58607 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
58626 AAACTAGCAG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:64808 original size:20 final size:23
Alignment explanation
Indices: 64783--64839 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 23
64773 ATTTTCCAGA
*
64783 ATGTATCGATACAT-TA-AA-GG
1 ATGTATCGATACATCTAGAACAG
64803 ATGTATCGATACATCTAGAACCAG
1 ATGTATCGATACATCTAGAA-CAG
64827 ATGTATCGATACA
1 ATGTATCGATACA
64840 ACATTCCTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 14 0.44
21 2 0.06
22 2 0.06
24 14 0.44
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.28
Consensus pattern (23 bp):
ATGTATCGATACATCTAGAACAG
Found at i:64871 original size:13 final size:13
Alignment explanation
Indices: 64850--64886 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
64840 ACATTCCTTG
64850 TATCGATACATTA
1 TATCGATACATTA
* *
64863 TATCAATACATTG
1 TATCGATACATTA
64876 TATCGATACAT
1 TATCGATACAT
64887 GGGTTACTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:66443 original size:33 final size:33
Alignment explanation
Indices: 66362--66445 Score: 141
Period size: 33 Copynumber: 2.5 Consensus size: 33
66352 TGAGAGTTGA
* * *
66362 TCACCTCACTTTCACAACACATGAGTGAGCAAT
1 TCACTTCACTCTCACTACACATGAGTGAGCAAT
66395 TCACTTCACTCTCACTACACATGAGTGAGCAAT
1 TCACTTCACTCTCACTACACATGAGTGAGCAAT
66428 TCACTTCACTCTCACTAC
1 TCACTTCACTCTCACTAC
66446 GTATGGTGAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.30, C:0.33, G:0.10, T:0.27
Consensus pattern (33 bp):
TCACTTCACTCTCACTACACATGAGTGAGCAAT
Found at i:67529 original size:20 final size:20
Alignment explanation
Indices: 67504--67559 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
67494 GTATCGATAC
*
67504 ATTGTATCAATACATGGACA
1 ATTGTATCGATACATGGACA
*
67524 ATTGTATCGATACATGGATA
1 ATTGTATCGATACATGGACA
67544 ATTGTATCGATACATG
1 ATTGTATCGATACATG
67560 AAACTAGCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:67625 original size:13 final size:13
Alignment explanation
Indices: 67607--67631 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67597 TACATGGTAC
67607 ATTGTATCGATAT
1 ATTGTATCGATAT
67620 ATTGTATCGATA
1 ATTGTATCGATA
67632 CATGATGAAT
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:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTGTATCGATAT
Found at i:67644 original size:33 final size:33
Alignment explanation
Indices: 67587--67656 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
67577 CTTACCACTG
* * *
67587 ATTGTATTGATACATGGTACATTGTATCGATAT
1 ATTGTATCGATACATGATACATTGTATCGATAC
*
67620 ATTGTATCGATACATGATGA-ATTGTATTGATAC
1 ATTGTATCGATACATGAT-ACATTGTATCGATAC
67653 ATTG
1 ATTG
67657 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (33 bp):
ATTGTATCGATACATGATACATTGTATCGATAC
Found at i:69905 original size:27 final size:27
Alignment explanation
Indices: 69875--69938 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
69865 AAACTTTTAA
* * *
69875 TTTTT-TTTTGTCTTTCTTTTTTTTTTG
1 TTTTTATTTT-TCTCTCTTTTATTTTTC
69902 TTTTTATTTTTCTCTCTTTTATTTTTC
1 TTTTTATTTTTCTCTCTTTTATTTTTC
*
69929 TTTTTCTTTT
1 TTTTTATTTT
69939 AACTTTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.83
Consensus pattern (27 bp):
TTTTTATTTTTCTCTCTTTTATTTTTC
Found at i:69938 original size:17 final size:17
Alignment explanation
Indices: 69868--69939 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 17
69858 TTCGAGCAAA
69868 CTTTTAATTTTTTTTTGT
1 CTTTT-ATTTTTTTTTGT
69886 CTTTCT-TTTTTTTTTGT
1 CTTT-TATTTTTTTTTGT
* *
69903 -TTTTA--TTTTTCTCT
1 CTTTTATTTTTTTTTGT
69917 CTTTTATTTTTCTTTT-T
1 CTTTTATTTTT-TTTTGT
69934 CTTTTA
1 CTTTTA
69940 ACTTTTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
14 7 0.16
15 6 0.13
16 3 0.07
17 21 0.47
18 7 0.16
19 1 0.02
ACGTcount: A:0.07, C:0.11, G:0.03, T:0.79
Consensus pattern (17 bp):
CTTTTATTTTTTTTTGT
Found at i:74299 original size:37 final size:36
Alignment explanation
Indices: 74243--74343 Score: 166
Period size: 37 Copynumber: 2.7 Consensus size: 36
74233 TCTTATTTTA
*
74243 TCTTTAAAAAATAGGAAGATTTCTGACCCTTTTCATG
1 TCTTTAAAAAAT-GGAAGATTTCTGACCCTTTCCATG
74280 TCTTTAAAAAATGGAAAGATTTCTGACCCTTTCCATG
1 TCTTTAAAAAATGG-AAGATTTCTGACCCTTTCCATG
74317 TCTTTAAAAAATGGGAAGATTTCTGAC
1 TCTTTAAAAAAT-GGAAGATTTCTGAC
74344 AAGGATTATC
Statistics
Matches: 61, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
36 2 0.03
37 57 0.93
38 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36
Consensus pattern (36 bp):
TCTTTAAAAAATGGAAGATTTCTGACCCTTTCCATG
Found at i:84207 original size:19 final size:19
Alignment explanation
Indices: 84162--84218 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
84152 CTGTCAGTTT
**
84162 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
84183 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
84202 CATGTATCGATACAATG
1 CATGTATCGATACAATG
84219 TATCAATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:84244 original size:33 final size:32
Alignment explanation
Indices: 84184--84248 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
84174 CAATTTGTCC
* *
84184 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCAATACAAAGAACATGTATCGATACA
*
84216 ATGTATCAATACAAAGCAGCATGTATCGATACA
1 ATGTATCAATACAAAG-AACATGTATCGATACA
84249 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (32 bp):
ATGTATCAATACAAAGAACATGTATCGATACA
Found at i:84811 original size:20 final size:19
Alignment explanation
Indices: 84770--84823 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
84760 TCGTTTTTCT
* *
84770 CCCTTAAAAAAAT-TCTCC
1 CCCTTAAACAATTATCTCC
* *
84788 CCTTTAAACGATTATCTCC
1 CCCTTAAACAATTATCTCC
84807 CCCTTAAACAATTATCT
1 CCCTTAAACAATTATCT
84824 TCTCCCCCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
18 9 0.31
19 20 0.69
ACGTcount: A:0.33, C:0.31, G:0.02, T:0.33
Consensus pattern (19 bp):
CCCTTAAACAATTATCTCC
Found at i:84830 original size:22 final size:20
Alignment explanation
Indices: 84781--84833 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
84771 CCTTAAAAAA
* *
84781 ATTCTCCCCTTTAAACGATT
1 ATTCTCCCCCTTAAACAATT
84801 A-TCTCCCCCTTAAACAATT
1 ATTCTCCCCCTTAAACAATT
84820 ATCTTCTCCCCCTT
1 A--TTCTCCCCCTT
84834 TATGTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 17 0.61
20 1 0.04
22 10 0.36
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.38
Consensus pattern (20 bp):
ATTCTCCCCCTTAAACAATT
Found at i:86705 original size:13 final size:13
Alignment explanation
Indices: 86687--86715 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
86677 AAATAGTACC
86687 CAATGTATCGATA
1 CAATGTATCGATA
86700 CAATGTATCGATA
1 CAATGTATCGATA
86713 CAA
1 CAA
86716 GGAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:89007 original size:15 final size:15
Alignment explanation
Indices: 88987--89017 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
88977 CACTCGATAA
88987 GCTTTAGAATTTATT
1 GCTTTAGAATTTATT
89002 GCTTTAGAATTTATT
1 GCTTTAGAATTTATT
89017 G
1 G
89018 AATAACCGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.52
Consensus pattern (15 bp):
GCTTTAGAATTTATT
Found at i:90826 original size:36 final size:36
Alignment explanation
Indices: 90786--90859 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
90776 CATTAGATAG
* *
90786 TTTAGAAATAGTTTCTTCCTCAATTTTGACAATCTT
1 TTTAGAAATAGTTTCTTCCTCAAATTTGACAATATT
90822 TTTAGAAATAGTTTCTTCCTCAAATTTGACAATATT
1 TTTAGAAATAGTTTCTTCCTCAAATTTGACAATATT
90858 TT
1 TT
90860 CTTCAAGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.47
Consensus pattern (36 bp):
TTTAGAAATAGTTTCTTCCTCAAATTTGACAATATT
Found at i:92956 original size:13 final size:13
Alignment explanation
Indices: 92938--92968 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
92928 ACATTTCTTC
92938 ATGTATCGATACA
1 ATGTATCGATACA
92951 ATGTATCGATACA
1 ATGTATCGATACA
*
92964 TTGTA
1 ATGTA
92969 CCATGTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:93072 original size:13 final size:13
Alignment explanation
Indices: 93054--93080 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
93044 TACAATGAAC
93054 ATGTATCGATACA
1 ATGTATCGATACA
93067 ATGTATCGATACA
1 ATGTATCGATACA
93080 A
1 A
93081 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:93076 original size:32 final size:33
Alignment explanation
Indices: 93035--93099 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
93025 AAATTTGTCC
*
93035 ATGTATCGATACAATG-AACATGTATCGATACA
1 ATGTATCGATACAAAGCAACATGTATCGATACA
* *
93067 ATGTATCGATACAAAGCAGCATGTATTGATACA
1 ATGTATCGATACAAAGCAACATGTATCGATACA
93100 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAACATGTATCGATACA
Found at i:97005 original size:42 final size:43
Alignment explanation
Indices: 96943--97028 Score: 138
Period size: 42 Copynumber: 2.0 Consensus size: 43
96933 AAATAAATTT
* *
96943 GTTTAAAATGAGAGGAATAAC-AAAAGGGGGAGTAGTTATTAA
1 GTTTAAAATGAGAGGAATAACAAAAAGAGGGAGTAGATATTAA
*
96985 GTTTAAAATGAGAGGGATAACAAAAAGAGGGAGTAGATATTAA
1 GTTTAAAATGAGAGGAATAACAAAAAGAGGGAGTAGATATTAA
97028 G
1 G
97029 GGGGAGTACT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 20 0.50
43 20 0.50
ACGTcount: A:0.47, C:0.02, G:0.29, T:0.22
Consensus pattern (43 bp):
GTTTAAAATGAGAGGAATAACAAAAAGAGGGAGTAGATATTAA
Found at i:97644 original size:50 final size:50
Alignment explanation
Indices: 97568--97698 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 50
97558 ACAATTTGTC
* *
97568 TCGATACATTCTTCATTGTACCGATACATTCTGGGTTTTACCCAGATGTA
1 TCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCCAGATGTA
* * * *
97618 TCGATACATTTTTCATTGTATTGATACAATCTGTGTTTTACCTAGATGTA
1 TCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCCAGATGTA
* * *
97668 TCGTTACATTTCTCAATGTATCGATACATTC
1 TCGATACATTTTTCATTGTATCGATACATTC
97699 AGGCATTTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (50 bp):
TCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCCAGATGTA
Found at i:100210 original size:79 final size:79
Alignment explanation
Indices: 100073--100562 Score: 619
Period size: 79 Copynumber: 6.2 Consensus size: 79
100063 TCCCACCATC
* * *
100073 GGGGATACTCTAACCCCGATTTTATTTCCAAAACATCGATTTTCCACCATCGGGGATACTTCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCCAAC
*
100138 CCTGTTATTTTTGA
66 CCTGTTATTTCTGA
* * *
100152 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACATCGATTTTTCACCATTGGCGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCCAAC
*
100217 CCCGTTATTTCTGA
66 CCTGTTATTTCTGA
* * *
100231 GGGGATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCCAAC
*
100296 CCTGTTATTTTTGA
66 CCTGTTATTTCTGA
* * * * *
100310 GGGGATACTCCAACCCCAATTTTATTTTCAAAACA-CTGATTTTTCACAATCGAGGACACTCC-A
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATC-GATTTTTCACCATCGGGGATACTCCAA
*
100373 GCCTCGTTATTTCTGA
65 CCCT-GTTATTTCTGA
* * *
100389 GGGGATACTCCAA-CCCTAGTTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGA-TTTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCCAA
** *
100453 CCCCATTTTTTCTGA
65 CCCTGTTATTTCTGA
* * * * * **
100468 GGGGATACTCTAACCCCGGTTTTATTTCTAAAACACCGATTTTTCACAATCGCAGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCCAAC
* *
100533 CCTATTATTTCTAA
66 CCTGTTATTTCTGA
*
100547 GGCG-TACTCCAACCCC
1 GGGGATACTCCAACCCC
100563 ATTATTTTCG
Statistics
Matches: 355, Mismatches: 50, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
78 20 0.06
79 328 0.92
80 7 0.02
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCCAAC
CCTGTTATTTCTGA
Found at i:100580 original size:106 final size:107
Alignment explanation
Indices: 100441--100667 Score: 291
Period size: 106 Copynumber: 2.1 Consensus size: 107
100431 TTCACCATCG
* * *
100441 GGGATACTCCAACCCCATTTTTTCTGAGGGGATACTCTAACCCCGGTTTTA-TTTCTAAAACACC
1 GGGATACTCCAACCCCATTTTTTCTGAGGGGATACTCCAACACCAGTTTTATTTTC-AAAACACC
* *
100505 GATTTTTCACAATCGCAGATACTCCAACCCTATTATTTCT-AA
65 AATTTTTCACAATCGCAGACACTCCAACCCTATTATTTCTGAA
*
100547 GGCG-TACTCCAACCCCATTATTTTC-GAGGGGATACTCCAACATCAGTTTTATTTTCAAAACAC
1 GG-GATACTCCAACCCCATT-TTTTCTGAGGGGATACTCCAACACCAGTTTTATTTTCAAAACAC
** ** * *
100610 CAATTTTTCATTATCGGGGACACTCTAACCCTGTTATTTCTGAA
64 CAATTTTTCACAATCGCAGACACTCCAACCCTATTATTTCTGAA
100654 GGGATACTCCAACC
1 GGGATACTCCAACC
100668 TCAGTTTTAT
Statistics
Matches: 104, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
106 80 0.77
107 24 0.23
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (107 bp):
GGGATACTCCAACCCCATTTTTTCTGAGGGGATACTCCAACACCAGTTTTATTTTCAAAACACCA
ATTTTTCACAATCGCAGACACTCCAACCCTATTATTTCTGAA
Found at i:100583 original size:28 final size:28
Alignment explanation
Indices: 100522--100587 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
100512 CACAATCGCA
*
100522 GATACTCCAACCCTATTATTTCTAAGGC
1 GATACTCCAACCCCATTATTTCTAAGGC
* *
100550 G-TACTCCAACCCCATTATTT-TCGAGGG
1 GATACTCCAACCCCATTATTTCT-AAGGC
100577 GATACTCCAAC
1 GATACTCCAAC
100588 ATCAGTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.03
27 22 0.67
28 10 0.30
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (28 bp):
GATACTCCAACCCCATTATTTCTAAGGC
Found at i:100699 original size:185 final size:186
Alignment explanation
Indices: 100382--100719 Score: 477
Period size: 185 Copynumber: 1.8 Consensus size: 186
100372 AGCCTCGTTA
* *
100382 TTTCTGAGGGGATACTCCAACCCTAGTTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATA
1 TTTCTGAGGGGATACTCCAACCCTAGTTTTATTTCTAAAACACCAATTTTTCACCATCGGGGACA
* * * * *
100447 CTCCAACCCCATTTTTTCTGAGGGGATACTCTAACCCCGGTTTTATTTCTAAAACACCGATTTTT
66 CTCCAACCCCATTATTTCTGAAGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAATTTTT
100512 CACAATCGCA-GATACTCCAACCCTATTATTTCTAAGGCGTACTCCAACCCCATTAT
131 CACAATCG-AGGATACTCCAACCCTATTATTTCTAAGGCGTACTCCAACCCCATTAT
* **
100568 TTTC-GAGGGGATACTCCAA-CATCAGTTTTATTT-TCAAAACACCAATTTTTCATTATCGGGGA
1 TTTCTGAGGGGATACTCCAACCCT-AGTTTTATTTCT-AAAACACCAATTTTTCACCATCGGGGA
* ** * *
100630 CACTCTAACCCTGTTATTTCTGAAGGGATACTCCAACCTCAGTTTTATTTCTAAAACATCAATTT
64 CACTCCAACCCCATTATTTCTGAAGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAATTT
*
100695 TTCACAATTGAGGATACTCCAACCC
129 TTCACAATCGAGGATACTCCAACCC
100720 CGGTTTTATT
Statistics
Matches: 133, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
184 4 0.03
185 125 0.94
186 4 0.03
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (186 bp):
TTTCTGAGGGGATACTCCAACCCTAGTTTTATTTCTAAAACACCAATTTTTCACCATCGGGGACA
CTCCAACCCCATTATTTCTGAAGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAATTTTT
CACAATCGAGGATACTCCAACCCTATTATTTCTAAGGCGTACTCCAACCCCATTAT
Found at i:100715 original size:51 final size:51
Alignment explanation
Indices: 100655--100782 Score: 172
Period size: 51 Copynumber: 2.6 Consensus size: 51
100645 ATTTCTGAAG
*
100655 GGATACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTTCACAATTGA
1 GGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCACAATTGA
* * ** *
100706 GGATACTCCAACCCCGGTTTTATTTCTAAAACATCGATTTTTCACCTTTGG
1 GGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCACAATTGA
*
100757 GGATACTCTAACCCC-G--TTATTTCTAA
1 GGATACTCCAACCCCAGTTTTATTTCTAA
100783 GAGGATACTC
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
48 10 0.14
50 1 0.01
51 59 0.84
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (51 bp):
GGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCACAATTGA
Found at i:100719 original size:79 final size:79
Alignment explanation
Indices: 100551--100720 Score: 209
Period size: 79 Copynumber: 2.2 Consensus size: 79
100541 TTCTAAGGCG
*
100551 TACTCCAACCCCATTATTTTCGAGGGGATACTCCAACATCAGTTTTATTTTCAAAACACCAATTT
1 TACTCCAACCCCATTATTTTCGAAGGGATACTCCAACATCAGTTTTATTTTCAAAACACCAATTT
** *
100616 TTCATTATCGGGGA
66 TTCACAATCGAGGA
* * ** * *
100630 CACTCTAACCCTGTTA-TTTCTGAAGGGATACTCCAACCTCAGTTTTA-TTTCTAAAACATCAAT
1 TACTCCAACCCCATTATTTTC-GAAGGGATACTCCAACATCAGTTTTATTTTC-AAAACACCAAT
*
100693 TTTTCACAATTGAGGA
64 TTTTCACAATCGAGGA
100709 TACTCCAACCCC
1 TACTCCAACCCC
100721 GGTTTTATTT
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 8 0.11
79 67 0.89
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (79 bp):
TACTCCAACCCCATTATTTTCGAAGGGATACTCCAACATCAGTTTTATTTTCAAAACACCAATTT
TTCACAATCGAGGA
Found at i:100837 original size:80 final size:79
Alignment explanation
Indices: 100704--100931 Score: 312
Period size: 80 Copynumber: 2.9 Consensus size: 79
100694 TTTCACAATT
* **
100704 GAGGATACTCCAACCCCGGTTTTATTTCTAAAACATCGATTTTTCACCTTTGGGGATACTCTAAC
1 GAGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACAATTGGGGATACTCTAAC
100769 CCCGTTATTTCTAA
66 CCCGTTATTTCTAA
* * *
100783 GAGGATACTCCAACCCTAGTTTTTATTTTTAAAACATCGATTTTTCACAATTGGGGATACTCTAA
1 GAGGATACTCCAACCC-CGATTTTATTTCTAAAACATCGATTTTTCACAATTGGGGATACTCTAA
* * *
100848 TCTCGTTATTTCTGA
65 CCCCGTTATTTCTAA
* * ** * *
100863 GGGGATACTCTAACCCCGACCTTATTTCTAAAACATCAACTTTTCACAATTGGGGATACTCTAAC
1 GAGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACAATTGGGGATACTCTAAC
100928 CCCG
66 CCCG
100932 ATTTTATTTT
Statistics
Matches: 129, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
79 60 0.47
80 69 0.53
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (79 bp):
GAGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACAATTGGGGATACTCTAAC
CCCGTTATTTCTAA
Found at i:100923 original size:51 final size:51
Alignment explanation
Indices: 100863--100980 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
100853 TTATTTCTGA
*
100863 GGGGATACTCTAACCCCGACCTTA-TTTCTAAAACATCAACTTTTCACAATT
1 GGGGATACTCTAACCCCGACCTTATTTTC-AAAACATCAACTTTTCACAATC
** * *
100914 GGGGATACTCTAACCCCGATTTTATTTTCAAAACATCAATTTTTCACCATC
1 GGGGATACTCTAACCCCGACCTTATTTTCAAAACATCAACTTTTCACAATC
*
100965 GGGGATACTCCAACCC
1 GGGGATACTCTAACCC
100981 TGTTATTTTC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 56 0.93
52 4 0.07
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.31
Consensus pattern (51 bp):
GGGGATACTCTAACCCCGACCTTATTTTCAAAACATCAACTTTTCACAATC
Found at i:101001 original size:210 final size:210
Alignment explanation
Indices: 100551--101026 Score: 604
Period size: 210 Copynumber: 2.3 Consensus size: 210
100541 TTCTAAGGCG
* * *
100551 TACTCCAACCCCATTATTTTCGAGGGGATACTCCAACATCAG-TTTTATTTTCAAAACACCAATT
1 TACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCAGTTTTTATTTTTAAAACACCAATT
** * **
100615 TTTCATTATCGGGGACACTCTAACCCTGTTATTTCTGAAGGGATACTCCAACCTCAGTTTTATTT
66 TTTCACAATCGGGGACACTCTAACCCTGTTATTTCTGAAGGGATACTCCAACCCCAGCCTTATTT
* * *
100680 CTAAAACATCAATTTTTCACAATTGAGGATACTCCAACCCCGGTTTTATTTCTAAAACATCGATT
131 CTAAAACATCAACTTTTCACAATTGAGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATT
* *
100745 TTTCACCTTTGGGGA
196 TTTCACCATCGGGGA
* * * * *
100760 TACTCTAACCCCGTTA-TTTCTAAGAGGATACTCCAACC-CTAGTTTTTATTTTTAAAACATCGA
1 TACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCTC-AGTTTTTATTTTTAAAACACCAA
* * * * *
100823 TTTTTCACAATTGGGGATACTCTAA-TCTCGTTATTTCTGAGGGGATACTCTAACCCC-GACCTT
64 TTTTTCACAATCGGGGACACTCTAACCCT-GTTATTTCTGAAGGGATACTCCAACCCCAG-CCTT
* *
100886 ATTTCTAAAACATCAACTTTTCACAATTGGGGATACTCTAACCCCGATTTTATTT-TCAAAACAT
127 ATTTCTAAAACATCAACTTTTCACAATTGAGGATACTCCAACCCCGATTTTATTTCT-AAAACAT
100950 CAATTTTTCACCATCGGGGA
191 CAATTTTTCACCATCGGGGA
* * * *
100970 TACTCCAACCCTGTTATTTTCGAGGGGATACTCTAACCTCATTTTTTATTTGTAAAA
1 TACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCAGTTTTTATTTTTAAAA
101027 TGTTAAAATT
Statistics
Matches: 227, Mismatches: 32, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
208 5 0.02
209 34 0.15
210 183 0.81
211 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (210 bp):
TACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCAGTTTTTATTTTTAAAACACCAATT
TTTCACAATCGGGGACACTCTAACCCTGTTATTTCTGAAGGGATACTCCAACCCCAGCCTTATTT
CTAAAACATCAACTTTTCACAATTGAGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATT
TTTCACCATCGGGGA
Found at i:107343 original size:316 final size:316
Alignment explanation
Indices: 106768--107400 Score: 1050
Period size: 316 Copynumber: 2.0 Consensus size: 316
106758 CAAAGAACAT
* * * * *
106768 AAACAACCAACAAACACCCAGAGAAAAGGAACAGTTTGACCCGCTTCCTTACTCTTACCAGGAAA
1 AAACAACCAACAAACACCAAGAGAAAAGGAACACTTTGACCCACTTCCCTACTCCTACCAGGAAA
* * * * *
106833 CGTATTCCCATCTCTTGGTAGCCAGATTAGTAGCCCTAGTGTTTATAGAACCGAAGTCACCACCA
66 CGTATTCCCATCTCTTGGCAGCCAAATTAGTAGCCCCAATGTTCATAGAACCGAAGTCACCACCA
*
106898 TACCCTAGGTAGTATGACGAGAGTGCTTACTGCGAATATCATGCTAGGGCACAAGGCCATTCTAT
131 TACCCTAGGTAGTATGACAAGAGTGCTTACTGCGAATATCATGCTAGGGCACAAGGCCATTCTAT
106963 TGAGAATTGCACGTCATTCAAGAGAAAAGTGCAAGGTTTACTAAATAGAGGTGTAATCAAGGTTG
196 TGAGAATTGCACGTCATTCAAGAGAAAAGTGCAAGGTTTACTAAATAGAGGTGTAATCAAGGTTG
* * *
107028 AATAAGGCCTGGGGCCTAATGTTGGGGCCAATCCACTCCCCAATCAAGCCGAACCA
261 AACAAGGCCCGAGGCCTAATGTTGGGGCCAATCCACTCCCCAATCAAGCCGAACCA
107084 AAACAACCAACAAACACCAAGAGAAAAGGAACACTTTGACCCACTTCCCTACTCCTACCAGGAAA
1 AAACAACCAACAAACACCAAGAGAAAAGGAACACTTTGACCCACTTCCCTACTCCTACCAGGAAA
* **
107149 TGTATTCCCATCTCTTGGCAGCCAAATTAGTAGCCCCAATGTTCATAGAATTGAAGTCACCACCA
66 CGTATTCCCATCTCTTGGCAGCCAAATTAGTAGCCCCAATGTTCATAGAACCGAAGTCACCACCA
*
107214 TACCCTAGGTGGTATGACAAGAGTGCTTACTGCGAATATCATGCTAGGGCACAAGGCCATTCTAT
131 TACCCTAGGTAGTATGACAAGAGTGCTTACTGCGAATATCATGCTAGGGCACAAGGCCATTCTAT
* *
107279 TGAGAATTGCACGTCGTTCAAGAGAAAAGTGCAAGGTTTACTAAATAGAGGTGTAATTAAGGTTG
196 TGAGAATTGCACGTCATTCAAGAGAAAAGTGCAAGGTTTACTAAATAGAGGTGTAATCAAGGTTG
* * * *
107344 AACAAGGCCCGAGGCCTAATGTTGGGGCCAATCCATTCCTCAATCACGTCGAACCA
261 AACAAGGCCCGAGGCCTAATGTTGGGGCCAATCCACTCCCCAATCAAGCCGAACCA
107400 A
1 A
107401 GGATAAATGC
Statistics
Matches: 293, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
316 293 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (316 bp):
AAACAACCAACAAACACCAAGAGAAAAGGAACACTTTGACCCACTTCCCTACTCCTACCAGGAAA
CGTATTCCCATCTCTTGGCAGCCAAATTAGTAGCCCCAATGTTCATAGAACCGAAGTCACCACCA
TACCCTAGGTAGTATGACAAGAGTGCTTACTGCGAATATCATGCTAGGGCACAAGGCCATTCTAT
TGAGAATTGCACGTCATTCAAGAGAAAAGTGCAAGGTTTACTAAATAGAGGTGTAATCAAGGTTG
AACAAGGCCCGAGGCCTAATGTTGGGGCCAATCCACTCCCCAATCAAGCCGAACCA
Found at i:115537 original size:52 final size:52
Alignment explanation
Indices: 115467--115587 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
115457 GAAAATTTAT
*
115467 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
115519 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
115571 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
115588 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:115701 original size:33 final size:33
Alignment explanation
Indices: 115659--115728 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
115649 GGCAGTAGCT
115659 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
115692 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
115725 TACA
1 TACA
115729 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:115702 original size:13 final size:13
Alignment explanation
Indices: 115684--115708 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
115674 CAAAAAAATA
115684 TGTATCGATACAT
1 TGTATCGATACAT
115697 TGTATCGATACA
1 TGTATCGATACA
115709 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:117270 original size:19 final size:18
Alignment explanation
Indices: 117246--117290 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
117236 TTTTTTCCAA
*
117246 AAAAAAAACAAAACGAAAC
1 AAAAAAAACAAAA-AAAAC
*
117265 AAAAAAAACAAAAAAAAG
1 AAAAAAAACAAAAAAAAC
117283 AAAAAAAA
1 AAAAAAAA
117291 GTACCTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (18 bp):
AAAAAAAACAAAAAAAAC
Found at i:117291 original size:9 final size:9
Alignment explanation
Indices: 117246--117290 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
117236 TTTTTTCCAA
117246 AAAAAAAAC
1 AAAAAAAAC
*
117255 AAAACGAAAC
1 AAAA-AAAAC
117265 AAAAAAAAC
1 AAAAAAAAC
*
117274 AAAAAAAAG
1 AAAAAAAAC
117283 AAAAAAAA
1 AAAAAAAA
117291 GTACCTGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
9 24 0.75
10 8 0.25
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:118692 original size:59 final size:61
Alignment explanation
Indices: 118278--118710 Score: 486
Period size: 61 Copynumber: 7.1 Consensus size: 61
118268 TCAATCCTTG
* * * * *
118278 AAGAGCAGGATGCCTTTTCCTTTTAAAGACCACACAAGCTAGTGGCACTTTCTAGTCCTCA
1 AAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
** * *
118339 AAGAGC---A-GCCTCCTCCTTTTAAAGGCCACACAAGTTGGTGGCACCTTCTAGTCCCCA
1 AAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
* * * * *
118396 AAGAGCAGGACACTTTCCCTTTTCCCTTTAAAGCCCACACAAGTTGGGGGAACCTTTTAGTCCTC
1 AAGAGCAGG--AC---GCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTC
118461 A
61 A
* * * *
118462 AAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGGGGC-TCTTTTCAGTCCTCA
1 AAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCA
* * * * * *
118523 AAGAGCAGGATGCCTTTTCTTTTTAAAACCCACATAAATTGGTGGCACCTT-TCAGTCCTTA
1 AAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCA
* * *
118584 AAGAGTAGGACGCCTTCTCCTTTTAAAGCCTACACAAGTTGGTGGCACCTTCTAGTCCTCA
1 AAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
* *
118645 AAGAGCAGGACG-C-TTTCCTTTCAAAGCCTACACAAGTTGGTGGCACCTTCTAGTCCTCA
1 AAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
118704 AAGAGCA
1 AAGAGCA
118711 AGATGCACTT
Statistics
Matches: 320, Mismatches: 40, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
57 49 0.15
58 1 0.00
59 51 0.16
60 6 0.02
61 157 0.49
62 5 0.02
64 1 0.00
66 50 0.16
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (61 bp):
AAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
Found at i:118762 original size:42 final size:41
Alignment explanation
Indices: 118697--118882 Score: 195
Period size: 43 Copynumber: 4.6 Consensus size: 41
118687 GCACCTTCTA
*
118697 GTCCTCAAAGAGCAAGATGCACTTTATTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTT-TCCTTT
** *
118739 GTCCTCAAAGAGCAGGACACACTTAATTTCCTTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCC--TTTTTCCTTT
*
118782 GTCCTCAAAGAGCAGGATGCATTTTATTTCCTTTTTCCTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTTCCTTT
* ** * * *
118823 GTCCTCGAAGAG-TTGATGTAC--TCTTT--TTTTTCCTTA
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTTCCTTT
*
118859 GTACTCAAAGAGCAGGATGC-CTTT
1 GTCCTCAAAGAGCAGGATGCACTTT
118883 TTCTTTTCAA
Statistics
Matches: 119, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
36 20 0.17
37 4 0.03
38 5 0.04
40 5 0.04
41 21 0.18
42 27 0.23
43 33 0.28
44 4 0.03
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (41 bp):
GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTTCCTTT
Found at i:118794 original size:43 final size:42
Alignment explanation
Indices: 118697--118834 Score: 197
Period size: 43 Copynumber: 3.3 Consensus size: 42
118687 GCACCTTCTA
* *
118697 GTCCTCAAAGAGCAAGATGCACTTTATTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTTTCCTTT
** *
118739 GTCCTCAAAGAGCAGGACACACTTAATTTCCTTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCC-TTTTTTCCTTT
*
118782 GTCCTCAAAGAGCAGGATGCATTTTATTTCC-TTTTTCCTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTTTCCTTT
*
118823 GTCCTCGAAGAG
1 GTCCTCAAAGAG
118835 TTGATGTACT
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
41 21 0.25
42 27 0.32
43 37 0.44
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTTTCCTTT
Found at i:118933 original size:62 final size:62
Alignment explanation
Indices: 118856--119060 Score: 277
Period size: 62 Copynumber: 3.3 Consensus size: 62
118846 TTTTTTTTCC
* * **
118856 TTAGTACTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGATACCCT
1 TTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCT
* * * *
118918 TTAGTCCTTAAAGAGCAGGATGCCCTTTTC-TTTCCAAGTCCACACGAGTTGGTGGCACCCT
1 TTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCT
* * * **
118979 TTAGTCCTAAAAGAGTAGGATGGCTTTTTCTTTTCAAAGCAAACACGAGTTGGTGGCACCCT
1 TTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCT
*
119041 TTAGTCCTCAAAGAGTAGGA
1 TTAGTCCTCAAAGAGCAGGA
119061 GCCAAAAAGC
Statistics
Matches: 125, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
61 52 0.42
62 73 0.58
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (62 bp):
TTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCT
Found at i:121663 original size:42 final size:43
Alignment explanation
Indices: 121601--121686 Score: 147
Period size: 42 Copynumber: 2.0 Consensus size: 43
121591 AAATAAATTT
*
121601 GTTTAAAATGAGAGGAATAACAAAAAG-GGGAGTAGTTATTAA
1 GTTTAAAATGAGAGGAATAACAAAAAGAGGGAGTAGATATTAA
*
121643 GTTTAAAATGAGAGGGATAACAAAAAGAGGGAGTAGATATTAA
1 GTTTAAAATGAGAGGAATAACAAAAAGAGGGAGTAGATATTAA
121686 G
1 G
121687 GGGGAGTACT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 26 0.63
43 15 0.37
ACGTcount: A:0.48, C:0.02, G:0.28, T:0.22
Consensus pattern (43 bp):
GTTTAAAATGAGAGGAATAACAAAAAGAGGGAGTAGATATTAA
Found at i:122283 original size:50 final size:50
Alignment explanation
Indices: 122208--122342 Score: 207
Period size: 50 Copynumber: 2.7 Consensus size: 50
122198 TTTCACAATT
* * *
122208 TGTATCGATACATTCTTCATTGTATCAATGCATTCTGGGTTTTACCCAGA
1 TGTATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCCAGA
* *
122258 TGTATCAATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCTAGA
1 TGTATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCCAGA
* *
122308 TGTATCGATACATTTCTCAATGTATCGATACATTC
1 TGTATCGATACATTTTTCATTGTATCGATACATTC
122343 AGGCATTTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (50 bp):
TGTATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCCAGA
Found at i:124773 original size:51 final size:51
Alignment explanation
Indices: 124692--124790 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 51
124682 TTATTCATGT
* * *
124692 TTTTATTTCCAAAACACCGATTTCCGACCATCGGGGATACTCTAACCCTGG
1 TTTTATTTCCAAAACACCGATTTCCGACCATCGAGAATACTCCAACCCTGG
* **
124743 TTTTATTTTCAAAACATGGATTTTCC-ACCATCGAGAATACTCCAACCC
1 TTTTATTTCCAAAACACCGA-TTTCCGACCATCGAGAATACTCCAACCC
124791 CATTATTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 36 0.88
52 5 0.12
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (51 bp):
TTTTATTTCCAAAACACCGATTTCCGACCATCGAGAATACTCCAACCCTGG
Found at i:124921 original size:78 final size:78
Alignment explanation
Indices: 124724--125026 Score: 290
Period size: 79 Copynumber: 3.8 Consensus size: 78
124714 TCCGACCATC
* * * * * * *
124724 GGGGATACTCTAACCCTGGTTTTATTT-TCAAAACATGGATTTTCCACCATCGAGAATACTCCAA
1 GGGGATACTC-AACCCCGATTTTATTTCT-AAAACATCGATTTTTCACAATCGGGGATACTCCAA
*
124788 CCCCATTATTTTTGA
64 CCCCATTATTTTCGA
* * * *
124803 AGGGATACTTCAACCCCGATTTTATTT-TCAAAACATCGATTTTTCATAATCGGGGACACTCTAA
1 GGGGATAC-TCAACCCCGATTTTATTTCT-AAAACATCGATTTTTCACAATCGGGGATACTCCAA
*
124867 CCCCTTTATTTTCGA
64 CCCCATTATTTTCGA
* * ** *
124882 GGGGATACTCCACCCCGATTTTATTTCTAAAACATCGATTTTTCACCATTAGGGATACTCCAACA
1 GGGGATACTCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACC
* *
124947 CCGTTA-TTTCTA
66 CCATTATTTTCGA
* * * *
124959 GGAGAATACTCTAACCCC-ATTATTCATTTCTAAAACACCGATTTTTTACAATCGGGGATACTCT
1 GG-GGATACTC-AACCCCGATT-TT-ATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCC
125023 AACC
62 AACC
125027 TTGTTATTTC
Statistics
Matches: 185, Mismatches: 33, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
77 7 0.04
78 62 0.34
79 78 0.42
80 38 0.21
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (78 bp):
GGGGATACTCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACC
CCATTATTTTCGA
Found at i:124954 original size:157 final size:159
Alignment explanation
Indices: 124724--125026 Score: 354
Period size: 157 Copynumber: 1.9 Consensus size: 159
124714 TCCGACCATC
* * * *
124724 GGGGATACTCTAACCCTGGTTTTATTTTCAAAACATGGATTTTCCACCATCGAGAATACTCCAAC
1 GGGGATACTCTAACCCCGATTTTATTTTCAAAACATCGATTTTCCACCATAGAGAATACTCCAAC
* * *
124789 CCCATTATTTTTGAAGG-G-ATACT-TCAACCCCGATT-TT-ATTT-TCAAAACATCGATTTTTC
66 ACCATTATTTCT--AGGAGAATACTCT-AACCCC-ATTATTCATTTCT-AAAACACCGATTTTTC
*
124848 ATAATCGGGGACACTCTAACCCCTTTATTTTCGA
126 ACAATCGGGGACACTCTAACCCCTTTATTTTCGA
* * *
124882 GGGGATACTC-CACCCCGATTTTA-TTTCTAAAACATCGATTTTTCACCATTAG-GGATACTCCA
1 GGGGATACTCTAACCCCGATTTTATTTTC-AAAACATCGATTTTCCACCA-TAGAGAATACTCCA
* *
124944 ACACCGTTATTTCTAGGAGAATACTCTAACCCCATTATTCATTTCTAAAACACCGATTTTTTACA
64 ACACCATTATTTCTAGGAGAATACTCTAACCCCATTATTCATTTCTAAAACACCGATTTTTCACA
*
125009 ATCGGGGATACTCTAACC
129 ATCGGGGACACTCTAACC
125027 TTGTTATTTC
Statistics
Matches: 123, Mismatches: 14, Indels: 16
0.80 0.09 0.10
Matches are distributed among these distances:
155 3 0.02
156 8 0.07
157 61 0.50
158 50 0.41
159 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (159 bp):
GGGGATACTCTAACCCCGATTTTATTTTCAAAACATCGATTTTCCACCATAGAGAATACTCCAAC
ACCATTATTTCTAGGAGAATACTCTAACCCCATTATTCATTTCTAAAACACCGATTTTTCACAAT
CGGGGACACTCTAACCCCTTTATTTTCGA
Found at i:125261 original size:265 final size:264
Alignment explanation
Indices: 124780--125300 Score: 733
Period size: 265 Copynumber: 2.0 Consensus size: 264
124770 CCATCGAGAA
** * *
124780 TACTCCAACCCCATTATTTTTGAAGGGATACTTCAACCCCGATTTTATTTTCAAAACATCGATTT
1 TACTCCAACCCCATTATTTCCGAAGGGATACTCCAACCCCGATTTTATTTTCAAAACATCGAATT
* ** **
124845 TTCATAATCGGGGACACTCTAACCCCTTTATTTTCGAGGGGATACTCCACCCCGATTTTATTTCT
66 TTCACAATCGAAGACACTCTAACCCCTTTATTTTCGAAAGGATACTCCACCCCGATTTTATTTCT
* *
124910 AAAACATCGATTTTTCACCATTAGGGATACTCCAACACCGTTATTTCTAGGAGAATACTCTAACC
131 AAAACATCAATTTTTCACCATTAGGGATACTCCAACACCGTTATTTCTAGGAGAATACTCCAACC
* ** *
124975 CCATTATTCATTTCTAAAACACCGATTTTTTACAATCGGGGATACTCTAACCTTGTTATTTCTAA
196 CCATTATTCATTTCTAAAACACCGAGTTTCCACAATCGGGGATACTCTAACCCTGTTATTTCTAA
125040 GGGG
261 GGGG
* * * *
125044 TACTCCAACCCCATTGTTTCCGATGGGATACTCCAACCTCGGTTTTATTTTCAAAACA-CAGAAT
1 TACTCCAACCCCATTATTTCCGAAGGGATACTCCAACCCCGATTTTATTTTCAAAACATC-GAAT
* *
125108 TTTCACAATCGAAGACACTCTAACCCCTTTATTTTCGAAATGATACTCCAACCTCGATTTTATTT
65 TTTCACAATCGAAGACACTCTAACCCCTTTATTTTCGAAAGGATACTCC-ACCCCGATTTTATTT
* * * * *
125173 CTAAAACATTAATTTTTCACGATTGGGGATACTCCAACCCCGTTATTTCTGAGG-GGATACTCCA
129 CTAAAACATCAATTTTTCACCATTAGGGATACTCCAACACCGTTATTTCT-AGGAGAATACTCCA
* *
125237 ACCCCAGTT-TTTATTTCTAAAACACCGAGTTTCCACAATCGGGGATGCTCTAACCCTGTTATTT
193 ACCCCA-TTATTCATTTCTAAAACACCGAGTTTCCACAATCGGGGATACTCTAACCCTGTTATTT
125301 TTGAGAGGAT
Statistics
Matches: 225, Mismatches: 28, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
263 1 0.00
264 97 0.43
265 122 0.54
266 5 0.02
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (264 bp):
TACTCCAACCCCATTATTTCCGAAGGGATACTCCAACCCCGATTTTATTTTCAAAACATCGAATT
TTCACAATCGAAGACACTCTAACCCCTTTATTTTCGAAAGGATACTCCACCCCGATTTTATTTCT
AAAACATCAATTTTTCACCATTAGGGATACTCCAACACCGTTATTTCTAGGAGAATACTCCAACC
CCATTATTCATTTCTAAAACACCGAGTTTCCACAATCGGGGATACTCTAACCCTGTTATTTCTAA
GGGG
Found at i:125292 original size:80 final size:79
Alignment explanation
Indices: 125069--125365 Score: 262
Period size: 79 Copynumber: 3.7 Consensus size: 79
125059 GTTTCCGATG
* * ** *
125069 GGATACTCCAACCTCGGTTTTATTT-TCAAAACACAGAATTTTCACAATCGAAGACACTCTAACC
1 GGATACTCCAACCCCGATTTTATTTCT-AAAACACAGAATTTTCACAATCGGGGATACTCTAACC
* *
125133 CCTTTATTT-TCGAAA
65 CCGTTATTTCT-GAGA
* * * * * * *
125148 TGATACTCCAACCTCGATTTTATTTCTAAAACATTA-ATTTTTCACGATTGGGGATACTCCAACC
1 GGATACTCCAACCCCGATTTTATTTCTAAAACA-CAGAATTTTCACAATCGGGGATACTCTAACC
*
125212 CCGTTATTTCTGAGG
65 CCGTTATTTCTGAGA
* * * * *
125227 GGATACTCCAACCCCAGTTTTTATTTCTAAAACACCGAGTTTCCACAATCGGGGATGCTCTAACC
1 GGATACTCCAACCCC-GATTTTATTTCTAAAACACAGAATTTTCACAATCGGGGATACTCTAACC
* *
125292 CTGTTATTTTTGAGA
65 CCGTTATTTCTGAGA
* ** **
125307 GGATACTCTAACCCCGACCTTATTTCTAAAACATC--AATTTTCTACAATCAAGGATACTC
1 GGATACTCCAACCCCGATTTTATTTCTAAAACA-CAGAATTTTC-ACAATCGGGGATACTC
125366 CGGCCCCGGT
Statistics
Matches: 175, Mismatches: 36, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
78 5 0.03
79 101 0.58
80 69 0.39
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (79 bp):
GGATACTCCAACCCCGATTTTATTTCTAAAACACAGAATTTTCACAATCGGGGATACTCTAACCC
CGTTATTTCTGAGA
Found at i:125332 original size:159 final size:157
Alignment explanation
Indices: 125040--125347 Score: 377
Period size: 159 Copynumber: 1.9 Consensus size: 157
125030 TTATTTCTAA
* * *
125040 GGGGTACTCCAACCCCATTGTTTCCGATGGGATACTCCAACCTCGGTTTTATTTTCAAAACACAG
1 GGGGTACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACAG
* * * **
125105 AATTTTCACAATCGAAGACACTCTAACCCCTTTATTTTCGAAATGATACTCCAACCTCGATTTTA
66 AATTTCCACAATCGAAGACACTCTAACCCCTTTATTTTCGAAAGGATACTCCAACCCCGACCTTA
*
125170 TTTCTAAAACATTAATTTTTCACGATT
131 TTTCTAAAACATCAATTTTTCACGATT
* * *
125197 GGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCAGTTTT-TATTTCTAAAACA
1 GGGG-TACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGTTTTAT-TTTC-AAAACA
* * ** ** * * *
125261 CCGAGTTTCCACAATCGGGGATGCTCTAA-CCCTGTTATTTTTGAGAGGATACTCTAACCCCGAC
63 CAGAATTTCCACAATCGAAGACACTCTAACCCCT-TTATTTTCGAAAGGATACTCCAACCCCGAC
125325 CTTATTTCTAAAACATCAATTTT
127 CTTATTTCTAAAACATCAATTTT
125348 CTACAATCAA
Statistics
Matches: 126, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
157 5 0.04
158 48 0.38
159 73 0.58
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (157 bp):
GGGGTACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACAG
AATTTCCACAATCGAAGACACTCTAACCCCTTTATTTTCGAAAGGATACTCCAACCCCGACCTTA
TTTCTAAAACATCAATTTTTCACGATT
Found at i:130213 original size:20 final size:20
Alignment explanation
Indices: 130187--130333 Score: 96
Period size: 20 Copynumber: 6.8 Consensus size: 20
130177 AAAAGGACAG
*
130187 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
130207 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
**
130227 AATGTATCGATATATCTAGGTAAAAAGA
1 AATGTATCG--ATA-C-A--T-TCAA-A
* *
130255 TAGAATGTATCGATACATTGAAG
1 -A-A-TGTATCGATACATTCAAA
*
130278 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
130298 TATGTATCGATACGTTGAAA
1 AATGTATCGATACATTCAAA
130318 AATGTATCGATACATT
1 AATGTATCGATACATT
130334 TGGGTAAAAA
Statistics
Matches: 98, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
20 70 0.71
21 1 0.01
22 4 0.04
23 1 0.01
24 3 0.03
25 1 0.01
26 1 0.01
27 3 0.03
28 2 0.02
29 4 0.04
30 1 0.01
31 7 0.07
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:130260 original size:71 final size:71
Alignment explanation
Indices: 130161--130310 Score: 212
Period size: 71 Copynumber: 2.1 Consensus size: 71
130151 TATTCAATAA
* * *
130161 ATCGATACATCTAGGTAAAAGGACAGAATGTATCGATACATTCATA-CATGTATCGATACATTGA
1 ATCGATACATCTAGGTAAAAAGACAGAATGTATCGATACATTCA-AGAATGTATCGATACATTCA
130225 AAAATGT
65 AAAATGT
* * * *
130232 ATCGATATATCTAGGTAAAAAGATAGAATGTATCGATACATTGAAGAATGTATCGATACATTCAT
1 ATCGATACATCTAGGTAAAAAGACAGAATGTATCGATACATTCAAGAATGTATCGATACATTCAA
*
130297 ATATGT
66 AAATGT
130303 ATCGATAC
1 ATCGATAC
130311 GTTGAAAAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
70 1 0.01
71 68 0.99
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (71 bp):
ATCGATACATCTAGGTAAAAAGACAGAATGTATCGATACATTCAAGAATGTATCGATACATTCAA
AAATGT
Found at i:130278 original size:24 final size:20
Alignment explanation
Indices: 130256--130333 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
130246 GTAAAAAGAT
130256 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
130276 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
130296 TA-TATGTATCGATACGTTGA
1 -AGAATGTATCGATACATTGA
*
130316 AAAATGTATCGATACATT
1 AGAATGTATCGATACATT
130334 TGGGTAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.02
20 48 0.96
21 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:131222 original size:32 final size:33
Alignment explanation
Indices: 131181--131270 Score: 112
Period size: 32 Copynumber: 2.8 Consensus size: 33
131171 AAAAGGGTTA
*
131181 CCACCAACTTGCGTGGGCTTTTAAAAAAAG-TG
1 CCACCAACTTGTGTGGGCTTTTAAAAAAAGTTG
* * *
131213 CCACTAACTTGTGTGGGC-TTTGAAAAGAGTTG
1 CCACCAACTTGTGTGGGCTTTTAAAAAAAGTTG
* *
131245 CCACCGACTTGTGTGGGCTTTGAAAA
1 CCACCAACTTGTGTGGGCTTTTAAAA
131271 GAGTTACCAC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
31 9 0.19
32 34 0.71
33 5 0.10
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (33 bp):
CCACCAACTTGTGTGGGCTTTTAAAAAAAGTTG
Found at i:131368 original size:28 final size:28
Alignment explanation
Indices: 131224--131866 Score: 788
Period size: 28 Copynumber: 22.5 Consensus size: 28
131214 CACTAACTTG
* *
131224 TGTGGGCTTTGAAAAGAGTTGCCACCGACTT
1 TGTGGGCTTTG-AAAG-GATGCCACTGAC-T
* *
131255 GTGTGGGCTTTGAAAAGAGTTACCACTGACT
1 -TGTGGGCTTTG-AAAG-GATGCCACTGACT
* **
131286 TGTGGGCTTTGAAAAGAGTTAACACT-AGCT
1 TGTGGGCTTTG-AAAG-GATGCCACTGA-CT
*** * *
131316 TGTTTACTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
131345 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
131373 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
131401 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
131429 TGTGGGCTTTGAAAAGG-TGCCATTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
131457 TGTGGGCTTTGAAAGGATGCCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
131485 TATGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
*
131514 TATGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
131543 TGTGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
* *
131572 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
131600 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
131628 TATGGGCTTTGAAAGG-TGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
131655 TGTGGGCTTTAAAATGATACTACTAATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
131683 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
131711 TGTGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** *
131739 TGTTTGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
131767 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
131795 TGTGGGCTTTAAGAAGGATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
*
131824 TGTGGGCTTTGAGAAGAGATGCCACTGACC
1 TGTGGGCTTTGA-AAG-GATGCCACTGACT
131854 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
131867 GAGATGAACG
Statistics
Matches: 548, Mismatches: 55, Indels: 19
0.88 0.09 0.03
Matches are distributed among these distances:
27 28 0.05
28 291 0.53
29 136 0.25
30 65 0.12
31 1 0.00
32 27 0.05
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:147003 original size:20 final size:20
Alignment explanation
Indices: 146974--147050 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
146964 GTAAAAAGAC
146974 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
146994 AGAATATATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
147014 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
147034 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
147051 CTGGGTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:147008 original size:51 final size:51
Alignment explanation
Indices: 146926--147112 Score: 225
Period size: 51 Copynumber: 3.9 Consensus size: 51
146916 TTTTAACTAG
* * *
146926 ATGTATCGATACATTAAATAATGTATGGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACATCTGGGTAAAAAGACAGA
* * *
146977 ATGTATCGATACATTGAAGAATATATCGATACA--T---T---CATAC---
1 ATGTATCGATACATTGAAGAATGTATCGATACATCTGGGTAAAAAGACAGA
*
147017 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACATCTGGGTAAAAAGACAGA
*
147068 ATGTATCGATACATTGAAGAATGTATTGATACATCTGGGTAAAAA
1 ATGTATCGATACATTGAAGAATGTATCGATACATCTGGGTAAAAA
147113 TATGATTTTT
Statistics
Matches: 113, Mismatches: 12, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
40 31 0.27
42 1 0.01
43 3 0.03
45 1 0.01
46 1 0.01
48 3 0.03
49 1 0.01
51 72 0.64
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (51 bp):
ATGTATCGATACATTGAAGAATGTATCGATACATCTGGGTAAAAAGACAGA
Found at i:147081 original size:91 final size:91
Alignment explanation
Indices: 146926--147101 Score: 309
Period size: 91 Copynumber: 1.9 Consensus size: 91
146916 TTTTAACTAG
*
146926 ATGTATCGATACATTAAATAATGTATGGATACATCTGGGTAAAAAGACAGAATGTATCGATACAT
1 ATGTATCGATACATTAAATAATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACAT
146991 TGAAGAATATATCGATACATTCATAC
66 TGAAGAATATATCGATACATTCATAC
147017 ATGTATCGATACATTGAAA-AATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACA
1 ATGTATCGATACATT-AAATAATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACA
* *
147081 TTGAAGAATGTATTGATACAT
65 TTGAAGAATATATCGATACAT
147102 CTGGGTAAAA
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
91 78 0.96
92 3 0.04
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (91 bp):
ATGTATCGATACATTAAATAATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACAT
TGAAGAATATATCGATACATTCATAC
Found at i:149805 original size:79 final size:80
Alignment explanation
Indices: 149711--150050 Score: 297
Period size: 79 Copynumber: 4.3 Consensus size: 80
149701 AAAAATATCG
* * * * *
149711 ATTTTTTACTATTGGGGATACTCTAACCTCATCATTTTTGAAGAGATACTCCAACCTCAG-TTTT
1 ATTTTTTA-TCTTGGGGATACTCCAACCCCATCATTTCTGAAGGGATACTCCAACCTCAGTTTTT
149775 ACTTCTAAAATATTAA
65 ACTTCTAAAATATTAA
* * * *
149791 ATTTTTTATCTTGGGGATACTCCAACCCCACCATCTCTGAGGGGATACTCCAACCT-TGTTTTTA
1 ATTTTTTATCTTGGGGATACTCCAACCCCATCATTTCTGAAGGGATACTCCAACCTCAGTTTTTA
* * *
149855 TTTCCAAAATATT-G
66 CTTCTAAAATATTAA
* * * * *
149869 ATTTTTTACCATCGGGGATACTCCAACCCCATCATTTCTG-GGGGAATACTCTAACCCCA-TTTT
1 ATTTTTTATC-TTGGGGATACTCCAACCCCATCATTTCTGAAGGG-ATACTCCAACCTCAGTTTT
* **
149932 TA-TTTTCAAAATA-TCG
64 TACTTCT-AAAATATTAA
* ** * *
149948 ATTTTTTACCATCAGGGATACTTCAACCCCATCATTTCT-AATGGGATACTCCAACC-CCGTTTT
1 ATTTTTTATC-TTGGGGATACTCCAACCCCATCATTTCTGAA-GGGATACTCCAACCTCAGTTTT
*
150011 TACTT-TCAAATATTAA
64 TACTTCTAAAATATTAA
* *
150027 A-TTTTCATCTTCGGGATACTCCAA
1 ATTTTTTATCTTGGGGATACTCCAA
150051 TCCTGATTTT
Statistics
Matches: 215, Mismatches: 34, Indels: 25
0.78 0.12 0.09
Matches are distributed among these distances:
77 12 0.06
78 29 0.13
79 161 0.75
80 13 0.06
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (80 bp):
ATTTTTTATCTTGGGGATACTCCAACCCCATCATTTCTGAAGGGATACTCCAACCTCAGTTTTTA
CTTCTAAAATATTAA
Found at i:149994 original size:158 final size:158
Alignment explanation
Indices: 149702--150050 Score: 359
Period size: 158 Copynumber: 2.2 Consensus size: 158
149692 TCTCCTTCTA
* * * * * *
149702 AAAATATCGATTTTTTACTATTGGGGATACTCTAACCTCATCATTTTTGAAGAGATACTCCAACC
1 AAAATATTGATTTTTTACCATCGGGGATACTCCAACCCCATCATTTTGGAAGAGATACTCCAACC
* * ** *
149767 TCAGTTTTACTTCTAAAATATTAAATTTTTTATCTTGGGGATACTCCAACCCCACCATCTCTGAG
66 CCAGTTTTACTTCTAAAATATTAAATTTTTTACCTCAGGGATACTCCAACCCCACCATCTCTAAG
**
149832 GGGATACTCCAACCTTGTTTTTA-TTTCC
131 GGGATACTCCAACCCCGTTTTTACTTT-C
** *
149860 AAAATATTGATTTTTTACCATCGGGGATACTCCAACCCCATCATTTCTGGGGGA-ATACTCTAAC
1 AAAATATTGATTTTTTACCATCGGGGATACTCCAACCCCATCATTT-TGGAAGAGATACTCCAAC
* * ** * * *
149924 CCCATTTTTA-TTTTCAAAATA-TCGATTTTTTACCATCAGGGATACTTCAACCCCATCATTTCT
65 CCCAGTTTTACTTCT-AAAATATTAAATTTTTTACC-TCAGGGATACTCCAACCCCACCATCTCT
*
149987 AATGGGATACTCCAACCCCGTTTTTACTTTC
128 AAGGGGATACTCCAACCCCGTTTTTACTTTC
* * * * *
150018 -AAATATTAAATTTTCATCTTC-GGGATACTCCAA
1 AAAATATTGATTTTTTACCATCGGGGATACTCCAA
150051 TCCTGATTTT
Statistics
Matches: 158, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
156 12 0.08
157 29 0.18
158 110 0.70
159 7 0.04
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.37
Consensus pattern (158 bp):
AAAATATTGATTTTTTACCATCGGGGATACTCCAACCCCATCATTTTGGAAGAGATACTCCAACC
CCAGTTTTACTTCTAAAATATTAAATTTTTTACCTCAGGGATACTCCAACCCCACCATCTCTAAG
GGGATACTCCAACCCCGTTTTTACTTTC
Found at i:156459 original size:43 final size:43
Alignment explanation
Indices: 156398--156489 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
156388 TGGCGCCACC
* *
156398 TTTTTTCTCTTTTTAAGGCCACACAGGTTGATGGCACTTCTTT
1 TTTTTTCTCTTTTAAAGGCCACACAAGTTGATGGCACTTCTTT
* *
156441 TTTTTTC-CTTTTCAAAGGCCACACAATTTGGTGGCACTTCTTT
1 TTTTTTCTCTTTT-AAAGGCCACACAAGTTGATGGCACTTCTTT
*
156484 CTTTTT
1 TTTTTT
156490 AAAGCCTGCA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.16, C:0.22, G:0.14, T:0.48
Consensus pattern (43 bp):
TTTTTTCTCTTTTAAAGGCCACACAAGTTGATGGCACTTCTTT
Found at i:156578 original size:81 final size:80
Alignment explanation
Indices: 156486--156684 Score: 256
Period size: 81 Copynumber: 2.4 Consensus size: 80
156476 ACTTCTTTCT
* *
156486 TTTTAAAGCCTGCACAAGTTGGCGACACCTTTTTCCCTCTTTAAGCCCACACATGTTGGTGGTAC
1 TTTTAAAGCCTGCACAAGTTGGCGACACCTTTTTCCCTCTTTAAGCCCACACAAGTTGGTGGCAC
156551 CTCTT-TCTTTTTTCCC
66 C-CTTATC-TTTTTCCC
* * * * * *
156567 TTTTAAAGCCTGCACAAGATGGCGATACCTGTTTCTCTTTTTAAGCCCACGCAAGTTGGTGGCAC
1 TTTTAAAGCCTGCACAAGTTGGCGACACCTTTTTCCCTCTTTAAGCCCACACAAGTTGGTGGCAC
156632 CCTTATCTTTTTCCC
66 CCTTATCTTTTTCCC
* *
156647 TTTTCAAAGCCTACACAAATTGGCGACACTTCTTTTTC
1 TTTT-AAAGCCTGCACAAGTTGGCGACAC--CTTTTTC
156685 TTTAAAGCTC
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
80 15 0.15
81 80 0.79
83 6 0.06
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.37
Consensus pattern (80 bp):
TTTTAAAGCCTGCACAAGTTGGCGACACCTTTTTCCCTCTTTAAGCCCACACAAGTTGGTGGCAC
CCTTATCTTTTTCCC
Done.