Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 8 of 175
Found at i:2281676 original size:14 final size:14
Alignment explanation
Indices: 2281657--2281853 Score: 89
Period size: 14 Copynumber: 13.9 Consensus size: 14
2281647 CTAGTTAATC
2281657 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
2281671 TAAA-CCTAAACCC
1 TAAACCCTAAACCA
* * *
2281684 TAAAATCTTAAACCC
1 T-AAACCCTAAACCA
*
2281699 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
* *
2281714 T-AACATCTAAACCT
1 TAAAC-CCTAAACCA
* *
2281728 TAAACCC-CAACCTT
1 TAAACCCTAAACC-A
*
2281742 TAAACCATAAACCA
1 TAAACCCTAAACCA
* * * *
2281756 TAAATCATAACCCC
1 TAAACCCTAAACCA
*
2281770 TAAACCCATAATCCA
1 TAAACCC-TAAACCA
*
2281785 TAAACCTTAAA--A
1 TAAACCCTAAACCA
*
2281797 TAGTAACTCCTAAACCT
1 TA--AAC-CCTAAACCA
*
2281814 TAAACTCTAAACCA
1 TAAACCCTAAACCA
* *
2281828 TATACCCCAAACCA
1 TAAACCCTAAACCA
* *
2281842 AAAACCTTAAAC
1 TAAACCCTAAAC
2281854 TATAGTGATA
Statistics
Matches: 136, Mismatches: 34, Indels: 26
0.69 0.17 0.13
Matches are distributed among these distances:
12 3 0.02
13 13 0.10
14 76 0.56
15 42 0.31
17 2 0.01
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:2282249 original size:41 final size:41
Alignment explanation
Indices: 2282193--2282315 Score: 169
Period size: 41 Copynumber: 3.0 Consensus size: 41
2282183 ACTAAAAATA
*
2282193 GAGCATTAGCGGCGCTTCTTCAAAAACGTCGCTAAAGCCCC
1 GAGCATTAGCGGCGCTTCTTCAAAAACGACGCTAAAGCCCC
2282234 GAGCATTAGCGGCGCTT-TTCCAGAAAA-GACGCTAAAGCCCC
1 GAGCATTAGCGGCGCTTCTT-CA-AAAACGACGCTAAAGCCCC
* * * *
2282275 GAGCATTAGCGACGCTTCTTGAAAAACGCCACTAAAGCCCC
1 GAGCATTAGCGGCGCTTCTTCAAAAACGACGCTAAAGCCCC
2282316 AAAAACTCAA
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
40 6 0.08
41 61 0.84
42 6 0.08
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.18
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTCTTCAAAAACGACGCTAAAGCCCC
Found at i:2282417 original size:39 final size:39
Alignment explanation
Indices: 2282374--2282472 Score: 126
Period size: 40 Copynumber: 2.5 Consensus size: 39
2282364 TGGAAAACGT
2282374 CGCTAATGCTCATTTTTAGCGGCGTTTTCCAAAAAGCGC
1 CGCTAATGCTCATTTTTAGCGGCGTTTTCCAAAAAGCGC
* * **
2282413 CGCTAATACTCGATCTTTAGCGGCGTTTTTTAAAAAGCGC
1 CGCTAATGCTC-ATTTTTAGCGGCGTTTTCCAAAAAGCGC
* * *
2282453 CGGTAATGCTTATTATTAGC
1 CGCTAATGCTCATTTTTAGC
2282473 AGTGTTTTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 17 0.34
40 33 0.66
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (39 bp):
CGCTAATGCTCATTTTTAGCGGCGTTTTCCAAAAAGCGC
Found at i:2282874 original size:7 final size:7
Alignment explanation
Indices: 2282862--2282888 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2282852 GATTTTCAAA
2282862 AAATTTT
1 AAATTTT
2282869 AAATTTT
1 AAATTTT
2282876 AAATTTT
1 AAATTTT
2282883 AAATTT
1 AAATTT
2282889 GAATATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AAATTTT
Found at i:2283721 original size:42 final size:42
Alignment explanation
Indices: 2283674--2283859 Score: 189
Period size: 42 Copynumber: 4.4 Consensus size: 42
2283664 TTTTAGAAAT
2283674 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCAC
* * * *
2283716 AAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTATCAAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCAC
* * * *
2283758 AATCGCCGCTAAAG-ACTATGACCTTTAGCAGCGCTTTTATCAC
1 AAACGCCGCTAAAGAAC-AAGACCTTTAGCGGCGCTTTT-CCAC
* * * * * *
2283801 AAACGCCGCTATAGATCAA-ACCTTTAGTGACGCTTCTTGCAA
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTT-TTCCAC
*
2283843 AAACGCCACTAAA-AACA
1 AAACGCCGCTAAAGAACA
2283860 TAACTTTAAA
Statistics
Matches: 116, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
41 4 0.03
42 94 0.81
43 17 0.15
44 1 0.01
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCAC
Found at i:2283835 original size:84 final size:84
Alignment explanation
Indices: 2283677--2283835 Score: 214
Period size: 84 Copynumber: 1.9 Consensus size: 84
2283667 TAGAAATAAA
*
2283677 CGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCACAAACGCCACTAAAGACCAAGACCTTT
1 CGCCGCTAAAGAACAAGACCTTTAGCAGCGCTTTTCCACAAACGCCACTAAAGACCAAGACCTTT
*
2283742 AGCGGCGCTTATCAACAAT
66 AGCGACGCTTATCAACAAT
* * * * *
2283761 CGCCGCTAAAG-ACTATGACCTTTAGCAGCGCTTTTATCACAAACGCCGCTATAGATCAA-ACCT
1 CGCCGCTAAAGAAC-AAGACCTTTAGCAGCGCTTTT-CCACAAACGCCACTAAAGACCAAGACCT
*
2283824 TTAGTGACGCTT
64 TTAGCGACGCTT
2283836 CTTGCAAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
83 2 0.03
84 44 0.68
85 19 0.29
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (84 bp):
CGCCGCTAAAGAACAAGACCTTTAGCAGCGCTTTTCCACAAACGCCACTAAAGACCAAGACCTTT
AGCGACGCTTATCAACAAT
Found at i:2287274 original size:21 final size:20
Alignment explanation
Indices: 2287246--2287284 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2287236 GTTTGCAAAG
*
2287246 TTAGGGTTTCAGTGGGAAAA
1 TTAGGGTTTCAGGGGGAAAA
2287266 TTAGAGGTTTCAGGGGGAA
1 TTAG-GGTTTCAGGGGGAA
2287285 TTTGGAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.05, G:0.38, T:0.28
Consensus pattern (20 bp):
TTAGGGTTTCAGGGGGAAAA
Found at i:2288334 original size:15 final size:15
Alignment explanation
Indices: 2288314--2288342 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2288304 ACCTTAACAT
2288314 CTAACCCCTAAACCC
1 CTAACCCCTAAACCC
2288329 CTAACCCCTAAACC
1 CTAACCCCTAAACC
2288343 TTAAATCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.52, G:0.00, T:0.14
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:2288341 original size:36 final size:36
Alignment explanation
Indices: 2288286--2288363 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
2288276 CCCTAAACCT
* * *
2288286 TAAATCCCTAACTCTTAAACCTTAACATCT-AACCCC
1 TAAACCCCTAACCCCTAAACCTTAA-ATCTCAACCCC
*
2288322 TAAACCCCTAACCCCTAAACCTTAAATCTCAACCCT
1 TAAACCCCTAACCCCTAAACCTTAAATCTCAACCCC
2288358 TAAACC
1 TAAACC
2288364 ATAATCACTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
35 4 0.11
36 33 0.89
ACGTcount: A:0.37, C:0.38, G:0.00, T:0.24
Consensus pattern (36 bp):
TAAACCCCTAACCCCTAAACCTTAAATCTCAACCCC
Found at i:2288611 original size:15 final size:15
Alignment explanation
Indices: 2288591--2288619 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2288581 AACACGTCGA
2288591 CTAACCCCTAAACCC
1 CTAACCCCTAAACCC
2288606 CTAACCCCTAAACC
1 CTAACCCCTAAACC
2288620 TTAAATCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.52, G:0.00, T:0.14
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:2288638 original size:21 final size:22
Alignment explanation
Indices: 2288599--2288651 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
2288589 GACTAACCCC
* *
2288599 TAAACCCCTAACCCCTAAACCT
1 TAAATCCCTAACCCCTAAACCA
*
2288621 TAAATCCC-AACCCTTAAACCA
1 TAAATCCCTAACCCCTAAACCA
2288642 T-AATCCCTAA
1 TAAATCCCTAA
2288652 ACCCAACTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.22
21 14 0.52
22 7 0.26
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAATCCCTAACCCCTAAACCA
Found at i:2288666 original size:14 final size:14
Alignment explanation
Indices: 2288618--2288667 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
2288608 AACCCCTAAA
2288618 CCTTAAATCCCAAC-
1 CCTTAAA-CCCAACT
*
2288632 CCTTAAA-CCATAAT
1 CCTTAAACCCA-ACT
*
2288646 CCCTAAACCCAACT
1 CCTTAAACCCAACT
2288660 CCTTAAAC
1 CCTTAAAC
2288668 TAAAAACCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 3 0.10
13 1 0.03
14 22 0.76
15 3 0.10
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.22
Consensus pattern (14 bp):
CCTTAAACCCAACT
Found at i:2288677 original size:28 final size:27
Alignment explanation
Indices: 2288615--2288681 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
2288605 CCTAACCCCT
* *
2288615 AAACCTTAAATCCCAACCCTTAAACCAT
1 AAACCCTAAA-CCCAACCCTTAAACCAA
* *
2288643 AATCCCTAAACCCAACTCCTTAAACTAA
1 AAACCCTAAACCCAAC-CCTTAAACCAA
2288671 AAACCCTAAAC
1 AAACCCTAAAC
2288682 TATAGTGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 6 0.18
28 27 0.82
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.19
Consensus pattern (27 bp):
AAACCCTAAACCCAACCCTTAAACCAA
Found at i:2289011 original size:41 final size:41
Alignment explanation
Indices: 2288953--2289147 Score: 345
Period size: 41 Copynumber: 4.8 Consensus size: 41
2288943 TAAAATGTTT
* *
2288953 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCA
1 TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAAGACCAGAGCA
*
2288994 TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAAGACCAGAGTA
1 TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAAGACCAGAGCA
*
2289035 TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAAGACCAGAGTA
1 TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAAGACCAGAGCA
*
2289076 TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAAGAACAGAGCA
1 TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAAGACCAGAGCA
2289117 TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAA
1 TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAA
2289148 TCCCCAAAAA
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 149 1.00
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (41 bp):
TTAGCGGCGCTTCTTCAAAAGCGCCGCTAAAGACCAGAGCA
Found at i:2289230 original size:39 final size:40
Alignment explanation
Indices: 2289187--2289321 Score: 143
Period size: 40 Copynumber: 3.4 Consensus size: 40
2289177 TAGGTTTAGG
* *
2289187 TTTTAGCGGCGCTTTTTGGAAAA-CGCCGCTAATTCTC-AT
1 TTTTAGCGGCG-TTTTTAGAAAAGCGCCGCTAATACTCGAT
*
2289226 TTTTAGTGGCGTTTTTAGAAAAGCGCCGCTAATACTCGAT
1 TTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATACTCGAT
* * * *
2289266 CTTTAGCGGCGTTTTTTAG-ATAGCGCTGCTAATGA-TTGAT
1 TTTTAGCGGCG-TTTTTAGAAAAGCGCCGCTAAT-ACTCGAT
*
2289306 TTTTAGCGGTGTTTTT
1 TTTTAGCGGCGTTTTT
2289322 TATCCAAACG
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
38 10 0.12
39 28 0.34
40 36 0.44
41 8 0.10
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATACTCGAT
Found at i:2290206 original size:18 final size:19
Alignment explanation
Indices: 2290174--2290224 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
2290164 AAACATATAA
*
2290174 ATTTTGAAATGTTTATAAA-T
1 ATTTTG-AAT-TTTAAAAATT
2290194 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
*
2290213 ATTTTGTATTTT
1 ATTTTGAATTTT
2290225 TTGTTGAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 7 0.25
19 15 0.54
20 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:2302945 original size:3 final size:3
Alignment explanation
Indices: 2302918--2302958 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
2302908 ATAAAATGAA
* *
2302918 AAT AA- AAT AA- AAT AGT AAA AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2302959 GGAAAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:2318675 original size:118 final size:118
Alignment explanation
Indices: 2318546--2318761 Score: 301
Period size: 118 Copynumber: 1.8 Consensus size: 118
2318536 TCTCCTATTG
* * * * * * *
2318546 CTTGGTTTTTTGCTTTGAATTTTCTATAATA-TATATATA-CGTATTTTAATTTTAAATCATTTA
1 CTTGGATTTTTGCTTTGAATTTTCTA-AAAAGAATATATAGC-CATTTTAAATTTAAATAATATA
2318609 TTTAGAGGGTTGGATTTTATTTGGGTTGATTTAGACGGAAAATAATCTTTTTTTT
64 TTTAGAGGGTTGGATTTTATTTGGGTTGATTTAGACGGAAAATAATCTTTTTTTT
*
2318664 CTTGGATTTTTGCTTTGAATTTTCTAAAAAGAATATGTAGCCATTTTAAATTTAAATAATATATT
1 CTTGGATTTTTGCTTTGAATTTTCTAAAAAGAATATATAGCCATTTTAAATTTAAATAATATATT
** *
2318729 TTTAGGGTTTGATTTTATTTGGGTTGATTTAGA
66 TAGAGGGTTGGATTTTATTTGGGTTGATTTAGA
2318762 ATTTGTTATA
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
117 3 0.04
118 81 0.95
119 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.51
Consensus pattern (118 bp):
CTTGGATTTTTGCTTTGAATTTTCTAAAAAGAATATATAGCCATTTTAAATTTAAATAATATATT
TAGAGGGTTGGATTTTATTTGGGTTGATTTAGACGGAAAATAATCTTTTTTTT
Found at i:2321626 original size:3 final size:3
Alignment explanation
Indices: 2321620--2321675 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
2321610 ATTTAAGTTA
*
2321620 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2321668 ATT ATT AT
1 ATT ATT AT
2321676 ACTAATATAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:2325187 original size:28 final size:29
Alignment explanation
Indices: 2325127--2325187 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
2325117 AAAAAGCCCT
*
2325127 TTTTTTAAATATTTACCGAAATGGGCCGG
1 TTTTTTAAATATTTACCGAAATGGGCCGA
* *
2325156 TTTTTTAATTATTTACCGAAATGGTCC-A
1 TTTTTTAAATATTTACCGAAATGGGCCGA
2325184 TTTT
1 TTTT
2325188 CCGCGAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (29 bp):
TTTTTTAAATATTTACCGAAATGGGCCGA
Found at i:2326154 original size:29 final size:28
Alignment explanation
Indices: 2326114--2326175 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
2326104 CGATTTCGCG
*
2326114 AAAAATGACCCATTCCGGTAAATAATT-A
1 AAAAATGACCCATTCCGATAAAT-ATTGA
* *
2326142 AAAAATCGGCCCATTTCGATAAATATTGA
1 AAAAAT-GACCCATTCCGATAAATATTGA
2326171 AAAAA
1 AAAAA
2326176 AGGGCTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 9 0.31
29 20 0.69
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.24
Consensus pattern (28 bp):
AAAAATGACCCATTCCGATAAATATTGA
Found at i:2326173 original size:28 final size:28
Alignment explanation
Indices: 2326113--2326174 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
2326103 GCGATTTCGC
*
2326113 GAAAAATGACCCATTCCGGTAAATAATT
1 GAAAAATGACCCATTCCGATAAATAATT
* * *
2326141 AAAAAATCGGCCCATTTCGATAAAT-ATT
1 GAAAAAT-GACCCATTCCGATAAATAATT
2326169 GAAAAA
1 GAAAAA
2326175 AAGGGCTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.47, C:0.16, G:0.13, T:0.24
Consensus pattern (28 bp):
GAAAAATGACCCATTCCGATAAATAATT
Found at i:2327841 original size:21 final size:21
Alignment explanation
Indices: 2327794--2327835 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2327784 ACAATTTTGT
*
2327794 AATTAAAGTGAAATTAAAACA
1 AATTAAAGTAAAATTAAAACA
2327815 AATTAAAGTAAAATTAAAACA
1 AATTAAAGTAAAATTAAAACA
2327836 CTTTAATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (21 bp):
AATTAAAGTAAAATTAAAACA
Found at i:2328753 original size:24 final size:25
Alignment explanation
Indices: 2328700--2328757 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
2328690 TTAGCTCAAG
*
2328700 AGAGCTTACCGATATTCAGCTTGCA
1 AGAGCTTACCGATATTCAGCTCGCA
* * *
2328725 TGAGCTTACC-ATATTTAGCTCGGA
1 AGAGCTTACCGATATTCAGCTCGCA
2328749 AGAGCTTAC
1 AGAGCTTAC
2328758 TGTTTATAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 19 0.68
25 9 0.32
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (25 bp):
AGAGCTTACCGATATTCAGCTCGCA
Found at i:2335167 original size:18 final size:19
Alignment explanation
Indices: 2335125--2335161 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2335115 TTTAATTTTT
2335125 AAATTTTAAAAGTTAAAAA
1 AAATTTTAAAAGTTAAAAA
2335144 AAATTTTAAAA-TTAAAAA
1 AAATTTTAAAAGTTAAAAA
2335162 TTATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATTTTAAAAGTTAAAAA
Found at i:2336162 original size:69 final size:70
Alignment explanation
Indices: 2336029--2336168 Score: 255
Period size: 69 Copynumber: 2.0 Consensus size: 70
2336019 CAGAAACTAC
2336029 ATTACCTTAAAAATGTCAAATTGGGTAAAAAAAAAAAACTATGAGAGCATTTCAAAATGGCCTAC
1 ATTACCTTAAAAATGTCAAATTGGGT-AAAAAAAAAAACTATGAGAGCATTTCAAAATGGCCTAC
2336094 TTAAAG
65 TTAAAG
*
2336100 ATTACCTTAAAAATGTCAAATTGGGT-AAAAAAAAAACTATGAGAGCATTTCAAAATTGCCTACT
1 ATTACCTTAAAAATGTCAAATTGGGTAAAAAAAAAAACTATGAGAGCATTTCAAAATGGCCTACT
2336164 TAAAG
66 TAAAG
2336169 CAAGAACAGT
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
69 42 0.62
71 26 0.38
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.26
Consensus pattern (70 bp):
ATTACCTTAAAAATGTCAAATTGGGTAAAAAAAAAAACTATGAGAGCATTTCAAAATGGCCTACT
TAAAG
Found at i:2339292 original size:18 final size:17
Alignment explanation
Indices: 2339265--2339298 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
2339255 TTGAATAAAA
2339265 GAAAGAAATACTGAAAT
1 GAAAGAAATACTGAAAT
2339282 GAAAGGAAATACTGAAA
1 GAAA-GAAATACTGAAA
2339299 GACTGAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.59, C:0.06, G:0.21, T:0.15
Consensus pattern (17 bp):
GAAAGAAATACTGAAAT
Found at i:2339948 original size:30 final size:31
Alignment explanation
Indices: 2339893--2339958 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
2339883 ATAGTTTATT
* *
2339893 ATTTTTATAATTTTTAAATGATTAAATTA-A
1 ATTTTTATAATTTTTAAAGGATTAAAATATA
* * *
2339923 ATTTTTATCATTTTTATAGGGTTAAAATATA
1 ATTTTTATAATTTTTAAAGGATTAAAATATA
2339954 ATTTT
1 ATTTT
2339959 ATATTTACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 24 0.80
31 6 0.20
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.55
Consensus pattern (31 bp):
ATTTTTATAATTTTTAAAGGATTAAAATATA
Found at i:2340624 original size:11 final size:11
Alignment explanation
Indices: 2340604--2340642 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2340594 AGCCCGGTCC
*
2340604 ATATTGAATAT
1 ATATTTAATAT
2340615 ATATTTAATAT
1 ATATTTAATAT
**
2340626 ATATAAAATAT
1 ATATTTAATAT
2340637 ATATTT
1 ATATTT
2340643 GATTAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (11 bp):
ATATTTAATAT
Found at i:2340943 original size:15 final size:16
Alignment explanation
Indices: 2340923--2340952 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2340913 ATTTAAAAGA
2340923 TTAAAATTA-TAATAC
1 TTAAAATTATTAATAC
2340938 TTAAAATTATTAATA
1 TTAAAATTATTAATA
2340953 AATTAATAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAAAATTATTAATAC
Found at i:2343912 original size:13 final size:13
Alignment explanation
Indices: 2343894--2343922 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2343884 CCACTTTTCT
2343894 TTGTAATATTTTA
1 TTGTAATATTTTA
2343907 TTGTAATATTTTA
1 TTGTAATATTTTA
2343920 TTG
1 TTG
2343923 AAAGATGTTT
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:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TTGTAATATTTTA
Found at i:2347135 original size:63 final size:63
Alignment explanation
Indices: 2347015--2347139 Score: 178
Period size: 63 Copynumber: 2.0 Consensus size: 63
2347005 GGTCAACTCT
* * **
2347015 AGGACTTTCCTGGCATGTTCTCATACCAATGTCCACCACAAATTATGTTTAGGAACTACTTCC
1 AGGACTTTCCTGGCATGTTCTCATACCAATGTCCACCACAAATTATCTTGACCAACTACTTCC
** * *
2347078 AGGACTTTCCTGGCATGTTCTCATGTCAATGTCCGCCGCAAATTATCTTGACCAACTACTTC
1 AGGACTTTCCTGGCATGTTCTCATACCAATGTCCACCACAAATTATCTTGACCAACTACTTC
2347140 TCAGTAACCT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (63 bp):
AGGACTTTCCTGGCATGTTCTCATACCAATGTCCACCACAAATTATCTTGACCAACTACTTCC
Found at i:2347427 original size:30 final size:30
Alignment explanation
Indices: 2347383--2347454 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
2347373 TTAATGATAG
* * *
2347383 ATAAAATATTTTAAA-AACTTAAATATAATA
1 ATAAATTATATTAAATAA-TTAAATACAATA
* *
2347413 ATAAATTATATTAAATAATTTAATACAATG
1 ATAAATTATATTAAATAATTAAATACAATA
*
2347443 ACAAATTATATT
1 ATAAATTATATT
2347455 TATATAATGG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 33 0.94
31 2 0.06
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (30 bp):
ATAAATTATATTAAATAATTAAATACAATA
Found at i:2347625 original size:55 final size:55
Alignment explanation
Indices: 2347559--2347672 Score: 183
Period size: 55 Copynumber: 2.1 Consensus size: 55
2347549 TTTAAGTAGA
* * * *
2347559 AAAACAATTTTTCACCGTAGTTTTGACCCCAAAATTCAATTATCTTTCTAGGTGT
1 AAAACAATTTTTCACCGTAGTTTTAACCCCAAAAATCAATTATCCTTCTAGATGT
*
2347614 AAAACAATTTTTCACCGTAGTTTTAACCCCAAAAATCAGTTATCCTTCTAGATGT
1 AAAACAATTTTTCACCGTAGTTTTAACCCCAAAAATCAATTATCCTTCTAGATGT
2347669 AAAA
1 AAAA
2347673 GCACTTTTGG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (55 bp):
AAAACAATTTTTCACCGTAGTTTTAACCCCAAAAATCAATTATCCTTCTAGATGT
Found at i:2352936 original size:23 final size:24
Alignment explanation
Indices: 2352890--2352941 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
2352880 ATAAAATTAT
* *
2352890 TTAATAAATATATTTTTTTGAATAA
1 TTAATAAATATA-TTATTTAAATAA
*
2352915 TTAATAAATATA-TATTTAAATAG
1 TTAATAAATATATTATTTAAATAA
2352938 TTAA
1 TTAA
2352942 AACTATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 12 0.50
25 12 0.50
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
TTAATAAATATATTATTTAAATAA
Found at i:2353335 original size:14 final size:14
Alignment explanation
Indices: 2353316--2353358 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
2353306 ACTTAAATTC
2353316 AATACTTAATTTTT
1 AATACTTAATTTTT
2353330 AATACTTAATTTTTT
1 AATACTTAA-TTTTT
* *
2353345 GACACTTAATTTTT
1 AATACTTAATTTTT
2353359 CAATCTATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (14 bp):
AATACTTAATTTTT
Found at i:2353351 original size:15 final size:15
Alignment explanation
Indices: 2353319--2353358 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
2353309 TAAATTCAAT
*
2353319 ACTTAA-TTTTTAAT
1 ACTTAATTTTTTAAC
*
2353333 ACTTAATTTTTTGAC
1 ACTTAATTTTTTAAC
2353348 ACTTAATTTTT
1 ACTTAATTTTT
2353359 CAATCTATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (15 bp):
ACTTAATTTTTTAAC
Found at i:2353388 original size:3 final size:3
Alignment explanation
Indices: 2353380--2353419 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
2353370 ACATAACCTA
2353380 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2353420 GTGATTGAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2359077 original size:11 final size:11
Alignment explanation
Indices: 2359060--2359102 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
2359050 AAAATAGTGA
2359060 AAAAAAATAAC
1 AAAAAAATAAC
* *
2359071 AAGAAAATAGC
1 AAAAAAATAAC
* *
2359082 AACAAAATAAT
1 AAAAAAATAAC
2359093 AAAAAAATAA
1 AAAAAAATAA
2359103 ATATTTTGTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.77, C:0.07, G:0.05, T:0.12
Consensus pattern (11 bp):
AAAAAAATAAC
Found at i:2366009 original size:7 final size:7
Alignment explanation
Indices: 2365999--2366026 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
2365989 TAAAATTTAA
2365999 ATTTATT
1 ATTTATT
2366006 ATTTATT
1 ATTTATT
2366013 ATTTATT
1 ATTTATT
2366020 ATTTATT
1 ATTTATT
2366027 TTTCTGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
ATTTATT
Found at i:2381630 original size:24 final size:24
Alignment explanation
Indices: 2381603--2381656 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
2381593 AATTAAAGTC
*
2381603 AAATATATTATGCAAATAAATACT
1 AAATATATTATACAAATAAATACT
** *
2381627 AAATATATTATACTCATAAGTACT
1 AAATATATTATACAAATAAATACT
2381651 AAATAT
1 AAATAT
2381657 TCTAGAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATATATTATACAAATAAATACT
Found at i:2383680 original size:8 final size:8
Alignment explanation
Indices: 2383667--2383708 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
2383657 TATTAAAAAA
2383667 ATATTTTT
1 ATATTTTT
2383675 ATA-TTTT
1 ATATTTTT
*
2383682 ATATTTAT
1 ATATTTTT
*
2383690 ATATTTTA
1 ATATTTTT
2383698 ATTATTTTT
1 A-TATTTTT
2383707 AT
1 AT
2383709 GTGGATCACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 7 0.25
8 14 0.50
9 7 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
ATATTTTT
Found at i:2383687 original size:15 final size:16
Alignment explanation
Indices: 2383666--2383708 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
2383656 GTATTAAAAA
2383666 AATATTTTTATATTTT
1 AATATTTTTATATTTT
*
2383682 -ATATTTATATATTTT
1 AATATTTTTATATTTT
2383697 AATTATTTTTAT
1 AA-TATTTTTAT
2383709 GTGGATCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 14 0.61
16 1 0.04
17 8 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
AATATTTTTATATTTT
Found at i:2392764 original size:15 final size:16
Alignment explanation
Indices: 2392736--2392768 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2392726 TTAACTTAAA
*
2392736 ATTTTTATATAAAAAT
1 ATTTTTAGATAAAAAT
2392752 ATTTTTAGA-AAAAAT
1 ATTTTTAGATAAAAAT
2392767 AT
1 AT
2392769 ATATAAGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTTTTAGATAAAAAT
Found at i:2393470 original size:22 final size:22
Alignment explanation
Indices: 2393443--2393489 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
2393433 AAATTAAAAT
*
2393443 GAATAAAGGAGAGGGTAGGATG
1 GAATAAAGGAGAGGGTAGAATG
2393465 GAATAAAGGAGAGGGTAGAATG
1 GAATAAAGGAGAGGGTAGAATG
2393487 GAA
1 GAA
2393490 GGATAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.43, T:0.13
Consensus pattern (22 bp):
GAATAAAGGAGAGGGTAGAATG
Found at i:2405710 original size:6 final size:6
Alignment explanation
Indices: 2405701--2405786 Score: 172
Period size: 6 Copynumber: 14.3 Consensus size: 6
2405691 AACATATACA
2405701 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
2405749 TATATG TATATG TATATG TATATG TATATG TATATG TA
1 TATATG TATATG TATATG TATATG TATATG TATATG TA
2405787 CCTGCAATAG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 80 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:2416043 original size:18 final size:18
Alignment explanation
Indices: 2416020--2416056 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2416010 GCGAGTGGAG
2416020 GCTTTGGTCCCCAAAAGT
1 GCTTTGGTCCCCAAAAGT
2416038 GCTTTGGTCCCCAAAAGT
1 GCTTTGGTCCCCAAAAGT
2416056 G
1 G
2416057 AAAAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (18 bp):
GCTTTGGTCCCCAAAAGT
Found at i:2416586 original size:30 final size:30
Alignment explanation
Indices: 2416529--2416586 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
2416519 GTTAATTTAA
**
2416529 AATTTAGTCTTTATATTTTTATTTTTTAGG
1 AATTTAGTCTTTATATTTTTAGATTTTAGG
2416559 AATTTAGTCTTGT-TATTTTTAGATTTTA
1 AATTTAGTCTT-TATATTTTTAGATTTTA
2416587 AAATCTAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.24, C:0.03, G:0.10, T:0.62
Consensus pattern (30 bp):
AATTTAGTCTTTATATTTTTAGATTTTAGG
Found at i:2422544 original size:19 final size:20
Alignment explanation
Indices: 2422504--2422547 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
2422494 ATTATTTGGA
* *
2422504 ATTTTTTAAAATTATTATAT
1 ATTTTTTAAAAATATTAAAT
2422524 ATTTTTTAAAAATA-TAAAT
1 ATTTTTTAAAAATATTAAAT
2422543 ATTTT
1 ATTTT
2422548 ATTTTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTTTAAAAATATTAAAT
Found at i:2422585 original size:19 final size:18
Alignment explanation
Indices: 2422536--2422583 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
2422526 TTTTTAAAAA
2422536 TATAAATATTTTATTTTT
1 TATAAATATTTTATTTTT
2422554 TATAAATATTTTATTTTT
1 TATAAATATTTTATTTTT
2422572 TATAAATATTTT
1 TATAAATATTTT
2422584 TAATTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATAAATATTTTATTTTT
Found at i:2422590 original size:19 final size:18
Alignment explanation
Indices: 2422536--2422610 Score: 89
Period size: 18 Copynumber: 4.1 Consensus size: 18
2422526 TTTTTAAAAA
*
2422536 TATAAATATTTTATTTTT
1 TATAAATATTTTAATTTT
*
2422554 TATAAATATTTTATTTTT
1 TATAAATATTTTAATTTT
2422572 TATAAATATTTTTAA-TTT
1 TATAAATA-TTTTAATTTT
*
2422590 TAAAAATTATTTTGAATTTT
1 TATAAA-TATTTT-AATTTT
2422610 T
1 T
2422611 TTTAATTTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
18 38 0.75
19 9 0.18
20 4 0.08
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (18 bp):
TATAAATATTTTAATTTT
Found at i:2435502 original size:97 final size:97
Alignment explanation
Indices: 2435336--2435531 Score: 374
Period size: 97 Copynumber: 2.0 Consensus size: 97
2435326 TGATTTATAT
*
2435336 TTATGCAACAAATACTTAGTTTCTTGTTCTCAATTATGTGTGCTTAATGTTTGGTTTAATATATC
1 TTATGCAACAAATACTTAGTTTCTTGTTCTCAATTATGTGTGCTTAATATTTGGTTTAATATATC
2435401 TAGATTAATGATCAATATTTGATGTGCTCAAA
66 TAGATTAATGATCAATATTTGATGTGCTCAAA
*
2435433 TTATGCAGCAAATACTTAGTTTCTTGTTCTCAATTATGTGTGCTTAATATTTGGTTTAATATATC
1 TTATGCAACAAATACTTAGTTTCTTGTTCTCAATTATGTGTGCTTAATATTTGGTTTAATATATC
2435498 TAGATTAATGATCAATATTTGATGTGCTCAAA
66 TAGATTAATGATCAATATTTGATGTGCTCAAA
2435530 TT
1 TT
2435532 GGTGATTGAA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (97 bp):
TTATGCAACAAATACTTAGTTTCTTGTTCTCAATTATGTGTGCTTAATATTTGGTTTAATATATC
TAGATTAATGATCAATATTTGATGTGCTCAAA
Found at i:2447401 original size:3 final size:3
Alignment explanation
Indices: 2447393--2447418 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2447383 ATTTAAAGGT
2447393 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
2447419 TTCAACCAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:2454849 original size:19 final size:20
Alignment explanation
Indices: 2454827--2454864 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2454817 CTCTCACTTT
2454827 ATCTATTTT-TTAAATTTTC
1 ATCTATTTTATTAAATTTTC
*
2454846 ATCTATTTTATTTAATTTT
1 ATCTATTTTATTAAATTTT
2454865 TTGAATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (20 bp):
ATCTATTTTATTAAATTTTC
Found at i:2454891 original size:29 final size:29
Alignment explanation
Indices: 2454831--2454903 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
2454821 CACTTTATCT
* **
2454831 ATTTTTTAAATTTTCATCTATTTTATTTA
1 ATTTTTTGAATTTTCATCTATTTTATAGA
*
2454860 ATTTTTTGAATTTTCTATGTATTTT-TAGA
1 ATTTTTTGAATTTTC-ATCTATTTTATAGA
*
2454889 ATTTCTTAGAATTTT
1 ATTT-TTTGAATTTT
2454904 TATATAAACT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 20 0.54
30 17 0.46
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.63
Consensus pattern (29 bp):
ATTTTTTGAATTTTCATCTATTTTATAGA
Found at i:2459166 original size:24 final size:24
Alignment explanation
Indices: 2459138--2459212 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
2459128 TATAATTTTG
2459138 AAATTATAAGTTAATACGATGATA
1 AAATTATAAGTTAATACGATGATA
** * ** *
2459162 AAATTATATTTTTATA--ATTTTG
1 AAATTATAAGTTAATACGATGATA
*
2459184 AATTTATAAGTTAATACGATGATA
1 AAATTATAAGTTAATACGATGATA
2459208 AAATT
1 AAATT
2459213 GTATTTTTAT
Statistics
Matches: 35, Mismatches: 14, Indels: 4
0.66 0.26 0.08
Matches are distributed among these distances:
22 15 0.43
24 20 0.57
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (24 bp):
AAATTATAAGTTAATACGATGATA
Found at i:2459193 original size:46 final size:46
Alignment explanation
Indices: 2459126--2459244 Score: 211
Period size: 46 Copynumber: 2.6 Consensus size: 46
2459116 TTTAGTTATG
2459126 TTTATAATTTTGAAATTATAAGTTAATACGATGATAAAATTATATT
1 TTTATAATTTTGAAATTATAAGTTAATACGATGATAAAATTATATT
* *
2459172 TTTATAATTTTGAATTTATAAGTTAATACGATGATAAAATTGTATT
1 TTTATAATTTTGAAATTATAAGTTAATACGATGATAAAATTATATT
*
2459218 TTTATAATTTTAAAATTATAAGTTAAT
1 TTTATAATTTTGAAATTATAAGTTAAT
2459245 CTTTTTATAC
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (46 bp):
TTTATAATTTTGAAATTATAAGTTAATACGATGATAAAATTATATT
Found at i:2459878 original size:16 final size:16
Alignment explanation
Indices: 2459857--2459924 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
2459847 TTTGGTTCGC
2459857 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
2459873 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
2459889 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
2459905 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
2459921 TGTA
1 TGTA
2459925 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:2460193 original size:17 final size:17
Alignment explanation
Indices: 2460152--2460362 Score: 63
Period size: 17 Copynumber: 12.6 Consensus size: 17
2460142 AACATAATTA
2460152 TTATT-AAATATAT--T
1 TTATTAAAATATATAAT
* *
2460166 TTTTTATAATATATAAT
1 TTATTAAAATATATAAT
2460183 TTGA-TAAAATATATGAAT
1 TT-ATTAAAATATAT-AAT
2460201 TTATTAAAAT-TATAAT
1 TTATTAAAATATATAAT
* * *
2460217 ATA-TAATATTATAAAAT
1 TTATTAA-AATATATAAT
* *
2460234 ATAATTTAAAATA-ATTA-
1 -TTA-TTAAAATATATAAT
2460251 TTATT--AA-ATATAAT
1 TTATTAAAATATATAAT
**
2460265 TTAACAAAAATATATAAT
1 TT-ATTAAAATATATAAT
* *
2460283 TTACTAAAAT-CATAAT
1 TTATTAAAATATATAAT
* * *
2460299 ATA-TAATACTATAAAATT
1 TTATTAA-AATATATAA-T
*
2460317 ATTATTATTAA-ATATAAT
1 -TTATTA-AAATATATAAT
**
2460335 TTAACAAAAATATATAAT
1 TT-ATTAAAATATATAAT
*
2460353 TTAATAAAAT
1 TTATTAAAAT
2460363 TAAATATTCT
Statistics
Matches: 141, Mismatches: 31, Indels: 47
0.64 0.14 0.21
Matches are distributed among these distances:
12 1 0.01
13 5 0.04
14 6 0.04
15 16 0.11
16 18 0.13
17 43 0.30
18 36 0.26
19 10 0.07
20 6 0.04
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (17 bp):
TTATTAAAATATATAAT
Found at i:2460220 original size:24 final size:22
Alignment explanation
Indices: 2460190--2460238 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 22
2460180 AATTTGATAA
2460190 AATATATGAAT-TTATTAAAATTAT
1 AATATAT-AATATTA-TAAAA-TAT
2460214 AATATATAATATTATAAAATAT
1 AATATATAATATTATAAAATAT
2460236 AAT
1 AAT
2460239 TTAAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.25
23 8 0.33
24 10 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATATAATATTATAAAATAT
Found at i:2460231 original size:41 final size:39
Alignment explanation
Indices: 2460169--2460305 Score: 127
Period size: 41 Copynumber: 3.4 Consensus size: 39
2460159 ATATATTTTT
*
2460169 TTATAATATATAATTTGATAAAATATATGAATTTATTAAAA
1 TTATAATATATAATTTAATAAAATATAT-AATTTA-TAAAA
*
2460210 TTATAATATATAATATT-AT-AAA-ATATAATTTAAAATAA
1 TTATAATATATAAT-TTAATAAAATATATAATTTATAA-AA
* *
2460248 TTATTATTAAATATAATTTAACAAAAATATATAATTTACTAAAA
1 TTA-TA--ATATATAATTTAA-TAAAATATATAATTTA-TAAAA
*
2460292 TCATAATATATAAT
1 TTATAATATATAAT
2460306 ACTATAAAAT
Statistics
Matches: 80, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
37 2 0.03
38 11 0.14
39 6 0.08
40 5 0.06
41 33 0.41
42 2 0.03
43 5 0.06
44 14 0.17
45 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (39 bp):
TTATAATATATAATTTAATAAAATATATAATTTATAAAA
Found at i:2460259 original size:26 final size:25
Alignment explanation
Indices: 2460219--2460281 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
2460209 ATTATAATAT
2460219 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
2460244 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATAAAATATAATTTAA-A
*
2460271 AAAATA-TATAA
1 ATAATATTATAA
2460282 TTTACTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.24
26 21 0.64
27 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:2460261 original size:67 final size:71
Alignment explanation
Indices: 2460189--2460362 Score: 186
Period size: 70 Copynumber: 2.5 Consensus size: 71
2460179 TAATTTGATA
** * *
2460189 AAATATATGAATTT-ATTAAAAT-TATAATATA-TAATATTATAAAATATAAT-T-TAAAATAAT
1 AAATATAT-AATTTAACAAAAATATATAATATACTAAAATCATAAAATATAATATATAAAATAAT
2460249 TATTATT
65 TATTATT
* * *
2460256 -AA-ATATAATTTAACAAAAATATATAATTTACTAAAATCATAATATATAATACTATAAAATTAT
1 AAATATATAATTTAACAAAAATATATAATATACTAAAATCATAAAATATAATA-TATAAAATAAT
2460319 TATTATT
65 TATTATT
* *
2460326 -AA-ATATAATTTAACAAAAATATATAATTTAATAAAAT
1 AAATATATAATTTAACAAAAATATATAATATACTAAAAT
2460363 TAAATATTCT
Statistics
Matches: 93, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
64 5 0.05
65 10 0.11
66 10 0.11
67 16 0.17
69 1 0.01
70 51 0.55
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (71 bp):
AAATATATAATTTAACAAAAATATATAATATACTAAAATCATAAAATATAATATATAAAATAATT
ATTATT
Found at i:2462713 original size:21 final size:21
Alignment explanation
Indices: 2462684--2462730 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
2462674 CAGCTTCTTT
*
2462684 GCAGTGATGACAAACTGTTCC
1 GCAGCGATGACAAACTGTTCC
*
2462705 GCAGCGATGACAAACTGTTCT
1 GCAGCGATGACAAACTGTTCC
2462726 GCAGC
1 GCAGC
2462731 CTTTAAGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.21
Consensus pattern (21 bp):
GCAGCGATGACAAACTGTTCC
Found at i:2464042 original size:142 final size:142
Alignment explanation
Indices: 2463786--2464075 Score: 562
Period size: 142 Copynumber: 2.0 Consensus size: 142
2463776 ATCCTTTGTC
*
2463786 TGCAGCCTTCATTGTGGCAATTTTCTGAGCATCATAAATAGGCAACATTTGCCCCTTTTTAAATG
1 TGCAGTCTTCATTGTGGCAATTTTCTGAGCATCATAAATAGGCAACATTTGCCCCTTTTTAAATG
*
2463851 CCCCGTACTGTTCCATCAGAAGTTTCTGCATCTGGCATTTCAGATGATTGATTGCGTTCAGAAGA
66 CCCCGTACTGTTCCATCAGAAGTTTCTGCATCTGGCATTTCAGATGATTGATTACGTTCAGAAGA
2463916 GCTTAAGTGTGT
131 GCTTAAGTGTGT
2463928 TGCAGTCTTCATTGTGGCAATTTTCTGAGCATCATAAATAGGCAACATTTGCCCCTTTTTAAATG
1 TGCAGTCTTCATTGTGGCAATTTTCTGAGCATCATAAATAGGCAACATTTGCCCCTTTTTAAATG
2463993 CCCCGTACTGTTCCATCAGAAGTTTCTGCATCTGGCATTTCAGATGATTGATTACGTTCAGAAGA
66 CCCCGTACTGTTCCATCAGAAGTTTCTGCATCTGGCATTTCAGATGATTGATTACGTTCAGAAGA
2464058 GCTTAAGTGTGT
131 GCTTAAGTGTGT
2464070 TGCAGT
1 TGCAGT
2464076 ACCAGGTTCC
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 146 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (142 bp):
TGCAGTCTTCATTGTGGCAATTTTCTGAGCATCATAAATAGGCAACATTTGCCCCTTTTTAAATG
CCCCGTACTGTTCCATCAGAAGTTTCTGCATCTGGCATTTCAGATGATTGATTACGTTCAGAAGA
GCTTAAGTGTGT
Found at i:2464413 original size:42 final size:38
Alignment explanation
Indices: 2464320--2464432 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 38
2464310 GCAAACAACA
* *
2464320 CTATCAACAAACAACAGT-ATGCATTTCTTAAGCCTAAC
1 CTATCAACAAACAACAGTCAT-CAATTCTTAAGCCAAAC
* *
2464358 C-AACAACAGACAACAGTCATCAATTCTTAAGCCAAGGCAC
1 CTATCAACAAACAACAGTCATCAATTCTTAAGCCAA---AC
*
2464398 CTTATCAACAAACAACAATCATCAATTCTTAAGCC
1 C-TATCAACAAACAACAGTCATCAATTCTTAAGCC
2464433 TAATCCAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
37 27 0.44
38 3 0.05
40 3 0.05
42 29 0.47
ACGTcount: A:0.42, C:0.28, G:0.08, T:0.22
Consensus pattern (38 bp):
CTATCAACAAACAACAGTCATCAATTCTTAAGCCAAAC
Found at i:2464819 original size:38 final size:38
Alignment explanation
Indices: 2464777--2464917 Score: 140
Period size: 38 Copynumber: 4.0 Consensus size: 38
2464767 GCAAAAACTG
2464777 GCAAATCGGCAGAAAAGAAAAGAAAAGAAACAAAGGGA
1 GCAAATCGGCAGAAAAGAAAAGAAAAGAAACAAAGGGA
* *
2464815 GCAAATCGACAGAAAAGAAAAGAAAATAAAC--A--GA
1 GCAAATCGGCAGAAAAGAAAAGAAAAGAAACAAAGGGA
*
2464849 G------GGCAGAAAAGAAAAGAAAAGAAACGAAGGGA
1 GCAAATCGGCAGAAAAGAAAAGAAAAGAAACAAAGGGA
* * * * *
2464881 GCAAATTGGAAGAAAAGAATAGAAAATAAACAGAGGG
1 GCAAATCGGCAGAAAAGAAAAGAAAAGAAACAAAGGG
2464918 CAGAAAAGAA
Statistics
Matches: 84, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
28 22 0.26
30 1 0.01
32 3 0.04
34 3 0.04
36 1 0.01
38 54 0.64
ACGTcount: A:0.60, C:0.09, G:0.26, T:0.05
Consensus pattern (38 bp):
GCAAATCGGCAGAAAAGAAAAGAAAAGAAACAAAGGGA
Found at i:2464864 original size:66 final size:66
Alignment explanation
Indices: 2464784--2464933 Score: 257
Period size: 66 Copynumber: 2.3 Consensus size: 66
2464774 CTGGCAAATC
2464784 GGCAGAAAAGAAAAGAAAAGAAACAAAGGGAGCAAA-TCGACAGAAAAGAAAAGAAAATAAACAG
1 GGCAGAAAAGAAAAGAAAAGAAACAAAGGGAGCAAATTCGA-AGAAAAGAAAAGAAAATAAACAG
2464848 AG
65 AG
* * *
2464850 GGCAGAAAAGAAAAGAAAAGAAACGAAGGGAGCAAATTGGAAGAAAAGAATAGAAAATAAACAGA
1 GGCAGAAAAGAAAAGAAAAGAAACAAAGGGAGCAAATTCGAAGAAAAGAAAAGAAAATAAACAGA
2464915 G
66 G
2464916 GGCAGAAAAGAAAAGAAA
1 GGCAGAAAAGAAAAGAAA
2464934 CGGAGGGAGC
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
66 77 0.96
67 3 0.04
ACGTcount: A:0.63, C:0.07, G:0.26, T:0.04
Consensus pattern (66 bp):
GGCAGAAAAGAAAAGAAAAGAAACAAAGGGAGCAAATTCGAAGAAAAGAAAAGAAAATAAACAGA
G
Found at i:2464922 original size:23 final size:23
Alignment explanation
Indices: 2464896--2464940 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2464886 TTGGAAGAAA
* *
2464896 AGAATAGAAAATAAACAGAGGGC
1 AGAAAAGAAAAGAAACAGAGGGC
*
2464919 AGAAAAGAAAAGAAACGGAGGG
1 AGAAAAGAAAAGAAACAGAGGG
2464941 AGCAAATCGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.58, C:0.07, G:0.31, T:0.04
Consensus pattern (23 bp):
AGAAAAGAAAAGAAACAGAGGGC
Found at i:2469539 original size:12 final size:12
Alignment explanation
Indices: 2469522--2469547 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2469512 TTTTAGACAT
2469522 TATATAAATATA
1 TATATAAATATA
2469534 TATATAAATATA
1 TATATAAATATA
2469546 TA
1 TA
2469548 AATATAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATAAATATA
Found at i:2470160 original size:13 final size:14
Alignment explanation
Indices: 2470143--2470175 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
2470133 ATTTCAATTT
*
2470143 TATTTTAATAATAA
1 TATTTTAAAAATAA
2470157 -ATTTTAAAAATAA
1 TATTTTAAAAATAA
2470170 TATTTT
1 TATTTT
2470176 TCACACATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTTTAAAAATAA
Found at i:2470222 original size:15 final size:15
Alignment explanation
Indices: 2470204--2470260 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
2470194 ATTAAATATT
2470204 AATATTTTAATAATA
1 AATATTTTAATAATA
*
2470219 AATATTTATTACAGTTATA
1 AATA-TT-TTA-A-TAATA
*
2470238 AATATATTAATAATA
1 AATATTTTAATAATA
*
2470253 AATGTTTT
1 AATATTTT
2470261 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 14 0.42
16 3 0.09
17 6 0.18
18 2 0.06
19 8 0.24
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:2479724 original size:12 final size:12
Alignment explanation
Indices: 2479709--2479733 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2479699 TATTACTATT
2479709 TTAATTTAATTA
1 TTAATTTAATTA
2479721 TTAATTTAATTA
1 TTAATTTAATTA
2479733 T
1 T
2479734 GTTTTATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTAATTTAATTA
Found at i:2498594 original size:29 final size:31
Alignment explanation
Indices: 2498562--2498624 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
2498552 ACAGTACAAT
2498562 GACTAAATTAATC-AATT-TAATAATAAAGG
1 GACTAAATTAATCTAATTCTAATAATAAAGG
* * * *
2498591 GACTAATTTGATCTAATTCTTATAATACAGG
1 GACTAAATTAATCTAATTCTAATAATAAAGG
2498622 GAC
1 GAC
2498625 CTTCTAGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 11 0.39
30 4 0.14
31 13 0.46
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (31 bp):
GACTAAATTAATCTAATTCTAATAATAAAGG
Found at i:2499235 original size:11 final size:11
Alignment explanation
Indices: 2499219--2499247 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
2499209 CTGTTAAAAA
2499219 ATTATATTTTG
1 ATTATATTTTG
2499230 ATTATATTTTG
1 ATTATATTTTG
2499241 ATTATAT
1 ATTATAT
2499248 CAAAGAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (11 bp):
ATTATATTTTG
Found at i:2499904 original size:19 final size:18
Alignment explanation
Indices: 2499869--2499939 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 18
2499859 CATTTGACAA
2499869 AAAAATC-ATAAAA-TAT
1 AAAAATCAATAAAATTAT
2499885 AAAAATCAATAAAAGTTAT
1 AAAAATCAATAAAA-TTAT
* *
2499904 AAAAATTATTAAAATTTAAT
1 AAAAATCAATAAAA-TT-AT
*
2499924 AAAAATATAATAAAAT
1 AAAAAT-CAATAAAAT
2499940 ATTTAAAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
16 7 0.15
17 6 0.13
19 17 0.37
20 9 0.20
21 7 0.15
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (18 bp):
AAAAATCAATAAAATTAT
Found at i:2499905 original size:9 final size:9
Alignment explanation
Indices: 2499869--2500013 Score: 75
Period size: 10 Copynumber: 15.6 Consensus size: 9
2499859 CATTTGACAA
*
2499869 AAAAATCAT
1 AAAAATTAT
2499878 -AAAA-TAT
1 AAAAATTAT
*
2499885 AAAAATCAAT
1 AAAAAT-TAT
*
2499895 AAAAGTTAT
1 AAAAATTAT
2499904 AAAAATTATT
1 AAAAATTA-T
*
2499914 AAAATTTAAT
1 AAAAATT-AT
2499924 AAAAATATAAT
1 AAAAAT-T-AT
2499935 AAAATATT-T
1 AAAA-ATTAT
*
2499944 AAAATTTACT
1 AAAAATTA-T
* *
2499954 AATAA-TAG
1 AAAAATTAT
2499962 AAAAA-TAT
1 AAAAATTAT
*
2499970 AAAAATAGTAA
1 AAAAAT--TAT
*
2499981 AAAAATCAT
1 AAAAATTAT
2499990 AAAAAATTAT
1 -AAAAATTAT
*
2500000 AAAAAGTAT
1 AAAAATTAT
2500009 AAAAA
1 AAAAA
2500014 AAGATCCTTT
Statistics
Matches: 105, Mismatches: 18, Indels: 26
0.70 0.12 0.17
Matches are distributed among these distances:
7 2 0.02
8 21 0.20
9 30 0.29
10 32 0.30
11 18 0.17
12 2 0.02
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:2499976 original size:19 final size:18
Alignment explanation
Indices: 2499954--2500013 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 18
2499944 AAAATTTACT
2499954 AATAATAGAAAAATATAAA
1 AATAATA-AAAAATATAAA
*
2499973 AATAGTAAAAAAATCATAAAA
1 AATAAT-AAAAAAT-AT-AAA
* *
2499994 AATTATAAAAAGTATAAA
1 AATAATAAAAAATATAAA
2500012 AA
1 AA
2500014 AAGATCCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
18 5 0.15
19 13 0.38
20 9 0.26
21 7 0.21
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.22
Consensus pattern (18 bp):
AATAATAAAAAATATAAA
Found at i:2499984 original size:11 final size:10
Alignment explanation
Indices: 2499962--2500015 Score: 51
Period size: 11 Copynumber: 5.5 Consensus size: 10
2499952 CTAATAATAG
2499962 AAAAATAT--
1 AAAAATATAA
2499970 AAAAATAGTAA
1 AAAAATA-TAA
2499981 AAAAATCATAA
1 AAAAAT-ATAA
*
2499992 AAAATTAT-A
1 AAAAATATAA
*
2500001 AAAAGTATAA
1 AAAAATATAA
2500011 AAAAA
1 AAAAA
2500016 GATCCTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 7 0.18
9 9 0.24
10 7 0.18
11 14 0.37
12 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (10 bp):
AAAAATATAA
Found at i:2500546 original size:14 final size:14
Alignment explanation
Indices: 2500527--2500557 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2500517 TGGCCAAATC
2500527 TGACGTTAAATGAA
1 TGACGTTAAATGAA
2500541 TGACGTTAAATGAA
1 TGACGTTAAATGAA
2500555 TGA
1 TGA
2500558 AAATTTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (14 bp):
TGACGTTAAATGAA
Found at i:2502969 original size:44 final size:45
Alignment explanation
Indices: 2502883--2502969 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 45
2502873 GGTTCCTGAA
* * *
2502883 AAAAATAAAAAAAATAACAAAATTAAACATTTGGATTTGAAAACG
1 AAAAATAAAAAAAATAACAAAATTAAAAATTTGGAATCGAAAACG
* *
2502928 AAAAATAAAATAAA-AACAAATTTAAAAATATT-GAATCGAAAA
1 AAAAATAAAAAAAATAACAAAATTAAAAAT-TTGGAATCGAAAA
2502970 TTAGAGAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 21 0.58
45 15 0.42
ACGTcount: A:0.66, C:0.06, G:0.07, T:0.22
Consensus pattern (45 bp):
AAAAATAAAAAAAATAACAAAATTAAAAATTTGGAATCGAAAACG
Found at i:2505218 original size:16 final size:16
Alignment explanation
Indices: 2505197--2505228 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2505187 TAATCTTATT
2505197 AAATATAATTTAATAA
1 AAATATAATTTAATAA
2505213 AAATATAATTTAATAA
1 AAATATAATTTAATAA
2505229 CATTCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATAATTTAATAA
Found at i:2505463 original size:26 final size:26
Alignment explanation
Indices: 2505415--2505497 Score: 76
Period size: 26 Copynumber: 3.1 Consensus size: 26
2505405 AATTCATATA
* *
2505415 ATAATTATATTAAGAATGTTATTAAATT
1 ATAATTATGTTAA-AAT-ATATTAAATT
* * * * *
2505443 ATATTTTTGTTAAATTATATTTAATA
1 ATAATTATGTTAAAATATATTAAATT
2505469 ATAATTATGTTAAAATATGATTAAATT
1 ATAATTATGTTAAAATAT-ATTAAATT
2505496 AT
1 AT
2505498 TTATTATTTT
Statistics
Matches: 42, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
26 22 0.52
27 10 0.24
28 10 0.24
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (26 bp):
ATAATTATGTTAAAATATATTAAATT
Found at i:2508180 original size:168 final size:168
Alignment explanation
Indices: 2507885--2508391 Score: 957
Period size: 168 Copynumber: 3.0 Consensus size: 168
2507875 CTCGATTGCA
*
2507885 CCAATCTGTCTACA--TGA-GATTACTTAAAAATAACAGTCAAATAGAATATTAGTTTTCGGAAC
1 CCAATCTGTCTAAATCTGAGGATTACTTAAAAATAACAGTCAAATAGAATATTAGTTTTCGGAAC
2507947 TCTGTGTGTAATAGGTAAGTCAAACAGATAATTATTAACAGACAATTTAATAGTACTGAATCTTA
66 TCTGTGTGTAATAGGTAAGTCAAACAGATAATTATTAACAGACAATTTAATAGTACTGAATCTTA
*
2508012 ACAGAGCAGTTCAAATACAAATATATATATTTCCTATC
131 ACAGAGCAGTTCAAATACAAATATATATATTTCCTACC
*
2508050 CCAATCTGTTTAAATCTGAGGATTACTTAAAAATAACAGTCAAATAGAATATTAGTTTTCGGAAC
1 CCAATCTGTCTAAATCTGAGGATTACTTAAAAATAACAGTCAAATAGAATATTAGTTTTCGGAAC
*
2508115 TCTGTGTGTAATAGGTAAGTCAAACAGATAATTATTAACAGACAATTTAATAGTACTAAATCTTA
66 TCTGTGTGTAATAGGTAAGTCAAACAGATAATTATTAACAGACAATTTAATAGTACTGAATCTTA
2508180 ACAGAGCAGTTCAAATACAAATATATATATTTCCTACC
131 ACAGAGCAGTTCAAATACAAATATATATATTTCCTACC
2508218 CCAATCTGTCTAAATCTGAGGATTACTTAAAAATAACAGTCAAATAGAATATTAGTTTTCGGAAC
1 CCAATCTGTCTAAATCTGAGGATTACTTAAAAATAACAGTCAAATAGAATATTAGTTTTCGGAAC
2508283 TCTGTGTGTAATAGGTAAGTCAAACAGATAATTATTAACAGACAATTTAATAGTACTGAATCTTA
66 TCTGTGTGTAATAGGTAAGTCAAACAGATAATTATTAACAGACAATTTAATAGTACTGAATCTTA
2508348 ACAGAGCAGTTCAAATACAAATATATATATTTCCTACC
131 ACAGAGCAGTTCAAATACAAATATATATATTTCCTACC
2508386 CCAATC
1 CCAATC
2508392 GCTACACACC
Statistics
Matches: 333, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
165 12 0.04
167 3 0.01
168 318 0.95
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.32
Consensus pattern (168 bp):
CCAATCTGTCTAAATCTGAGGATTACTTAAAAATAACAGTCAAATAGAATATTAGTTTTCGGAAC
TCTGTGTGTAATAGGTAAGTCAAACAGATAATTATTAACAGACAATTTAATAGTACTGAATCTTA
ACAGAGCAGTTCAAATACAAATATATATATTTCCTACC
Found at i:2526945 original size:15 final size:16
Alignment explanation
Indices: 2526925--2526961 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
2526915 TAATCTCATG
2526925 TTGAAACACATA-A-AT
1 TTGAAAC-CATATATAT
2526940 TTGAAACCATATATAT
1 TTGAAACCATATATAT
2526956 TTGAAA
1 TTGAAA
2526962 ATTTTTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 8 0.40
16 8 0.40
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (16 bp):
TTGAAACCATATATAT
Found at i:2527133 original size:18 final size:20
Alignment explanation
Indices: 2527093--2527134 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
2527083 TATTTTTTAG
* *
2527093 ATTTTTTTGAAATATTTATA
1 ATTTTTTTGAAATATATAAA
2527113 ATTTTTTT-AAAT-TATAAA
1 ATTTTTTTGAAATATATAAA
2527131 ATTT
1 ATTT
2527135 GAAATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 4 0.20
20 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTTTTTTGAAATATATAAA
Found at i:2528492 original size:13 final size:13
Alignment explanation
Indices: 2528476--2528526 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
2528466 TTTAAACCAA
*
2528476 ACTTTTCAAAAGC
1 ACTTCTCAAAAGC
*
2528489 ACTTCTCAAAAGT
1 ACTTCTCAAAAGC
* * *
2528502 ACTTTTCCACAGC
1 ACTTCTCAAAAGC
2528515 ACTTCTCAAAAG
1 ACTTCTCAAAAG
2528527 TAATGAAGAA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.29
Consensus pattern (13 bp):
ACTTCTCAAAAGC
Found at i:2528515 original size:26 final size:26
Alignment explanation
Indices: 2528476--2528528 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2528466 TTTAAACCAA
2528476 ACTTTTCAAAAGCACTTCTCAAAAGT
1 ACTTTTCAAAAGCACTTCTCAAAAGT
* *
2528502 ACTTTTCCACAGCACTTCTCAAAAGT
1 ACTTTTCAAAAGCACTTCTCAAAAGT
2528528 A
1 A
2528529 ATGAAGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.30
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTCAAAAGT
Found at i:2539164 original size:25 final size:25
Alignment explanation
Indices: 2539104--2539164 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
2539094 GCAAACGAAC
* * *
2539104 GACGGTGGTCGCTTGGTGGATGCCA
1 GACGGTGGTGGCTTAGTGGATACCA
* * *
2539129 AATGGTAGTGGCTTAGTGGATACCA
1 GACGGTGGTGGCTTAGTGGATACCA
2539154 GACGGTGGTGG
1 GACGGTGGTGG
2539165 GTGTGTTGAG
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.18, C:0.15, G:0.43, T:0.25
Consensus pattern (25 bp):
GACGGTGGTGGCTTAGTGGATACCA
Found at i:2543568 original size:31 final size:31
Alignment explanation
Indices: 2543533--2543639 Score: 178
Period size: 31 Copynumber: 3.5 Consensus size: 31
2543523 AAAAAAACTT
* *
2543533 AATAGTCCAATGACTTAAATAAAAACTTTCA
1 AATAGTTCAATGACTTAAATGAAAACTTTCA
*
2543564 AATAGTTCAATGACTTAAATGAAAACTTTCC
1 AATAGTTCAATGACTTAAATGAAAACTTTCA
2543595 AATAGTTCAATGACTTAAATGAAAACTTTCA
1 AATAGTTCAATGACTTAAATGAAAACTTTCA
*
2543626 AATAATTCAATGAC
1 AATAGTTCAATGAC
2543640 AATTTTGCAA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (31 bp):
AATAGTTCAATGACTTAAATGAAAACTTTCA
Found at i:2555720 original size:22 final size:22
Alignment explanation
Indices: 2555695--2555737 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
2555685 AAATTTAGTC
*
2555695 TTTA-TCCTTTTATTTCTAAAAA
1 TTTAGTCCTTCTATTT-TAAAAA
2555717 TTTAGTCCTTCTATTTTAAAA
1 TTTAGTCCTTCTATTTTAAAA
2555738 TTCAAGTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.30, C:0.14, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTAGTCCTTCTATTTTAAAAA
Found at i:2557736 original size:23 final size:22
Alignment explanation
Indices: 2557710--2557758 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
2557700 ACCTTAATTA
2557710 TTAATATTAA-AATCATTATAAAT
1 TTAATATTAATAAT-A-TATAAAT
*
2557733 TTAATATTAATAATATATATAT
1 TTAATATTAATAATATATAAAT
2557755 TTAA
1 TTAA
2557759 AAATAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 10 0.42
23 11 0.46
24 3 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TTAATATTAATAATATATAAAT
Found at i:2559091 original size:16 final size:17
Alignment explanation
Indices: 2559070--2559108 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
2559060 TATAAAATCT
*
2559070 ATAAAAAA-CAATATAA
1 ATAAAAAATAAATATAA
2559086 ATAAAAAATAAATATAA
1 ATAAAAAATAAATATAA
2559103 ATAAAA
1 ATAAAA
2559109 TGCAAAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
ATAAAAAATAAATATAA
Found at i:2565463 original size:42 final size:42
Alignment explanation
Indices: 2565275--2565483 Score: 208
Period size: 43 Copynumber: 4.9 Consensus size: 42
2565265 CGCTTACACA
* * **
2565275 AAAAAACGCCGCT-GAAGATCATGTTCTTTAGCGGCGCTAAGG
1 AAAAAACGCCGCTAAAAG-TAATGTTCTTTAGCGGCGCTTTGG
* * *
2565317 AAATAAACGCCGCT-AAAGATCATGTTCTGTAGCGGCGCTTAGG
1 AAA-AAACGCCGCTAAAAG-TAATGTTCTTTAGCGGCGCTTTGG
* ** *
2565360 AAAAAACGCCGCGAAATCTCATGTTCTTTAGCGGCGCTTTGG
1 AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTTGG
* *
2565402 AATAAAACGCCTCTAAAAGTAATGTTCTTTAGCGGCG-TTTGTT
1 AA-AAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTTG-G
* * *
2565445 CAAAAACGCCGCTAAAAGTAGTGTTCTTTAGCCGCGCTT
1 AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTT
2565484 ATTTCACAAA
Statistics
Matches: 144, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
42 71 0.49
43 73 0.51
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTTGG
Found at i:2565470 original size:85 final size:85
Alignment explanation
Indices: 2565275--2565484 Score: 223
Period size: 85 Copynumber: 2.5 Consensus size: 85
2565265 CGCTTACACA
* * *
2565275 AAAAAACGCCGCTGAAGA-TCATGTTCTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCA
1 AAAAAACGCCGC-GAAAACTCATGTTCTTTAGCGGCGCTTAGGAAATAAACGCCGCTAAAGATAA
2565339 TGTTCTGTAGCGGCGCTTAGG
65 TGTTCTGTAGCGGCGCTTAGG
* * *
2565360 AAAAAACGCCGCGAAATCTCATGTTCTTTAGCGGCGCTTTGG-AATAAAACGCCTCTAAA-AGTA
1 AAAAAACGCCGCGAAAACTCATGTTCTTTAGCGGCGCTTAGGAAAT-AAACGCCGCTAAAGA-TA
* * *
2565423 ATGTTCTTTAGCGGCG-TTTGTT
64 ATGTTCTGTAGCGGCGCTTAG-G
* * * *
2565445 CAAAAACGCCGCTAAAAGT-AGTGTTCTTTAGCCGCGCTTA
1 AAAAAACGCCGCGAAAACTCA-TGTTCTTTAGCGGCGCTTA
2565485 TTTCACAAAT
Statistics
Matches: 105, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
84 11 0.10
85 94 0.90
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (85 bp):
AAAAAACGCCGCGAAAACTCATGTTCTTTAGCGGCGCTTAGGAAATAAACGCCGCTAAAGATAAT
GTTCTGTAGCGGCGCTTAGG
Found at i:2571461 original size:9 final size:9
Alignment explanation
Indices: 2571426--2571753 Score: 280
Period size: 9 Copynumber: 36.2 Consensus size: 9
2571416 TTAAACAATA
2571426 ATGTAAGTT
1 ATGTAAGTT
*
2571435 A-GGAAGGTT
1 ATGTAA-GTT
2571444 ATGT-A-TT
1 ATGTAAGTT
2571451 ATGTAAGTT
1 ATGTAAGTT
*
2571460 ATGTAATTT
1 ATGTAAGTT
2571469 ATGTAAGTT
1 ATGTAAGTT
2571478 ATGTAAGTT
1 ATGTAAGTT
*
2571487 ATTTAAGTT
1 ATGTAAGTT
2571496 ATGTAAGTT
1 ATGTAAGTT
2571505 ATGTAAGTT
1 ATGTAAGTT
* *
2571514 ATTTAATTT
1 ATGTAAGTT
*
2571523 ATATAAGTT
1 ATGTAAGTT
2571532 ATGTAAGTT
1 ATGTAAGTT
* *
2571541 ATATAATTT
1 ATGTAAGTT
2571550 ATGTAAGCAATT
1 ATGTAAG---TT
* *
2571562 -TAGAAAAAATT
1 AT-G--TAAGTT
2571573 ATGTAAGTT
1 ATGTAAGTT
2571582 ATGTATAAGTT
1 ATG--TAAGTT
2571593 ATGT-A-TT
1 ATGTAAGTT
*
2571600 ATGTAAATT
1 ATGTAAGTT
2571609 ATGTATTAAGTT
1 ATG---TAAGTT
2571621 ATGT-A-TT
1 ATGTAAGTT
* *
2571628 ATGTAAATA
1 ATGTAAGTT
*
2571637 ATTTAAGTT
1 ATGTAAGTT
* *
2571646 AGGTAGGTT
1 ATGTAAGTT
2571655 ATGT-A-TT
1 ATGTAAGTT
2571662 ATGTAAGTT
1 ATGTAAGTT
*
2571671 ATTTAAGTT
1 ATGTAAGTT
2571680 ATGTAAGTT
1 ATGTAAGTT
2571689 ATGTAAGTT
1 ATGTAAGTT
* *
2571698 ATTTAATTT
1 ATGTAAGTT
*
2571707 ATGTAAGGT
1 ATGTAAGTT
2571716 ATGTAAGTT
1 ATGTAAGTT
2571725 ATGTAAGTT
1 ATGTAAGTT
* *
2571734 ATATAATTT
1 ATGTAAGTT
2571743 ATGTAAGTT
1 ATGTAAGTT
2571752 AT
1 AT
2571754 ATAATTTAAA
Statistics
Matches: 256, Mismatches: 41, Indels: 44
0.75 0.12 0.13
Matches are distributed among these distances:
7 24 0.09
8 9 0.04
9 195 0.76
10 1 0.00
11 13 0.05
12 12 0.05
14 2 0.01
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:2571624 original size:12 final size:12
Alignment explanation
Indices: 2571576--2571628 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
2571566 AAAAATTATG
2571576 TAAGTTATGTA-
1 TAAGTTATGTAT
2571587 TAAGTTATGTATTAT
1 TAAGTTATG---TAT
*
2571602 GTAAATTATGTAT
1 -TAAGTTATGTAT
2571615 TAAGTTATGTAT
1 TAAGTTATGTAT
2571627 TA
1 TA
2571629 TGTAAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
11 9 0.26
12 13 0.37
13 3 0.09
14 2 0.06
16 8 0.23
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (12 bp):
TAAGTTATGTAT
Found at i:2571627 original size:28 final size:27
Alignment explanation
Indices: 2571570--2571693 Score: 116
Period size: 25 Copynumber: 4.6 Consensus size: 27
2571560 TTTAGAAAAA
*
2571570 ATTATGTAAGTTATGTATAAGTTATGT
1 ATTATGTAAATTATGTATAAGTTATGT
2571597 ATTATGTAAATTATGTATTAAGTTATGT
1 ATTATGTAAATTATGTA-TAAGTTATGT
* *
2571625 ATTATGTAAATAAT-T-TAAGTTAGGT
1 ATTATGTAAATTATGTATAAGTTATGT
*
2571650 AGGTTATGT--ATTATG--TAAGTTATTT
1 A--TTATGTAAATTATGTATAAGTTATGT
*
2571675 AAGTTATGTAAGTTATGTA
1 -A-TTATGTAAATTATGTA
2571694 AGTTATTTAA
Statistics
Matches: 81, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
25 29 0.36
26 1 0.01
27 28 0.35
28 23 0.28
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.48
Consensus pattern (27 bp):
ATTATGTAAATTATGTATAAGTTATGT
Found at i:2571926 original size:17 final size:18
Alignment explanation
Indices: 2571894--2571927 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2571884 TGATTGATAA
2571894 ATTTTGAAAAAAATATAG
1 ATTTTGAAAAAAATATAG
*
2571912 ATTTT-AAAAATATATA
1 ATTTTGAAAAAAATATA
2571928 TTAAAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTTGAAAAAAATATAG
Found at i:2572339 original size:31 final size:32
Alignment explanation
Indices: 2572301--2572364 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
2572291 GATGGTTGAT
* * *
2572301 TTAGCAGCAAAAAACAAT-AAAATGTACCATC
1 TTAGCAGCAAAAAAAAATGAAAAGGTACAATC
2572332 TTAGCAGCAAAAAAAAATGAAAAGGTACAATC
1 TTAGCAGCAAAAAAAAATGAAAAGGTACAATC
2572364 T
1 T
2572365 AATTAGCTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 17 0.59
32 12 0.41
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.19
Consensus pattern (32 bp):
TTAGCAGCAAAAAAAAATGAAAAGGTACAATC
Found at i:2573209 original size:21 final size:22
Alignment explanation
Indices: 2573178--2573223 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
2573168 AAAATTTTCT
2573178 TAAATTTTATACTGATTAAACC
1 TAAATTTTATACTGATTAAACC
2573200 TAAA-TTTATACTGATTAAACC
1 TAAATTTTATACTGATTAAACC
2573221 TAA
1 TAA
2573224 GTAGAAAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.39
Consensus pattern (22 bp):
TAAATTTTATACTGATTAAACC
Found at i:2574705 original size:21 final size:21
Alignment explanation
Indices: 2574681--2574731 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
2574671 ATAACCTAGA
2574681 CCCTAAACCACAACCCTTATC
1 CCCTAAACCACAACCCTTATC
*
2574702 CCCTAAACCACAACCTTTATC
1 CCCTAAACCACAACCCTTATC
2574723 CCCTAAACC
1 CCCTAAACC
2574732 CTAAATCATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (21 bp):
CCCTAAACCACAACCCTTATC
Found at i:2576948 original size:7 final size:7
Alignment explanation
Indices: 2576936--2576962 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2576926 CAATTGAACC
2576936 TGAAATT
1 TGAAATT
2576943 TGAAATT
1 TGAAATT
2576950 TGAAATT
1 TGAAATT
2576957 TGAAAT
1 TGAAAT
2576963 GTAAAGAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (7 bp):
TGAAATT
Found at i:2577425 original size:14 final size:14
Alignment explanation
Indices: 2577406--2577438 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2577396 TAATTGAACC
2577406 TGAAATTT-AAAATT
1 TGAAATTTGAAAA-T
2577420 TGAAATTTGAAAAT
1 TGAAATTTGAAAAT
2577434 TGAAA
1 TGAAA
2577439 AGTAAAGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (14 bp):
TGAAATTTGAAAAT
Found at i:2579057 original size:25 final size:24
Alignment explanation
Indices: 2579019--2579069 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
2579009 TTTTGAACAA
*
2579019 TTTAATTTTTTTCTTTTATATTCT
1 TTTAATTTCTTTCTTTTATATTCT
* *
2579043 TTTAACTTTCTTTCTTTTTTCTTCT
1 TTTAA-TTTCTTTCTTTTATATTCT
2579068 TT
1 TT
2579070 ATTTTCCGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTAATTTCTTTCTTTTATATTCT
Found at i:2580590 original size:21 final size:20
Alignment explanation
Indices: 2580564--2580605 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
2580554 TTATGAAAAA
2580564 TGGGTTTTTCATCTTCTTTTT
1 TGGG-TTTTCATCTTCTTTTT
* *
2580585 TGGGTTTTCTTTTTCTTTTT
1 TGGGTTTTCATCTTCTTTTT
2580605 T
1 T
2580606 CTTTAGGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.02, C:0.12, G:0.14, T:0.71
Consensus pattern (20 bp):
TGGGTTTTCATCTTCTTTTT
Found at i:2586188 original size:107 final size:101
Alignment explanation
Indices: 2585970--2586381 Score: 376
Period size: 107 Copynumber: 4.1 Consensus size: 101
2585960 ATCTCATTTA
* *
2585970 TTTTTTTTTATTTTTTTCATATACTGATATCTAATTCTAACACGAAAAAAAATTTAAAATTGTAC
1 TTTTTTTTTATTTTTTTCATATACTGATATCTGATTCTAACACAAAAAAAAATTTAAAATTGTAC
*** *
2586035 TGGGTGTTGGCCATTGACAGGCCAGAATCCAAAATT
66 TGGGTGAAAGCCATTGACAGGCCAGAACCCAAAATT
*
2586071 TTTTATTTTTATTTTTTTCATATACTGATATCTGATTCTAACACAAAAAAAGAATTTTTTTTAAA
1 TTTT-TTTTTATTTTTTTCATATACTGATATCTGATTCTAACACAAAAAAA-AA----TTTAAAA
* *
2586136 TTGTACTGGGTGAAAGCCATTGACAGGCTAGCACCCAAAATT
60 TTGTACTGGGTGAAAGCCATTGACAGGCCAGAACCCAAAATT
* * * ***** *
2586178 TTCTTTTTTTATTTTTTTCGTATACTGATATTTGATTCTTACAC--AATTTTTTTTAAAATTTTA
1 TT-TTTTTTTATTTTTTTCATATACTGATATCTGATTCTAACACAAAAAAAAATTTAAAATTGTA
** ** * * * *
2586241 CTAAGTGCCAGCTATTGATAGG--AAAACACC-TAA--
65 CTGGGTGAAAGCCATTGACAGGCCAGAAC-CCAAAATT
* *
2586274 TTTTTTTTTATTTTTTTCGTATACTGATATCTGACTCTAACAC-AAAAAAAATTT-AAATTGTAC
1 TTTTTTTTTATTTTTTTCATATACTGATATCTGATTCTAACACAAAAAAAAATTTAAAATTGTAC
** * * *
2586337 TGGGTG-CCGACTATTGACAGGCCAGCACCCAAAAAT
66 TGGGTGAAAG-CCATTGACAGGCCAGAACCCAAAATT
2586373 TTTTTTTTT
1 TTTTTTTTT
2586382 CGTTTTTCTT
Statistics
Matches: 252, Mismatches: 44, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
94 2 0.01
95 60 0.24
96 9 0.04
97 5 0.02
98 5 0.02
99 11 0.04
100 26 0.10
101 4 0.02
102 44 0.17
103 2 0.01
105 2 0.01
107 80 0.32
108 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.42
Consensus pattern (101 bp):
TTTTTTTTTATTTTTTTCATATACTGATATCTGATTCTAACACAAAAAAAAATTTAAAATTGTAC
TGGGTGAAAGCCATTGACAGGCCAGAACCCAAAATT
Found at i:2586982 original size:25 final size:25
Alignment explanation
Indices: 2586944--2586993 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2586934 TGAATGTTGG
* *
2586944 TACTTAAACCAACATTAAATTTAAA
1 TACTTAAACCAACATGAAAATTAAA
**
2586969 TACTTAAATTAACATGAAAATTAAA
1 TACTTAAACCAACATGAAAATTAAA
2586994 CTCAAGTACC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (25 bp):
TACTTAAACCAACATGAAAATTAAA
Found at i:2591313 original size:16 final size:16
Alignment explanation
Indices: 2591276--2591315 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
2591266 TTAATAAAAT
* *
2591276 TAAAACTAATTATTAT
1 TAAAATTAATTATTAA
*
2591292 TAAAATTAATTGTTAA
1 TAAAATTAATTATTAA
2591308 TAAAATTA
1 TAAAATTA
2591316 TCAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTATTAA
Found at i:2591400 original size:9 final size:9
Alignment explanation
Indices: 2591388--2591415 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
2591378 TTTATCAAAT
2591388 TATTAATTG
1 TATTAATTG
2591397 TATTAATTG
1 TATTAATTG
2591406 TATTAATTG
1 TATTAATTG
2591415 T
1 T
2591416 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:2591420 original size:68 final size:66
Alignment explanation
Indices: 2591308--2591447 Score: 244
Period size: 68 Copynumber: 2.1 Consensus size: 66
2591298 TAATTGTTAA
*
2591308 TAAAATTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTA
1 TAAAATTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTA
2591373 G
66 G
*
2591374 TAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGAT
1 TAAAATTATCAAATTATTAATTG--TTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGAT
2591439 TAG
64 TAG
2591442 TAAAAT
1 TAAAAT
2591448 AAACTTGATG
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 22 0.32
68 47 0.68
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (66 bp):
TAAAATTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTA
G
Found at i:2591549 original size:22 final size:24
Alignment explanation
Indices: 2591509--2591552 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2591499 AAATAAACTT
2591509 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
2591533 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
2591553 ATTATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:2591656 original size:31 final size:33
Alignment explanation
Indices: 2591621--2591691 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 33
2591611 ATTTTTTAAA
*
2591621 CGGGCCTAAAATTTTGCCC-AA-TCCCATATTT
1 CGGGCCTAAAATTTTACCCAAACTCCCATATTT
* *
2591652 CGGGCCTATACTTTTACCCAAACCTTCCCATATTT
1 CGGGCCTAAAATTTTACCCAAA-C-TCCCATATTT
2591687 CGGGC
1 CGGGC
2591692 GGGCCGTCGG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 16 0.48
32 2 0.06
35 15 0.45
ACGTcount: A:0.23, C:0.32, G:0.14, T:0.31
Consensus pattern (33 bp):
CGGGCCTAAAATTTTACCCAAACTCCCATATTT
Found at i:2599853 original size:60 final size:57
Alignment explanation
Indices: 2599752--2599862 Score: 141
Period size: 60 Copynumber: 1.9 Consensus size: 57
2599742 TTAATTTAAC
* * *
2599752 ATTTGGTACTTAAATTTAATTTTTTTTCTAATTTAGTACCTAAACTTTTTTGGCCTT
1 ATTTGGTACTTAAATTGAATTTTTTTCCTAATTTAGCACCTAAACTTTTTTGGCCTT
* * *
2599809 ATTTGGTACTTGAACTTGACATTTTTTTCCCTAATTTGGCACCTAAGCTTTTTT
1 ATTTGGTACTT-AAATTGA-ATTTTTTT-CCTAATTTAGCACCTAAACTTTTTT
2599863 AAGTTCAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
57 11 0.24
58 5 0.11
59 8 0.18
60 21 0.47
ACGTcount: A:0.23, C:0.15, G:0.11, T:0.51
Consensus pattern (57 bp):
ATTTGGTACTTAAATTGAATTTTTTTCCTAATTTAGCACCTAAACTTTTTTGGCCTT
Found at i:2600373 original size:31 final size:30
Alignment explanation
Indices: 2600330--2600388 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
2600320 AACTTAAGAA
2600330 GAAAAATGTCAAGTTTAAGTATCAAATTAG
1 GAAAAATGTCAAGTTTAAGTATCAAATTAG
**
2600360 GAAAAAGTGTCAAGTTTGGGTATCAAATT
1 GAAAAA-TGTCAAGTTTAAGTATCAAATT
2600389 GGACCAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (30 bp):
GAAAAATGTCAAGTTTAAGTATCAAATTAG
Found at i:2600447 original size:31 final size:30
Alignment explanation
Indices: 2600331--2600447 Score: 82
Period size: 31 Copynumber: 3.9 Consensus size: 30
2600321 ACTTAAGAAG
*
2600331 AAAAATGTCAAGTTTAAGTATCAAATTAGGA
1 AAAAATGTCAAGTTTAGGTATCAAATTA-GA
* * *
2600362 AAAAGTGTCAAGTTTGGGTATCAAATTGGA
1 AAAAATGTCAAGTTTAGGTATCAAATTAGA
* * *
2600392 CCAAAAA----ATGTTGATGTA-CTAAATTAGA
1 --AAAAATGTCAAGTTTAGGTATC-AAATTAGA
*
2600420 AAAAAGTGTCAAGTTCAGGTATCAAATT
1 AAAAA-TGTCAAGTTTAGGTATCAAATT
2600448 GTTATATGTG
Statistics
Matches: 64, Mismatches: 13, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
26 5 0.08
27 1 0.02
28 14 0.22
30 2 0.03
31 37 0.58
32 5 0.08
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.29
Consensus pattern (30 bp):
AAAAATGTCAAGTTTAGGTATCAAATTAGA
Found at i:2601149 original size:17 final size:17
Alignment explanation
Indices: 2601119--2601153 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2601109 CATTTAACTT
2601119 TTGTAAAAAATATTTAA
1 TTGTAAAAAATATTTAA
* *
2601136 TTGTATAAATTATTTAA
1 TTGTAAAAAATATTTAA
2601153 T
1 T
2601154 ATGTCAGGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
TTGTAAAAAATATTTAA
Found at i:2606843 original size:33 final size:30
Alignment explanation
Indices: 2606806--2606872 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 30
2606796 TTAAAGTTTC
2606806 ATGTGTATATATTTGA-ACCATAATCAAAATTT
1 ATGTGTATA-ATTT-ACACCA-AATCAAAATTT
*
2606838 GATGTGTATAATTTACACCAAATCAATATTT
1 -ATGTGTATAATTTACACCAAATCAAAATTT
2606869 ATGT
1 ATGT
2606873 ATCAAATTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.12
31 11 0.34
32 8 0.25
33 9 0.28
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.40
Consensus pattern (30 bp):
ATGTGTATAATTTACACCAAATCAAAATTT
Found at i:2611121 original size:20 final size:20
Alignment explanation
Indices: 2611085--2611122 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2611075 AAAAGGCCTT
*
2611085 TTGACCATTAACGTTAACAG
1 TTGACCATTAAAGTTAACAG
*
2611105 TTGACCATTAAATTTAAC
1 TTGACCATTAAAGTTAAC
2611123 TGTCCCTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (20 bp):
TTGACCATTAAAGTTAACAG
Found at i:2611197 original size:10 final size:10
Alignment explanation
Indices: 2611184--2611282 Score: 52
Period size: 10 Copynumber: 10.4 Consensus size: 10
2611174 ACATGTGACA
2611184 AAAAAATTAT
1 AAAAAATTAT
2611194 AAAAAA--AT
1 AAAAAATTAT
*
2611202 -AAAAATCA-
1 AAAAAATTAT
*
2611210 ATAAAAGTTAT
1 A-AAAAATTAT
*
2611221 -AACAATTAT
1 AAAAAATTAT
*
2611230 -TA-AATTAT
1 AAAAAATTAT
* *
2611238 ATTAAAAAATAG
1 A--AAAAATTAT
2611250 AAAAAATTAT
1 AAAAAATTAT
*
2611260 -AAAAATCAT
1 AAAAAATTAT
2611269 AAAAAATTAT
1 AAAAAATTAT
2611279 AAAA
1 AAAA
2611283 TGCATAAAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
7 5 0.07
8 8 0.12
9 17 0.25
10 31 0.46
11 1 0.01
12 5 0.07
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (10 bp):
AAAAAATTAT
Done.