Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 51 of 91
Found at i:8448068 original size:84 final size:83
Alignment explanation
Indices: 8447929--8448210 Score: 255
Period size: 84 Copynumber: 3.3 Consensus size: 83
8447919 CAATAGAAGT
* * * * * *
8447929 TTTGAAACTTTAGAAAAATCTAAAAGGCTCTCCTTTAACAGAGGCTTTAAAACTTTGAAAAATTA
1 TTTGAAACTTT-G-GAAAT-TAAAATGCTCCCCTTCATCAGAGGCTTCAAAACTTT-AAAAATTA
* * *
8447994 AAAGGTTCTCCTAATTAAAGGC
62 AAAAGTTCTCCTCATTATAGGC
* * * * *
8448016 TTTGAAACTTTGGAAAGTTAAAATGTTCCCC-TCA-CTTGAGGCTTCGACACTTTAAAATTTAAA
1 TTTGAAACTTTGGAAA-TTAAAATGCTCCCCTTCATC-AGAGGCTTCAAAACTTTAAAAATTAAA
* **
8448079 ATACTTCTCCTCACCATAGGC
64 A-AGTTCTCCTCATTATAGGC
* * *
8448100 TTTGAAACTTTAGAAATTTAAAATACTCCCCTTCATCAGAGGCTTTAAAACTTTAGAAAA-TAAA
1 TTTGAAACTTTGGAAA-TTAAAATGCTCCCCTTCATCAGAGGCTTCAAAACTTTA-AAAATTAAA
* *
8448164 ATGCTCTCCTTCATTATAGGC
64 AAGTTCTCC-TCATTATAGGC
8448185 TTTGAAACTTTGGAAATTAAAATGCT
1 TTTGAAACTTTGGAAATTAAAATGCT
8448211 TTCTTCACTT
Statistics
Matches: 156, Mismatches: 32, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
83 11 0.07
84 69 0.44
85 59 0.38
86 6 0.04
87 11 0.07
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (83 bp):
TTTGAAACTTTGGAAATTAAAATGCTCCCCTTCATCAGAGGCTTCAAAACTTTAAAAATTAAAAA
GTTCTCCTCATTATAGGC
Found at i:8448207 original size:42 final size:42
Alignment explanation
Indices: 8447929--8448251 Score: 230
Period size: 42 Copynumber: 7.6 Consensus size: 42
8447919 CAATAGAAGT
* * * **
8447929 TTTGAAACTTTAGAAAAATCTAAAAGGCTCTCCTTTAACAGAGGC
1 TTTGAAACTTT-G-GAAAT-TAAAATGCTCTCCTTCATTAGAGGC
* * * * * *
8447974 TTTAAAACTTTGAAAAATTAAAAGGTTCTCC-TAATTAAAGGC
1 TTTGAAACTTTG-GAAATTAAAATGCTCTCCTTCATTAGAGGC
* *
8448016 TTTGAAACTTTGGAAAGTTAAAATGTTC-CCCTCACTT-GAGGC
1 TTTGAAACTTTGGAAA-TTAAAATGCTCTCCTTCA-TTAGAGGC
* * * * ** *
8448058 TTCGACACTTT-AAAATTTAAAATACTTCTCC-TCACCATAGGC
1 TTTGAAACTTTGGAAA-TTAAAATGC-TCTCCTTCATTAGAGGC
* * * *
8448100 TTTGAAACTTTAGAAATTTAAAATACTCCCCTTCATCAGAGGC
1 TTTGAAACTTTGGAAA-TTAAAATGCTCTCCTTCATTAGAGGC
* * * *
8448143 TTTAAAACTTTAGAAAATAAAATGCTCTCCTTCATTATAGGC
1 TTTGAAACTTTGGAAATTAAAATGCTCTCCTTCATTAGAGGC
*
8448185 TTTGAAACTTTGGAAATTAAAATGCT-TTCTTCACTT-GCA-GC
1 TTTGAAACTTTGGAAATTAAAATGCTCTCCTTCA-TTAG-AGGC
8448226 TTTGAAACTTTGGAAATTAAAATGCT
1 TTTGAAACTTTGGAAATTAAAATGCT
8448252 ACCTTCGCTA
Statistics
Matches: 231, Mismatches: 37, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
41 49 0.21
42 112 0.48
43 53 0.23
44 7 0.03
45 10 0.04
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (42 bp):
TTTGAAACTTTGGAAATTAAAATGCTCTCCTTCATTAGAGGC
Found at i:8448275 original size:41 final size:41
Alignment explanation
Indices: 8448098--8448288 Score: 118
Period size: 41 Copynumber: 4.6 Consensus size: 41
8448088 CTCACCATAG
* * * *
8448098 GCTTTGAAACTTTAGAAATTTAAAATACTCCCCTTCA-TCAG-A
1 GCTTTCAAACTTTGGAAA-TTAAAATGCT-ACCTTCACT-AGCA
* * * * * *
8448140 GGCTTTAAAACTTTAGAAAATAAAATGCTCTCCTTCATTA-TA
1 -GCTTTCAAACTTTGGAAATTAAAATGCT-ACCTTCACTAGCA
* ** *
8448182 GGCTTTGAAACTTTGGAAATTAAAATGCTTTCTTCACTTGCA
1 -GCTTTCAAACTTTGGAAATTAAAATGCTACCTTCACTAGCA
* * **
8448224 GCTTTGAAACTTTGGAAATTAAAATGCTACCTTCGCTAGGG
1 GCTTTCAAACTTTGGAAATTAAAATGCTACCTTCACTAGCA
* *
8448265 GTTTTCAAACTTTGAAAAATTAAA
1 GCTTTCAAACTTTG-GAAATTAAA
8448289 GGTACCTGGA
Statistics
Matches: 124, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
41 54 0.44
42 52 0.42
43 18 0.15
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.35
Consensus pattern (41 bp):
GCTTTCAAACTTTGGAAATTAAAATGCTACCTTCACTAGCA
Found at i:8448894 original size:20 final size:20
Alignment explanation
Indices: 8448847--8448886 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8448837 GTTATAAGGA
8448847 TCAACATCCTTTTAAACTTT
1 TCAACATCCTTTTAAACTTT
8448867 TCAACATCCTTTTAAACTTT
1 TCAACATCCTTTTAAACTTT
8448887 CTTTCATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.00, T:0.45
Consensus pattern (20 bp):
TCAACATCCTTTTAAACTTT
Found at i:8451058 original size:18 final size:18
Alignment explanation
Indices: 8451035--8451071 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8451025 TTAATTGAGT
8451035 TTTAA-TATTTTAATATAA
1 TTTAATTATTTTAAT-TAA
8451053 TTTAATTATTTTAATTAA
1 TTTAATTATTTTAATTAA
8451071 T
1 T
8451072 AAAATATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTAATTATTTTAATTAA
Found at i:8454612 original size:40 final size:40
Alignment explanation
Indices: 8454568--8454678 Score: 125
Period size: 40 Copynumber: 3.0 Consensus size: 40
8454558 TAAAGATATC
8454568 ATGTAATAGATATAAAAAAATAATGCAAAAAAATAAAAAA
1 ATGTAATAGATATAAAAAAATAATGCAAAAAAATAAAAAA
*
8454608 ATGTAAT-GAATATAAAAAAATCATGC--AAAAAT------
1 ATGTAATAG-ATATAAAAAAATAATGCAAAAAAATAAAAAA
*
8454640 AT-TAAAAGATATAAAAAAATAATGCAAAAAAATAAAAAA
1 ATGTAATAGATATAAAAAAATAATGCAAAAAAATAAAAAA
8454679 TGCATAATAA
Statistics
Matches: 58, Mismatches: 3, Indels: 21
0.71 0.04 0.26
Matches are distributed among these distances:
31 19 0.33
32 3 0.05
33 6 0.10
38 6 0.10
39 1 0.02
40 23 0.40
ACGTcount: A:0.68, C:0.04, G:0.07, T:0.21
Consensus pattern (40 bp):
ATGTAATAGATATAAAAAAATAATGCAAAAAAATAAAAAA
Found at i:8454690 original size:17 final size:18
Alignment explanation
Indices: 8454650--8454709 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 18
8454640 ATTAAAAGAT
*
8454650 ATAAAAAAATAATGCAAA
1 ATAATAAAATAATGCAAA
* *
8454668 AAAATAAAA-AATGCATA
1 ATAATAAAATAATGCAAA
8454685 ATAATAATAATAAT--AAA
1 ATAATAA-AATAATGCAAA
8454702 ATAATAAA
1 ATAATAAA
8454710 TTATTATTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 1 0.03
17 22 0.63
18 9 0.26
19 3 0.09
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (18 bp):
ATAATAAAATAATGCAAA
Found at i:8454693 original size:20 final size:19
Alignment explanation
Indices: 8454650--8454700 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 19
8454640 ATTAAAAGAT
*
8454650 ATAAAAAAATAATGCAAAA
1 ATAATAAAATAATGCAAAA
8454669 A-AATAAAA-AATGCATAATA
1 ATAATAAAATAATGCA-AA-A
8454688 ATAATAATAATAA
1 ATAATAA-AATAA
8454701 AATAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 6 0.23
18 8 0.31
19 3 0.12
20 5 0.19
21 2 0.08
22 2 0.08
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.22
Consensus pattern (19 bp):
ATAATAAAATAATGCAAAA
Found at i:8454772 original size:24 final size:24
Alignment explanation
Indices: 8454739--8454809 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
8454729 CGTTATCATT
*
8454739 AATCACGTAAAAATATCAAAATAA
1 AATCATGTAAAAATATCAAAATAA
8454763 AATCATGTAAAAATAT-AATAATAA
1 AATCATGTAAAAATATCAA-AATAA
* * * *
8454787 TACCATGCAATAATATCATAAAT
1 AATCATGTAAAAATATCA-AAAT
8454810 CATGCATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 2 0.05
24 32 0.82
25 4 0.10
26 1 0.03
ACGTcount: A:0.58, C:0.11, G:0.04, T:0.27
Consensus pattern (24 bp):
AATCATGTAAAAATATCAAAATAA
Found at i:8454965 original size:17 final size:16
Alignment explanation
Indices: 8454913--8454966 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
8454903 TAAAAAGACG
8454913 AAAAAAGAATTAAAACA
1 AAAAAAGAATTAAAA-A
* *
8454930 ACAAAATAA-TAATAAA
1 AAAAAAGAATTAA-AAA
8454946 AAAGAAAGAATTAAAAA
1 AAA-AAAGAATTAAAAA
8454963 AAAA
1 AAAA
8454967 CCCTGTAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
16 7 0.23
17 20 0.67
18 3 0.10
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.13
Consensus pattern (16 bp):
AAAAAAGAATTAAAAA
Found at i:8456520 original size:12 final size:12
Alignment explanation
Indices: 8456505--8456533 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
8456495 TTTTTACTTC
8456505 TTTTTTTAAACT
1 TTTTTTTAAACT
8456517 TTTTTTTAAACT
1 TTTTTTTAAACT
8456529 TTTTT
1 TTTTT
8456534 ACTTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTTTAAACT
Found at i:8458310 original size:32 final size:32
Alignment explanation
Indices: 8458274--8458335 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
8458264 GTATTGTCAC
* * * *
8458274 ATTTAATGGGATTGTGATCCATGGTCATTCCA
1 ATTTAATGAGAATGTAATCCATGATCATTCCA
*
8458306 ATTTAATTAGAATGTAATCCATGATCATTC
1 ATTTAATGAGAATGTAATCCATGATCATTC
8458336 TAAAATCCTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.39
Consensus pattern (32 bp):
ATTTAATGAGAATGTAATCCATGATCATTCCA
Found at i:8461560 original size:2 final size:2
Alignment explanation
Indices: 8461553--8461581 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8461543 GCCCAAATAA
8461553 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8461582 ATGAAGCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8463236 original size:3 final size:3
Alignment explanation
Indices: 8463228--8463301 Score: 73
Period size: 3 Copynumber: 24.7 Consensus size: 3
8463218 ATATATTTAA
* *
8463228 AAT AAT AAT AAT AAT CAT AAT AAT AAT AAT AAT AA- ACAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
*
8463273 CCA- AAT AAT ACA- AAT AAT AAT AAT AAT AA
1 -AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA
8463302 AACTTAGTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
2 3 0.05
3 53 0.90
4 3 0.05
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:8463680 original size:3 final size:3
Alignment explanation
Indices: 8463625--8463660 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
8463615 AGAATTATTA
8463625 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA
8463661 CAAGCAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8463695 original size:18 final size:17
Alignment explanation
Indices: 8463674--8463719 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
8463664 GCAAATAAAT
8463674 AATAATAAAATTTTAATA
1 AATAATAAAATTTT-ATA
*
8463692 AATAA-AAAA-TATATA
1 AATAATAAAATTTTATA
*
8463707 AAAAATAAAATTT
1 AATAATAAAATTT
8463720 CATATTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
15 7 0.30
16 6 0.26
17 5 0.22
18 5 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAATAAAATTTTATA
Found at i:8464258 original size:65 final size:64
Alignment explanation
Indices: 8464113--8464271 Score: 178
Period size: 65 Copynumber: 2.5 Consensus size: 64
8464103 AATTTAGCTA
* * * * * *
8464113 GCATCGAATGAAAATTTAAGCCCAGTTTAATTGACACCCAATGAATTTTAAACCTAGTTTAGCT
1 GCATCCAATGAAAATTTAAGCCTAATTTAATTGACACCCAATGAAATTTAAACCTAGTTAACCT
* * *
8464177 GACACCCAATGCAAATTTAAGCCTAATTTAATT-AGCACCCAATGAAATTT-AAGCTCAGTGTAA
1 G-CATCCAATGAAAATTTAAGCCTAATTTAATTGA-CACCCAATGAAATTTAAACCT-AGT-TAA
8464240 CCT
62 CCT
*
8464243 GCATCTAATGAAAATTTAAGCCTAATTTA
1 GCATCCAATGAAAATTTAAGCCTAATTTA
8464272 GCTGGCATCA
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
64 6 0.08
65 68 0.86
66 5 0.06
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (64 bp):
GCATCCAATGAAAATTTAAGCCTAATTTAATTGACACCCAATGAAATTTAAACCTAGTTAACCT
Found at i:8464285 original size:32 final size:33
Alignment explanation
Indices: 8464086--8464466 Score: 153
Period size: 32 Copynumber: 11.7 Consensus size: 33
8464076 AAGTGTACCA
** * * * * *
8464086 AATGAAAATTTAAATCAAATTTAGCTAGCATCG
1 AATGAAAATTTAAGCCTAGTTTAGCTGGCACCC
* ** *
8464119 AATGAAAATTTAAGCCCAGTTTAATTGACACCC
1 AATGAAAATTTAAGCCTAGTTTAGCTGGCACCC
* * *
8464152 AATG-AATTTTAAACCTAGTTTAGCTGACACCC
1 AATGAAAATTTAAGCCTAGTTTAGCTGGCACCC
* * ** *
8464184 AATGCAAATTTAAGCCTAATTTAATTAGCACCC
1 AATGAAAATTTAAGCCTAGTTTAGCTGGCACCC
* * * *
8464217 AATG-AAATTTAAG-CTCAGTGTAACCT-GCATCT
1 AATGAAAATTTAAGCCT-AGT-TTAGCTGGCACCC
* *
8464249 AATGAAAATTTAAGCCTAATTTAGCTGGCA-TC
1 AATGAAAATTTAAGCCTAGTTTAGCTGGCACCC
* * **
8464281 AATGAAAATTTAAGTCTAGTTTAG-TAGACACTT
1 AATGAAAATTTAAGCCTAGTTTAGCT-GGCACCC
* * *
8464314 AAT-AAAATTTAA-ACTCATTTTAGCTAGCACCC
1 AATGAAAATTTAAGCCT-AGTTTAGCTGGCACCC
* * * * **
8464346 AA-CAAATTTTTAAG--TACGATTTAACTGACA-GT
1 AATGAAA-ATTTAAGCCTA-G-TTTAGCTGGCACCC
* * * * *
8464378 AATGAAAATTTAAGCTTAGTTTAACTAGCAACT
1 AATGAAAATTTAAGCCTAGTTTAGCTGGCACCC
* * *
8464411 AAT-AAAATTTTAA-ACTCAGTTTAGTTGGCA-TC
1 AATGAAAA-TTTAAGCCT-AGTTTAGCTGGCACCC
*
8464443 AATGAAAATTTAGGCCTAGTTTAG
1 AATGAAAATTTAAGCCTAGTTTAG
8464467 TTGGTATCCA
Statistics
Matches: 261, Mismatches: 64, Indels: 47
0.70 0.17 0.13
Matches are distributed among these distances:
31 6 0.02
32 135 0.52
33 116 0.44
34 4 0.02
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (33 bp):
AATGAAAATTTAAGCCTAGTTTAGCTGGCACCC
Found at i:8467290 original size:21 final size:21
Alignment explanation
Indices: 8467244--8467294 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
8467234 TATTAAATAA
8467244 TAAT-AATAAATAATAAAAGGT
1 TAATAAAT-AATAATAAAAGGT
* **
8467265 AAATAAATAATAATAAAATTT
1 TAATAAATAATAATAAAAGGT
8467286 TAATAAATA
1 TAATAAATA
8467295 GAAAATATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (21 bp):
TAATAAATAATAATAAAAGGT
Found at i:8471173 original size:33 final size:33
Alignment explanation
Indices: 8471135--8471198 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
8471125 GGATTGATTG
8471135 ATTTTTGTCAATTTTAAAATCAATGAAGTTTCA
1 ATTTTTGTCAATTTTAAAATCAATGAAGTTTCA
8471168 ATTTTTGTCAATTTTAAAATCAATGAAGTTT
1 ATTTTTGTCAATTTTAAAATCAATGAAGTTT
8471199 TTATAAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (33 bp):
ATTTTTGTCAATTTTAAAATCAATGAAGTTTCA
Found at i:8472993 original size:3 final size:3
Alignment explanation
Indices: 8472979--8473022 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
8472969 ATTAATTAAT
*
8472979 TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8473023 TTATTATTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8473185 original size:41 final size:40
Alignment explanation
Indices: 8473140--8473252 Score: 120
Period size: 45 Copynumber: 2.7 Consensus size: 40
8473130 TTTTGTGTAG
8473140 TAATAAATAATATTATATTAATAAATATGATTAAAA-ATAAA
1 TAATAAATAATATTATATTAATAAATAT-ATTAAAATAT-AA
* * *
8473181 TAATATACTAATATATTAATATTAATAAATAATATTATAATATAT
1 TAATA-AAT-A-ATATT-ATATTAATAAAT-ATATTAAAATATAA
*
8473226 TTATAAATAATATTATATTAATAAATA
1 TAATAAATAATATTATATTAATAAATA
8473253 ATATATTAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
40 1 0.02
41 17 0.28
42 7 0.11
43 2 0.03
44 7 0.11
45 23 0.38
46 4 0.07
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.42
Consensus pattern (40 bp):
TAATAAATAATATTATATTAATAAATATATTAAAATATAA
Found at i:8473272 original size:18 final size:17
Alignment explanation
Indices: 8473140--8473275 Score: 86
Period size: 18 Copynumber: 7.9 Consensus size: 17
8473130 TTTTGTGTAG
*
8473140 TAATAAATAATATTATAT
1 TAATAAAT-ATAATATAT
* *
8473158 TAATAAATATGAT-TAA
1 TAATAAATATAATATAT
* *
8473174 AAAT-AA-ATAATATAC
1 TAATAAATATAATATAT
*
8473189 TAATATAT-TAATATTAAT
1 TAATAAATATAATA-T-AT
*
8473207 AAATAATATTATAATATAT
1 TAATAA-A-TATAATATAT
* *
8473226 TTATAAATAATATTATAT
1 TAATAAAT-ATAATATAT
8473244 TAAT-AA-ATAATATAT
1 TAATAAATATAATATAT
8473259 TAATAAATATTAATATA
1 TAATAAATA-TAATATA
8473276 ATATATTAAC
Statistics
Matches: 90, Mismatches: 16, Indels: 24
0.69 0.12 0.18
Matches are distributed among these distances:
14 4 0.04
15 19 0.21
16 13 0.14
17 8 0.09
18 32 0.36
19 7 0.08
20 2 0.02
21 5 0.06
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.42
Consensus pattern (17 bp):
TAATAAATATAATATAT
Found at i:8473277 original size:15 final size:15
Alignment explanation
Indices: 8473140--8473278 Score: 77
Period size: 15 Copynumber: 9.7 Consensus size: 15
8473130 TTTTGTGTAG
8473140 TAATA-AAT-AATAT
1 TAATATAATAAATAT
8473153 T-ATATTAATAAATA-
1 TAATA-TAATAAATAT
* *
8473167 TGAT-TAA-AAATAAA
1 TAATATAATAAAT-AT
*
8473181 TAATATACTAATATAT
1 TAATATAATAA-ATAT
*
8473197 TAATATTAATAAATAA
1 TAATA-TAATAAATAT
*
8473213 TATTATAAT--ATAT
1 TAATATAATAAATAT
*
8473226 TTATA-AAT-AATAT
1 TAATATAATAAATAT
*
8473239 T-ATATTAATAAATAA
1 TAATA-TAATAAATAT
8473254 T-ATATTAATAAATAT
1 TAATA-TAATAAATAT
8473269 TAATATAATA
1 TAATATAATA
8473279 TATTAACAAA
Statistics
Matches: 100, Mismatches: 11, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
12 13 0.13
13 16 0.16
14 10 0.10
15 36 0.36
16 18 0.18
17 7 0.07
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.42
Consensus pattern (15 bp):
TAATATAATAAATAT
Found at i:8473280 original size:23 final size:23
Alignment explanation
Indices: 8473154--8473326 Score: 91
Period size: 23 Copynumber: 7.7 Consensus size: 23
8473144 AAATAATATT
8473154 ATATTAATA-AATATGATTAA-AA
1 ATATTAATATAATAT-ATTAATAA
* * *
8473176 ATAAATAATATACTA-A-TATATTA
1 AT-ATTAATATAATATATTA-ATAA
8473199 ATATTAATA-AATAATATT-ATAA
1 ATATTAATATAAT-ATATTAATAA
*
8473221 TATATTTATA-AATAATATT-AT-A
1 -ATATTAATATAAT-ATATTAATAA
* *
8473243 TTAATAA-ATAATATATTAATAA
1 ATATTAATATAATATATTAATAA
*
8473265 ATATTAATATAATATATTAACAA
1 ATATTAATATAATATATTAATAA
* * *
8473288 ATGA-TATTTTAATATTTTAATAA
1 AT-ATTAATATAATATATTAATAA
*
8473311 ATTAATAA-ATAATATA
1 A-TATTAATATAATATA
8473327 AAGAATAATA
Statistics
Matches: 116, Mismatches: 20, Indels: 29
0.70 0.12 0.18
Matches are distributed among these distances:
20 6 0.05
21 13 0.11
22 21 0.18
23 68 0.59
24 8 0.07
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (23 bp):
ATATTAATATAATATATTAATAA
Found at i:8473295 original size:56 final size:54
Alignment explanation
Indices: 8473154--8473295 Score: 160
Period size: 56 Copynumber: 2.6 Consensus size: 54
8473144 AAATAATATT
* * *
8473154 ATATTAATA-AATATGATTAAAAATAAATAATATACTAATATATTAATATTAATAA
1 ATATTAATATAATAT-ATTAAAAAT-AATATTATACTAATAAATAAATATTAATAA
* * * *
8473209 ATAATATTATAATATATTTATAAATAATATTATATTAATAAATAATATATTAATAA
1 ATATTAATATAATATA-TTAAAAATAATATTATACTAATAAATAA-ATATTAATAA
*
8473265 ATATTAATATAATATATTAACAAATGATATT
1 ATATTAATATAATATATTAA-AAATAATATT
8473296 TTAATATTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
55 27 0.38
56 45 0.62
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (54 bp):
ATATTAATATAATATATTAAAAATAATATTATACTAATAAATAAATATTAATAA
Found at i:8473418 original size:36 final size:34
Alignment explanation
Indices: 8473377--8473444 Score: 100
Period size: 36 Copynumber: 1.9 Consensus size: 34
8473367 TAACATAATA
*
8473377 TTTTAATATTAAAAATTATTATTAAAATATAATTAT
1 TTTTAATATTAAAAATT-TTAATAAAA-ATAATTAT
*
8473413 TTTTAATATTAATAATTTTAATAAAAATAATT
1 TTTTAATATTAAAAATTTTAATAAAAATAATT
8473445 TCAATATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 6 0.20
35 8 0.27
36 16 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (34 bp):
TTTTAATATTAAAAATTTTAATAAAAATAATTAT
Found at i:8473426 original size:21 final size:21
Alignment explanation
Indices: 8473357--8473426 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 21
8473347 TTTTTAGTAT
* *
8473357 TTTTTTATATTAACATAA-TA
1 TTTTTAATATTAATATAATTA
8473377 -TTTTAATATTAA-A-AATTA
1 TTTTTAATATTAATATAATTA
*
8473395 TTATT-A-A--AATATAATTA
1 TTTTTAATATTAATATAATTA
8473412 TTTTTAATATTAATA
1 TTTTTAATATTAATA
8473427 ATTTTAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 15
0.68 0.05 0.26
Matches are distributed among these distances:
15 2 0.05
16 1 0.03
17 12 0.31
18 5 0.13
19 15 0.38
21 4 0.10
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTTTAATATTAATATAATTA
Found at i:8473431 original size:15 final size:15
Alignment explanation
Indices: 8473413--8473478 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 15
8473403 ATATAATTAT
8473413 TTTTAATATTAATAA
1 TTTTAATATTAATAA
**
8473428 TTTTAATAAAAATAA
1 TTTTAATATTAATAA
*
8473443 -TTTCA-A-T-AT-A
1 TTTTAATATTAATAA
*
8473453 TTTTAATAATAAATAA
1 TTTTAAT-ATTAATAA
8473469 TTTTAATATT
1 TTTTAATATT
8473479 TTAATAGTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
10 1 0.03
11 6 0.16
13 2 0.05
14 4 0.11
15 17 0.45
16 8 0.21
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTTAATATTAATAA
Found at i:8473450 original size:24 final size:25
Alignment explanation
Indices: 8473423--8473484 Score: 92
Period size: 24 Copynumber: 2.5 Consensus size: 25
8473413 TTTTAATATT
8473423 AATAATTTTAATAA-AAATAATTTC
1 AATAATTTTAATAATAAATAATTTC
*
8473447 AATATATTTTAATAATAAATAATTTT
1 AATA-ATTTTAATAATAAATAATTTC
8473473 AAT-ATTTTAATA
1 AATAATTTTAATA
8473485 GTTATATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
24 13 0.37
25 10 0.29
26 12 0.34
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
AATAATTTTAATAATAAATAATTTC
Found at i:8473476 original size:26 final size:25
Alignment explanation
Indices: 8473416--8473484 Score: 90
Period size: 24 Copynumber: 2.8 Consensus size: 25
8473406 TAATTATTTT
*
8473416 TAATATTAATA-ATTTTAATAAAAA
1 TAATTTTAATATATTTTAATAAAAA
*
8473440 TAATTTCAATATATTTTAATAATAAA
1 TAATTTTAATATATTTTAATAA-AAA
8473466 TAATTTT-A-ATATTTTAATA
1 TAATTTTAATATATTTTAATA
8473485 GTTATATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
24 20 0.50
25 11 0.28
26 9 0.22
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (25 bp):
TAATTTTAATATATTTTAATAAAAA
Found at i:8480012 original size:144 final size:145
Alignment explanation
Indices: 8479656--8480056 Score: 451
Period size: 145 Copynumber: 2.8 Consensus size: 145
8479646 GATTTTAAAA
* * * *
8479656 CACCAAAAATCATGAAAGATTA-GAAAATTGAGATCTGAAAAGTTCTATGAAAATTCGAGCTCAA
1 CACCAAAAATAATGAAATATTATG-AAATTAAGATCTGAAAAGTTTTATGAAAATTCGAGCTCAA
* * * * *
8479720 AAAAATCAAATTATAAAAATACCCCTATAGGGGTATTTTAGTAATTTCACACTTTTTAGGGTACT
65 AAAGACCAAATTATGAAAATATCCCTATAAGGGTATTTTAGTAATTTCACACTTTTTAGGGTACT
8479785 ATTGTGATTTCAAATG
130 ATTGTGATTTCAAATG
* * * **
8479801 CACCAAAAATAAAGAATTATTATGAAATTAAGATCT-AAAGAGTTTTATGAAAATTTGAGCTTGA
1 CACCAAAAATAATGAAATATTATGAAATTAAGATCTGAAA-AGTTTTATGAAAATTCGAGCTCAA
* *
8479865 AAAGACCAAATTACGAAAATATCCTTATAAGGGTA-TTTAGGTAATTTCACAC-TTTT-GGGATA
65 AAAGACCAAATTATGAAAATATCCCTATAAGGGTATTTTA-GTAATTTCACACTTTTTAGGG-TA
* *
8479927 TTGA-TGTGATTTCATATG
128 CT-ATTGTGATTTCAAATG
* * *
8479945 CACCAAAAAT-ATGAAATATTATGAAATTAAAATCTGAAAAGTTTTTTTGAAAATTCAAGCTCAA
1 CACCAAAAATAATGAAATATTATGAAATTAAGATCTGAAAAG-TTTTATGAAAATTCGAGCTCAA
* * *
8480009 AAAGGCTAAATTATGAAAATATCCCCTA-AAAGGTACTTTT-GTAATTTC
65 AAAGACCAAATTATGAAAATAT-CCCTATAAGGGTA-TTTTAGTAATTTC
8480057 GTACTTCCTC
Statistics
Matches: 215, Mismatches: 31, Indels: 21
0.81 0.12 0.08
Matches are distributed among these distances:
143 27 0.13
144 90 0.42
145 94 0.44
146 4 0.02
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (145 bp):
CACCAAAAATAATGAAATATTATGAAATTAAGATCTGAAAAGTTTTATGAAAATTCGAGCTCAAA
AAGACCAAATTATGAAAATATCCCTATAAGGGTATTTTAGTAATTTCACACTTTTTAGGGTACTA
TTGTGATTTCAAATG
Found at i:8481831 original size:26 final size:27
Alignment explanation
Indices: 8481802--8481887 Score: 74
Period size: 28 Copynumber: 3.3 Consensus size: 27
8481792 GTATGTAGAT
8481802 TTTTTATTTAATAATATAAATTAT-TA
1 TTTTTATTTAATAATATAAATTATATA
* *
8481828 TTTTAAATTAAT--TA-AAATTAATATA
1 TTTTTATTTAATAATATAAATT-ATATA
* *
8481853 TTTTTATTAAAAAATATATTAA-TATATA
1 TTTTTATTTAATAATATA--AATTATATA
8481881 TTTTTAT
1 TTTTTAT
8481888 AAAAAATACC
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
23 5 0.11
24 4 0.09
25 10 0.21
26 10 0.21
27 2 0.04
28 13 0.28
29 1 0.02
30 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TTTTTATTTAATAATATAAATTATATA
Found at i:8481903 original size:27 final size:28
Alignment explanation
Indices: 8481848--8481905 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
8481838 ATTAAAATTA
* *
8481848 ATATATTTTTATTAAAAAATATATTAAT
1 ATATATTTTTATTAAAAAATACATAAAT
*
8481876 ATATATTTTTA-TAAAAAATACCTAAAT
1 ATATATTTTTATTAAAAAATACATAAAT
8481903 ATA
1 ATA
8481906 CAAGATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 16 0.59
28 11 0.41
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
ATATATTTTTATTAAAAAATACATAAAT
Found at i:8484089 original size:12 final size:12
Alignment explanation
Indices: 8484072--8484096 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8484062 CAGTGATATG
8484072 TAAAATAATTAT
1 TAAAATAATTAT
8484084 TAAAATAATTAT
1 TAAAATAATTAT
8484096 T
1 T
8484097 TATAATTCAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAAATAATTAT
Found at i:8485464 original size:10 final size:10
Alignment explanation
Indices: 8485451--8485534 Score: 57
Period size: 10 Copynumber: 8.6 Consensus size: 10
8485441 TTTAAAATAA
8485451 ATAAAAAATT
1 ATAAAAAATT
*
8485461 ATAAAAGATT
1 ATAAAAAATT
*
8485471 TTAAAAAATT
1 ATAAAAAATT
*
8485481 -TAAAAGATT
1 ATAAAAAATT
* *
8485490 CTAAAAATTTT
1 ATAAAAA-ATT
*
8485501 TTAAAAAATT
1 ATAAAAAATT
* *
8485511 CT-AACAATT
1 ATAAAAAATT
*
8485520 GTAAAAAATT
1 ATAAAAAATT
8485530 A-AAAA
1 ATAAAA
8485535 TTTTAGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
9 19 0.33
10 31 0.53
11 8 0.14
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:8485484 original size:29 final size:29
Alignment explanation
Indices: 8485452--8485510 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
8485442 TTAAAATAAA
8485452 TAAAAAATTATAAAAGA-TTTTAAAAAATT
1 TAAAAAATTATAAAA-ATTTTTAAAAAATT
* *
8485481 TAAAAGATTCTAAAAATTTTTTAAAAAATT
1 TAAAAAATTATAAAAA-TTTTTAAAAAATT
8485511 CTAACAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 1 0.04
29 13 0.50
30 12 0.46
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (29 bp):
TAAAAAATTATAAAAATTTTTAAAAAATT
Found at i:8485544 original size:18 final size:17
Alignment explanation
Indices: 8485434--8485590 Score: 80
Period size: 19 Copynumber: 8.4 Consensus size: 17
8485424 AAGAAAATTT
*
8485434 TTAAAAATTTAAAATAAA
1 TTAAAAATTTTAAA-AAA
* * *
8485452 TAAAAAATTATAAAAGATT
1 TTAAAAATTTTAAAA-A-A
* *
8485471 TTAAAAAATTTAAAAGAT
1 TTAAAAATTTTAAAA-AA
8485489 TCTAAAAATTTTTTAAAAAA
1 T-TAAAAA--TTTTAAAAAA
* *
8485509 TTCTAACAATTGTAAAAAA
1 -T-TAAAAATTTTAAAAAA
*
8485528 TTAAAAATTTTAGAAAA
1 TTAAAAATTTTAAAAAA
* *
8485545 TAAAAAAATTTAAAAACAA
1 T-TAAAAATTTTAAAA-AA
*
8485564 TCTAAAATTTTTTAAAAAA
1 T-TAAAA-ATTTTAAAAAA
8485583 TTCAAAAA
1 TT-AAAAA
8485591 AAATTTCTAA
Statistics
Matches: 107, Mismatches: 22, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
17 15 0.14
18 27 0.25
19 43 0.40
20 8 0.07
21 14 0.13
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.33
Consensus pattern (17 bp):
TTAAAAATTTTAAAAAA
Found at i:8485591 original size:21 final size:20
Alignment explanation
Indices: 8485479--8485673 Score: 84
Period size: 20 Copynumber: 9.8 Consensus size: 20
8485469 TTTTAAAAAA
* *
8485479 TTTAAAAGATTCTAAAAATTT
1 TTTAAAAAATTC-AAAAAATT
* *
8485500 TTTAAAAAATTCTAACAA-T
1 TTTAAAAAATTCAAAAAATT
*
8485519 TGTAAAAAATT--AAAAA-T
1 TTTAAAAAATTCAAAAAATT
* *
8485536 TTTAGAAAA-T-AAAAAA-A
1 TTTAAAAAATTCAAAAAATT
* * *
8485553 TTTAAAAACAATCTAAAATTT
1 TTTAAAAA-ATTCAAAAAATT
8485574 TTTAAAAAATTCAAAAAAAATT
1 TTTAAAAAATTC--AAAAAATT
* ** * *
8485596 TCTAAAATTTTTAAAAAAAT
1 TTTAAAAAATTCAAAAAATT
* *
8485616 TTTAAAGAAATTTTAAAAACTT
1 TTTAAA-AAA-TTCAAAAAATT
*
8485638 CTTAAAAAATT-AAAGAAA-T
1 TTTAAAAAATTCAAA-AAATT
* *
8485657 TTTATAAATTTCAAAAA
1 TTTAAAAAATTCAAAAA
8485674 CTCTCAACAT
Statistics
Matches: 132, Mismatches: 31, Indels: 24
0.71 0.17 0.13
Matches are distributed among these distances:
16 1 0.01
17 24 0.18
18 1 0.01
19 26 0.20
20 29 0.22
21 23 0.17
22 28 0.21
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (20 bp):
TTTAAAAAATTCAAAAAATT
Found at i:8485592 original size:32 final size:32
Alignment explanation
Indices: 8485545--8485616 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
8485535 TTTTAGAAAA
* *
8485545 TAAAAAAATT-TAAAAACA-ATCTAAAATTTT
1 TAAAAAAATTCAAAAAAAATATCTAAAATTTT
* *
8485575 TTAAAAAATTCAAAAAAAATTTCTAAAATTTT
1 TAAAAAAATTCAAAAAAAATATCTAAAATTTT
8485607 TAAAAAAATT
1 TAAAAAAATT
8485617 TTAAAGAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 9 0.26
31 6 0.17
32 20 0.57
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (32 bp):
TAAAAAAATTCAAAAAAAATATCTAAAATTTT
Found at i:8485627 original size:32 final size:30
Alignment explanation
Indices: 8485566--8485667 Score: 100
Period size: 32 Copynumber: 3.3 Consensus size: 30
8485556 AAAAACAATC
** *
8485566 TAAAATTTTTTAAAAAATTCAAAAAAAATTT
1 TAAAA-TTTTTAAAAAATTTTAAAGAAATTT
8485597 CTAAAATTTTTAAAAAAATTTTAAAGAAATTT
1 -TAAAATTTTT-AAAAAATTTTAAAGAAATTT
*
8485629 TAAAAACTTCTTAAAAAA--TTAAAGAAATTT
1 T-AAAA-TTTTTAAAAAATTTTAAAGAAATTT
8485659 TATAAATTT
1 TA-AAATTT
8485668 CAAAAACTCT
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
29 3 0.05
30 16 0.26
31 6 0.10
32 32 0.52
33 4 0.07
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (30 bp):
TAAAATTTTTAAAAAATTTTAAAGAAATTT
Found at i:8486084 original size:12 final size:12
Alignment explanation
Indices: 8486067--8486092 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8486057 TTCATTAAAA
8486067 TTTTTCATATTT
1 TTTTTCATATTT
8486079 TTTTTCATATTT
1 TTTTTCATATTT
8486091 TT
1 TT
8486093 ATATTTTATT
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:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTCATATTT
Found at i:8486090 original size:21 final size:20
Alignment explanation
Indices: 8486066--8486105 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
8486056 TTTCATTAAA
*
8486066 ATTTTTCATATTTTTTTTCAT
1 ATTTTT-ATATTTTATTTCAT
8486087 ATTTTTATATTTTATTTCA
1 ATTTTTATATTTTATTTCA
8486106 AAAATTTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTTTTATATTTTATTTCAT
Found at i:8486244 original size:9 final size:9
Alignment explanation
Indices: 8486232--8486427 Score: 65
Period size: 9 Copynumber: 20.8 Consensus size: 9
8486222 GAGTTTTTTG
8486232 AATTTTTAA
1 AATTTTTAA
* * *
8486241 AATTATCAT
1 AATTTTTAA
*
8486250 AATTTTTAT
1 AATTTTTAA
*
8486259 AATTCTTATA
1 AATTTTTA-A
*
8486269 AATATTTTCA
1 AAT-TTTTAA
* *
8486279 TATTTTT-T
1 AATTTTTAA
*
8486287 ATTTTTTAA
1 AATTTTTAA
*
8486296 AATTTTAAA
1 AATTTTTAA
*
8486305 AAATTTTAA
1 AATTTTTAA
* *
8486314 ATTTTTTTTTA
1 A--ATTTTTAA
*
8486325 AATTTTCAA
1 AATTTTTAA
*
8486334 AATTTTTTAG
1 AA-TTTTTAA
**
8486344 AATTGTTTTG
1 AATT-TTTAA
8486354 AATTTTT-A
1 AATTTTTAA
* *
8486362 AAGTTTTCA
1 AATTTTTAA
8486371 AATTATTTAGA
1 AATT-TTTA-A
8486382 AACTTTTTGAA
1 AA-TTTTT-AA
*
8486393 AAATTTT-A
1 AATTTTTAA
* *
8486401 GATCTTCTAAA
1 AAT-TT-TTAA
8486412 AATTTTTAA
1 AATTTTTAA
8486421 AATTTTT
1 AATTTTT
8486428 TTAAGAAAAT
Statistics
Matches: 135, Mismatches: 37, Indels: 30
0.67 0.18 0.15
Matches are distributed among these distances:
8 13 0.10
9 67 0.50
10 31 0.23
11 21 0.16
12 3 0.02
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (9 bp):
AATTTTTAA
Found at i:8486255 original size:27 final size:25
Alignment explanation
Indices: 8486225--8486299 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 25
8486215 TTTTTTAGAG
8486225 TTTTTTGAATTTTTAAAATTATCATAA
1 TTTTTT-AATTTTTAAAATTATCAT-A
*
8486252 TTTTTATAATTCTTATAAATATTTTCATA
1 TTTTT-TAATT-TT-TAAA-ATTATCATA
*
8486281 TTTTTTATTTTTTAAAATT
1 TTTTTTAATTTTTAAAATT
8486300 TTAAAAAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
25 3 0.07
26 4 0.10
27 11 0.26
28 7 0.17
29 10 0.24
30 7 0.17
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (25 bp):
TTTTTTAATTTTTAAAATTATCATA
Found at i:8486342 original size:30 final size:30
Alignment explanation
Indices: 8486288--8486352 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
8486278 ATATTTTTTA
8486288 TTTTTTAAAATTTTAAAAAATTTTA-AATT
1 TTTTTTAAAATTTTAAAAAATTTTAGAATT
* **
8486317 TTTTTTTAAATTTTCAAAATTTTTTAGAATT
1 TTTTTTAAAATTTT-AAAAAATTTTAGAATT
*
8486348 GTTTT
1 TTTTT
8486353 GAATTTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 13 0.43
30 9 0.30
31 8 0.27
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (30 bp):
TTTTTTAAAATTTTAAAAAATTTTAGAATT
Found at i:8486390 original size:37 final size:37
Alignment explanation
Indices: 8486319--8486392 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
8486309 TTTAAATTTT
* *
8486319 TTTTTAAATTTTCAAAATTTTTTAGAATTGTTTTGAA
1 TTTTTAAATTTTCAAAATTATTTAGAACTGTTTTGAA
8486356 TTTTTAAAGTTTTC-AAATTATTTAGAAACT-TTTTGAA
1 TTTTTAAA-TTTTCAAAATTATTTAG-AACTGTTTTGAA
8486393 AAATTTTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 25 0.76
38 8 0.24
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (37 bp):
TTTTTAAATTTTCAAAATTATTTAGAACTGTTTTGAA
Found at i:8486553 original size:13 final size:13
Alignment explanation
Indices: 8486532--8486574 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
8486522 AATTTTTCAA
8486532 TTTTTTT-AAATG
1 TTTTTTTAAAATG
8486544 TTTTTATTAAAATG
1 TTTTT-TTAAAATG
* *
8486558 TTTTTTTGAATTG
1 TTTTTTTAAAATG
8486571 TTTT
1 TTTT
8486575 AAAGTAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 5 0.19
13 12 0.44
14 10 0.37
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.67
Consensus pattern (13 bp):
TTTTTTTAAAATG
Found at i:8486639 original size:20 final size:19
Alignment explanation
Indices: 8486618--8486686 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 19
8486608 GATTAAGGAT
*
8486618 TTTTTAGAAAGTTTTAAAAT
1 TTTTTAGAAA-TTTTAAAAA
8486638 TTTTTAGAAATTTTAAAACA
1 TTTTTAGAAATTTTAAAA-A
8486658 TTTTTAGAAATTTGTTTAAAAA
1 TTTTTAGAAA--T-TTTAAAAA
8486680 TTTTTAG
1 TTTTTAG
8486687 TATTTTTTGA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
19 8 0.18
20 20 0.45
22 9 0.20
23 7 0.16
ACGTcount: A:0.39, C:0.01, G:0.09, T:0.51
Consensus pattern (19 bp):
TTTTTAGAAATTTTAAAAA
Found at i:8486743 original size:20 final size:19
Alignment explanation
Indices: 8486587--8486749 Score: 82
Period size: 20 Copynumber: 8.2 Consensus size: 19
8486577 AGTAATACTT
*
8486587 ATTTTTAAAATTTTTT-TA
1 ATTTTTAAAATTTTTTAGA
* *
8486605 ATTGATTAAGGATTTTTTAGAA
1 ATT-TTTAA-AATTTTTTAG-A
*
8486627 AGTTTTAAAATTTTTTAGA
1 ATTTTTAAAATTTTTTAGA
* *
8486646 AATTTTAAAACATTTTTAGAA
1 ATTTTTAAAA-TTTTTTAG-A
*
8486667 ATTTGTTTAAAAATTTTTAGTA
1 A-TT-TTTAAAATTTTTTAG-A
* *
8486689 TTTTTTGAGAATTTTTGTA-A
1 ATTTTT-AAAATTTTT-TAGA
* *
8486709 A-GTTT-AAATTCTTTTTGA
1 ATTTTTAAAATT-TTTTAGA
*
8486727 ATTTTTAAGAATTTTTTGGA
1 ATTTTTAA-AATTTTTTAGA
8486747 ATT
1 ATT
8486750 AATTTTTTTT
Statistics
Matches: 111, Mismatches: 19, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
17 5 0.05
18 8 0.07
19 20 0.18
20 37 0.33
21 19 0.17
22 15 0.14
23 7 0.06
ACGTcount: A:0.34, C:0.01, G:0.10, T:0.54
Consensus pattern (19 bp):
ATTTTTAAAATTTTTTAGA
Found at i:8489041 original size:19 final size:20
Alignment explanation
Indices: 8488998--8489041 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
8488988 TATAATAATA
8488998 AAAAAATTCATAACATCCAT
1 AAAAAATTCATAACATCCAT
*
8489018 AAAAAATTCATAACATCTAT
1 AAAAAATTCATAACATCCAT
8489038 AAAA
1 AAAA
8489042 GTTCTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAAAATTCATAACATCCAT
Found at i:8493438 original size:33 final size:33
Alignment explanation
Indices: 8493401--8493464 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
8493391 AGAAGATGAA
* * *
8493401 GATGATGATAATGATAATGATAGTGATGAAAAT
1 GATGATAATAATAATAATGATAATGATGAAAAT
8493434 GATGATAATAATAATAATGATAATGATGAAA
1 GATGATAATAATAATAATGATAATGATGAAA
8493465 CACATGAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (33 bp):
GATGATAATAATAATAATGATAATGATGAAAAT
Found at i:8498096 original size:20 final size:21
Alignment explanation
Indices: 8498051--8498094 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
8498041 GCATAAAAAG
*
8498051 AAATTTTCAAAAAAAATTATA
1 AAATTTTAAAAAAAAATTATA
*
8498072 AAATTTTAAAAAAAAATTTTA
1 AAATTTTAAAAAAAAATTATA
8498093 AA
1 AA
8498095 TTCGACAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATTTTAAAAAAAAATTATA
Found at i:8498130 original size:26 final size:27
Alignment explanation
Indices: 8498077--8498130 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
8498067 TTATAAAATT
* *
8498077 TTAAAAAAAAATTTTAAATTCGACAAA
1 TTAAAAAAAAATTTTAAATTCAAAAAA
8498104 TTAAAAAAAAA-TTT-AATTCCAAAAAA
1 TTAAAAAAAAATTTTAAATT-CAAAAAA
8498130 T
1 T
8498131 CTTAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.17
26 9 0.38
27 11 0.46
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (27 bp):
TTAAAAAAAAATTTTAAATTCAAAAAA
Found at i:8498154 original size:19 final size:19
Alignment explanation
Indices: 8498118--8498155 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8498108 AAAAAAATTT
*
8498118 AATTCCAAAAAATCTTAAA
1 AATTCAAAAAAATCTTAAA
8498137 AATTCAAAAAGAAT-TTAAA
1 AATTCAAAAA-AATCTTAAA
8498156 CTTTACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.61, C:0.11, G:0.03, T:0.26
Consensus pattern (19 bp):
AATTCAAAAAAATCTTAAA
Found at i:8498194 original size:10 final size:10
Alignment explanation
Indices: 8498162--8498248 Score: 63
Period size: 10 Copynumber: 8.5 Consensus size: 10
8498152 TAAACTTTAC
8498162 AAAAA-TTCT
1 AAAAATTTCT
* *
8498171 CAAAAAATACT
1 -AAAAATTTCT
*
8498182 AAAAATTTTT
1 AAAAATTTCT
8498192 AAACAAATTTCT
1 -AA-AAATTTCT
8498204 AAAAATGTT-T
1 AAAAAT-TTCT
*
8498214 TAAAATTTCT
1 AAAAATTTCT
8498224 AAAAAATTT-T
1 -AAAAATTTCT
*
8498234 AAAACTTTCT
1 AAAAATTTCT
8498244 AAAAA
1 AAAAA
8498249 ATCCTTAATC
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
9 9 0.15
10 29 0.48
11 16 0.26
12 7 0.11
ACGTcount: A:0.54, C:0.09, G:0.01, T:0.36
Consensus pattern (10 bp):
AAAAATTTCT
Found at i:8498221 original size:20 final size:19
Alignment explanation
Indices: 8498196--8498277 Score: 87
Period size: 20 Copynumber: 4.2 Consensus size: 19
8498186 ATTTTTAAAC
*
8498196 AAATTTCTAAAAATGTTTTA
1 AAATTTCTAAAAA-ATTTTA
8498216 AAATTTCTAAAAAATTTTA
1 AAATTTCTAAAAAATTTTA
*
8498235 AAACTTTCTAAAAAATCCTTA
1 AAA-TTTCTAAAAAAT-TTTA
8498256 ATCAA-TTC-AAAAAATTTTA
1 A--AATTTCTAAAAAATTTTA
8498275 AAA
1 AAA
8498278 ATAAGTATTA
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
17 2 0.04
19 12 0.22
20 32 0.58
21 7 0.13
23 2 0.04
ACGTcount: A:0.51, C:0.10, G:0.01, T:0.38
Consensus pattern (19 bp):
AAATTTCTAAAAAATTTTA
Found at i:8498357 original size:11 final size:11
Alignment explanation
Indices: 8498340--8498382 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
8498330 AAAAATTGAA
8498340 AAATTTTTAAG
1 AAATTTTTAAG
*
8498351 AAGTTTTTAAG
1 AAATTTTTAAG
* *
8498362 AAACTTTTAAC
1 AAATTTTTAAG
*
8498373 AATTTTTTAA
1 AAATTTTTAA
8498383 ATGTATAAAA
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:0.42, C:0.05, G:0.07, T:0.47
Consensus pattern (11 bp):
AAATTTTTAAG
Found at i:8499017 original size:10 final size:9
Alignment explanation
Indices: 8498977--8499020 Score: 70
Period size: 9 Copynumber: 4.8 Consensus size: 9
8498967 TTTAAAAAAC
*
8498977 TTTTTATAAC
1 TTTTTAT-AT
8498987 TTTTTATAT
1 TTTTTATAT
8498996 TTTTTATAT
1 TTTTTATAT
8499005 TTTTTATAT
1 TTTTTATAT
8499014 TTTTTAT
1 TTTTTAT
8499021 TTTATTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 26 0.79
10 7 0.21
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTTATAT
Found at i:8499096 original size:17 final size:17
Alignment explanation
Indices: 8499062--8499106 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
8499052 TTTGTGATTT
* *
8499062 TTTTTAATTTTAGGAAA
1 TTTTTATTTTTAGAAAA
*
8499079 TTTTTATTTTTATAAAA
1 TTTTTATTTTTAGAAAA
*
8499096 TTTTCATTTTT
1 TTTTTATTTTT
8499107 TTAATTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (17 bp):
TTTTTATTTTTAGAAAA
Found at i:8499108 original size:26 final size:28
Alignment explanation
Indices: 8499079--8499137 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 28
8499069 TTTTAGGAAA
*
8499079 TTTTTATTTT-TATAAAA-T-TTTCATTT
1 TTTTTATTTTCTA-AAAATTGTTTAATTT
*
8499105 TTTTAATTTTCTAAAAATTGTTTAATTT
1 TTTTTATTTTCTAAAAATTGTTTAATTT
8499133 TTTTT
1 TTTTT
8499138 TAATGTTGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 13 0.48
27 3 0.11
28 11 0.41
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (28 bp):
TTTTTATTTTCTAAAAATTGTTTAATTT
Found at i:8499183 original size:30 final size:30
Alignment explanation
Indices: 8499148--8499249 Score: 107
Period size: 32 Copynumber: 3.3 Consensus size: 30
8499138 TAATGTTGAG
*
8499148 ATTTTTT-TGAAATTTATAAAATTTCTTTA
1 ATTTTTTAAGAAATTTATAAAATTTCTTTA
* *
8499177 ATTTTTTAAGAAGTTTTTAAAATTTCTTTAAA
1 ATTTTTTAAGAAATTTATAAAATTTCTTT--A
* * *
8499209 ATTTTTTAAAAAATTTTAGAAAATTTTTTTGA
1 ATTTTTTAAGAAA-TTTATAAAATTTCTTT-A
8499241 ATTTTTTAA
1 ATTTTTTAA
8499250 AAAAATTTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
29 7 0.12
30 18 0.30
32 22 0.37
33 13 0.22
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (30 bp):
ATTTTTTAAGAAATTTATAAAATTTCTTTA
Found at i:8499218 original size:10 final size:10
Alignment explanation
Indices: 8499150--8499357 Score: 94
Period size: 10 Copynumber: 21.0 Consensus size: 10
8499140 ATGTTGAGAT
*
8499150 TTTTTTGAAA
1 TTTTTTAAAA
*
8499160 -TTTATAAAA
1 TTTTTTAAAA
8499169 TTTCTTT--AA
1 TTT-TTTAAAA
8499178 TTTTTTAAGAA
1 TTTTTTAA-AA
*
8499189 GTTTTTAAAA
1 TTTTTTAAAA
8499199 TTTCTTTAAAA
1 TTT-TTTAAAA
8499210 TTTTTTAAAAAA
1 TTTTTT--AAAA
**
8499222 TTTTAGAAAA
1 TTTTTTAAAA
**
8499232 TTTTTTTGAA
1 TTTTTTAAAA
8499242 TTTTTTAAAAA
1 TTTTTT-AAAA
** *
8499253 AATTTT-AGA
1 TTTTTTAAAA
*
8499262 TTGTTTTTAAA
1 TT-TTTTAAAA
*
8499273 TTTTTT--TA
1 TTTTTTAAAA
*
8499281 TTTTCTAAAA
1 TTTTTTAAAA
8499291 -TTTTT--AA
1 TTTTTTAAAA
*
8499298 TTTTTTACAA
1 TTTTTTAAAA
* *
8499308 -TTGTTAGAA
1 TTTTTTAAAA
8499317 TTTTTTAAAAA
1 TTTTTT-AAAA
* *
8499328 ATTTTTAGAA
1 TTTTTTAAAA
* *
8499338 TCTTTTAAAT
1 TTTTTTAAAA
8499348 TTTTTTAAAA
1 TTTTTTAAAA
8499358 ACTTTTATAA
Statistics
Matches: 145, Mismatches: 35, Indels: 36
0.67 0.16 0.17
Matches are distributed among these distances:
7 2 0.01
8 14 0.10
9 25 0.17
10 57 0.39
11 39 0.27
12 8 0.06
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:8499252 original size:21 final size:20
Alignment explanation
Indices: 8499148--8499353 Score: 97
Period size: 21 Copynumber: 10.4 Consensus size: 20
8499138 TAATGTTGAG
* *
8499148 ATTTTTTTGAAATTTATAAA
1 ATTTTTTTGAATTTTTTAAA
*
8499168 ATTTCTTT-AATTTTTTAAGA
1 ATTTTTTTGAATTTTTTAA-A
* **
8499188 AGTTTTTAAAATTTCTTTAAA
1 ATTTTTTTGAATTT-TTTAAA
** **
8499209 ATTTTTTAAAAAATTTTAGAAA
1 ATTTTTT--TGAATTTTTTAAA
8499231 ATTTTTTTGAATTTTTTAAA
1 ATTTTTTTGAATTTTTTAAA
*** *
8499251 AAAATTTT-AGATTGTTTTTAA
1 ATTTTTTTGA-ATT-TTTTAAA
*
8499272 ATTTTTTT--ATTTTCTAAA
1 ATTTTTTTGAATTTTTTAAA
*
8499290 A--TTTTT-AATTTTTTACA
1 ATTTTTTTGAATTTTTTAAA
* *
8499307 A-TTGTTAGAATTTTTTAAAA
1 ATTTTTTTGAATTTTTT-AAA
* * *
8499327 AATTTTTAGAATCTTTT-AA
1 ATTTTTTTGAATTTTTTAAA
8499346 ATTTTTTT
1 ATTTTTTT
8499354 AAAAACTTTT
Statistics
Matches: 143, Mismatches: 31, Indels: 25
0.72 0.16 0.13
Matches are distributed among these distances:
16 5 0.03
17 9 0.06
18 9 0.06
19 28 0.20
20 33 0.23
21 36 0.25
22 16 0.11
23 7 0.05
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.57
Consensus pattern (20 bp):
ATTTTTTTGAATTTTTTAAA
Found at i:8499269 original size:33 final size:32
Alignment explanation
Indices: 8499160--8499261 Score: 109
Period size: 32 Copynumber: 3.2 Consensus size: 32
8499150 TTTTTTGAAA
* * * *
8499160 TTTATAAAATTTCTTT-AATTTTTTAAGAAGT
1 TTTAGAAAATTTTTTTGAATTTTTTAAAAAAT
* **
8499191 TTT-TAAAATTTCTTTAAAATTTTTTAAAAAAT
1 TTTAGAAAATTT-TTTTGAATTTTTTAAAAAAT
8499223 TTTAGAAAATTTTTTTGAATTTTTTAAAAAAAT
1 TTTAGAAAATTTTTTTGAATTTTTT-AAAAAAT
8499256 TTTAGA
1 TTTAGA
8499262 TTGTTTTTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
30 8 0.13
31 5 0.08
32 27 0.45
33 20 0.33
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (32 bp):
TTTAGAAAATTTTTTTGAATTTTTTAAAAAAT
Found at i:8499279 original size:33 final size:30
Alignment explanation
Indices: 8499157--8499278 Score: 104
Period size: 31 Copynumber: 3.9 Consensus size: 30
8499147 GATTTTTTTG
* *
8499157 AAATTTATAAAATTTCTTT-AATTTTTTAAGA
1 AAATTT-TAGAATTTTTTTAAATTTTTTAA-A
** * *
8499188 AGTTTTTAAAATTTCTTTAAAATTTTTTAAA
1 AAATTTTAGAATTT-TTTTAAATTTTTTAAA
*
8499219 AAATTTTAGAAAATTTTTTTGAATTTTTTAAAA
1 AAATTTTAG--AATTTTTTTAAATTTTTT-AAA
8499252 AAATTTTAG-ATTGTTTTTAAATTTTTT
1 AAATTTTAGAATT-TTTTTAAATTTTTT
8499279 TATTTTCTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
30 11 0.15
31 26 0.35
32 21 0.28
33 17 0.23
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (30 bp):
AAATTTTAGAATTTTTTTAAATTTTTTAAA
Found at i:8499309 original size:17 final size:16
Alignment explanation
Indices: 8499265--8499325 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 16
8499255 TTTTAGATTG
*
8499265 TTTTTAAATTTTTTTAT
1 TTTTTAAA-TTTTTAAT
*
8499282 TTTCTAAAATTTTTAAT
1 TTT-TTAAATTTTTAAT
*
8499299 TTTTTACAATTGTTAGAAT
1 TTTTTA-AATT-TT-TAAT
8499318 TTTTTAAA
1 TTTTTAAA
8499326 AAATTTTTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
16 2 0.06
17 17 0.47
18 8 0.22
19 9 0.25
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTTAAATTTTTAAT
Found at i:8499354 original size:20 final size:21
Alignment explanation
Indices: 8499329--8499369 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
8499319 TTTTAAAAAA
* *
8499329 TTTTTAGAATCTTTTA-AATT
1 TTTTTAAAAACTTTTATAATT
8499349 TTTTTAAAAACTTTTATAATT
1 TTTTTAAAAACTTTTATAATT
8499370 ATTTATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTTAAAAACTTTTATAATT
Found at i:8499408 original size:39 final size:39
Alignment explanation
Indices: 8499340--8499415 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 39
8499330 TTTTAGAATC
8499340 TTTTAAATTTTTTTAAAAACTTTTATAATTAT-TTATTTA
1 TTTTAAA-TTTTTTAAAAACTTTTATAATTATGTTATTTA
* *
8499379 TTTTAAA-TTTTTAAAAATTTTCTTTTAATTATGTTAT
1 TTTTAAATTTTTTAAAAA-CTT-TTATAATTATGTTAT
8499416 GGCGTTGGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 10 0.31
38 2 0.06
39 16 0.50
40 4 0.12
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (39 bp):
TTTTAAATTTTTTAAAAACTTTTATAATTATGTTATTTA
Found at i:8499924 original size:12 final size:12
Alignment explanation
Indices: 8499907--8499931 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8499897 TTGAATTATA
8499907 AATAATTATTTT
1 AATAATTATTTT
8499919 AATAATTATTTT
1 AATAATTATTTT
8499931 A
1 A
8499932 CATATCACTG
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATAATTATTTT
Found at i:8502129 original size:25 final size:26
Alignment explanation
Indices: 8502101--8502158 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
8502091 TTTTATCTTG
*
8502101 TATATTTAGGTATTTTTT-ATAAAAA
1 TATATTTAGATATTTTTTAATAAAAA
*
8502126 TATATATTATATATTTTTTAATAAAAA
1 TATAT-TTAGATATTTTTTAATAAAAA
8502153 TATATT
1 TATATT
8502159 AATTTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 12 0.41
27 12 0.41
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (26 bp):
TATATTTAGATATTTTTTAATAAAAA
Found at i:8502542 original size:44 final size:44
Alignment explanation
Indices: 8502479--8502566 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
8502469 TATTACATCG
8502479 CTCAAGCATATAAAACTTAAAATAATTTTAGTAAAACTTATCTT
1 CTCAAGCATATAAAACTTAAAATAATTTTAGTAAAACTTATCTT
8502523 CTCAAGCATATAAAACTTAAAATAATTTTAGTAAAACTTATCTT
1 CTCAAGCATATAAAACTTAAAATAATTTTAGTAAAACTTATCTT
8502567 TTATTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (44 bp):
CTCAAGCATATAAAACTTAAAATAATTTTAGTAAAACTTATCTT
Found at i:8510573 original size:24 final size:23
Alignment explanation
Indices: 8510545--8510613 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 23
8510535 TTAATATAAC
8510545 TATTAAAATATTAAAATTATTTAT
1 TATTAAAATATTAAAATTATTT-T
*
8510569 TATTAAAATATATTGAAATTATTTT
1 TATT-AAA-ATATTAAAATTATTTT
*
8510594 TATTAAAATTATTAATATTA
1 TATTAAAA-TATTAAAATTA
8510614 AAAAATAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
23 1 0.03
24 16 0.41
25 8 0.21
26 14 0.36
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (23 bp):
TATTAAAATATTAAAATTATTTT
Found at i:8510581 original size:26 final size:25
Alignment explanation
Indices: 8510545--8510613 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 25
8510535 TTAATATAAC
8510545 TATT-AAA-ATATTAAAATTATTTAT
1 TATTAAAATATATTAAAATTATTT-T
*
8510569 TATTAAAATATATTGAAATTATTTT
1 TATTAAAATATATTAAAATTATTTT
*
8510594 TATTAAAAT-TATTAATATTA
1 TATTAAAATATATTAAAATTA
8510614 AAAAATAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
24 13 0.32
25 13 0.32
26 14 0.35
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (25 bp):
TATTAAAATATATTAAAATTATTTT
Found at i:8510602 original size:15 final size:15
Alignment explanation
Indices: 8510553--8510616 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
8510543 ACTATTAAAA
8510553 TATTAAAATTATTTAT
1 TATTAAAATTATTT-T
8510569 TATTAAAA-TA----
1 TATTAAAATTATTTT
*
8510579 TATTGAAATTATTTT
1 TATTAAAATTATTTT
**
8510594 TATTAAAATTATTAA
1 TATTAAAATTATTTT
8510609 TATTAAAA
1 TATTAAAA
8510617 AATAATTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
10 7 0.18
11 2 0.05
15 22 0.56
16 8 0.21
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
TATTAAAATTATTTT
Found at i:8510605 original size:9 final size:9
Alignment explanation
Indices: 8510545--8510613 Score: 51
Period size: 9 Copynumber: 8.2 Consensus size: 9
8510535 TTAATATAAC
8510545 TATTAAAA-
1 TATTAAAAT
8510553 TATTAAAAT
1 TATTAAAAT
*
8510562 TATT--TAT
1 TATTAAAAT
8510569 TATTAAAAT
1 TATTAAAAT
*
8510578 ATATTGAAAT
1 -TATTAAAAT
*
8510588 TATT---TT
1 TATTAAAAT
8510594 TATTAAAAT
1 TATTAAAAT
*
8510603 TATTAATAT
1 TATTAAAAT
8510612 TA
1 TA
8510614 AAAAATAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
6 5 0.10
7 6 0.12
8 8 0.17
9 21 0.44
10 8 0.17
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (9 bp):
TATTAAAAT
Found at i:8510629 original size:37 final size:37
Alignment explanation
Indices: 8510553--8510653 Score: 98
Period size: 37 Copynumber: 2.6 Consensus size: 37
8510543 ACTATTAAAA
* *
8510553 TATTAAAATTATTTATTATTAAAATATATTGAAATTATTTT
1 TATTAAAATTA-TTAATATTAAAAAATATT--AATTA-TTT
8510594 TATTAAAATTATTAATATTAAAAAATAATT-A-TATTT
1 TATTAAAATTATTAATATTAAAAAAT-ATTAATTATTT
* *
8510630 TAATAATAATTTTTAATATTAAAA
1 TATTAA-AATTATTAATATTAAAA
8510654 TATTATGTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
36 8 0.15
37 18 0.33
38 1 0.02
40 13 0.24
41 14 0.26
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.50
Consensus pattern (37 bp):
TATTAAAATTATTAATATTAAAAAATATTAATTATTT
Found at i:8510724 original size:15 final size:15
Alignment explanation
Indices: 8510704--8510882 Score: 89
Period size: 15 Copynumber: 12.6 Consensus size: 15
8510694 TATTATTCTT
8510704 TATATTATTTATTAA
1 TATATTATTTATTAA
* **
8510719 TTTATTAAAATATTAA
1 TATATT-ATTTATTAA
* * *
8510735 AATATCATTTGTTAA
1 TATATTATTTATTAA
8510750 TATATTA--TA-T--
1 TATATTATTTATTAA
8510760 TA-A-TATTTATTAA
1 TATATTATTTATTAA
8510773 TATATTATTTATTAA
1 TATATTATTTATTAA
*
8510788 TATAATA-TTATT--
1 TATATTATTTATTAA
* *
8510800 TATA-AATATATT-A
1 TATATTATTTATTAA
8510813 TAATATTATTTATTAA
1 T-ATATTATTTATTAA
* * *
8510829 TAT-TAATATATTAG
1 TATATTATTTATTAA
**
8510843 TATATTATTTATTTT
1 TATATTATTTATTAA
8510858 TA-ATCATATTTATTAA
1 TATAT--TATTTATTAA
*
8510874 TATAATATT
1 TATATTATT
8510883 ATTTATTACT
Statistics
Matches: 120, Mismatches: 27, Indels: 34
0.66 0.15 0.19
Matches are distributed among these distances:
8 2 0.02
9 1 0.01
10 4 0.03
11 2 0.02
12 9 0.08
13 4 0.03
14 22 0.18
15 53 0.44
16 22 0.18
17 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:8510731 original size:23 final size:23
Alignment explanation
Indices: 8510705--8510855 Score: 97
Period size: 23 Copynumber: 6.9 Consensus size: 23
8510695 ATTATTCTTT
8510705 ATATTATTTATTAATTTATTAAA
1 ATATTATTTATTAATTTATTAAA
** * * *
8510728 ATATTA-AAATATCATTTGTTAAT
1 ATATTATTTAT-TAATTTATTAAA
* *
8510751 ATATTATATTAAT-ATTTATTAAT
1 ATATTAT-TTATTAATTTATTAAA
8510774 ATATTATTTATTAA--TA-T--A
1 ATATTATTTATTAATTTATTAAA
* * *
8510792 ATATTATTTATAAATATATTATA
1 ATATTATTTATTAATTTATTAAA
*
8510815 ATATTATTTATTAA--TATTAAT
1 ATATTATTTATTAATTTATTAAA
*
8510836 ATATTAGTATATT-ATTTATT
1 ATATTA-TTTATTAATTTATT
8510856 TTTAATCATA
Statistics
Matches: 100, Mismatches: 16, Indels: 24
0.71 0.11 0.17
Matches are distributed among these distances:
18 13 0.13
20 3 0.03
21 15 0.15
22 11 0.11
23 56 0.56
24 1 0.01
25 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (23 bp):
ATATTATTTATTAATTTATTAAA
Found at i:8510778 original size:18 final size:18
Alignment explanation
Indices: 8510755--8510890 Score: 85
Period size: 18 Copynumber: 7.9 Consensus size: 18
8510745 GTTAATATAT
*
8510755 TATATTAATATTTATTAA
1 TATAATAATATTTATTAA
8510773 TAT-AT--TATTTATTAA
1 TATAATAATATTTATTAA
* *
8510788 TATAATATTATTTATAAA
1 TATAATAATATTTATTAA
*
8510806 TATATTATAATA-TTATTTA
1 TATA--ATAATATTTATTAA
* * *
8510825 T-TAATATTAATATATTAG
1 TATAATAAT-ATTTATTAA
8510843 TAT-AT--TATTTATT--
1 TATAATAATATTTATTAA
* *
8510856 TTTAATCATATTTATTAA
1 TATAATAATATTTATTAA
*
8510874 TATAATATTATTTATTA
1 TATAATAATATTTATTA
8510891 CTACACAAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
13 2 0.02
14 2 0.02
15 19 0.21
16 15 0.16
17 2 0.02
18 39 0.43
19 7 0.08
20 5 0.05
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.57
Consensus pattern (18 bp):
TATAATAATATTTATTAA
Found at i:8510814 original size:56 final size:55
Alignment explanation
Indices: 8510748--8510876 Score: 154
Period size: 56 Copynumber: 2.3 Consensus size: 55
8510738 ATCATTTGTT
* *
8510748 AATATATTATATTAATATTTATTAATATATTATTTATTAATATAATA-TTATTTATA
1 AATATATTATATTAATATTTATTAATAT-TAATATATTAATATAATATTTATTT-TA
* * * * *
8510804 AATATATTATAATATTATTTATTAATATTAATATATTAGTATATTATTTATTTTT
1 AATATATTATATTAATATTTATTAATATTAATATATTAATATAATATTTATTTTA
8510859 AATCATATT-TATTAATAT
1 AAT-ATATTATATTAATAT
8510877 AATATTATTT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
55 25 0.40
56 37 0.60
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.56
Consensus pattern (55 bp):
AATATATTATATTAATATTTATTAATATTAATATATTAATATAATATTTATTTTA
Found at i:8510883 original size:56 final size:55
Alignment explanation
Indices: 8510735--8510883 Score: 144
Period size: 56 Copynumber: 2.7 Consensus size: 55
8510725 AAAATATTAA
* * *
8510735 AATATCATTTGTTAATATATTATATTAATAT-TTATTAATATATTATTTATTAATAT
1 AATATTATTT-TTAATATATT-TATTAATATATTATTAATATATAATATATTAATAT
* *
8510791 AATATTATTTATAA-ATATATTA-TAATATTATTTATTAATAT-TAATATATTAGTAT
1 AATATTATTTTTAATATAT-TTATTAATA-TA-TTATTAATATATAATATATTAATAT
* *
8510846 ATTATTTATTTTTAATCATATTTATTAATATAATATTA
1 AATA-TTATTTTTAAT-ATATTTATTAATATATTATTA
8510884 TTTATTACTA
Statistics
Matches: 77, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
53 5 0.06
54 7 0.09
55 18 0.23
56 33 0.43
57 5 0.06
58 9 0.12
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (55 bp):
AATATTATTTTTAATATATTTATTAATATATTATTAATATATAATATATTAATAT
Found at i:8511021 original size:3 final size:3
Alignment explanation
Indices: 8511010--8511070 Score: 88
Period size: 3 Copynumber: 20.7 Consensus size: 3
8511000 ATAATAATAA
* *
8511010 TAT TA- TAT TAT TAT TAT TAT TAT TAA TAA TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
8511057 TAT TAT CAT TAT TA
1 TAT TAT TAT TAT TA
8511071 ATTAATTAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:8532881 original size:19 final size:19
Alignment explanation
Indices: 8532856--8532901 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
8532846 GAAGGATTTC
*
8532856 CAAGAATTTCAAAGAACTT
1 CAAGAATTTCAAAGAAATT
*
8532875 TAAGAATTTCAAAGAAATT
1 CAAGAATTTCAAAGAAATT
8532894 CAAGAATT
1 CAAGAATT
8532902 ATACGAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (19 bp):
CAAGAATTTCAAAGAAATT
Found at i:8532898 original size:9 final size:9
Alignment explanation
Indices: 8532851--8532901 Score: 50
Period size: 10 Copynumber: 5.3 Consensus size: 9
8532841 ACAGTGAAGG
8532851 ATTTCCAAGA
1 ATTT-CAAGA
8532861 ATTTCAAAGA
1 ATTTC-AAGA
8532871 ACTTT-AAGA
1 A-TTTCAAGA
8532880 ATTTCAAAGA
1 ATTTC-AAGA
*
8532890 AATTCAAGA
1 ATTTCAAGA
8532899 ATT
1 ATT
8532902 ATACGAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
8 3 0.09
9 12 0.34
10 17 0.49
11 3 0.09
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (9 bp):
ATTTCAAGA
Found at i:8536561 original size:16 final size:16
Alignment explanation
Indices: 8536540--8536572 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8536530 TAAGTTTTTC
*
8536540 TTTTTTCATTTTATTT
1 TTTTTTAATTTTATTT
8536556 TTTTTTAATTTTATTT
1 TTTTTTAATTTTATTT
8536572 T
1 T
8536573 GATTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTAATTTTATTT
Found at i:8536582 original size:16 final size:16
Alignment explanation
Indices: 8536542--8536583 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
8536532 AGTTTTTCTT
* *
8536542 TTTTCATTTTATTTTT
1 TTTTAATTTTATTTTA
8536558 TTTTAATTTTATTTTGA
1 TTTTAATTTTATTTT-A
8536575 TTTT-ATTTT
1 TTTTAATTTT
8536584 CGTTATTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTAATTTTATTTTA
Found at i:8538779 original size:20 final size:21
Alignment explanation
Indices: 8538742--8538785 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
8538732 TATATGAAAG
*
8538742 AAATTAGACTAGGGCTTTAAT
1 AAATCAGACTAGGGCTTTAAT
8538763 AAATCAGACTA-GGCTTTAAT
1 AAATCAGACTAGGGCTTTAAT
8538783 AAA
1 AAA
8538786 ACTTCATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (21 bp):
AAATCAGACTAGGGCTTTAAT
Found at i:8549197 original size:34 final size:34
Alignment explanation
Indices: 8549153--8549220 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
8549143 AGATTTTTAA
* *
8549153 ATTTATAGTTTCATTACCTTTAGTCAAAAGAGCT
1 ATTTAAAGTTTCATTACCTTTAGTCAAAAAAGCT
* * *
8549187 ATTTAAAGTTTTATTGCCTTTGGTCAAAAAAGCT
1 ATTTAAAGTTTCATTACCTTTAGTCAAAAAAGCT
8549221 TTCTTTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (34 bp):
ATTTAAAGTTTCATTACCTTTAGTCAAAAAAGCT
Found at i:8549228 original size:36 final size:36
Alignment explanation
Indices: 8549153--8549258 Score: 108
Period size: 36 Copynumber: 3.0 Consensus size: 36
8549143 AGATTTTTAA
* * * *
8549153 ATTTATAGTTTCATTACCTTTAGTCAAAAGAGC--T
1 ATTTAAAGTTTCATTGCCTTTGGTCAAAAAAGCTTT
*
8549187 ATTTAAAGTTTTATTGCCTTTGGTCAAAAAAGCTTT
1 ATTTAAAGTTTCATTGCCTTTGGTCAAAAAAGCTTT
* * * * *
8549223 CTTTAAAATATCATAGCCTATGGTCAAAAAAGCTTT
1 ATTTAAAGTTTCATTGCCTTTGGTCAAAAAAGCTTT
8549259 TTAATTTTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
34 28 0.47
36 31 0.53
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (36 bp):
ATTTAAAGTTTCATTGCCTTTGGTCAAAAAAGCTTT
Found at i:8549677 original size:40 final size:39
Alignment explanation
Indices: 8549553--8549706 Score: 125
Period size: 40 Copynumber: 3.8 Consensus size: 39
8549543 TTTGAGTAGT
* * *
8549553 CTTTTAAATTCTAAAGTTTCATTGCCTCTGGTCATA-AAAGT
1 CTTTTAAATT-TAAAGTTTCATAGCCTCTAGTCA-AGAAA-C
* * *
8549594 CTTTTAAATTTTAAAGTTTCATTA-CCTCTAGTTGATG-ATC
1 CTTTTAAA-TTTAAAGTTTCA-TAGCCTCTAG-TCAAGAAAC
*
8549634 CTTTTGAATTTAAAGTTTCATAGCCTCTAGTCCAAGAAAC
1 CTTTTAAATTTAAAGTTTCATAGCCTCTAGT-CAAGAAAC
* * * *
8549674 CTTTTGAATTTAAAGTTTTATATCCTCTGGTCA
1 CTTTTAAATTTAAAGTTTCATAGCCTCTAGTCA
8549707 GCCACTAGTC
Statistics
Matches: 93, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
38 3 0.03
39 23 0.25
40 37 0.40
41 25 0.27
42 5 0.05
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (39 bp):
CTTTTAAATTTAAAGTTTCATAGCCTCTAGTCAAGAAAC
Found at i:8549928 original size:3 final size:3
Alignment explanation
Indices: 8549920--8549963 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
8549910 ATTTTGTTTA
8549920 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8549964 ATCTTTAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8550952 original size:20 final size:19
Alignment explanation
Indices: 8550920--8550957 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
8550910 TTTTTTCATT
8550920 TAATTTTCATTTTCATTTTC
1 TAATTTTCATTTT-ATTTTC
8550940 TAATTTT-AGTTTTATTTT
1 TAATTTTCA-TTTTATTTT
8550958 ATTTTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (19 bp):
TAATTTTCATTTTATTTTC
Found at i:8551332 original size:28 final size:28
Alignment explanation
Indices: 8551276--8551332 Score: 64
Period size: 28 Copynumber: 2.0 Consensus size: 28
8551266 AACAATTATT
* *
8551276 TATTTAAATAAATCTTTTAAAAATGCAA
1 TATTTAAATAAATATTTTAAAAATACAA
8551304 TATTTAAA-AAA-ATTTTAAAAGAGTACAA
1 TATTTAAATAAATATTTTAAAA-A-TACAA
8551332 T
1 T
8551333 TTTCTTAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 8 0.32
27 4 0.16
28 13 0.52
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (28 bp):
TATTTAAATAAATATTTTAAAAATACAA
Found at i:8560627 original size:8 final size:8
Alignment explanation
Indices: 8560602--8560635 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
8560592 CTCTTCTTTC
8560602 TTTTCTTAG
1 TTTT-TTAG
8560611 TTCTTTTAG
1 TT-TTTTAG
8560620 TTTTTTAG
1 TTTTTTAG
8560628 TTTTTTAG
1 TTTTTTAG
8560636 GTAAGTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 14 0.58
9 8 0.33
10 2 0.08
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.71
Consensus pattern (8 bp):
TTTTTTAG
Found at i:8565522 original size:17 final size:18
Alignment explanation
Indices: 8565502--8565581 Score: 62
Period size: 17 Copynumber: 4.6 Consensus size: 18
8565492 AAAGGTTTGC
8565502 AAAAGATTCAAGAATC-T
1 AAAAGATTCAAGAATCAT
* * * *
8565519 AAAAAATTTAAGATTCTT
1 AAAAGATTCAAGAATCAT
8565537 AAAAG-TTCAA-AATTCAT
1 AAAAGATTCAAGAA-TCAT
*
8565554 AAAA-ATTCAAAGATTCAT
1 AAAAGATTC-AAGAATCAT
8565572 AAAAG-TTCAA
1 AAAAGATTCAA
8565582 AATTTGCAAG
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
16 1 0.02
17 29 0.59
18 18 0.37
19 1 0.02
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.29
Consensus pattern (18 bp):
AAAAGATTCAAGAATCAT
Found at i:8565558 original size:18 final size:17
Alignment explanation
Indices: 8565531--8565585 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
8565521 AAAATTTAAG
*
8565531 ATTCTTAAAAGTTCAAA
1 ATTCATAAAAGTTCAAA
*
8565548 ATTCATAAAAATTCAAA
1 ATTCATAAAAGTTCAAA
8565565 GATTCATAAAAGTTCAAA
1 -ATTCATAAAAGTTCAAA
8565583 ATT
1 ATT
8565586 TGCAAGAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 18 0.53
18 16 0.47
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (17 bp):
ATTCATAAAAGTTCAAA
Found at i:8565596 original size:35 final size:35
Alignment explanation
Indices: 8565520--8565865 Score: 150
Period size: 35 Copynumber: 9.5 Consensus size: 35
8565510 CAAGAATCTA
* * ***
8565520 AAAAATT-TAAGATTCTTAAAAGTTCAAAATTCAT
1 AAAAATTCAAAGATTCATAAAAGTTCAAAATTTGC
8565554 AAAAATTCAAAGATTCATAAAAGTTCAAAATTTGC
1 AAAAATTCAAAGATTCATAAAAGTTCAAAATTTGC
* * *
8565589 AAGAATTCAAAGATTCACAAAAATTCAAATATTTGC
1 AAAAATTCAAAGATTCATAAAAGTTCAAA-ATTTGC
* * * * * *
8565625 AAAAGTTCCAA-CTT-TTCAAAATTTCAAAGATTTGGT
1 AAAAATTCAAAGATTCAT-AAAAGTTCAAA-ATTT-GC
* * *
8565661 AAAGATTCAAAGATTCACAAAAGTTCAAAGATTCT-A
1 AAAAATTCAAAGATTCATAAAAGTTCAAA-ATT-TGC
* * * **
8565697 AAAAGTTATTC-AAGACTCACAAAAAATTTCAAAGATTCAC
1 AAAA---ATTCAAAGA-T-TCATAAAAGTTCAAA-ATTTGC
* ** * *
8565737 AAAAAATT-TAAGATTC-GCAAAGATTTAAAATTTCGT
1 -AAAAATTCAAAGATTCATAAAAG-TTCAAAATTT-GC
* * *
8565773 AAAATATTC-AAGATTCGTAAAATTTCAAAGATTCGC
1 AAAA-ATTCAAAGATTCATAAAAGTTCAAA-ATTTGC
** * *
8565809 AAAAGATTTGAAGATTCACAAAAGATTCAAGATTTGC
1 AAAA-ATTCAAAGATTCATAAAAG-TTCAAAATTTGC
8565846 AAAGAATTCAAAGATTCATA
1 AAA-AATTCAAAGATTCATA
8565866 GGAAATTAAA
Statistics
Matches: 233, Mismatches: 55, Indels: 45
0.70 0.17 0.14
Matches are distributed among these distances:
34 7 0.03
35 74 0.32
36 55 0.24
37 54 0.23
38 18 0.08
39 5 0.02
40 16 0.07
41 4 0.02
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.29
Consensus pattern (35 bp):
AAAAATTCAAAGATTCATAAAAGTTCAAAATTTGC
Found at i:8565605 original size:53 final size:53
Alignment explanation
Indices: 8565537--8565689 Score: 166
Period size: 53 Copynumber: 2.9 Consensus size: 53
8565527 TAAGATTCTT
* *
8565537 AAAAGTTCAAA-ATTCATAAAAATTCAAAGATTCATAAAAGTTCAAAATTTGC
1 AAAATTTCAAAGATTCATAAAAATTCAAAGATTCACAAAAGTTCAAAATTTGC
* * ** * * *
8565589 AAGAA-TTCAAAGATTCACAAAAATTCAAATATTTGCAAAAGTTCCAACTTTTC
1 AA-AATTTCAAAGATTCATAAAAATTCAAAGATTCACAAAAGTTCAAAATTTGC
** *
8565642 AAAATTTCAAAGATTTGGTAAAGATTCAAAGATTCACAAAAGTTCAAA
1 AAAATTTCAAAGA-TTCATAAAAATTCAAAGATTCACAAAAGTTCAAA
8565690 GATTCTAAAA
Statistics
Matches: 81, Mismatches: 16, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
52 10 0.12
53 45 0.56
54 26 0.32
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (53 bp):
AAAATTTCAAAGATTCATAAAAATTCAAAGATTCACAAAAGTTCAAAATTTGC
Found at i:8565615 original size:18 final size:18
Alignment explanation
Indices: 8565537--8565863 Score: 150
Period size: 18 Copynumber: 17.9 Consensus size: 18
8565527 TAAGATTCTT
* *
8565537 AAAAGTTCAAA-ATTCAT
1 AAAAATTCAAAGATTCAC
*
8565554 AAAAATTCAAAGATTCAT
1 AAAAATTCAAAGATTCAC
* **
8565572 AAAAGTTCAAA-ATTTGC
1 AAAAATTCAAAGATTCAC
*
8565589 AAGAATTCAAAGATTCAC
1 AAAAATTCAAAGATTCAC
* **
8565607 AAAAATTCAAATATTTGC
1 AAAAATTCAAAGATTCAC
* * * **
8565625 AAAAGTTCCAA-CTTTTC
1 AAAAATTCAAAGATTCAC
* ***
8565642 AAAATTTCAAAGATTTGGT
1 AAAAATTCAAAGA-TTCAC
*
8565661 AAAGATTCAAAGATTCAC
1 AAAAATTCAAAGATTCAC
*
8565679 AAAAGTTCAAAGATTCTA-
1 AAAAATTCAAAGATTC-AC
*
8565697 AAAAGTTATTC-AAGACTCAC
1 AAAA---ATTCAAAGATTCAC
8565717 AAAAAATTTCAAAGATTCAC
1 -AAAAA-TTCAAAGATTCAC
* *
8565737 AAAAAATT-TAAGATTCGC
1 -AAAAATTCAAAGATTCAC
* * **
8565755 AAAGATTTAAA-ATTTCGT
1 AAAAATTCAAAGA-TTCAC
**
8565773 AAAATATTC-AAGATTCGT
1 AAAA-ATTCAAAGATTCAC
* *
8565791 AAAATTTCAAAGATTCGC
1 AAAAATTCAAAGATTCAC
**
8565809 AAAAGATTTGAAGATTCAC
1 AAAA-ATTCAAAGATTCAC
**
8565828 AAAAGATTC-AAGATTTGC
1 AAAA-ATTCAAAGATTCAC
8565846 AAAGAATTCAAAGATTCA
1 AAA-AATTCAAAGATTCA
8565864 TAGGAAATTA
Statistics
Matches: 239, Mismatches: 51, Indels: 38
0.73 0.16 0.12
Matches are distributed among these distances:
17 45 0.19
18 118 0.49
19 49 0.21
20 20 0.08
21 7 0.03
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (18 bp):
AAAAATTCAAAGATTCAC
Found at i:8565731 original size:20 final size:20
Alignment explanation
Indices: 8565708--8565745 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8565698 AAAGTTATTC
8565708 AAGACTCACAAAAAATTTCA
1 AAGACTCACAAAAAATTTCA
*
8565728 AAGATTCACAAAAAATTT
1 AAGACTCACAAAAAATTT
8565746 AAGATTCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.24
Consensus pattern (20 bp):
AAGACTCACAAAAAATTTCA
Found at i:8565860 original size:37 final size:38
Alignment explanation
Indices: 8565557--8565863 Score: 182
Period size: 37 Copynumber: 8.4 Consensus size: 38
8565547 AATTCATAAA
*
8565557 AATTCAAAGATTCATAAAAG-TTCAAA-ATTTGC-AAG
1 AATTCAAAGATTCACAAAAGATTCAAAGATTTGCAAAG
*
8565592 AATTCAAAGATTCACAAAA-ATTCAAATATTTGCAAA-
1 AATTCAAAGATTCACAAAAGATTCAAAGATTTGCAAAG
* * * ** * *
8565628 AGTTCCAA-CTTTTCAAAA-TTTCAAAGATTTGGTAAAG
1 AATTCAAAGATTCACAAAAGATTCAAAGATTT-GCAAAG
**
8565665 -ATTCAAAGATTCACAAAAG-TTCAAAGATTCTAAAAAG
1 AATTCAAAGATTCACAAAAGATTCAAAGATT-TGCAAAG
* * * ** *
8565702 TTATTC-AAGACTCACAAAAAATTTCAAAGATTCACAAAA
1 -AATTCAAAGATTCACAAAAGA-TTCAAAGATTTGCAAAG
* * * *
8565741 AATT-TAAGATTCGC-AAAGATTTAAA-ATTTCGTAAA-
1 AATTCAAAGATTCACAAAAGATTCAAAGATTT-GCAAAG
** * *
8565776 ATATTC-AAGATTCGTAAAA-TTTCAAAGATTCGCAAA-
1 A-ATTCAAAGATTCACAAAAGATTCAAAGATTTGCAAAG
**
8565812 AGATTTGAAGATTCACAAAAGATTC-AAGATTTGCAAAG
1 A-ATTCAAAGATTCACAAAAGATTCAAAGATTTGCAAAG
8565850 AATTCAAAGATTCA
1 AATTCAAAGATTCA
8565864 TAGGAAATTA
Statistics
Matches: 209, Mismatches: 42, Indels: 40
0.72 0.14 0.14
Matches are distributed among these distances:
35 45 0.22
36 53 0.25
37 66 0.32
38 27 0.13
39 8 0.04
40 10 0.05
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (38 bp):
AATTCAAAGATTCACAAAAGATTCAAAGATTTGCAAAG
Found at i:8565993 original size:27 final size:26
Alignment explanation
Indices: 8565952--8566029 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 26
8565942 AAGATTTGCA
*
8565952 AAAAATTTAATATTCACAAAGATTCAC
1 AAAAATTTAAGATTC-CAAAGATTCAC
**
8565979 AAAAATTTAAGATT-CAAAGATTTGC
1 AAAAATTTAAGATTCCAAAGATTCAC
*
8566004 AAAAGATTCAAGATTCGCAAATGATT
1 AAAA-ATTTAAGATTC-CAAA-GATT
8566030 TTAAAGATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
25 13 0.30
26 9 0.21
27 13 0.30
28 4 0.09
29 4 0.09
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (26 bp):
AAAAATTTAAGATTCCAAAGATTCAC
Found at i:8566011 original size:19 final size:19
Alignment explanation
Indices: 8565987--8566039 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
8565977 ACAAAAATTT
8565987 AAGATTCAAAGATTTGCAA
1 AAGATTCAAAGATTTGCAA
*
8566006 AAGATTC-AAGATTCGCAA
1 AAGATTCAAAGATTTGCAA
* *
8566024 ATGATTTTAAAGATTT
1 AAGA-TTCAAAGATTT
8566040 ACATTTGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 13 0.46
19 9 0.32
20 6 0.21
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.32
Consensus pattern (19 bp):
AAGATTCAAAGATTTGCAA
Found at i:8566040 original size:53 final size:53
Alignment explanation
Indices: 8565832--8566040 Score: 139
Period size: 53 Copynumber: 4.0 Consensus size: 53
8565822 ATTCACAAAA
* * ** *
8565832 GATTC-AAGATTTGC-AAAGAATTCAAAGATTCA-TAGGAAATTAAAGA--TAAC
1 GATTCAAAGATTTGCAAAAG-ATTC-AAGATTCACAAAGATTTTAAAGATTTAAT
* * * *
8565882 GATTCAAAGGTTTGCAAGAGATTCAAGATTCACAAAGAATTTTGAAGTTTGGTAATT
1 GATTCAAAGATTTGCAAAAGATTCAAGATTCACAAAG-ATTTTAAAGATT--TAA-T
* * * ** *
8565939 G-TT--AAGATTTGCAAAAAATTTAATATTCACAAAGATTCACAAAAATTTAA-
1 GATTCAAAGATTTGCAAAAGATTCAAGATTCACAAAGATT-TTAAAGATTTAAT
*
8565989 GATTCAAAGATTTGCAAAAGATTCAAGATTCGCAAATGATTTTAAAGATTTA
1 GATTCAAAGATTTGCAAAAGATTCAAGATTCACAAA-GATTTTAAAGATTTA
8566041 CATTTGAAAA
Statistics
Matches: 119, Mismatches: 26, Indels: 25
0.70 0.15 0.15
Matches are distributed among these distances:
50 14 0.12
51 16 0.13
52 12 0.10
53 37 0.31
54 34 0.29
56 5 0.04
57 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (53 bp):
GATTCAAAGATTTGCAAAAGATTCAAGATTCACAAAGATTTTAAAGATTTAAT
Found at i:8567119 original size:15 final size:15
Alignment explanation
Indices: 8567073--8567162 Score: 71
Period size: 15 Copynumber: 6.3 Consensus size: 15
8567063 ACATGAGTGT
*
8567073 AATGTTTATGGATGC
1 AATGTTTATGAATGC
* *
8567088 AATG--CATGAAAGC
1 AATGTTTATGAATGC
*
8567101 AATGTTTATGAATGT
1 AATGTTTATGAATGC
* * *
8567116 AATG--CATTAATGT
1 AATGTTTATGAATGC
* *
8567129 AATATTTATTAATGC
1 AATGTTTATGAATGC
8567144 AATGTTTATGAATGC
1 AATGTTTATGAATGC
8567159 AATG
1 AATG
8567163 CATGAATGCA
Statistics
Matches: 58, Mismatches: 13, Indels: 8
0.73 0.16 0.10
Matches are distributed among these distances:
13 20 0.34
15 38 0.66
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.38
Consensus pattern (15 bp):
AATGTTTATGAATGC
Found at i:8567136 original size:28 final size:28
Alignment explanation
Indices: 8567064--8567147 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
8567054 AAATAAGTTA
* *
8567064 CATGAGTGTAATGTTTATGGATGCAATG
1 CATGAATGTAATGTTTATGAATGCAATG
* * *
8567092 CATGAAAGCAATGTTTATGAATGTAATG
1 CATGAATGTAATGTTTATGAATGCAATG
* * *
8567120 CATTAATGTAATATTTATTAATGCAATG
1 CATGAATGTAATGTTTATGAATGCAATG
8567148 TTTATGAATG
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (28 bp):
CATGAATGTAATGTTTATGAATGCAATG
Found at i:8571074 original size:29 final size:29
Alignment explanation
Indices: 8571041--8571099 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
8571031 ATGAATACGT
*
8571041 ATGTTAGTGATGTTAGATTAAAATACAAC
1 ATGTTAGTGATGCTAGATTAAAATACAAC
8571070 ATGTTAGTGATGCTAGATTAAAATACAAC
1 ATGTTAGTGATGCTAGATTAAAATACAAC
8571099 A
1 A
8571100 CACAACATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.32
Consensus pattern (29 bp):
ATGTTAGTGATGCTAGATTAAAATACAAC
Found at i:8576021 original size:19 final size:19
Alignment explanation
Indices: 8575997--8576045 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
8575987 GTTATCATTA
8575997 ATTATTTATTATCAAAATT
1 ATTATTTATTATCAAAATT
*
8576016 ATTATTTGA-TATTAAAATT
1 ATTATTT-ATTATCAAAATT
* *
8576035 AATAATTATTA
1 ATTATTTATTA
8576046 ATTTATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 23 0.92
20 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTATTTATTATCAAAATT
Found at i:8578382 original size:19 final size:19
Alignment explanation
Indices: 8578336--8578388 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
8578326 ATTTTAGTTA
8578336 TTTTATT-TTTTAATAGAT
1 TTTTATTATTTTAATAGAT
*
8578354 TTTTATTTATTTTAATATAT
1 TTTTA-TTATTTTAATAGAT
*
8578374 TTTTATTATGTTAAT
1 TTTTATTATTTTAAT
8578389 TTCATACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (19 bp):
TTTTATTATTTTAATAGAT
Found at i:8578570 original size:19 final size:19
Alignment explanation
Indices: 8578546--8578586 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
8578536 AGGCATTTTG
8578546 TTATAT-TAAAAAAATTATT
1 TTATATCTAAAAAAA-TATT
8578565 TTATATGCTAAAAAAATATT
1 TTATAT-CTAAAAAAATATT
8578585 TT
1 TT
8578587 TAAATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 8 0.40
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
TTATATCTAAAAAAATATT
Found at i:8581751 original size:63 final size:63
Alignment explanation
Indices: 8581678--8581811 Score: 232
Period size: 63 Copynumber: 2.1 Consensus size: 63
8581668 TGATCTTTAC
*
8581678 TTGCCTAGCTTCCATATGTAGTGAAAGAGTCAAATGCAATACTTGGTCCTACCATGGTCTTGT
1 TTGCCTAGCTTCCATATGTAGTGAAAGAGTCAAATGCAATACTTGGTCCCACCATGGTCTTGT
* * *
8581741 TTGCCTAGCTTCCATATTTTGTGAAAGAGTCAAATGCAATACTTGGTCCCACCATGGTCTTTT
1 TTGCCTAGCTTCCATATGTAGTGAAAGAGTCAAATGCAATACTTGGTCCCACCATGGTCTTGT
8581804 TTGCCTAG
1 TTGCCTAG
8581812 TTTTTTTTTA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (63 bp):
TTGCCTAGCTTCCATATGTAGTGAAAGAGTCAAATGCAATACTTGGTCCCACCATGGTCTTGT
Found at i:8582085 original size:3 final size:3
Alignment explanation
Indices: 8582019--8582068 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
8582009 AAAAATATAT
* *
8582019 ATA ATG ATA ATA ATA ATA TTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8582067 AT
1 AT
8582069 GCTAAAATGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:8587710 original size:15 final size:15
Alignment explanation
Indices: 8587677--8587720 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
8587667 CAAATGTCCC
8587677 AAAAAAAAAA-A-AA
1 AAAAAAAAAAGAGAA
*
8587690 ACAAAAAAAAGAGAA
1 AAAAAAAAAAGAGAA
*
8587705 AAAAAAGAAAGAGAA
1 AAAAAAAAAAGAGAA
8587720 A
1 A
8587721 TGAAAAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 9 0.35
14 1 0.04
15 16 0.62
ACGTcount: A:0.86, C:0.02, G:0.11, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAGAGAA
Found at i:8589758 original size:42 final size:40
Alignment explanation
Indices: 8589657--8589770 Score: 133
Period size: 42 Copynumber: 2.8 Consensus size: 40
8589647 CTACATCACT
8589657 AAAAAAA-ATATTCGTATTTGCATCACTTGCATCTACAAG
1 AAAAAAAGATATTCGTATTTGCATCACTTGCATCTACAAG
* * * *
8589696 AAAAAAAGACATTCGCATTTGCAGTCACATCTGTATC-ATAAG
1 AAAAAAAGATATTCGTATTTGCA-TCAC-T-TGCATCTACAAG
* *
8589738 AAAAAAAGATATTTGTATTTGCATCATTTGCAT
1 AAAAAAAGATATTCGTATTTGCATCACTTGCAT
8589771 TTGGATCACT
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
39 11 0.18
40 14 0.23
41 7 0.11
42 25 0.40
43 5 0.08
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (40 bp):
AAAAAAAGATATTCGTATTTGCATCACTTGCATCTACAAG
Found at i:8589772 original size:15 final size:15
Alignment explanation
Indices: 8589748--8589794 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
8589738 AAAAAAAGAT
*
8589748 ATTTGTATTTGCATC
1 ATTTGCATTTGCATC
*
8589763 ATTTGCATTTGGATC
1 ATTTGCATTTGCATC
*
8589778 ACTTGCATTTGCATC
1 ATTTGCATTTGCATC
8589793 AT
1 AT
8589795 GAAAAAGACA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.47
Consensus pattern (15 bp):
ATTTGCATTTGCATC
Found at i:8589841 original size:41 final size:41
Alignment explanation
Indices: 8589762--8590326 Score: 344
Period size: 41 Copynumber: 13.7 Consensus size: 41
8589752 GTATTTGCAT
* * **
8589762 CATTTGCATTTGGATCACTTGCATTTGCATCATGAAAAAGA
1 CATTTGCATTTGCATCACTTGCATCTGCATCACAAAAAAGA
* * *
8589803 CATTAGCATTTGCATCACTTGTATCTGCGTCACAAAAAAGA
1 CATTTGCATTTGCATCACTTGCATCTGCATCACAAAAAAGA
* * *
8589844 CATTCGCATTTGCATTCA----CATCTACATCACGAAAAAAAA
1 CATTTGCATTTGCA-TCACTTGCATCTGCATCAC-AAAAAAGA
* * * *
8589883 AATTTACATTTGCATCGCTTGCAT-T---T-ACAAAAAAAA
1 CATTTGCATTTGCATCACTTGCATCTGCATCACAAAAAAGA
* *
8589919 AATTTGCATTTGCAGTCA----CATCTGCATCACAAGAAAAAAAA
1 CATTTGCATTTGCA-TCACTTGCATCTGCATCAC---AAAAAAGA
* * *
8589960 CATTTGCATTTGCATCACTTACATTTGTATCA-ATCAAAAAGA
1 CATTTGCATTTGCATCACTTGCATCTGCATCACA--AAAAAGA
* * * **
8590002 TATTTGCATTTTG-ATCACTTGCATTTGCACCATGAAAAAGA
1 CATTTGCA-TTTGCATCACTTGCATCTGCATCACAAAAAAGA
* *
8590043 CATTAGCATTTGCATCACTTGCATCTGTATCACAAAAAAGA
1 CATTTGCATTTGCATCACTTGCATCTGCATCACAAAAAAGA
* * * *
8590084 CATTCGCATTTGCATTCA----CATTTGCATCATAGAAAAGGA
1 CATTTGCATTTGCA-TCACTTGCATCTGCATCACA-AAAAAGA
* * *
8590123 CATTTGCATTTGTATCACTTGCATTCGTACTTGTATTTGCATTATGAAAAAGA
1 CATTTGCATTTGCATCACTTGCA----T-C-TGCA--T-CA-CA--AAAAAGA
* * *
8590176 CATTAGCATTTGCATCACTTGTATCTGCATTACAAAAAAGA
1 CATTTGCATTTGCATCACTTGCATCTGCATCACAAAAAAGA
* * * * *
8590217 CATTTGCATTTGCATTATTTACATCTACA--AAAAACAAAGA
1 CATTTGCATTTGCATCACTTGCATCTGCATCACAAA-AAAGA
* * * *
8590257 CATTTGCATTTGCATTACTTGCATCTGTATTACAAGAAAGA
1 CATTTGCATTTGCATCACTTGCATCTGCATCACAAAAAAGA
* *
8590298 CATTCGCATTTGCATCACTTGCATTTGCA
1 CATTTGCATTTGCATCACTTGCATCTGCA
8590327 CTCGTATAAG
Statistics
Matches: 413, Mismatches: 67, Indels: 88
0.73 0.12 0.15
Matches are distributed among these distances:
33 3 0.01
34 1 0.00
36 21 0.05
37 5 0.01
38 27 0.07
39 40 0.10
40 38 0.09
41 178 0.43
42 43 0.10
43 5 0.01
44 10 0.02
45 1 0.00
46 1 0.00
47 3 0.01
48 4 0.01
49 1 0.00
50 1 0.00
51 2 0.00
52 2 0.00
53 27 0.07
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (41 bp):
CATTTGCATTTGCATCACTTGCATCTGCATCACAAAAAAGA
Found at i:8589938 original size:75 final size:76
Alignment explanation
Indices: 8589834--8589985 Score: 207
Period size: 75 Copynumber: 2.0 Consensus size: 76
8589824 TATCTGCGTC
* * *
8589834 ACAAAAAAGACATTCGCATTTGCATTCACATCTACATCAC-GAAAAAAAAAATTTACATTTGCAT
1 ACAAAAAAAAAATTCGCATTTGCAGTCACATCTACATCACAGAAAAAAAAAATTTACATTTGCAT
* *
8589898 CGCTTGCATTT
66 CACTTACATTT
* * * *
8589909 ACAAAAAAAAAATTTGCATTTGCAGTCACATCTGCATCACAAGAAAAAAAACATTTGCATTTGCA
1 ACAAAAAAAAAATTCGCATTTGCAGTCACATCTACATCAC-AGAAAAAAAAAATTTACATTTGCA
8589974 TCACTTACATTT
65 TCACTTACATTT
8589986 GTATCAATCA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
75 35 0.53
77 31 0.47
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.29
Consensus pattern (76 bp):
ACAAAAAAAAAATTCGCATTTGCAGTCACATCTACATCACAGAAAAAAAAAATTTACATTTGCAT
CACTTACATTT
Found at i:8590767 original size:22 final size:22
Alignment explanation
Indices: 8590742--8590786 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
8590732 AAGCTGGCAC
8590742 CCAAACATAATTTCTAAGACCT
1 CCAAACATAATTTCTAAGACCT
* *
8590764 CCAAGCATAATTTTTAAGACCT
1 CCAAACATAATTTCTAAGACCT
8590786 C
1 C
8590787 TAGGCAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.38, C:0.27, G:0.07, T:0.29
Consensus pattern (22 bp):
CCAAACATAATTTCTAAGACCT
Found at i:8590910 original size:103 final size:103
Alignment explanation
Indices: 8590754--8591436 Score: 723
Period size: 103 Copynumber: 6.6 Consensus size: 103
8590744 AAACATAATT
* *
8590754 TCTAAGACCTCCAAGCATAATTTTTAAGACC-TCTAGGCAAAACATTTTAAATTTTTAAAGTTTC
1 TCTAAGACCT-CGAGCATAATTTTTAAGACCTTC-GGGCAAAACATTTTAAATTTTTAAAGTTTC
** *
8590818 ATGGCCTTTGATTGGATAAGCATTCAAAGATTTTAAAATC
64 ATGGCCTTTGATTGGAGGAGCATTCAAAGATTTTGAAATC
* * *
8590858 TTTAAGACCTCTAGCATAATTTTTTAGACCTTCGGGCAAAACATTTTAAATTTTTAAAGTTTCAT
1 TCTAAGACCTCGAGCATAATTTTTAAGACCTTCGGGCAAAACATTTTAAATTTTTAAAGTTTCAT
* *
8590923 GGCCTTTAATTGGAGGAGCATTCAAAGGTTTTGAAATC
66 GGCCTTTGATTGGAGGAGCATTCAAAGATTTTGAAATC
* * ** * *
8590961 TCTGAGACCTTCAAGCATAATTTTTAAGATTTTCAGGCAAAATATTTTAAATTTTTAAAGTTTCA
1 TCTAAGACC-TCGAGCATAATTTTTAAGACCTTCGGGCAAAACATTTTAAATTTTTAAAGTTTCA
* * * *
8591026 AGGCCTCTAATTGGAGGAGTATTCAAAGATTTTGAAATC
65 TGGCCTTTGATTGGAGGAGCATTCAAAGATTTTGAAATC
* * * ** *
8591065 TCTGAGACCTCCGGGCATAATTTTTAAGATC-TCTAAGC-AAACTGTTTTAAA-TTTTAAAGTTT
1 TCTAAGACCT-CGAGCATAATTTTTAAGACCTTC-GGGCAAAAC-ATTTTAAATTTTTAAAGTTT
* * * *
8591127 CATAGCCTTTGATTAGATGAGCATTCAAAGATTTTGAAATT
63 CATGGCCTTTGATTGGAGGAGCATTCAAAGATTTTGAAATC
* ** * * *
8591168 TCTAGGAGTTTCGAGCATAATTTTTAAGACCTTTGAGCAAAATATTTTAAATTTTTAAAGTTTCA
1 TCTAAGA-CCTCGAGCATAATTTTTAAGACCTTCGGGCAAAACATTTTAAATTTTTAAAGTTTCA
* * *
8591233 TGGCCTTTGATTAGAGGAGCATTTAAAGTTTTTGAAATC
65 TGGCCTTTGATTGGAGGAGCATTCAAAGATTTTGAAATC
* * * * *
8591272 TCTAAAACCTCTTG-GCA-AATTTTCAAGACCTTTGAGCAAAATATTTTAAATTTTTAAAGTTTC
1 TCTAAGACCTC--GAGCATAATTTTTAAGACCTTCGGGCAAAACATTTTAAATTTTTAAAGTTTC
* * *
8591335 AT-GCCTCTGATTGGAGAAGCATTTAAAGATTTTGAAATC
64 ATGGCCTTTGATTGGAGGAGCATTCAAAGATTTTGAAATC
* * * * * * * * *
8591374 TCTAAGACTTTCGGGCACAATTTTCATGACCTTCGGGTAAAACCTTTTAAAATTTCAAAGTTT
1 TCTAAGAC-CTCGAGCATAATTTTTAAGACCTTCGGGCAAAACATTTTAAATTTTTAAAGTTT
8591437 TAATGCCTAT
Statistics
Matches: 496, Mismatches: 69, Indels: 29
0.84 0.12 0.05
Matches are distributed among these distances:
101 1 0.00
102 43 0.09
103 260 0.52
104 191 0.39
105 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (103 bp):
TCTAAGACCTCGAGCATAATTTTTAAGACCTTCGGGCAAAACATTTTAAATTTTTAAAGTTTCAT
GGCCTTTGATTGGAGGAGCATTCAAAGATTTTGAAATC
Done.