Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, 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: 7920512
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 38 of 39
Found at i:7491312 original size:20 final size:20
Alignment explanation
Indices: 7491248--7491311 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
7491238 TCTAGAAAAT
7491248 TAAAGCCTTCGGGTCATTTG
1 TAAAGCCTTCGGGTCATTTG
*
7491268 TAAAGCTTTCGGGTCATTTG
1 TAAAGCCTTCGGGTCATTTG
*
7491288 TAAATCCTTCGGGTCATTTG
1 TAAAGCCTTCGGGTCATTTG
7491308 TAAA
1 TAAA
7491312 TTTTTTGGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (20 bp):
TAAAGCCTTCGGGTCATTTG
Found at i:7491321 original size:20 final size:20
Alignment explanation
Indices: 7491255--7491324 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
7491245 AATTAAAGCC
*
7491255 TTCGGGTCATTTGTAAAGCT
1 TTCGGGTCATTTGTAAATCT
*
7491275 TTCGGGTCATTTGTAAATCC
1 TTCGGGTCATTTGTAAATCT
*
7491295 TTCGGGTCATTTGTAAATTT
1 TTCGGGTCATTTGTAAATCT
*
7491315 TTTGGGTCAT
1 TTCGGGTCAT
7491325 CTGTCAGTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.19, C:0.14, G:0.23, T:0.44
Consensus pattern (20 bp):
TTCGGGTCATTTGTAAATCT
Found at i:7499049 original size:20 final size:21
Alignment explanation
Indices: 7499010--7499054 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
7499000 GGCATAATTC
* *
7499010 TTCACCTAAGAGACATGATGT
1 TTCACCCAAGAGACATGATGA
*
7499031 TTCACCCAA-AGAGATGATGA
1 TTCACCCAAGAGACATGATGA
7499051 TTCA
1 TTCA
7499055 TCTCAAAGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (21 bp):
TTCACCCAAGAGACATGATGA
Found at i:7499682 original size:3 final size:3
Alignment explanation
Indices: 7499674--7499710 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
7499664 TTAATCCGAG
7499674 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7499711 ATATTATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:7500184 original size:21 final size:21
Alignment explanation
Indices: 7500160--7500257 Score: 81
Period size: 21 Copynumber: 4.7 Consensus size: 21
7500150 AGAGGTTAAG
*
7500160 ACCTTTCGATGAAGGGACTTA
1 ACCTTTTGATGAAGGGACTTA
* ** *
7500181 ACCTTTTGATTAAAAGACTTC
1 ACCTTTTGATGAAGGGACTTA
*
7500202 TCCTTTTGATGAAGTGG-CTTA
1 ACCTTTTGATGAAG-GGACTTA
* * *
7500223 ACCTTTTCATGAAAGGATTTA
1 ACCTTTTGATGAAGGGACTTA
* *
7500244 ATCTTTTCATGAAG
1 ACCTTTTGATGAAG
7500258 AGAATCGTTG
Statistics
Matches: 59, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
20 2 0.03
21 56 0.95
22 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (21 bp):
ACCTTTTGATGAAGGGACTTA
Found at i:7503150 original size:21 final size:21
Alignment explanation
Indices: 7503126--7503168 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
7503116 TTCTGGGTTG
7503126 TGTGCATCGATGCA-TCTTCAA
1 TGTGCATCGATGCACTC-TCAA
*
7503147 TGTGTATCGATGCACTCTCAA
1 TGTGCATCGATGCACTCTCAA
7503168 T
1 T
7503169 TAAAGAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (21 bp):
TGTGCATCGATGCACTCTCAA
Found at i:7503210 original size:19 final size:19
Alignment explanation
Indices: 7503186--7503224 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
7503176 GCATCAAATG
7503186 TAATTCGTGCATCGATGCA
1 TAATTCGTGCATCGATGCA
7503205 TAATTCGTGCATCGATGCA
1 TAATTCGTGCATCGATGCA
7503224 T
1 T
7503225 CCCCTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (19 bp):
TAATTCGTGCATCGATGCA
Found at i:7507328 original size:21 final size:21
Alignment explanation
Indices: 7507299--7507341 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
7507289 TTCTAGGTTG
7507299 TGTGCATCGATGCA-TCTTCAA
1 TGTGCATCGATGCACTC-TCAA
*
7507320 TGTGTATCGATGCACTCTCAA
1 TGTGCATCGATGCACTCTCAA
7507341 T
1 T
7507342 TAAAGAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (21 bp):
TGTGCATCGATGCACTCTCAA
Found at i:7507794 original size:17 final size:16
Alignment explanation
Indices: 7507772--7507838 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 16
7507762 ATTCATTAAC
7507772 ATGAGTATATGTTTGTT
1 ATGAGTATATGTTTG-T
7507789 ATGAGTTATATGTTATCGT
1 ATGAG-TATATGTT-T-GT
*
7507808 ATGTGTGATATGATTTGT
1 ATGAGT-ATATG-TTTGT
*
7507826 ATGAATATATGTT
1 ATGAGTATATGTT
7507839 AGTGTGATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
16 2 0.05
17 10 0.24
18 15 0.36
19 12 0.29
20 3 0.07
ACGTcount: A:0.27, C:0.01, G:0.22, T:0.49
Consensus pattern (16 bp):
ATGAGTATATGTTTGT
Found at i:7510334 original size:3 final size:3
Alignment explanation
Indices: 7510326--7510350 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7510316 TTAATCCGAG
7510326 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
7510351 ATATTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:7510864 original size:21 final size:21
Alignment explanation
Indices: 7510840--7510893 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
7510830 AAAGACTTCT
* *
7510840 CCTTTTGATGAAAGGGTTTAA
1 CCTTTTCATGAAAGGATTTAA
*
7510861 CCTTTTCAAGAAAGGATTTAA
1 CCTTTTCATGAAAGGATTTAA
*
7510882 TCTTTTCATGAA
1 CCTTTTCATGAA
7510894 GAGAATTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (21 bp):
CCTTTTCATGAAAGGATTTAA
Found at i:7512791 original size:24 final size:25
Alignment explanation
Indices: 7512746--7512797 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
7512736 ATAGAAAAAT
7512746 AAAATCAATTTTTAAATAAATTAAA
1 AAAATCAATTTTTAAATAAATTAAA
*
7512771 AAAATTCAA-TTTTAAAT-AATTCAA
1 AAAA-TCAATTTTTAAATAAATTAAA
7512795 AAA
1 AAA
7512798 CTATAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 12 0.48
26 4 0.16
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (25 bp):
AAAATCAATTTTTAAATAAATTAAA
Found at i:7512797 original size:26 final size:28
Alignment explanation
Indices: 7512740--7512797 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 28
7512730 TTACAAATAG
7512740 AAAAATAAAATCAATTTTTAAATAAATT
1 AAAAATAAAATCAATTTTTAAATAAATT
*
7512768 -AAAA-AAATTCAA-TTTTAAAT-AATT
1 AAAAATAAAATCAATTTTTAAATAAATT
7512792 CAAAAA
1 -AAAAA
7512798 CTATAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 4 0.15
25 8 0.30
26 11 0.41
27 4 0.15
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (28 bp):
AAAAATAAAATCAATTTTTAAATAAATT
Found at i:7517463 original size:36 final size:36
Alignment explanation
Indices: 7517411--7517488 Score: 138
Period size: 36 Copynumber: 2.2 Consensus size: 36
7517401 AAGTATGAAC
*
7517411 TAAAAATGTCACTTAGCATAAGCAAGAAATAAAAAT
1 TAAACATGTCACTTAGCATAAGCAAGAAATAAAAAT
*
7517447 TAAACATGTCACTTAGCATAAGCAAGAATTAAAAAT
1 TAAACATGTCACTTAGCATAAGCAAGAAATAAAAAT
7517483 TAAACA
1 TAAACA
7517489 ATCTATGTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.54, C:0.13, G:0.10, T:0.23
Consensus pattern (36 bp):
TAAACATGTCACTTAGCATAAGCAAGAAATAAAAAT
Found at i:7536511 original size:28 final size:28
Alignment explanation
Indices: 7536479--7536533 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
7536469 TTGTCGTTAC
*
7536479 TTTCAAGCACTGACTCGATGACATAATA
1 TTTCAAACACTGACTCGATGACATAATA
7536507 TTTCAAACACTGACTCGATGACATAAT
1 TTTCAAACACTGACTCGATGACATAAT
7536534 GTAAATGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (28 bp):
TTTCAAACACTGACTCGATGACATAATA
Found at i:7537346 original size:38 final size:36
Alignment explanation
Indices: 7537256--7537365 Score: 166
Period size: 38 Copynumber: 3.0 Consensus size: 36
7537246 AAGCAATTAA
* * *
7537256 GGGTTTCGCTTATATGTTATACTAGTTTTGATGTAT
1 GGGTTTTGCTTATATGTTATACTAGTTCTGCTGTAT
*
7537292 GGCTTTTGCTTATATGTTATACTAGTTCTGCTGTAT
1 GGGTTTTGCTTATATGTTATACTAGTTCTGCTGTAT
7537328 GGGGGTTTTGCTTATATGTTATACTAGTTCTGCTGTAT
1 --GGGTTTTGCTTATATGTTATACTAGTTCTGCTGTAT
7537366 CAGTTTTTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
36 32 0.48
38 35 0.52
ACGTcount: A:0.17, C:0.11, G:0.23, T:0.49
Consensus pattern (36 bp):
GGGTTTTGCTTATATGTTATACTAGTTCTGCTGTAT
Found at i:7544025 original size:14 final size:14
Alignment explanation
Indices: 7544006--7544081 Score: 98
Period size: 14 Copynumber: 5.4 Consensus size: 14
7543996 CGTTCGATAA
*
7544006 TATGTTCGTTTATT
1 TATGTTCGTTCATT
*
7544020 TATGTTCGTTTATT
1 TATGTTCGTTCATT
*
7544034 TATGTTCGTTCGTT
1 TATGTTCGTTCATT
* *
7544048 TATGCTCGTTCGTT
1 TATGTTCGTTCATT
*
7544062 TATGTGCGTTCATT
1 TATGTTCGTTCATT
7544076 TATGTT
1 TATGTT
7544082 TAGCTCAATC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 55 1.00
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.58
Consensus pattern (14 bp):
TATGTTCGTTCATT
Found at i:7544264 original size:10 final size:10
Alignment explanation
Indices: 7544249--7544316 Score: 55
Period size: 10 Copynumber: 6.2 Consensus size: 10
7544239 TATATTTTCA
*
7544249 TTTATGTTTG
1 TTTATGTTCG
7544259 TTTATGTTCG
1 TTTATGTTCG
7544269 TTTATTGTATTCG
1 TTTA-TG--TTCG
*
7544282 TTTACGTTCG
1 TTTATGTTCG
*
7544292 TTTATTGTGTTCA
1 TTTA---TGTTCG
7544305 TTTATGTTCG
1 TTTATGTTCG
7544315 TT
1 TT
7544317 CATTTGTGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
10 28 0.60
11 2 0.04
12 1 0.02
13 16 0.34
ACGTcount: A:0.12, C:0.09, G:0.18, T:0.62
Consensus pattern (10 bp):
TTTATGTTCG
Found at i:7544285 original size:23 final size:23
Alignment explanation
Indices: 7544253--7544333 Score: 108
Period size: 23 Copynumber: 3.5 Consensus size: 23
7544243 TTTTCATTTA
*
7544253 TGTTTGTTTATGTTCGTTTATTG
1 TGTTCGTTTATGTTCGTTTATTG
* *
7544276 TATTCGTTTACGTTCGTTTATTG
1 TGTTCGTTTATGTTCGTTTATTG
* *
7544299 TGTTCATTTATGTTCGTTCATTTG
1 TGTTCGTTTATGTTCGTTTA-TTG
7544323 TGTTCGTTTAT
1 TGTTCGTTTAT
7544334 CATTTAAATG
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 36 0.73
24 13 0.27
ACGTcount: A:0.11, C:0.10, G:0.19, T:0.60
Consensus pattern (23 bp):
TGTTCGTTTATGTTCGTTTATTG
Found at i:7544319 original size:14 final size:14
Alignment explanation
Indices: 7544300--7544330 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7544290 CGTTTATTGT
7544300 GTTCATTTATGTTC
1 GTTCATTTATGTTC
*
7544314 GTTCATTTGTGTTC
1 GTTCATTTATGTTC
7544328 GTT
1 GTT
7544331 TATCATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.13, G:0.19, T:0.58
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:7549300 original size:12 final size:12
Alignment explanation
Indices: 7549285--7549319 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
7549275 GCACATATAC
7549285 CATCATTATCAA
1 CATCATTATCAA
**
7549297 CATCAACATCAA
1 CATCATTATCAA
7549309 CATCATTATCA
1 CATCATTATCA
7549320 TGATCTCTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (12 bp):
CATCATTATCAA
Found at i:7549729 original size:31 final size:31
Alignment explanation
Indices: 7549671--7549797 Score: 173
Period size: 31 Copynumber: 4.1 Consensus size: 31
7549661 ACTCTTATAA
* * *
7549671 TAATATGTTCATATGTCCCTAAGAACATAGG
1 TAATTTGTCCATATGTCCCGAAGAACATAGG
* * *
7549702 TAATTTGTCCATACGTCCCGAAAAACATGGG
1 TAATTTGTCCATATGTCCCGAAGAACATAGG
* * *
7549733 TAATCTGTCTATATGTCCCGAAGAATATAGG
1 TAATTTGTCCATATGTCCCGAAGAACATAGG
7549764 TAATTTGTCCATATGTCCCGAAGAACATAGG
1 TAATTTGTCCATATGTCCCGAAGAACATAGG
7549795 TAA
1 TAA
7549798 CCCTTGACTC
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (31 bp):
TAATTTGTCCATATGTCCCGAAGAACATAGG
Found at i:7551099 original size:30 final size:30
Alignment explanation
Indices: 7551044--7551108 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
7551034 TATTCATAAT
* * * *
7551044 TTTTCTAAAATTATCGAATTGGTCCCCCAAC
1 TTTTCAAAAATTATCAAAATGGT-CCCCAAA
7551075 TTTTCAAAAATTA-CAAAATGGTCCCCAAA
1 TTTTCAAAAATTATCAAAATGGTCCCCAAA
7551104 TTTTC
1 TTTTC
7551109 TAAGGTTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 11 0.37
30 7 0.23
31 12 0.40
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (30 bp):
TTTTCAAAAATTATCAAAATGGTCCCCAAA
Found at i:7551907 original size:30 final size:31
Alignment explanation
Indices: 7551873--7551939 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
7551863 GACCAATTGT
*
7551873 AACTTTTT-AAA-ATTACAATTTTGGTCTCTA
1 AACTTTTTCAAAGATTA-AATTTTGGTCACTA
* *
7551903 AACTTTTTCAAAGTTTATATTTTGGTCACTA
1 AACTTTTTCAAAGATTAAATTTTGGTCACTA
7551934 AACTTT
1 AACTTT
7551940 CAAAATCTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 8 0.25
31 21 0.66
32 3 0.09
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.48
Consensus pattern (31 bp):
AACTTTTTCAAAGATTAAATTTTGGTCACTA
Found at i:7551957 original size:30 final size:30
Alignment explanation
Indices: 7551873--7551964 Score: 98
Period size: 30 Copynumber: 3.0 Consensus size: 30
7551863 GACCAATTGT
* * *
7551873 AACTTTTTAAAA-TTACAATTTTGGTCTCTA
1 AACTTTTCAAAATTTATAA-TTTGGTCACTA
* *
7551903 AACTTTTTCAAAGTTTATATTTTGGTCACTA
1 AAC-TTTTCAAAATTTATAATTTGGTCACTA
7551934 AAC-TTTCAAAATCTTATAATTTGGTCACTA
1 AACTTTTCAAAAT-TTATAATTTGGTCACTA
7551964 A
1 A
7551965 CTAAATCCAT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
29 8 0.15
30 20 0.38
31 20 0.38
32 4 0.08
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.45
Consensus pattern (30 bp):
AACTTTTCAAAATTTATAATTTGGTCACTA
Found at i:7552427 original size:21 final size:23
Alignment explanation
Indices: 7552380--7552432 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
7552370 TCAAAATTTT
*
7552380 AAATATAAAATACCAAAAATTAA
1 AAATATAAAATACAAAAAATTAA
*
7552403 AAAT-TAAATTACAAAAAATTAA
1 AAATATAAAATACAAAAAATTAA
7552425 AATATATA
1 AA-ATATA
7552433 TTATTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 18 0.69
23 6 0.23
24 2 0.08
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (23 bp):
AAATATAAAATACAAAAAATTAA
Found at i:7553504 original size:14 final size:14
Alignment explanation
Indices: 7553485--7553516 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
7553475 ATAGAAACTG
7553485 GAATAACTCGGCTC
1 GAATAACTCGGCTC
*
7553499 GAATAACTCTGCTC
1 GAATAACTCGGCTC
7553513 GAAT
1 GAAT
7553517 TTCTGAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (14 bp):
GAATAACTCGGCTC
Found at i:7556771 original size:13 final size:14
Alignment explanation
Indices: 7556753--7556787 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
7556743 TCTAATAAAG
7556753 TATTATTTAATT-A
1 TATTATTTAATTAA
*
7556766 TATTATTTATTTAA
1 TATTATTTAATTAA
7556780 TATTATTT
1 TATTATTT
7556788 TTGAATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTTAATTAA
Found at i:7564510 original size:20 final size:22
Alignment explanation
Indices: 7564469--7564512 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 22
7564459 AAGAAAAAGA
7564469 AATAAATTAAAAATGAAATAATG
1 AATAAATTAAAAAT-AAATAATG
7564492 AATAAA-TAAAAAT-AATAATG
1 AATAAATTAAAAATAAATAATG
7564512 A
1 A
7564513 TGACAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.38
22 7 0.33
23 6 0.29
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (22 bp):
AATAAATTAAAAATAAATAATG
Found at i:7564515 original size:23 final size:23
Alignment explanation
Indices: 7564469--7564515 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
7564459 AAGAAAAAGA
*
7564469 AATAAATTAAAAATGAAATAATG
1 AATAAATTAAAAATAAAATAATG
*
7564492 AATAAA-TAAAAATAATAATGATG
1 AATAAATTAAAAATAA-AATAATG
7564515 A
1 A
7564516 CAAAAATGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (23 bp):
AATAAATTAAAAATAAAATAATG
Found at i:7565131 original size:131 final size:132
Alignment explanation
Indices: 7564984--7565248 Score: 523
Period size: 131 Copynumber: 2.0 Consensus size: 132
7564974 TTTAAAAAAT
7564984 TACTCTTTTTACGGTCTAAATTATACCTCAAAATACGATTTGATGTTTAAAGAATTTTTTTCTAA
1 TACTCTTTTTACGGTCTAAATTATACCTCAAAATACGATTTGATGTTTAAAGAATTTTTTTCTAA
7565049 AAAAAATGTGTCTAATTTTTTCTTTGTTACACTTGAGTGTCTACCGTTACAATTTTTTATTTTTT
66 AAAAAATGTGTCTAATTTTTTCTTTGTTACACTTGAGTGTCTACCGTTACAATTTTTTATTTTTT
7565114 AA
131 AA
7565116 TACTC-TTTTACGGTCTAAATTATACCTCAAAATACGATTTGATGTTTAAAGAATTTTTTTCTAA
1 TACTCTTTTTACGGTCTAAATTATACCTCAAAATACGATTTGATGTTTAAAGAATTTTTTTCTAA
7565180 AAAAAATGTGTCTAATTTTTTCTTTGTTACACTTGAGTGTCTACCGTTACAATTTTTTATTTTTT
66 AAAAAATGTGTCTAATTTTTTCTTTGTTACACTTGAGTGTCTACCGTTACAATTTTTTATTTTTT
7565245 AA
131 AA
7565247 TA
1 TA
7565249 ATAAAAATAT
Statistics
Matches: 133, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
131 128 0.96
132 5 0.04
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.48
Consensus pattern (132 bp):
TACTCTTTTTACGGTCTAAATTATACCTCAAAATACGATTTGATGTTTAAAGAATTTTTTTCTAA
AAAAAATGTGTCTAATTTTTTCTTTGTTACACTTGAGTGTCTACCGTTACAATTTTTTATTTTTT
AA
Found at i:7567413 original size:163 final size:162
Alignment explanation
Indices: 7566932--7567413 Score: 714
Period size: 162 Copynumber: 3.0 Consensus size: 162
7566922 GGCCACCACT
* * * * *
7566932 CTTGAAACTGCCGATGGTATCACGGTTTCTATTAGCGGCTTCATCAATACCTCTCGTACGCTTGA
1 CTTGAAACTGCCGATGGCATCACAGTTGCTATCAGCGGCTTCATCAATACCTCTTGTACGCTTGA
* * * **
7566997 AAATGGCTTTTCATCAAAGGTTGAATTTCTCATTGCAATGCTATTCATGCTTATCCTGTTAACGT
66 AAATGGCTTTTCATCTAAGGTTGAGTTTCTCATTGCACTGCTATTCATGCTTATCCTGTTAATAT
* * *
7567062 TTGCCGATAATATCATCTTATCATATCCCTATG
131 TTGCCAACAAT-TCATCTTATCGTATCCCTATG
* * * *
7567095 CTTGAAACTGCCGATGGCATCACAATTGCTATCAGCGGCTTCATAAATACCTCTTGTATGCGTG-
1 CTTGAAACTGCCGATGGCATCACAGTTGCTATCAGCGGCTTCATCAATACCTCTTGTACGCTTGA
* *
7567159 AAATGGCTTTTCATCTAAGGTTGAGTTTCTCATTGCACCGCTATTCATGCTTATCCTGTTACTAT
66 AAATGGCTTTTCATCTAAGGTTGAGTTTCTCATTGCACTGCTATTCATGCTTATCCTGTTAATAT
7567224 TTGCCAACAATTTCATCTTATCGTATCCCTATG
131 TTGCCAACAA-TTCATCTTATCGTATCCCTATG
* *
7567257 CTTGAAACTGCCAATGGCATCACAGTTGCTATCAGCGGCTTCATCAATACCTCTTGTACACTTGA
1 CTTGAAACTGCCGATGGCATCACAGTTGCTATCAGCGGCTTCATCAATACCTCTTGTACGCTTGA
*
7567322 AAATGGCTTTTCATCTAAGGTTGAGTTTCTCTTTGCACTGCTATTCATGCTTATCCTGTTAATAT
66 AAATGGCTTTTCATCTAAGGTTGAGTTTCTCATTGCACTGCTATTCATGCTTATCCTGTTAATAT
* *
7567387 TTGCCAACAGTTCCATCTTGTCGTATC
131 TTGCCAACAATT-CATCTTATCGTATC
7567414 TCTAATAGTT
Statistics
Matches: 286, Mismatches: 30, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
162 146 0.51
163 140 0.49
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (162 bp):
CTTGAAACTGCCGATGGCATCACAGTTGCTATCAGCGGCTTCATCAATACCTCTTGTACGCTTGA
AAATGGCTTTTCATCTAAGGTTGAGTTTCTCATTGCACTGCTATTCATGCTTATCCTGTTAATAT
TTGCCAACAATTCATCTTATCGTATCCCTATG
Found at i:7570334 original size:21 final size:21
Alignment explanation
Indices: 7570308--7570355 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
7570298 GTAGAAGGAA
7570308 TAGGAAACTTTAAATTGCTAT
1 TAGGAAACTTTAAATTGCTAT
*
7570329 TAGGAAACTTTAAATTGTTAT
1 TAGGAAACTTTAAATTGCTAT
7570350 TAGGAA
1 TAGGAA
7570356 TTAGTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.38
Consensus pattern (21 bp):
TAGGAAACTTTAAATTGCTAT
Found at i:7572118 original size:22 final size:22
Alignment explanation
Indices: 7572093--7572186 Score: 68
Period size: 22 Copynumber: 4.2 Consensus size: 22
7572083 CCACAGCTCG
7572093 TAATTTGCACCGAAGTGCCACA
1 TAATTTGCACCGAAGTGCCACA
* *
7572115 TAA-TTGTC-CTGAA-TGACCACT
1 TAATTTG-CACCGAAGTG-CCACA
*
7572136 TAGGTTTTGCACCGAAGTGCCACA
1 TA--ATTTGCACCGAAGTGCCACA
* ** *
7572160 TAAATTGCACTAAAGTACCACA
1 TAATTTGCACCGAAGTGCCACA
7572182 TAATT
1 TAATT
7572187 ATCTCGAAGG
Statistics
Matches: 54, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
20 2 0.04
21 13 0.24
22 23 0.43
23 1 0.02
24 13 0.24
25 2 0.04
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (22 bp):
TAATTTGCACCGAAGTGCCACA
Found at i:7572875 original size:20 final size:20
Alignment explanation
Indices: 7572817--7572868 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
7572807 ATCTTAAAAA
7572817 TGGTATCGATACCATCCTTC
1 TGGTATCGATACCATCCTTC
7572837 TGGTATCGATACCATCCTTC
1 TGGTATCGATACCATCCTTC
*
7572857 TGGTATTGATAC
1 TGGTATCGATAC
7572869 TACCCTTACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (20 bp):
TGGTATCGATACCATCCTTC
Found at i:7579767 original size:20 final size:19
Alignment explanation
Indices: 7579728--7579780 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
7579718 TATCTTAAAA
*
7579728 ATGGTATCGATAACATCCTT
1 ATGGTATCGAT-ACACCCTT
*
7579748 CTGGTATCGATACTACCCTT
1 ATGGTATCGATAC-ACCCTT
*
7579768 ATAGTATCGATAC
1 ATGGTATCGATAC
7579781 CTCTTCAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (19 bp):
ATGGTATCGATACACCCTT
Found at i:7586738 original size:2 final size:2
Alignment explanation
Indices: 7586731--7586778 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
7586721 TTATATCTTT
7586731 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7586773 TA TA TA
1 TA TA TA
7586779 AATTATTGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7586977 original size:22 final size:22
Alignment explanation
Indices: 7586943--7586984 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7586933 TTAACTCGAT
**
7586943 TAAAATTTTATAAATATAAATA
1 TAAAATTAAATAAATATAAATA
*
7586965 TAAAATTAAATAATTATAAA
1 TAAAATTAAATAAATATAAA
7586985 ACCATTAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAAATTAAATAAATATAAATA
Found at i:7588187 original size:2 final size:2
Alignment explanation
Indices: 7588180--7588242 Score: 110
Period size: 2 Copynumber: 31.5 Consensus size: 2
7588170 TTAATTAAAT
7588180 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7588221 TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA T-A TA T
7588243 GGTGGAGTTA
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.02
2 56 0.95
3 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7592291 original size:11 final size:11
Alignment explanation
Indices: 7592275--7592338 Score: 65
Period size: 11 Copynumber: 5.6 Consensus size: 11
7592265 GAAACTCGAA
*
7592275 CTCGATTGAAG
1 CTCGATTCAAG
**
7592286 CTCGATTTTGAG
1 CTCGA-TTCAAG
7592298 CTCGATTCAAG
1 CTCGATTCAAG
7592309 CTCGATTCAAG
1 CTCGATTCAAG
* *
7592320 CTCAATTTTAAG
1 CTCGA-TTCAAG
7592332 CTCGATT
1 CTCGATT
7592339 TGAGCTCAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
11 26 0.59
12 18 0.41
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (11 bp):
CTCGATTCAAG
Found at i:7592301 original size:12 final size:12
Alignment explanation
Indices: 7592284--7592368 Score: 77
Period size: 12 Copynumber: 7.3 Consensus size: 12
7592274 ACTCGATTGA
7592284 AGCTCGATTTTG
1 AGCTCGATTTTG
**
7592296 AGCTCGA-TTCA
1 AGCTCGATTTTG
**
7592307 AGCTCGA-TTCA
1 AGCTCGATTTTG
* *
7592318 AGCTCAATTTTA
1 AGCTCGATTTTG
7592330 AGCTCGA-TTTG
1 AGCTCGATTTTG
*
7592341 AGCTCAATTTTG
1 AGCTCGATTTTG
*
7592353 AGCTCGATTCTG
1 AGCTCGATTTTG
7592365 AGCT
1 AGCT
7592369 TAGCGGGTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
11 28 0.45
12 34 0.55
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (12 bp):
AGCTCGATTTTG
Found at i:7592309 original size:23 final size:23
Alignment explanation
Indices: 7592283--7592368 Score: 102
Period size: 23 Copynumber: 3.7 Consensus size: 23
7592273 AACTCGATTG
* *
7592283 AAGCTCGATTTTGAGCTCGA-TTC
1 AAGCTCGA-TTTGAGCTCAATTTT
**
7592306 AAGCTCGATTCAAGCTCAATTTT
1 AAGCTCGATTTGAGCTCAATTTT
7592329 AAGCTCGATTTGAGCTCAATTTT
1 AAGCTCGATTTGAGCTCAATTTT
*
7592352 GAGCTCGATTCTGAGCT
1 AAGCTCGATT-TGAGCT
7592369 TAGCGGGTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
22 8 0.15
23 40 0.74
24 6 0.11
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (23 bp):
AAGCTCGATTTGAGCTCAATTTT
Found at i:7596227 original size:174 final size:174
Alignment explanation
Indices: 7595937--7596286 Score: 700
Period size: 174 Copynumber: 2.0 Consensus size: 174
7595927 TCGTAAGACG
7595937 GTACCGCAAATTAAGAAGCCTCTTATACATGGTTGAATAGTGTTAAGATATATTTCATTAAGTTA
1 GTACCGCAAATTAAGAAGCCTCTTATACATGGTTGAATAGTGTTAAGATATATTTCATTAAGTTA
7596002 TTATGTAAAATTGACCGAAGGGATTGAGAGCGTCCACTTTTGAATGCCCGAATGGAGTATGAATG
66 TTATGTAAAATTGACCGAAGGGATTGAGAGCGTCCACTTTTGAATGCCCGAATGGAGTATGAATG
7596067 CCTCTCACTCTTGTTGAAATAGCTCAGAGCTATCTAAAAAGAGT
131 CCTCTCACTCTTGTTGAAATAGCTCAGAGCTATCTAAAAAGAGT
7596111 GTACCGCAAATTAAGAAGCCTCTTATACATGGTTGAATAGTGTTAAGATATATTTCATTAAGTTA
1 GTACCGCAAATTAAGAAGCCTCTTATACATGGTTGAATAGTGTTAAGATATATTTCATTAAGTTA
7596176 TTATGTAAAATTGACCGAAGGGATTGAGAGCGTCCACTTTTGAATGCCCGAATGGAGTATGAATG
66 TTATGTAAAATTGACCGAAGGGATTGAGAGCGTCCACTTTTGAATGCCCGAATGGAGTATGAATG
7596241 CCTCTCACTCTTGTTGAAATAGCTCAGAGCTATCTAAAAAGAGT
131 CCTCTCACTCTTGTTGAAATAGCTCAGAGCTATCTAAAAAGAGT
7596285 GT
1 GT
7596287 CGAGATGCCT
Statistics
Matches: 176, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
174 176 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (174 bp):
GTACCGCAAATTAAGAAGCCTCTTATACATGGTTGAATAGTGTTAAGATATATTTCATTAAGTTA
TTATGTAAAATTGACCGAAGGGATTGAGAGCGTCCACTTTTGAATGCCCGAATGGAGTATGAATG
CCTCTCACTCTTGTTGAAATAGCTCAGAGCTATCTAAAAAGAGT
Found at i:7599007 original size:18 final size:18
Alignment explanation
Indices: 7598984--7599026 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
7598974 TCAGTAATCC
7598984 TATTCCCTA-GTAATCTTA
1 TATTCCC-ACGTAATCTTA
7599002 TATTCCCACCGGTAATCTTA
1 TATTCCCA-C-GTAATCTTA
7599022 TATTC
1 TATTC
7599027 TGTGAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.05
18 7 0.32
20 14 0.64
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.42
Consensus pattern (18 bp):
TATTCCCACGTAATCTTA
Found at i:7599110 original size:16 final size:15
Alignment explanation
Indices: 7599089--7599132 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7599079 TTAATTATAT
7599089 ATTTTATATTGAATTA
1 ATTTTAT-TTGAATTA
* * *
7599105 ATTTTATTTTATTTT
1 ATTTTATTTGAATTA
7599120 ATTTTATTTGAAT
1 ATTTTATTTGAAT
7599133 GTTTTATCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (15 bp):
ATTTTATTTGAATTA
Found at i:7599689 original size:19 final size:19
Alignment explanation
Indices: 7599665--7599706 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
7599655 TACTATGTAG
7599665 TACAAGTAAACTCATGCAT
1 TACAAGTAAACTCATGCAT
7599684 TACAAGTAAACTCATGCAT
1 TACAAGTAAACTCATGCAT
7599703 TACA
1 TACA
7599707 CTAATCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (19 bp):
TACAAGTAAACTCATGCAT
Found at i:7599917 original size:21 final size:22
Alignment explanation
Indices: 7599879--7599925 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
7599869 CATCGAAGTG
*
7599879 CCACATAGAATGTTCCGAAGGA
1 CCACATAGAATGTCCCGAAGGA
*
7599901 CCACATAG-ATGTCCCGAATGA
1 CCACATAGAATGTCCCGAAGGA
7599922 CCAC
1 CCAC
7599926 GTAAAAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.34, C:0.30, G:0.19, T:0.17
Consensus pattern (22 bp):
CCACATAGAATGTCCCGAAGGA
Found at i:7611145 original size:12 final size:12
Alignment explanation
Indices: 7611128--7611193 Score: 89
Period size: 12 Copynumber: 5.6 Consensus size: 12
7611118 ATGTTACAAA
7611128 ATGAACATGTTC
1 ATGAACATGTTC
7611140 ATGAACATGTTC
1 ATGAACATGTTC
7611152 ATGAACATGTTC
1 ATGAACATGTTC
**
7611164 ATGAACAT-TAA
1 ATGAACATGTTC
*
7611175 ATGAATATGTTC
1 ATGAACATGTTC
*
7611187 GTGAACA
1 ATGAACA
7611194 ATAAATAAAC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
11 8 0.17
12 38 0.83
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (12 bp):
ATGAACATGTTC
Found at i:7611156 original size:24 final size:23
Alignment explanation
Indices: 7611126--7611204 Score: 95
Period size: 23 Copynumber: 3.4 Consensus size: 23
7611116 GGATGTTACA
7611126 AAATGAACATGTTCATGAACATGT
1 AAATGAACATGTTCATGAACAT-T
**
7611150 TCATGAACATGTTCATGAACATT
1 AAATGAACATGTTCATGAACATT
* * *
7611173 AAATGAATATGTTCGTGAACAAT
1 AAATGAACATGTTCATGAACATT
*
7611196 AAATAAACA
1 AAATGAACA
7611205 AACACGAACA
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 26 0.57
24 20 0.43
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (23 bp):
AAATGAACATGTTCATGAACATT
Found at i:7612267 original size:29 final size:29
Alignment explanation
Indices: 7612205--7612260 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
7612195 AACTTTAGGC
** * *
7612205 ATTTTATCGTTTATACCATTGAACTTTCA
1 ATTTTATCAATTATAACAATGAACTTTCA
7612234 ATTTTATCAATTATAACAATGAACTTT
1 ATTTTATCAATTATAACAATGAACTTT
7612261 GATTTTTGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.05, T:0.46
Consensus pattern (29 bp):
ATTTTATCAATTATAACAATGAACTTTCA
Found at i:7618648 original size:24 final size:24
Alignment explanation
Indices: 7618604--7618678 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
7618594 CAACTAAGAC
* * *
7618604 AGAGGAGCAGATTACAGCCAAGGT
1 AGAGGAGCAGTTTCCAACCAAGGT
* * * *
7618628 AGCGGAGGA-TCTTCCTACCAAAGT
1 AGAGGAGCAGT-TTCCAACCAAGGT
7618652 AGAGGAGCAGTTTCCAACCAAGGT
1 AGAGGAGCAGTTTCCAACCAAGGT
7618676 AGA
1 AGA
7618679 CAAGCAGCCT
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
24 37 0.97
25 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.29, T:0.16
Consensus pattern (24 bp):
AGAGGAGCAGTTTCCAACCAAGGT
Found at i:7618684 original size:24 final size:24
Alignment explanation
Indices: 7618639--7618685 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
7618629 GCGGAGGATC
* **
7618639 TTCCTACCAAAGTAGAGGAGCAGT
1 TTCCAACCAAAGTAGACAAGCAGT
*
7618663 TTCCAACCAAGGTAGACAAGCAG
1 TTCCAACCAAAGTAGACAAGCAG
7618686 CCTCAGCATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (24 bp):
TTCCAACCAAAGTAGACAAGCAGT
Found at i:7623159 original size:17 final size:17
Alignment explanation
Indices: 7623137--7623180 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
7623127 TTCATAAATC
7623137 CAAAATCCAACAATCCA
1 CAAAATCCAACAATCCA
*
7623154 CAAAATCAAACAATCCA
1 CAAAATCCAACAATCCA
7623171 -AAATATCCAA
1 CAAA-ATCCAA
7623181 AAAGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCCAACAATCCA
Found at i:7623172 original size:9 final size:8
Alignment explanation
Indices: 7623132--7623183 Score: 54
Period size: 9 Copynumber: 6.4 Consensus size: 8
7623122 CACTATTCAT
7623132 AAATCC-A
1 AAATCCAA
7623139 AAATCCAA
1 AAATCCAA
*
7623147 CAATCCACA
1 AAATCCA-A
7623156 AAAT-CAA
1 AAATCCAA
7623163 ACAATCCAA
1 A-AATCCAA
7623172 AATATCCAA
1 AA-ATCCAA
7623181 AAA
1 AAA
7623184 GTTGAAACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
7 8 0.21
8 14 0.37
9 16 0.42
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (8 bp):
AAATCCAA
Found at i:7625170 original size:19 final size:20
Alignment explanation
Indices: 7625124--7625183 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
7625114 TCCCCTGTGG
7625124 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TC-AA
7625147 GGGGGAATCGGTTCCCTC-A
1 GGGGGAATCGGTTCCCTCAA
* *
7625166 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
7625184 TGTACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:7628339 original size:17 final size:17
Alignment explanation
Indices: 7628317--7628360 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
7628307 TTCATAAATC
7628317 CAAAATCCAACAATCCA
1 CAAAATCCAACAATCCA
*
7628334 CAAAATCAAACAATCCA
1 CAAAATCCAACAATCCA
7628351 -AAATATCCAA
1 CAAA-ATCCAA
7628361 AAAGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCCAACAATCCA
Found at i:7628352 original size:9 final size:8
Alignment explanation
Indices: 7628312--7628363 Score: 54
Period size: 9 Copynumber: 6.4 Consensus size: 8
7628302 CACTATTCAT
7628312 AAATCC-A
1 AAATCCAA
7628319 AAATCCAA
1 AAATCCAA
*
7628327 CAATCCACA
1 AAATCCA-A
7628336 AAAT-CAA
1 AAATCCAA
7628343 ACAATCCAA
1 A-AATCCAA
7628352 AATATCCAA
1 AA-ATCCAA
7628361 AAA
1 AAA
7628364 GTTGAAACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
7 8 0.21
8 14 0.37
9 16 0.42
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (8 bp):
AAATCCAA
Found at i:7630350 original size:19 final size:20
Alignment explanation
Indices: 7630304--7630363 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
7630294 TCCCCTGTGG
7630304 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TC-AA
7630327 GGGGGAATCGGTTCCCTC-A
1 GGGGGAATCGGTTCCCTCAA
* *
7630346 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
7630364 TGTACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:7634215 original size:22 final size:21
Alignment explanation
Indices: 7634173--7634212 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7634163 GAGTTTGTTT
*
7634173 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
7634194 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
7634213 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:7637043 original size:64 final size:64
Alignment explanation
Indices: 7636961--7637181 Score: 284
Period size: 64 Copynumber: 3.5 Consensus size: 64
7636951 TTGAAGGTGT
* * * **
7636961 ATCGATGCACAGGAAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTCGTG
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTCGTG
7637024 C
64 C
*
7637025 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTCGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCGTGC
* * * * **
7637089 ATAGATGCATAAGTAGTGCATCGATGCATCCCAGTAATAATACAACATCGAATGCATTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCGTGC
* *
7637153 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
7637182 ACCTTCATTA
Statistics
Matches: 139, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
64 133 0.96
65 6 0.04
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCGTGC
Found at i:7637833 original size:31 final size:31
Alignment explanation
Indices: 7637795--7637888 Score: 145
Period size: 31 Copynumber: 3.0 Consensus size: 31
7637785 AGGGTCGAGG
7637795 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
7637826 GTTTACCTATGTTCTTCTGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
7637857 GTTTACCTAGGTTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
7637888 G
1 G
7637889 GTCCTTCGGG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:7645191 original size:24 final size:24
Alignment explanation
Indices: 7645164--7645226 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
7645154 AGGCTGCTTG
*
7645164 TCTACCTTGGTTGGAA-ACTGCTCC
1 TCTACCTTGGTTGGAAGA-TCCTCC
* *
7645188 TCTACTTTGGTAGGAAGATCCTCC
1 TCTACCTTGGTTGGAAGATCCTCC
* *
7645212 GCTACCTTGGCTGGA
1 TCTACCTTGGTTGGA
7645227 GTCTGCTCTG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
24 30 0.97
25 1 0.03
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.32
Consensus pattern (24 bp):
TCTACCTTGGTTGGAAGATCCTCC
Found at i:7650132 original size:7 final size:7
Alignment explanation
Indices: 7650120--7650144 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7650110 ATTTAATGTG
7650120 AAAAAGA
1 AAAAAGA
7650127 AAAAAGA
1 AAAAAGA
7650134 AAAAAGA
1 AAAAAGA
7650141 AAAA
1 AAAA
7650145 TGACAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:7654976 original size:24 final size:23
Alignment explanation
Indices: 7654919--7654977 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
7654909 CAATTGAAAC
7654919 TGCCACATAGAATTGCACCGAAG
1 TGCCACATAGAATTGCACCGAAG
***
7654942 TGCCGTGTAGAATATGCACCGAAG
1 TGCCACATAGAAT-TGCACCGAAG
*
7654966 TGTCACATAGAA
1 TGCCACATAGAA
7654978 ATGTCCCGAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 10 0.36
24 18 0.64
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (23 bp):
TGCCACATAGAATTGCACCGAAG
Found at i:7654997 original size:23 final size:23
Alignment explanation
Indices: 7654969--7655024 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
7654959 ACCGAAGTGT
*
7654969 CACATAGAA-ATGTCCCGAAGGAC
1 CACATAGAATATGT-CAGAAGGAC
*
7654992 CGCATAGAATATGTCAGAAGGAC
1 CACATAGAATATGTCAGAAGGAC
7655015 CACATAGAAT
1 CACATAGAAT
7655025 TTTCGAATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 25 0.86
24 4 0.14
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.16
Consensus pattern (23 bp):
CACATAGAATATGTCAGAAGGAC
Found at i:7655187 original size:215 final size:217
Alignment explanation
Indices: 7654814--7655243 Score: 846
Period size: 215 Copynumber: 2.0 Consensus size: 217
7654804 ACATTATCAT
7654814 ATACTGTTCATTCATGTTATTTCTTTTAATAGTCCATGGTATATCACTGAGAACTCAAGGTATGT
1 ATACTGTTCATTCATGTTATTTCTTTTAATAGTCCATGGTATATCACTGAGAACTCAAGGTATGT
7654879 GAGTACATTGTGTGGTTGTGCACTGGGTTGCAATTGAAACTGCCACATAGAATTGCACCGAAGTG
66 GAGTACATTGTGTGGTTGTGCACTGGGTTGCAATTGAAACTGCCACATAGAATTGCACCGAAGTG
7654944 CCGTGTAGAATATGCACCGAAGTGTCACATAGAAATGTCCCGAAGGACCGCATAGAATATGTCAG
131 CCGTGTAGAATATGCACCGAAGTGTCACATAGAAATGTCCCGAAGGACCGCATAGAATATGTCAG
7655009 AAGGACCACATAGAATTTTCGA
196 AAGGACCACATAGAATTTTCGA
7655031 ATACTGTTCATTCATGTTATTTCTTTTAATAGTCCATGGTATATCACTGAGAACTCAAGGTATGT
1 ATACTGTTCATTCATGTTATTTCTTTTAATAGTCCATGGTATATCACTGAGAACTCAAGGTATGT
7655096 GAGTACA-T-TGTGGTTGTGCACTGGGTTGCAATTGAAACTGCCACATAGAATTGCACCGAAGTG
66 GAGTACATTGTGTGGTTGTGCACTGGGTTGCAATTGAAACTGCCACATAGAATTGCACCGAAGTG
7655159 CCGTGTAGAATATGCACCGAAGTGTCACATAGAAATGTCCCGAAGGACCGCATAGAATATGTCAG
131 CCGTGTAGAATATGCACCGAAGTGTCACATAGAAATGTCCCGAAGGACCGCATAGAATATGTCAG
7655224 AAGGACCACATAGAATTTTC
196 AAGGACCACATAGAATTTTC
7655244 TCGAAGGACC
Statistics
Matches: 213, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
215 140 0.66
216 1 0.00
217 72 0.34
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (217 bp):
ATACTGTTCATTCATGTTATTTCTTTTAATAGTCCATGGTATATCACTGAGAACTCAAGGTATGT
GAGTACATTGTGTGGTTGTGCACTGGGTTGCAATTGAAACTGCCACATAGAATTGCACCGAAGTG
CCGTGTAGAATATGCACCGAAGTGTCACATAGAAATGTCCCGAAGGACCGCATAGAATATGTCAG
AAGGACCACATAGAATTTTCGA
Found at i:7655191 original size:24 final size:23
Alignment explanation
Indices: 7655134--7655192 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
7655124 CAATTGAAAC
7655134 TGCCACATAGAATTGCACCGAAG
1 TGCCACATAGAATTGCACCGAAG
***
7655157 TGCCGTGTAGAATATGCACCGAAG
1 TGCCACATAGAAT-TGCACCGAAG
*
7655181 TGTCACATAGAA
1 TGCCACATAGAA
7655193 ATGTCCCGAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 10 0.36
24 18 0.64
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (23 bp):
TGCCACATAGAATTGCACCGAAG
Found at i:7655212 original size:23 final size:23
Alignment explanation
Indices: 7655186--7655255 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
7655176 CGAAGTGTCA
7655186 CATAGAAATGTCCCGAAGGACCG
1 CATAGAAATGTCCCGAAGGACCG
* *
7655209 CATAGAATATGT-CAGAAGGACCA
1 CATAGAA-ATGTCCCGAAGGACCG
* * *
7655232 CATAGAATTTTCTCGAAGGACCG
1 CATAGAAATGTCCCGAAGGACCG
7655255 C
1 C
7655256 GTGGAACCCT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 2 0.05
23 32 0.84
24 4 0.11
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (23 bp):
CATAGAAATGTCCCGAAGGACCG
Found at i:7655383 original size:16 final size:17
Alignment explanation
Indices: 7655351--7655390 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
7655341 CATAGCTTAT
*
7655351 ATCACATA-TTCACATA
1 ATCACATAGATCACATA
7655367 ATCACATAGATCA-ATA
1 ATCACATAGATCACATA
7655383 A-CACATAG
1 ATCACATAG
7655391 TAATAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 7 0.32
16 12 0.55
17 3 0.14
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.25
Consensus pattern (17 bp):
ATCACATAGATCACATA
Found at i:7660412 original size:13 final size:15
Alignment explanation
Indices: 7660383--7660414 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
7660373 AAACATTCTG
7660383 AATATTAGAAGCGTA
1 AATATTAGAAGCGTA
7660398 AATATTA-AA-CGTA
1 AATATTAGAAGCGTA
7660411 AATA
1 AATA
7660415 AGTTGAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 2 0.12
15 7 0.41
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.28
Consensus pattern (15 bp):
AATATTAGAAGCGTA
Found at i:7660470 original size:2 final size:2
Alignment explanation
Indices: 7660463--7660497 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7660453 TATACTAAAT
7660463 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7660498 CTTCAAAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7665500 original size:43 final size:43
Alignment explanation
Indices: 7665453--7665541 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
7665443 AAAATTGATG
*
7665453 AAATTAG-AGACCTAAATTATAAA-AGTAAAAGATGAGATTGAAA
1 AAATTAGTA-ACCTAAATTATAAAGA-TAAAAAATGAGATTGAAA
* **
7665496 AAATTAGTAACCTCAATTATAAAGATAAAAAATGTTATTGAAA
1 AAATTAGTAACCTAAATTATAAAGATAAAAAATGAGATTGAAA
7665539 AAA
1 AAA
7665542 ATTAAAAGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
43 38 0.95
44 2 0.05
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (43 bp):
AAATTAGTAACCTAAATTATAAAGATAAAAAATGAGATTGAAA
Found at i:7665583 original size:43 final size:44
Alignment explanation
Indices: 7665507--7665682 Score: 137
Period size: 43 Copynumber: 4.0 Consensus size: 44
7665497 AATTAGTAAC
* ** *
7665507 CTCAATTATAAAGATAAAAAATGTTATTGAAAAAAATTAAAAGT
1 CTCAATTATAAAGATAAAAAGTGAAATTAAAAAAAATTAAAAGT
* *
7665551 -TCAATTATAAAGGTAAAAAGTGAAATTAAAAAAAA-AAGCAAGAGT
1 CTCAATTATAAAGATAAAAAGTGAAATTAAAAAAAATTA--AA-AGT
* * * * **
7665596 CTTAATTATATACATAAAAAGTGAAATTAAAAAAATTTAAAAAC
1 CTCAATTATAAAGATAAAAAGTGAAATTAAAAAAAATTAAAAGT
* * ** *
7665640 CTTAATTATAAA-TTAAAAAAAG-AATT-AAAAAAATTAGAAGT
1 CTCAATTATAAAGATAAAAAGTGAAATTAAAAAAAATTAAAAGT
7665681 CT
1 CT
7665683 GTATTGTAAG
Statistics
Matches: 105, Mismatches: 22, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
41 13 0.12
42 5 0.05
43 37 0.35
44 14 0.13
45 5 0.05
46 30 0.29
47 1 0.01
ACGTcount: A:0.59, C:0.05, G:0.09, T:0.27
Consensus pattern (44 bp):
CTCAATTATAAAGATAAAAAGTGAAATTAAAAAAAATTAAAAGT
Found at i:7666641 original size:21 final size:21
Alignment explanation
Indices: 7666589--7666641 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
7666579 GTTTCCAGAT
*
7666589 TCGCAACACGAACTTGGACTA
1 TCGCAACGCGAACTTGGACTA
7666610 TCGCAACGCGAACTTGGACTA
1 TCGCAACGCGAACTTGGACTA
*
7666631 TCGCAATGCGA
1 TCGCAACGCGA
7666642 TTTACATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTGGACTA
Found at i:7666702 original size:40 final size:40
Alignment explanation
Indices: 7666656--7666952 Score: 479
Period size: 40 Copynumber: 7.3 Consensus size: 40
7666646 CATATTCGCA
* *
7666656 TTGCGATAGTCCAAGTTCGCGTAGCGATTTTTCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTTCAAATTCG
7666696 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTT-TT-CAAATTCG
7666738 TTGCGATAGTCGAAGTTCGCGTTGCGA-TTTTCTAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTTC-AAATTCG
* *
7666778 TTGCGATAGTCGAAGTTCGCGTTGTGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTTCAAATTCG
7666818 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTT-TT-CAAATTCG
*
7666860 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTTCAAATTCG
7666900 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTT-TT-CAAATTCG
7666942 TTGCGATAGTC
1 TTGCGATAGTC
7666953 CAAAATCGCA
Statistics
Matches: 241, Mismatches: 8, Indels: 14
0.92 0.03 0.05
Matches are distributed among these distances:
39 1 0.00
40 137 0.57
41 11 0.05
42 92 0.38
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (40 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTTTCAAATTCG
Found at i:7666748 original size:82 final size:82
Alignment explanation
Indices: 7666656--7666952 Score: 512
Period size: 82 Copynumber: 3.6 Consensus size: 82
7666646 CATATTCGCA
* *
7666656 TTGCGATAGTCCAAGTTCGCGTAGCGATTT-TT-CAAATTCGTTGCGATAGTCGAAGTTCGCGTT
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
7666719 GCGATTTATTCCAAATTCG
66 GCGA-TT-TTCCAAATTCG
*
7666738 TTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCTAAATTCGTTGCGATAGTCGAAGTTCGCGTT
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
*
7666801 GTGATTTTCCAAATTCG
66 GCGATTTTCCAAATTCG
7666818 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
7666883 GCGATTTTCCAAATTCG
66 GCGATTTTCCAAATTCG
7666900 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
7666953 CAAAATCGCA
Statistics
Matches: 206, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
80 38 0.18
81 8 0.04
82 160 0.78
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (82 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
GCGATTTTCCAAATTCG
Found at i:7666814 original size:122 final size:122
Alignment explanation
Indices: 7666656--7666952 Score: 531
Period size: 122 Copynumber: 2.4 Consensus size: 122
7666646 CATATTCGCA
* * *
7666656 TTGCGATAGTCCAAGTTCGCGTAGCGATTTTTCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGC
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGC
*
7666721 GATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCTAAATTCG
66 GATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
*
7666778 TTGCGATAGTCGAAGTTCGCGTTGTGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGC
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGC
7666843 GATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
66 GATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
7666900 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
1 TTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTGCGATAGTC
7666953 CAAAATCGCA
Statistics
Matches: 167, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
122 143 0.86
123 2 0.01
124 22 0.13
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (122 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGC
GATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
Found at i:7667568 original size:5 final size:5
Alignment explanation
Indices: 7667558--7667582 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7667548 CGCCGTCGTC
7667558 TCGGG TCGGG TCGGG TCGGG TCGGG
1 TCGGG TCGGG TCGGG TCGGG TCGGG
7667583 GTCGTGGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.60, T:0.20
Consensus pattern (5 bp):
TCGGG
Found at i:7671348 original size:2 final size:2
Alignment explanation
Indices: 7671341--7671375 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7671331 CTATTCCAAT
7671341 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7671376 TATGAGCTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7671449 original size:22 final size:21
Alignment explanation
Indices: 7671424--7671473 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
7671414 ATTATTAGTC
7671424 TTAATTTTC-AAAATGTATATTT
1 TTAATTTTCAAAAATG-ATA-TT
7671446 TTAA-TTTCAAAAATGATATT
1 TTAATTTTCAAAAATGATATT
7671466 TTAATTTT
1 TTAATTTT
7671474 ATCAAATAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.23
21 10 0.38
22 10 0.38
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (21 bp):
TTAATTTTCAAAAATGATATT
Found at i:7671480 original size:21 final size:22
Alignment explanation
Indices: 7671424--7671472 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
7671414 ATTATTAGTC
7671424 TTAATTTTC-AAAATGTATATTT
1 TTAA-TTTCAAAAATGTATATTT
7671446 TTAATTTCAAAAATG-ATA-TT
1 TTAATTTCAAAAATGTATATTT
7671466 TTAATTT
1 TTAATTT
7671473 TATCAAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.35
21 7 0.27
22 10 0.38
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (22 bp):
TTAATTTCAAAAATGTATATTT
Found at i:7679370 original size:14 final size:15
Alignment explanation
Indices: 7679342--7679374 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
7679332 TATATTTATA
7679342 TAAAGTTTAAAAGTT
1 TAAAGTTTAAAAGTT
*
7679357 TAAA-TTTAATAGTT
1 TAAAGTTTAAAAGTT
7679371 TAAA
1 TAAA
7679375 AGTTAGAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (15 bp):
TAAAGTTTAAAAGTT
Found at i:7679895 original size:2 final size:2
Alignment explanation
Indices: 7679888--7679913 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7679878 CACCGTGAGT
7679888 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7679914 CGTTTCTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7683573 original size:21 final size:21
Alignment explanation
Indices: 7683544--7683590 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
7683534 ATTCTGACTA
*
7683544 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCAATTTCCCAAAT
* * *
7683565 TCGCGTTGCAATTTTCCTAAT
1 TCGCATTGCAATTTCCCAAAT
7683586 TCGCA
1 TCGCA
7683591 ATGCGAATAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (21 bp):
TCGCATTGCAATTTCCCAAAT
Found at i:7683611 original size:20 final size:20
Alignment explanation
Indices: 7683586--7683679 Score: 116
Period size: 20 Copynumber: 4.7 Consensus size: 20
7683576 TTTTCCTAAT
7683586 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
7683606 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
7683626 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
7683647 TCGCAATGCGAATACTTAAA
1 TCGCAATGCGAATACGTAAA
7683667 TCGCAATGCGAAT
1 TCGCAATGCGAAT
7683680 CTGACTATCG
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 44 0.72
21 17 0.28
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:7683667 original size:41 final size:41
Alignment explanation
Indices: 7683586--7683679 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 41
7683576 TTTTCCTAAT
* *
7683586 TCGCAATGCGAA-TACGTAAATCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATTACGAAAATCGCAACGCGAATAAGTAAA
* * * **
7683626 TCGCATTGCGAATTAGGAAAATCGCAATGCGAATACTTAAA
1 TCGCAATGCGAATTACGAAAATCGCAACGCGAATAAGTAAA
7683667 TCGCAATGCGAAT
1 TCGCAATGCGAAT
7683680 CTGACTATCG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 11 0.24
41 34 0.76
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.22
Consensus pattern (41 bp):
TCGCAATGCGAATTACGAAAATCGCAACGCGAATAAGTAAA
Found at i:7683689 original size:20 final size:20
Alignment explanation
Indices: 7683586--7683697 Score: 88
Period size: 20 Copynumber: 5.5 Consensus size: 20
7683576 TTTTCCTAAT
7683586 TCGCAATGCGAATAC-GTAAA
1 TCGCAATGCGAATACTG-AAA
* * *
7683606 TCGCAACGCGATTA-AGTAAA
1 TCGCAATGCGAATACTG-AAA
* *
7683626 TCGCATTGCGAATTA-GGAAAA
1 TCGCAATGCGAA-TACTG-AAA
*
7683647 TCGCAATGCGAATACTTAAA
1 TCGCAATGCGAATACTGAAA
*
7683667 TCGCAATGCGAAT-CTGACTA
1 TCGCAATGCGAATACTGA-AA
7683687 TCGCAATGCGA
1 TCGCAATGCGA
7683698 TTTACATAGC
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
19 3 0.04
20 56 0.74
21 17 0.22
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACTGAAA
Found at i:7684254 original size:20 final size:19
Alignment explanation
Indices: 7684224--7684314 Score: 84
Period size: 19 Copynumber: 5.0 Consensus size: 19
7684214 TAGTTTCGAG
7684224 AATGAAAATCGCAACGCGGA
1 AATGAAAATCGCAACGC-GA
**
7684244 AATGACTATCGCAACGCGA
1 AATGAAAATCGCAACGCGA
7684263 AATGAAAATCGCAA--CG-
1 AATGAAAATCGCAACGCGA
*
7684279 -A-GATAATCGCAACGCGA
1 AATGAAAATCGCAACGCGA
** *
7684296 AACCAAAATCGCATCGCGA
1 AATGAAAATCGCAACGCGA
7684315 TTCTCTTATT
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
14 10 0.17
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 27 0.47
20 15 0.26
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.12
Consensus pattern (19 bp):
AATGAAAATCGCAACGCGA
Found at i:7684266 original size:19 final size:20
Alignment explanation
Indices: 7684224--7684278 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
7684214 TAGTTTCGAG
7684224 AATGAAAATCGCAACGCGGA
1 AATGAAAATCGCAACGCGGA
**
7684244 AATGACTATCGCAACGC-GA
1 AATGAAAATCGCAACGCGGA
7684263 AATGAAAATCGCAACG
1 AATGAAAATCGCAACG
7684279 AGATAATCGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.13
Consensus pattern (20 bp):
AATGAAAATCGCAACGCGGA
Found at i:7684353 original size:33 final size:34
Alignment explanation
Indices: 7684311--7684411 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 34
7684301 AAATCGCATC
*
7684311 GCGATTCTCTTATTGCGATTTTCATTTC-GTGTT
1 GCGATTCTCTTATTGCGATTTTCATTTCTGCGTT
** **
7684344 GCGATTCTCTCGTTGCGATAGTCATTTCTGCGTT
1 GCGATTCTCTTATTGCGATTTTCATTTCTGCGTT
7684378 GCGATTTTCATTCTCTCATTGCGATTTTCATTTC
1 GCGA--TTC--TCT-T-ATTGCGATTTTCATTTC
7684412 AACCAAAAGA
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
33 24 0.46
34 8 0.15
36 3 0.06
38 3 0.06
40 14 0.27
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.48
Consensus pattern (34 bp):
GCGATTCTCTTATTGCGATTTTCATTTCTGCGTT
Found at i:7684388 original size:20 final size:19
Alignment explanation
Indices: 7684323--7684411 Score: 82
Period size: 20 Copynumber: 4.8 Consensus size: 19
7684313 GATTCTCTTA
7684323 TTGCGATTTTCATTTCGT-G
1 TTGCGATTTTCATTTC-TCG
7684342 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCTCG
**
7684356 TTGCGATAGTCATTTCTGCG
1 TTGCGATTTTCATTTCT-CG
*
7684376 TTGCGATTTTCATTCTCTCA
1 TTGCGATTTTCATT-TCTCG
7684396 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
7684412 AACCAAAAGA
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
13 1 0.02
14 9 0.16
16 2 0.03
17 3 0.05
19 11 0.19
20 29 0.50
21 3 0.05
ACGTcount: A:0.12, C:0.21, G:0.18, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCTCG
Found at i:7686342 original size:94 final size:92
Alignment explanation
Indices: 7686103--7686380 Score: 408
Period size: 94 Copynumber: 3.1 Consensus size: 92
7686093 TAGATTGCTT
* *
7686103 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAA-TTGT-TT-ATTAACACTGTGAAGTTAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTTGTATTCTTTAACACTGTGAAGTTAGTA
7686165 TTTGTCTTTCGTTTTGTCTTTTGGTTGA
66 TTTGTCTTT-GTTTTGTCTTTTGGTTGA
7686193 AGT--A--TATTCGGTTGCTGCCAATTCTGCTAAACTATGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACT-TGTATTCTTTAACACTGTGAAGTTAGT
7686254 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
65 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * * * *
7686283 AGTAAATTTGTTCGTTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACT-TGTATTCTTTAACACTGTGAAGTTAGT
7686348 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
65 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
7686376 AGTAA
1 AGTAA
7686381 TGCAATCCAT
Statistics
Matches: 171, Mismatches: 8, Indels: 15
0.88 0.04 0.08
Matches are distributed among these distances:
86 26 0.15
87 1 0.01
88 4 0.02
89 19 0.11
90 36 0.21
92 1 0.01
93 6 0.04
94 78 0.46
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (92 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTTGTATTCTTTAACACTGTGAAGTTAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:7686518 original size:19 final size:19
Alignment explanation
Indices: 7686469--7686566 Score: 142
Period size: 19 Copynumber: 5.1 Consensus size: 19
7686459 TCTTTTGGTT
*
7686469 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
7686488 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
*
7686508 GAAACGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
7686527 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
7686546 GAAACCAAAAATCGCAACGC
1 GAAA-TGAAAATCGCAACGC
7686566 G
1 G
7686567 CAACTATAAT
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
19 40 0.56
20 32 0.44
ACGTcount: A:0.48, C:0.22, G:0.21, T:0.08
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:7686579 original size:19 final size:19
Alignment explanation
Indices: 7686475--7686579 Score: 115
Period size: 19 Copynumber: 5.4 Consensus size: 19
7686465 GGTTGAAATG
*
7686475 AAAATCGCAACGAGAGAA-T
1 AAAATCGCAACGCGA-AACT
*
7686494 GAAAATCGCAACGCGAAACG
1 -AAAATCGCAACGCGAAACT
7686514 AAAATCGCAACGCGAAA-T
1 AAAATCGCAACGCGAAACT
*
7686532 GAAAATCGCAACGCGAAACCA
1 -AAAATCGCAACGCGAAA-CT
*
7686553 AAAATCGCAACGCGCAACT
1 AAAATCGCAACGCGAAACT
*
7686572 ATAATCGC
1 AAAATCGC
7686580 GTTGCGATTT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
19 44 0.59
20 30 0.41
ACGTcount: A:0.47, C:0.25, G:0.19, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACT
Found at i:7686579 original size:39 final size:38
Alignment explanation
Indices: 7686475--7686566 Score: 148
Period size: 39 Copynumber: 2.4 Consensus size: 38
7686465 GGTTGAAATG
* *
7686475 AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAACG
1 AAAATCGCAACGCGA-AATGAAAATCGCAACGCGAAACA
7686514 AAAATCGCAACGCGAAATGAAAATCGCAACGCGAAACCA
1 AAAATCGCAACGCGAAATGAAAATCGCAACGCGAAA-CA
7686553 AAAATCGCAACGCG
1 AAAATCGCAACGCG
7686567 CAACTATAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
38 21 0.42
39 29 0.58
ACGTcount: A:0.48, C:0.24, G:0.21, T:0.08
Consensus pattern (38 bp):
AAAATCGCAACGCGAAATGAAAATCGCAACGCGAAACA
Found at i:7686618 original size:14 final size:14
Alignment explanation
Indices: 7686594--7686639 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
7686584 CGATTTTTGG
*
7686594 TTTCGCGTTGCGAT
1 TTTCTCGTTGCGAT
*
7686608 TTTGTCGTTGCGAT
1 TTTCTCGTTGCGAT
*
7686622 TCTCTCGTTGCGAT
1 TTTCTCGTTGCGAT
7686636 TTTC
1 TTTC
7686640 ATTTCGCGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.07, C:0.22, G:0.24, T:0.48
Consensus pattern (14 bp):
TTTCTCGTTGCGAT
Found at i:7686651 original size:19 final size:20
Alignment explanation
Indices: 7686627--7686678 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
7686617 GCGATTCTCT
*
7686627 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTTCATTTTCA
**
7686646 CGTTGCGATAGTCATTTTTCA
1 CGTTGCGATTTTCA-TTTTCA
7686667 CGTTGCGATTTT
1 CGTTGCGATTTT
7686679 AAGTTCAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 12 0.46
21 14 0.54
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.46
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCA
Found at i:7687134 original size:42 final size:42
Alignment explanation
Indices: 7687074--7687166 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
7687064 GCCCGACTCG
* * *
7687074 CCTATCATCCCCCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCCCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * * *
7687116 CCTATCATTCCTCGAGAGTCCTCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCCCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* *
7687158 ACTGTCATC
1 CCTATCATC
7687167 ATTGAAGAGG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.22, C:0.39, G:0.16, T:0.24
Consensus pattern (42 bp):
CCTATCATCCCCCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:7688697 original size:19 final size:19
Alignment explanation
Indices: 7688675--7688759 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 19
7688665 AAAAATGACT
* *
7688675 ATCGCAATGCGAAATGAGA
1 ATCGCAACGCGAAATGAAA
*
7688694 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
7688708 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
7688727 ATCGCAACGCGAAACT-AAA
1 ATCGCAACGCGAAA-TGAAA
* *
7688746 ATCGTAATGCGAAA
1 ATCGCAACGCGAAA
7688760 CTAAATTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
14 11 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 39 0.68
20 1 0.02
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:7688709 original size:14 final size:14
Alignment explanation
Indices: 7688690--7688716 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7688680 AATGCGAAAT
7688690 GAGAATCGCAACGA
1 GAGAATCGCAACGA
7688704 GAGAATCGCAACG
1 GAGAATCGCAACG
7688717 CGAAATGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.22, G:0.30, T:0.07
Consensus pattern (14 bp):
GAGAATCGCAACGA
Found at i:7688760 original size:19 final size:19
Alignment explanation
Indices: 7688707--7688769 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
7688697 GCAACGAGAG
7688707 AATCGCAACGCGAAA-TGAA
1 AATCGCAACGCGAAACT-AA
7688726 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
* *
7688745 AATCGTAATGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
7688764 ATTCGC
1 AATCGC
7688770 GTTGCGATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 38 0.97
20 1 0.03
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.16
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:7688811 original size:33 final size:33
Alignment explanation
Indices: 7688769--7688895 Score: 200
Period size: 33 Copynumber: 3.8 Consensus size: 33
7688759 ACTAAATTCG
* *
7688769 CGTTGCGATTTTCATTTCACTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCACATTGCGATTCTCT
*
7688802 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCACATTGCGATTCTCT
*
7688835 CGTTGCGATTTTCATTTCACATTGTGATTCTCT
1 CGTTGCGATTTTCATTTCACATTGCGATTCTCT
* *
7688868 CGTTGTGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCACATTGCGAT
7688896 AGTCATTTCC
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 86 1.00
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCACATTGCGATTCTCT
Found at i:7688828 original size:19 final size:19
Alignment explanation
Indices: 7688804--7688915 Score: 73
Period size: 19 Copynumber: 6.4 Consensus size: 19
7688794 GATTCCCTCG
7688804 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
7688823 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
7688837 TTGCGATTTTCATTTCACA
1 TTGCGATTTTCATTTCGCA
* *
7688856 TTGTGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
7688870 TTGTGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
** *
7688889 TTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTT-CGCA
7688909 TTGCGAT
1 TTGCGAT
7688916 AGACATTAAG
Statistics
Matches: 71, Mismatches: 11, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
14 12 0.17
16 13 0.18
17 13 0.18
19 23 0.32
20 10 0.14
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:7688914 original size:20 final size:20
Alignment explanation
Indices: 7688879--7688961 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
7688869 GTTGTGATTT
*
7688879 TCATTT-CGCATTGCGATAG
1 TCATTTCCGCGTTGCGATAG
7688898 TCATTTCCGCGTTGCGATAG
1 TCATTTCCGCGTTGCGATAG
* ** *
7688918 ACA-TTAAGATGATTGCGA-ACG
1 TCATTTCCG-CG-TTGCGATA-G
*
7688939 TCATTTCCGTGTTGCGATAG
1 TCATTTCCGCGTTGCGATAG
7688959 TCA
1 TCA
7688962 AATGAATGCC
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
19 9 0.18
20 26 0.52
21 12 0.24
22 3 0.06
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (20 bp):
TCATTTCCGCGTTGCGATAG
Found at i:7691452 original size:24 final size:24
Alignment explanation
Indices: 7691418--7691471 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
7691408 CTGAAAAATC
7691418 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
7691442 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
7691466 ATCAAA
1 ATCAAA
7691472 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:7691485 original size:24 final size:24
Alignment explanation
Indices: 7691418--7691485 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
7691408 CTGAAAAATC
* * *
7691418 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
7691442 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
7691466 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
7691486 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:7692389 original size:21 final size:21
Alignment explanation
Indices: 7692345--7692459 Score: 123
Period size: 21 Copynumber: 5.7 Consensus size: 21
7692335 GCGATTTACT
* *
7692345 AAATCGCAATGCG-ATTACGT
1 AAATCGCAATGCGAATTAGGA
7692365 AAATCG-AAGTGCGAATTAGGA
1 AAATCGCAA-TGCGAATTAGGA
* *
7692386 AAATCGCAATGCG-ATTACGT
1 AAATCGCAATGCGAATTAGGA
*
7692406 AAATCGCAATGCGGATTAGGA
1 AAATCGCAATGCGAATTAGGA
*
7692427 AAATCGCAATGCGAA-TACG-
1 AAATCGCAATGCGAATTAGGA
*
7692446 TAATCGCAATGCGA
1 AAATCGCAATGCGA
7692460 TTTACGTAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
19 15 0.18
20 31 0.38
21 34 0.41
22 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
AAATCGCAATGCGAATTAGGA
Found at i:7692396 original size:41 final size:41
Alignment explanation
Indices: 7692345--7692727 Score: 198
Period size: 41 Copynumber: 9.4 Consensus size: 41
7692335 GCGATTTACT
7692345 AAATCGCAATGCGATTACGTAAATCG-AAGTGCGAATTAGGA
1 AAATCGCAATGCGATTACGTAAATCGCAA-TGCGAATTAGGA
*
7692386 AAATCGCAATGCGATTACGTAAATCGCAATGCGGATTAGGA
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
* * *
7692427 AAATCGCAATGCGAATACGT-AATCGCAATGCGATTTACG-
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
* * * * * * *
7692466 TAATCGCATTGCGATTTTCCT-AATCCGCATTGCGATTTACG-
1 AAATCGCAATGCGA-TTACGTAAAT-CGCAATGCGAATTAGGA
* * * * * *
7692507 TAATCGCATTGCGATTTTCCT-AATC-CGAATTGCGATTTACG-
1 AAATCGCAATGCGA-TTACGTAAATCGC-AA-TGCGAATTAGGA
* * * * * * *
7692548 TAATCGCATTGCGATTTTCCT-AATCCGCATTGCGATTTACG-
1 AAATCGCAATGCGA-TTACGTAAAT-CGCAATGCGAATTAGGA
* * * * * * * *
7692589 TAATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACG-
1 AAATCGCAATGCGA-TTACGTAAATCGCAATGCGAATTAGGA
* * * * *
7692630 TAATCACATTGCGATTTACGT-ATTCGCATTGCGAATTAGGA
1 AAATCGCAATGCGA-TTACGTAAATCGCAATGCGAATTAGGA
* * * *
7692671 AAATCGCAACGCGAATTA-GGAAACTCGCAATGCGAATTTGGG
1 AAATCGCAATGCG-ATTACGTAAA-TCGCAATGCGAATTAGGA
7692713 AAATCGCAATGCGAT
1 AAATCGCAATGCGAT
7692728 AGTCAGAATC
Statistics
Matches: 301, Mismatches: 29, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
39 13 0.04
40 42 0.14
41 211 0.70
42 34 0.11
43 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (41 bp):
AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
Found at i:7692409 original size:61 final size:60
Alignment explanation
Indices: 7692334--7692727 Score: 207
Period size: 61 Copynumber: 6.5 Consensus size: 60
7692324 AGAATCTCGT
* *
7692334 TGCGATTTAC-TAAATCGCAATGCGATTACGTAAATCG-AAGTGCGAATTAGGAAAATCGCAA
1 TGCGATTTACGTAAATCGCAATGCGATTACGAAAATCGCAA-TGCGAA-TACG-AAATCGCAA
* *
7692395 TGCGA-TTACGTAAATCGCAATGCGGATTAGGAAAATCGCAATGCGAATACGTAATCGCAA
1 TGCGATTTACGTAAATCGCAATGC-GATTACGAAAATCGCAATGCGAATACGAAATCGCAA
* * ** * * * *
7692455 TGCGATTTACGT-AATCGCATTGCGATTTTC-CTAATCCGCATTGCGATTTACGTAATCGCAT
1 TGCGATTTACGTAAATCGCAATGCGA-TTACGAAAAT-CGCAATGCGA-ATACGAAATCGCAA
* * * * * * ** *
7692516 TGCGATTTTCCT-AATC-CGAATTGCGATTTACG-TAATCGCATTGCGATTTTCCTAATCCGCAT
1 TGCGATTTACGTAAATCGC-AA-TGCGA-TTACGAAAATCGCAATGCGA-ATACGAAAT-CGCAA
* * ** * * * * * *
7692578 TGCGATTTACGT-AATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAATCACAT
1 TGCGATTTACGTAAATCGCAATGCGA-TTACGAAAATCGCAATGCGA-ATACGAAATCGCAA
* * * * *
7692639 TGCGATTTACGT-ATTCGCATTGCGAATTAGGAAAATCGCAACGCGAATTAGGAAACTCGCAA
1 TGCGATTTACGTAAATCGCAATGCG-ATTACGAAAATCGCAATGCGAA-TACGAAA-TCGCAA
* *
7692701 TGCGAATTT-GGGAAATCGCAATGCGAT
1 TGCG-ATTTACGTAAATCGCAATGCGAT
7692728 AGTCAGAATC
Statistics
Matches: 270, Mismatches: 45, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
59 5 0.02
60 39 0.14
61 126 0.47
62 83 0.31
63 17 0.06
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (60 bp):
TGCGATTTACGTAAATCGCAATGCGATTACGAAAATCGCAATGCGAATACGAAATCGCAA
Found at i:7692555 original size:82 final size:82
Alignment explanation
Indices: 7692455--7692663 Score: 357
Period size: 82 Copynumber: 2.6 Consensus size: 82
7692445 GTAATCGCAA
7692455 TGCGATTTACGTAATCGCATTGCGATTTTCCTAATCCGCATTGCGATTTACGTAATCGCATTGCG
1 TGCGATTTACGTAATCGCATTGCGATTTTCCTAATCCGCATTGCGATTTACGTAATCGCATTGCG
7692520 ATTTTCCTAATCCGAAT
66 ATTTTCCTAATCCGAAT
7692537 TGCGATTTACGTAATCGCATTGCGATTTTCCTAATCCGCATTGCGATTTACGTAATCGCATTGCG
1 TGCGATTTACGTAATCGCATTGCGATTTTCCTAATCCGCATTGCGATTTACGTAATCGCATTGCG
* *
7692602 ATTTTCCTAATTCGCAT
66 ATTTTCCTAATCCGAAT
* * * *
7692619 TGCGATTTACGTAATCACATTGCGATTTACGT-ATTCGCATTGCGA
1 TGCGATTTACGTAATCGCATTGCGATTTTCCTAATCCGCATTGCGA
7692664 ATTAGGAAAA
Statistics
Matches: 121, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
81 12 0.10
82 109 0.90
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (82 bp):
TGCGATTTACGTAATCGCATTGCGATTTTCCTAATCCGCATTGCGATTTACGTAATCGCATTGCG
ATTTTCCTAATCCGAAT
Found at i:7692684 original size:21 final size:21
Alignment explanation
Indices: 7692653--7692726 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
7692643 ATTTACGTAT
*
7692653 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* *
7692674 TCGCAACGCGAATTAGGAAAC
1 TCGCAATGCGAATTAGGAAAA
* *
7692695 TCGCAATGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
7692716 TCGCAATGCGA
1 TCGCAATGCGA
7692727 TAGTCAGAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:7692705 original size:82 final size:81
Alignment explanation
Indices: 7692333--7692688 Score: 312
Period size: 82 Copynumber: 4.4 Consensus size: 81
7692323 CAGAATCTCG
* * * * * * *
7692333 TTGCGATTTACTAAATCGCAATGCG-ATTACGTAAATCG-AAGTGCGAATTAGGAAAATCGCAAT
1 TTGCGAATTACGAAATCGCAATGCGAATTACCT-AATCGCAA-TGCGATTTACG-TAATCGCATT
*
7692396 GCGA-TTACGTAAAT-CGCA
63 GCGATTTACCT-AATCCGCA
* * * *
7692414 ATGCGGATTAGGAAAATCGCAATGCGAA-TACGTAATCGCAATGCGATTTACGTAATCGCATTGC
1 TTGCGAATTACG-AAATCGCAATGCGAATTACCTAATCGCAATGCGATTTACGTAATCGCATTGC
*
7692478 GATTTTCCTAATCCGCA
65 GATTTACCTAATCCGCA
* * * * *
7692495 TTGCGATTTACGTAATCGCATTGCGATTTTCCTAATC-CGAATTGCGATTTACGTAATCGCATTG
1 TTGCGAATTACGAAATCGCAATGCGAATTACCTAATCGC-AA-TGCGATTTACGTAATCGCATTG
*
7692559 CGATTTTCCTAATCCGCA
64 CGATTTACCTAATCCGCA
* * * * * * *
7692577 TTGCGATTTACGTAATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAATCACATTGC
1 TTGCGAATTACGAAATCGCAATGCGAATTACCTAA-TCGCAATGCGATTTACGTAATCGCATTGC
* *
7692642 GATTTACGT-ATTCGCA
65 GATTTACCTAATCCGCA
* *
7692658 TTGCGAATTAGGAAAATCGCAACGCGAATTA
1 TTGCGAATTACG-AAATCGCAATGCGAATTA
7692689 GGAAACTCGC
Statistics
Matches: 232, Mismatches: 32, Indels: 21
0.81 0.11 0.07
Matches are distributed among these distances:
80 28 0.12
81 62 0.27
82 137 0.59
83 4 0.02
84 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (81 bp):
TTGCGAATTACGAAATCGCAATGCGAATTACCTAATCGCAATGCGATTTACGTAATCGCATTGCG
ATTTACCTAATCCGCA
Found at i:7694003 original size:3 final size:3
Alignment explanation
Indices: 7693995--7694099 Score: 147
Period size: 3 Copynumber: 34.3 Consensus size: 3
7693985 CATTTAAATA
* * *
7693995 TAT TAT TAT TAT TAA AAT TAT TAT TAT TAT TAT TAG TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
7694043 AAT TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT TAA TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT
7694090 TAT TAT TAT T
1 TAT TAT TAT T
7694100 TAATAAATAA
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
3 84 0.93
4 6 0.07
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:7695577 original size:35 final size:35
Alignment explanation
Indices: 7695502--7695577 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
7695492 TAACTTAATT
*
7695502 TTTATTATTTTAATATATTTTAAATCATTACTTTA
1 TTTATTATTTTAATATATTATAAATCATTACTTTA
* * *
7695537 ATTATTGTTTTACTATATTATAAAT-ATATA-TATTA
1 TTTATTATTTTAATATATTATAAATCAT-TACT-TTA
7695572 TTTATT
1 TTTATT
7695578 TAATAATGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
34 3 0.09
35 31 0.91
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (35 bp):
TTTATTATTTTAATATATTATAAATCATTACTTTA
Found at i:7703418 original size:92 final size:92
Alignment explanation
Indices: 7703256--7703722 Score: 731
Period size: 92 Copynumber: 5.1 Consensus size: 92
7703246 TAAGGAGACC
* *
7703256 CATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAG
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
*
7703321 TTATTGAATTTGGAAGAGGAATGTGCT
66 TCATTGAATTTGGAAGAGGAATGTGCT
*
7703348 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAG
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
*
7703413 TTATTGAATTTGGAAGAGGAATGTGCT
66 TCATTGAATTTGGAAGAGGAATGTGCT
7703440 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
*
7703505 TCATTGAATTTGGAAGATGAATGTGCT
66 TCATTGAATTTGGAAGAGGAATGTGCT
* *
7703532 CATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGGAACCACAGAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAT-GAACCACAGAACCA
*
7703597 ATCATTGAATTTGGAAGATGAATGTGCT
65 ATCATTGAATTTGGAAGAGGAATGTGCT
* * * *
7703625 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGATTTGGTATGAACTCTA-A-AATC
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAC-C-ACAGAACC
* * * *
7703688 AATCATTGGATTTGAAAGATGAATTTTGCT
64 AATCATTGAATTTGGAAGAGGAA-TGTGCT
7703718 CATAG
1 CATAG
7703723 TAGAAATAAG
Statistics
Matches: 358, Mismatches: 13, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
92 258 0.72
93 99 0.28
94 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.36
Consensus pattern (92 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
TCATTGAATTTGGAAGAGGAATGTGCT
Found at i:7706042 original size:54 final size:54
Alignment explanation
Indices: 7705933--7706105 Score: 244
Period size: 54 Copynumber: 3.3 Consensus size: 54
7705923 AAAGAGATTC
* **
7705933 AATGTTTGA-GAACATCTGAGCAGAAGCCACA--AAAAAATGAATGTGTTGTCA
1 AATGTTTTACGAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCA
* *
7705984 AATGTTTTACGAACATCTGAACAGAAACCACAGGAAAGGATGAATGTGTTGTCA
1 AATGTTTTACGAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCA
*** *
7706038 AATGTTTTACGAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGCACTATCA
1 AATGTTTTACGAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCA
7706092 AATGTTTTACGAAC
1 AATGTTTTACGAAC
7706106 CTGCTATTCT
Statistics
Matches: 108, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
51 8 0.07
52 20 0.19
54 80 0.74
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (54 bp):
AATGTTTTACGAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCA
Found at i:7706498 original size:22 final size:22
Alignment explanation
Indices: 7706469--7706523 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
7706459 ATCTACACTC
*
7706469 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
7706491 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
7706513 TTCAAAGATGA
1 TTCAAAGATGA
7706524 AAACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:7707257 original size:31 final size:31
Alignment explanation
Indices: 7707222--7707305 Score: 145
Period size: 31 Copynumber: 2.8 Consensus size: 31
7707212 CTTCAGTGCA
7707222 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
7707253 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
7707284 TGATGTTTTC--AAAGCCTTCGGG
1 TGATGTTTCCAAAAAGCCTTCGGG
7707306 TCATCTGTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
29 12 0.23
31 40 0.77
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (31 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
Found at i:7707379 original size:76 final size:76
Alignment explanation
Indices: 7707253--7707951 Score: 1301
Period size: 76 Copynumber: 9.2 Consensus size: 76
7707243 GGGAGCTTTT
7707253 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
7707318 CCTTCAGTGCA
66 CCTTCAGTGCA
7707329 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
7707394 CCTTCAGTGCA
66 CCTTCAGTGCA
7707405 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
7707470 CCTTCAGTGCA
66 CCTTCAGTGCA
7707481 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
7707546 CCTTCAGTGCA
66 CCTTCAGTGCA
7707557 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
7707622 CCTTCAGTGCA
66 CCTTCAGTGCA
7707633 TGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
7707697 CCTTCAGTGCA
66 CCTTCAGTGCA
7707708 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
7707773 CCTTCAGTGCA
66 CCTTCAGTGCA
* *
7707784 AGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAG
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-AAAGCCTTCGGGTCATCTGTAAG
*
7707849 CCCTTTAGTGCA
65 CCCTTCAGTGCA
* * *
7707861 TGATGTTTCCAAAAAAACCTTCGGGAGTTTTTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAA
1 TGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-AAAGCCTTCGGGTCATCTGTAA
7707926 GCCCTTCAGTGCA
64 GCCCTTCAGTGCA
*
7707939 TGATGTTTTCAAA
1 TGATGTTTCCAAA
7707952 CATTTCCATC
Statistics
Matches: 612, Mismatches: 8, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
75 75 0.12
76 419 0.68
77 45 0.07
78 73 0.12
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (76 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
CCTTCAGTGCA
Found at i:7708086 original size:3 final size:3
Alignment explanation
Indices: 7708078--7708152 Score: 105
Period size: 3 Copynumber: 24.3 Consensus size: 3
7708068 CATTTAAATA
* *
7708078 TAT TAT TAT TAT TAA AAT TAT TAT TAT TAT TAT TAT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
*
7708124 TAT TAT TAA TAT TAT ATAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT T
7708153 TAATAAATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
3 58 0.91
4 6 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Done.