Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008739.1 Hibiscus syriacus cultivar Beakdansim tig00111817_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: 827959
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:603119 original size:28 final size:30
Alignment explanation
Indices: 603070--603132 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 30
603060 ATTTTTTATA
*
603070 TAATATAATATATAACTTAAACTAACAAGC
1 TAATATAATATATAACTTAAACTAACAAAC
*
603100 TAATAT-A-ATATAATTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
603128 TAATA
1 TAATA
603133 ATTTAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 24 0.77
29 1 0.03
30 6 0.19
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.32
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:603145 original size:20 final size:21
Alignment explanation
Indices: 603109--603148 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
603099 CTAATATAAT
603109 ATAATTTAAACTAACAAACTA
1 ATAATTTAAACTAACAAACTA
603130 ATAATTTAAA-TAACAAACT
1 ATAATTTAAACTAACAAACT
603149 TTTACCCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAATTTAAACTAACAAACTA
Found at i:603206 original size:30 final size:30
Alignment explanation
Indices: 603161--603244 Score: 127
Period size: 30 Copynumber: 2.8 Consensus size: 30
603151 TACCCGATAT
603161 CTTCTTCTCCCTTTC-TTCTTCTTCCTTT-
1 CTTCTTCTCCCTTTCTTTCTTCTTCCTTTC
*
603189 CTTCTTCCTTTCCTTTCTTTCTTCTTCCTTTC
1 CTTCTT-C-TCCCTTTCTTTCTTCTTCCTTTC
603221 CTTCTTCTCCCTTTCTTTCTTCTT
1 CTTCTTCTCCCTTTCTTTCTTCTT
603245 AACCGTACCC
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
28 6 0.12
29 1 0.02
30 23 0.46
31 14 0.28
32 6 0.12
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (30 bp):
CTTCTTCTCCCTTTCTTTCTTCTTCCTTTC
Found at i:603210 original size:20 final size:20
Alignment explanation
Indices: 603185--603223 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
603175 CTTCTTCTTC
603185 CTTTCTTCTTCCTTTCCTTT
1 CTTTCTTCTTCCTTTCCTTT
603205 CTTTCTTCTTCCTTTCCTT
1 CTTTCTTCTTCCTTTCCTT
603224 CTTCTCCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTCTTCTTCCTTTCCTTT
Found at i:603214 original size:34 final size:34
Alignment explanation
Indices: 603171--603241 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
603161 CTTCTTCTCC
*
603171 CTTTCTTCTT-C-TTCCTTTCTTCTTCCTTTCCTTT
1 CTTTCTTCTTCCTTTCC-TTCTTCTCCCTTT-CTTT
603205 CTTTCTTCTTCCTTTCCTTCTTCTCCCTTTCTTT
1 CTTTCTTCTTCCTTTCCTTCTTCTCCCTTTCTTT
603239 CTT
1 CTT
603242 CTTAACCGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
34 17 0.50
35 13 0.38
36 4 0.12
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (34 bp):
CTTTCTTCTTCCTTTCCTTCTTCTCCCTTTCTTT
Found at i:603218 original size:15 final size:14
Alignment explanation
Indices: 603160--603244 Score: 107
Period size: 15 Copynumber: 5.7 Consensus size: 14
603150 TTACCCGATA
*
603160 TCTTCTTCTCCCTT
1 TCTTCTTCTTCCTT
603174 TCTTCTTCTTCCTT
1 TCTTCTTCTTCCTT
603188 TCTTCTTCCTTTCCTT
1 TCTTCTT-C-TTCCTT
603204 TCTTTCTTCTTCCTT
1 TC-TTCTTCTTCCTT
*
603219 TCCTTCTTCTCCCTT
1 T-CTTCTTCTTCCTT
603234 TCTTTCTTCTT
1 TC-TTCTTCTT
603245 AACCGTACCC
Statistics
Matches: 63, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
14 21 0.33
15 27 0.43
16 10 0.16
17 5 0.08
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (14 bp):
TCTTCTTCTTCCTT
Found at i:603624 original size:29 final size:29
Alignment explanation
Indices: 603592--603652 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
603582 CTAGTTAGCA
** *
603592 ACCTCCTTGGTCGTTCGGACCATCTGGCG
1 ACCTCCTTGGTCGTTCAAACCACCTGGCG
* *
603621 ACCTCGTTGGTTGTTCAAACCACCTGGCG
1 ACCTCCTTGGTCGTTCAAACCACCTGGCG
603650 ACC
1 ACC
603653 AAGCATATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.15, C:0.34, G:0.25, T:0.26
Consensus pattern (29 bp):
ACCTCCTTGGTCGTTCAAACCACCTGGCG
Found at i:607296 original size:16 final size:18
Alignment explanation
Indices: 607260--607297 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
607250 TAAGTATTAA
*
607260 AAAAATTAGAATCACAAT
1 AAAAATTAGAAACACAAT
607278 AAAAATTA-AAACA-AAT
1 AAAAATTAGAAACACAAT
607294 AAAA
1 AAAA
607298 TAAATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 4 0.21
18 8 0.42
ACGTcount: A:0.71, C:0.08, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAAATTAGAAACACAAT
Found at i:614647 original size:15 final size:16
Alignment explanation
Indices: 614629--614666 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
614619 TTATTTAAAA
*
614629 AATACTTAAATATTT-
1 AATACATAAATATTTG
614644 AATA-ATAAATATTTG
1 AATACATAAATATTTG
614659 AATACATA
1 AATACATA
614667 TACAATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 9 0.45
15 8 0.40
16 3 0.15
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (16 bp):
AATACATAAATATTTG
Found at i:615066 original size:25 final size:24
Alignment explanation
Indices: 615038--615084 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
615028 AATTTATGCT
* *
615038 ATTTTTATTATTTTATTATATTTTA
1 ATTTTTAATATTATATT-TATTTTA
615063 ATTTTTAATATTATATTTATTT
1 ATTTTTAATATTATATTTATTT
615085 AATATAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
ATTTTTAATATTATATTTATTTTA
Found at i:618328 original size:24 final size:24
Alignment explanation
Indices: 618294--618400 Score: 88
Period size: 24 Copynumber: 4.5 Consensus size: 24
618284 AAACGGAGAT
* *
618294 ATCAGAAATCAAAATATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
618318 ATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
618342 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** * *
618366 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
618390 ATCAGAAATCA
1 ATCAGAAATCA
618401 GATAAAATAT
Statistics
Matches: 60, Mismatches: 23, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.23
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:618400 original size:48 final size:48
Alignment explanation
Indices: 618294--618402 Score: 110
Period size: 48 Copynumber: 2.3 Consensus size: 48
618284 AAACGGAGAT
* * * * *
618294 ATCAGAAATCAAAATATAATTCAGATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * * *
618342 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
618390 ATCAGAAATCAGA
1 ATCAGAAATCAGA
618403 TAAAATATTC
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.23
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:619549 original size:18 final size:18
Alignment explanation
Indices: 619528--619563 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
619518 CTTTCATCCG
*
619528 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
619546 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
619564 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:620886 original size:7 final size:7
Alignment explanation
Indices: 620874--620905 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
620864 TGGTCAACTC
620874 CGGTCAA
1 CGGTCAA
620881 CGGTCAA
1 CGGTCAA
620888 CGGGTCAA
1 C-GGTCAA
620896 CGGTCAA
1 CGGTCAA
620903 CGG
1 CGG
620906 GTCGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.25, C:0.28, G:0.34, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:620895 original size:15 final size:15
Alignment explanation
Indices: 620875--620921 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
620865 GGTCAACTCC
620875 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
620890 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
*
620905 GGTC--GGGTCAACG
1 GGTCAACGGTCAACG
620918 GGTC
1 GGTC
620922 GGGTCGGGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:620926 original size:18 final size:18
Alignment explanation
Indices: 620903--620979 Score: 110
Period size: 18 Copynumber: 4.6 Consensus size: 18
620893 CAACGGTCAA
620903 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
620921 CGGGTCGGGTCAA-----
1 CGGGTCGGGTCAACGGGT
*
620934 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
620952 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
620970 CGGGTCGGGT
1 CGGGTCGGGT
620980 TGTGACTGGT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.23
18 40 0.77
ACGTcount: A:0.12, C:0.21, G:0.51, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:620935 original size:31 final size:31
Alignment explanation
Indices: 620897--620975 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
620887 ACGGGTCAAC
620897 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
*
620928 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
620959 GGTCAACGGGTCGGGTC
1 GGTCAACGGGTCGGGTC
620976 GGGTTGTGAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.14, C:0.22, G:0.48, T:0.16
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
Found at i:620939 original size:8 final size:8
Alignment explanation
Indices: 620875--620921 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
620865 GGTCAACTCC
620875 GGTCAAC-
1 GGTCAACG
620882 GGTCAACG
1 GGTCAACG
620890 GGTCAAC-
1 GGTCAACG
620897 GGTCAACG
1 GGTCAACG
620905 GGT---CG
1 GGTCAACG
620910 GGTCAACG
1 GGTCAACG
620918 GGTC
1 GGTC
620922 GGGTCGGGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.14
7 14 0.40
8 16 0.46
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:620975 original size:13 final size:13
Alignment explanation
Indices: 620882--620957 Score: 71
Period size: 13 Copynumber: 5.3 Consensus size: 13
620872 TCCGGTCAAC
*
620882 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
620897 GGTCAACGGGTCG
1 GGTCAACGGGTCG
620910 GGTCAACGGGTCGGGTCG
1 GGTCAA-----CGGGTCG
620928 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
620941 GGTAAACGGGTCG
1 GGTCAACGGGTCG
620954 GGTC
1 GGTC
620958 GGGTCAACGG
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
13 28 0.53
15 12 0.23
18 13 0.25
ACGTcount: A:0.17, C:0.22, G:0.45, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:622481 original size:29 final size:28
Alignment explanation
Indices: 622444--622503 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
622434 TAGTACATGT
* *
622444 ACTTTTAAAATAT-TAATCTAGTATTTGA
1 ACTTTTAAAATATCTAAT-GAATATTTGA
622472 ACTTTATAAAATATCTAATGAATATTTGA
1 ACTTT-TAAAATATCTAATGAATATTTGA
622501 ACT
1 ACT
622504 ATCATTTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 5 0.18
29 19 0.68
30 4 0.14
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (28 bp):
ACTTTTAAAATATCTAATGAATATTTGA
Found at i:623426 original size:2 final size:2
Alignment explanation
Indices: 623419--623455 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
623409 TAATAAATTT
623419 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
623456 GCATATAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:635952 original size:42 final size:42
Alignment explanation
Indices: 635893--636012 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
635883 TTTCCCCGAA
*
635893 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
635935 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
**
635977 TTTTCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
636013 TGTAATTCAT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.46
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:636242 original size:52 final size:52
Alignment explanation
Indices: 636186--636322 Score: 129
Period size: 53 Copynumber: 2.6 Consensus size: 52
636176 TTTTCATCAA
* *
636186 AATATTA-ATTATTAA-AATATTTAAAATATAT-TATTAATATTTATAATAATAT
1 AATATTATATTATTAATAATATATAAAATA-ATCAATT-ATA-TTATAATAATAT
* *
636238 AATATTATATTTTTAATATTATATAAAATAATCAATTATATTATAATAATAT
1 AATATTATATTATTAATAATATATAAAATAATCAATTATATTATAATAATAT
* * * *
636290 AAGA-TATATTTTTATTTTAATATATATAATAAT
1 AATATTATATTATTA--ATAATATATAAAATAAT
636323 TTTTTTATAT
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
51 10 0.14
52 22 0.31
53 26 0.36
54 14 0.19
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (52 bp):
AATATTATATTATTAATAATATATAAAATAATCAATTATATTATAATAATAT
Found at i:636254 original size:22 final size:23
Alignment explanation
Indices: 636186--636260 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 23
636176 TTTTCATCAA
* *
636186 AATATTAATTATTAAAATATTTAA-
1 AATA-TAA-TATTAATATTTTTAAT
* *
636210 AATATATTATTAATATTTATAAT
1 AATATAATATTAATATTTTTAAT
636233 AATATAATATT-ATATTTTTAAT
1 AATATAATATTAATATTTTTAAT
*
636255 ATTATA
1 AATATA
636261 TAAAATAATC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
22 27 0.63
23 12 0.28
24 4 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATATAATATTAATATTTTTAAT
Found at i:636276 original size:31 final size:31
Alignment explanation
Indices: 636212--636322 Score: 94
Period size: 31 Copynumber: 3.8 Consensus size: 31
636202 ATATTTAAAA
636212 TATATTATTAATATTTATAATAATATAATAT
1 TATATTATTAATATTTATAATAATATAATAT
* *
636243 TATATTTTTAATA-TTAT-ATAAAATAATCAAT
1 TATATTATTAATATTTATAATAATATAAT--AT
* *
636274 TATATTA-TAATA-ATATAA-GATAT-AT-T
1 TATATTATTAATATTTATAATAATATAATAT
* *
636300 TTTATT-TTAATATATATAATAAT
1 TATATTATTAATATTTATAATAAT
636323 TTTTTTATAT
Statistics
Matches: 66, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
26 11 0.17
27 6 0.09
28 2 0.03
29 11 0.17
30 15 0.23
31 21 0.32
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (31 bp):
TATATTATTAATATTTATAATAATATAATAT
Found at i:636325 original size:23 final size:21
Alignment explanation
Indices: 636299--636342 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 21
636289 TAAGATATAT
636299 TTTTATTTTAATATATATAATAA
1 TTTT-TTTT-ATATATATAATAA
*
636322 -TTTTTTTATATATTTAATAA
1 TTTTTTTTATATATATAATAA
636342 T
1 T
636343 GAATAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
20 12 0.63
21 4 0.21
22 3 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTTTTATATATATAATAA
Found at i:636327 original size:20 final size:20
Alignment explanation
Indices: 636304--636342 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
636294 TATATTTTTA
636304 TTTTAATATATATAATAATT
1 TTTTAATATATATAATAATT
* *
636324 TTTTTATATATTTAATAAT
1 TTTTAATATATATAATAAT
636343 GAATAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTAATATATATAATAATT
Found at i:636349 original size:30 final size:29
Alignment explanation
Indices: 636317--636371 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
636307 TAATATATAT
*
636317 AATAAT-TTTTTTATATATTT-AATAATG
1 AATAATATTATTTATATATTTCAATAATG
636344 AATAATATTATTTATATATTTCAATAAT
1 AATAATATTATTTATATATTTCAATAAT
636372 ATTTTAGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 6 0.24
28 13 0.52
29 6 0.24
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (29 bp):
AATAATATTATTTATATATTTCAATAATG
Found at i:636564 original size:20 final size:20
Alignment explanation
Indices: 636539--636605 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
636529 TTTCCAGATG
636539 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
636559 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
636579 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
636599 TTTTCCA
1 TTTTCCA
636606 TAATTCAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:636617 original size:40 final size:40
Alignment explanation
Indices: 636539--636617 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
636529 TTTCCAGATG
* **
636539 TTTTCCAGAAATGTAATTCATTTTCCAGAAATGTAATTCA
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
* *
636579 TTTTACAGAAATGTAATTCATTTTCCATAATTCAAATTC
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTC
636618 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (40 bp):
TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
Found at i:636626 original size:15 final size:15
Alignment explanation
Indices: 636591--636671 Score: 112
Period size: 15 Copynumber: 5.5 Consensus size: 15
636581 TTACAGAAAT
**
636591 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
636606 -TAATTCAAATTCCA
1 GTAATTCAAATTCCA
* *
636620 GTAATTC-ATTTTCA
1 GTAATTCAAATTCCA
636634 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
636649 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
636664 GTAATTCA
1 GTAATTCA
636672 TTTTCTGGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
14 24 0.41
15 34 0.59
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.40
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:636638 original size:29 final size:29
Alignment explanation
Indices: 636591--636671 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
636581 TTACAGAAAT
636591 GTAATTCATTTTCCA-TAATTCAAATTCCA
1 GTAATTCATTTT-CAGTAATTCAAATTCCA
636620 GTAATTCATTTTCAGTAATTCAAATTCCA
1 GTAATTCATTTTCAGTAATTCAAATTCCA
* *
636649 GTAATTCAAATTCCAGTAATTCA
1 GTAATTC-ATTTTCAGTAATTCA
636672 TTTTCTGGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
28 2 0.04
29 33 0.69
30 13 0.27
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.40
Consensus pattern (29 bp):
GTAATTCATTTTCAGTAATTCAAATTCCA
Found at i:636662 original size:44 final size:43
Alignment explanation
Indices: 636591--636676 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 43
636581 TTACAGAAAT
**
636591 GTAATTCATTTTCCATAATTCAAATTCCAGTAATTCATTTTCA
1 GTAATTCAAATTCCATAATTCAAATTCCAGTAATTCATTTTCA
636634 GTAATTCAAATTCCAGTAATTCAAATTCCAGTAATTCATTTTC
1 GTAATTCAAATTCCA-TAATTCAAATTCCAGTAATTCATTTTC
636677 TGGAAAACCA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 13 0.32
44 27 0.68
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.42
Consensus pattern (43 bp):
GTAATTCAAATTCCATAATTCAAATTCCAGTAATTCATTTTCA
Found at i:646803 original size:18 final size:18
Alignment explanation
Indices: 646780--646861 Score: 155
Period size: 18 Copynumber: 4.6 Consensus size: 18
646770 AGCCATTTTT
646780 GGTATCGATACTCATAGG
1 GGTATCGATACTCATAGG
646798 GGTATCGATACTCATAGG
1 GGTATCGATACTCATAGG
*
646816 TGTATCGATACTCATAGG
1 GGTATCGATACTCATAGG
646834 GGTATCGATACTCATAGG
1 GGTATCGATACTCATAGG
646852 GGTATCGATA
1 GGTATCGATA
646862 TTGTAAGTAG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 62 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (18 bp):
GGTATCGATACTCATAGG
Found at i:648828 original size:36 final size:36
Alignment explanation
Indices: 648779--648847 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
648769 ATGATCATGA
648779 TGTGCCTCATATGAACCACCAACACATTTCAAATGG
1 TGTGCCTCATATGAACCACCAACACATTTCAAATGG
*
648815 TGTGCCTCCTATGAACCACCAACACATTTCAAA
1 TGTGCCTCATATGAACCACCAACACATTTCAAA
648848 AACATCGAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.25
Consensus pattern (36 bp):
TGTGCCTCATATGAACCACCAACACATTTCAAATGG
Found at i:656470 original size:18 final size:18
Alignment explanation
Indices: 656437--656474 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
656427 AGGTCTAGTA
656437 TTTATGTTTATGTTTATT
1 TTTATGTTTATGTTTATT
656455 TTTAT-TTTATGATTTATT
1 TTTATGTTTATG-TTTATT
656473 TT
1 TT
656475 ATTCTTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (18 bp):
TTTATGTTTATGTTTATT
Found at i:656475 original size:12 final size:11
Alignment explanation
Indices: 656437--656476 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
656427 AGGTCTAGTA
656437 TTTATGTTTAT
1 TTTATGTTTAT
*
656448 GTTTATTTTTAT
1 -TTTATGTTTAT
656460 TTTATGATTTAT
1 TTTATG-TTTAT
656472 TTTAT
1 TTTAT
656477 TCTTTTACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 5 0.20
12 20 0.80
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.72
Consensus pattern (11 bp):
TTTATGTTTAT
Found at i:662485 original size:76 final size:76
Alignment explanation
Indices: 662380--662574 Score: 279
Period size: 76 Copynumber: 2.6 Consensus size: 76
662370 ATCCCACTTC
* * *
662380 AGATTGTTTTTCTTTAAAACCAGATTTGTCTCGCTTGAGACAGTTTTTACTCGAAATAAGATATT
1 AGATTGTTTTTC-TTAAAACAAGATTTGTCTCGCTTGAGACAGTTTTTACTCGAAAAAAGACATT
*
662445 TCTTTTCACTCA
65 TCATTTCACTCA
* * *
662457 AGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACAATTTTTACTCTAAAAAAGACATTT
1 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAGTTTTTACTCGAAAAAAGACATTT
662522 CATTTCACTCA
66 CATTTCACTCA
* *
662533 AGATTG--TTT-TTAAAACAAGATTTATCTCGCTTGAGATAGTTT
1 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAGTTT
662575 CACCTGAAAC
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
73 29 0.27
74 3 0.03
76 63 0.59
77 12 0.11
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (76 bp):
AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAGTTTTTACTCGAAAAAAGACATTT
CATTTCACTCA
Found at i:662543 original size:40 final size:39
Alignment explanation
Indices: 662422--662544 Score: 101
Period size: 40 Copynumber: 3.2 Consensus size: 39
662412 GCTTGAGACA
* * *
662422 GTTTTTACTCGAAATAAGATATTTCTTTTCACTCAAGATT
1 GTTTTTACTCTAAAAAAGA-ATTTCATTTCACTCAAGATT
* * ** **
662462 GTTTTT-CT-TAAAACAAG-ATTT-GTCTCACTTGAGACA
1 GTTTTTACTCTAAAA-AAGAATTTCATTTCACTCAAGATT
*
662498 ATTTTTACTCTAAAAAAGACATTTCATTTCACTCAAGATT
1 GTTTTTACTCTAAAAAAGA-ATTTCATTTCACTCAAGATT
662538 GTTTTTA
1 GTTTTTA
662545 AAACAAGATT
Statistics
Matches: 61, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
36 14 0.23
37 9 0.15
38 8 0.13
39 9 0.15
40 21 0.34
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (39 bp):
GTTTTTACTCTAAAAAAGAATTTCATTTCACTCAAGATT
Found at i:662925 original size:20 final size:20
Alignment explanation
Indices: 662867--662926 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
662857 AGAAGATTTT
662867 ATCTCGCTTGAGATAGTTTC
1 ATCTCGCTTGAGATAGTTTC
****
662887 A-CTCGAAACAGA-AGATTTC
1 ATCTCGCTTGAGATAG-TTTC
662906 ATCTCGCTTGAGATAGTTTC
1 ATCTCGCTTGAGATAGTTTC
662926 A
1 A
662927 CTTAAAACAT
Statistics
Matches: 29, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
18 2 0.07
19 12 0.41
20 13 0.45
21 2 0.07
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (20 bp):
ATCTCGCTTGAGATAGTTTC
Found at i:663080 original size:39 final size:39
Alignment explanation
Indices: 662549--663074 Score: 686
Period size: 39 Copynumber: 13.6 Consensus size: 39
662539 TTTTTAAAAC
662549 AAGA-TTTATCTCGCTTGAGATAGTTTCAC-CTGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTC-GAAACAG
* *
662587 AAGATTCTATATCGCTTGAGATAGTTTCACTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
* * *
662626 AAGATTTTATCTCACTTGATATTGTTTCACTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
* * * *
662665 AAGATTTTATATCACTAGAGATTGTTTCACTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
* * *
662704 AAGA-TTTATCTCACTTGAGATTGTTTCACTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
* *
662742 AAGATTTCATCTCGCTTGAGATAGTTTCACTCAAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
* *
662781 AAGATTTTATATCTCTTGAGATAGTTTCACTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
* * *
662820 AAGATTTTATCTCACTTGAGATTGTTTCACTCTAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
662859 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
* ** *
662898 AAGATTTCATCTCGCTTGAGATAGTTTCACTTAAAACAT
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
* * * * * *
662937 AAGATTTTATCTTGCATGAGATGGTTTCACTTGAAATAT
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
*
662976 AAGATTTTATCTCGCTTGAGATTGTTTCACTCGAAACCA-
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAA-CAG
* *
663015 AAGATTTTATCTCACTTGAGATATTTTCACTCGAAACCA-
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAA-CAG
*
663054 AAGA-TTTATCTCACTTGAGAT
1 AAGATTTTATCTCGCTTGAGAT
663075 TATTTTTCTC
Statistics
Matches: 437, Mismatches: 47, Indels: 8
0.89 0.10 0.02
Matches are distributed among these distances:
38 56 0.13
39 379 0.87
40 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (39 bp):
AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
Found at i:663319 original size:136 final size:135
Alignment explanation
Indices: 663100--663595 Score: 588
Period size: 136 Copynumber: 3.7 Consensus size: 135
663090 AAAACTACAC
* *
663100 TGAGGGATTGATATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCTGACAGAGGGAGAAGA
1 TGAGGGATTGATATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGAGAGAAGA
663165 AGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACAATATTTCTAATCAATGACGC
66 AGTTCATAATGAGAAGAGCTTGTTCGACCTAT-ACTCGATTCACAATATTTCTAATCAATGACGC
663230 CTCGCT
130 CTCGCT
* *
663236 TGAGGGATTAATATTTCAAATGGAGAGTTCACAATGAGAAGAACTCATCCGACAGAGAGAGAAGA
1 TGAGGGATTGATATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGAGAGAAGA
* * *
663301 AGTTCATAATGAGAAGAGCTTGTTCGACCTATACTTGATTCACGATATTT-TGAATCAGTGACGC
66 AGTTCATAATGAGAAGAGCTTGTTCGACCTATACTCGATTCACAATATTTCT-AATCAATGACGC
* *
663365 TTCACT
130 CTCGCT
* * *
663371 TGAGGGATTGATATTTTC-AATGGAGAATTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAG
1 TGAGGGATTGATA-TTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGAGAGAAG
* * * * * * * * * * *
663435 AAGTTCATATTAAAAAGGGCTTGTTTGACTTATTGCTCGATTCACAACACTTCCAATC-ATCAAC
65 AAGTTCATAATGAGAAGAGCTTGTTCGACCTA-TACTCGATTCACAATATTTCTAATCAAT-GAC
**
663499 AACTCGCT
128 GCCTCGCT
* ** ** * * * *
663507 TGATGGATTGACGTTTCCGATAGAGAGTTCATAATGAGCAGAACTCATCCGATA-AGAGAGAAAA
1 TGAGGGATTGATATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGAGAGAAGA
*
663571 AGTTTATAATGAGAAGAAG-TTGTTC
66 AGTTCATAATGAGAAG-AGCTTGTTC
663596 AATCTTTGTC
Statistics
Matches: 306, Mismatches: 47, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
134 1 0.00
135 141 0.46
136 164 0.54
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.28
Consensus pattern (135 bp):
TGAGGGATTGATATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGAGAGAAGA
AGTTCATAATGAGAAGAGCTTGTTCGACCTATACTCGATTCACAATATTTCTAATCAATGACGCC
TCGCT
Found at i:663757 original size:118 final size:120
Alignment explanation
Indices: 663622--663864 Score: 318
Period size: 118 Copynumber: 2.0 Consensus size: 120
663612 CATCATAGAT
* * * *
663622 GAAGAAAGAAGAAGTTCACAATGAGAATAACTTGTTCAACCTTTACTCAAATCCATCATAGAA-G
1 GAAGAAAGAAGAAGTTCACAATGAAAAGAACTTGTTCAACCTCTACTCAAATCCATCACAGAATG
*
663686 AAGATAGATTC-TCATTTTCAATGG-AAGAGTTCATAATGAGAAGAACTCATCC-AA-A
66 -AGATAGA-TCAACA-TTTCAATGGAAAG-GTTCATAATGAGAAGAACTCATCCGAACA
* **
663741 GAAGAAA-AAGAAGTTCATAATGAAAAGAACTTGTTTGACCTCTACTCAAATCCATCACAGAATG
1 GAAGAAAGAAGAAGTTCACAATGAAAAGAACTTGTTCAACCTCTACTCAAATCCATCACAGAATG
* *
663805 AGGTGGATCAACATTTCAATGGAAAGGTTCATAATGAGAAGAACTCATCCGAACA
66 AGATAGATCAACATTTCAATGGAAAGGTTCATAATGAGAAGAACTCATCCGAACA
663860 GAAGA
1 GAAGA
663865 GTAAAAAGTT
Statistics
Matches: 109, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
117 35 0.32
118 60 0.55
119 14 0.13
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (120 bp):
GAAGAAAGAAGAAGTTCACAATGAAAAGAACTTGTTCAACCTCTACTCAAATCCATCACAGAATG
AGATAGATCAACATTTCAATGGAAAGGTTCATAATGAGAAGAACTCATCCGAACA
Found at i:667048 original size:14 final size:14
Alignment explanation
Indices: 667029--667058 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
667019 AAGGTGCTAT
667029 AATTAAAGGACTGA
1 AATTAAAGGACTGA
*
667043 AATTAAAGTACTGA
1 AATTAAAGGACTGA
667057 AA
1 AA
667059 GATAAAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.17, T:0.23
Consensus pattern (14 bp):
AATTAAAGGACTGA
Found at i:667373 original size:25 final size:25
Alignment explanation
Indices: 667327--667374 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
667317 AAAGTGCAAG
**
667327 AAAATAAAAAGTCAGTGGTTAATTT
1 AAAATAAAAAGTCAGTAATTAATTT
667352 AAAATAAAAAGTCA-TAAATTAAT
1 AAAATAAAAAGTCAGT-AATTAAT
667375 GACCAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.29
Consensus pattern (25 bp):
AAAATAAAAAGTCAGTAATTAATTT
Found at i:672236 original size:19 final size:19
Alignment explanation
Indices: 672203--672280 Score: 111
Period size: 19 Copynumber: 4.1 Consensus size: 19
672193 TAACTCGAAT
672203 TTGCGATAACCAAAGCTGTG
1 TTGCGA-AACCAAAGCTGTG
* * *
672223 TTGCGAAGCCAAAGTTGCG
1 TTGCGAAACCAAAGCTGTG
672242 TTGCGAAACCAAAGCTGTG
1 TTGCGAAACCAAAGCTGTG
*
672261 TTGCGAAACCAAAGTTGTG
1 TTGCGAAACCAAAGCTGTG
672280 T
1 T
672281 GGAGGAGGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 45 0.88
20 6 0.12
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (19 bp):
TTGCGAAACCAAAGCTGTG
Found at i:672253 original size:38 final size:39
Alignment explanation
Indices: 672203--672277 Score: 134
Period size: 38 Copynumber: 1.9 Consensus size: 39
672193 TAACTCGAAT
*
672203 TTGCGATAACCAAAGCTGTGTTGCGAAGCCAAAGTTGCG
1 TTGCGATAACCAAAGCTGTGTTGCGAAACCAAAGTTGCG
672242 TTGCGA-AACCAAAGCTGTGTTGCGAAACCAAAGTTG
1 TTGCGATAACCAAAGCTGTGTTGCGAAACCAAAGTTG
672278 TGTGGAGGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 29 0.83
39 6 0.17
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (39 bp):
TTGCGATAACCAAAGCTGTGTTGCGAAACCAAAGTTGCG
Found at i:672449 original size:20 final size:20
Alignment explanation
Indices: 672420--672470 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
672410 ATTTCATCCC
* *
672420 AACCCACGTTGCGAATTGTG
1 AACCCGCGTTGCGAATTGCG
672440 AACCCGCGTTGCGAATTGCG
1 AACCCGCGTTGCGAATTGCG
672460 AACCCGCGTTG
1 AACCCGCGTTG
672471 TGAAATAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Consensus pattern (20 bp):
AACCCGCGTTGCGAATTGCG
Found at i:673335 original size:20 final size:20
Alignment explanation
Indices: 673310--673347 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
673300 AGGCAGCAAA
673310 GTGTGCGTGTTGCGAAAGGT
1 GTGTGCGTGTTGCGAAAGGT
673330 GTGTGCGTGTTGCGAAAG
1 GTGTGCGTGTTGCGAAAG
673348 TGAAATTCGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.11, G:0.45, T:0.29
Consensus pattern (20 bp):
GTGTGCGTGTTGCGAAAGGT
Found at i:673383 original size:20 final size:20
Alignment explanation
Indices: 673360--673424 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
673350 AAATTCGCAA
* * *
673360 TGCGAATTTTAATTGTGTGT
1 TGCGAATTTGACTTATGTGT
*
673380 TGCGAATTTGACTTATATGT
1 TGCGAATTTGACTTATGTGT
*
673400 TGCGAATTTGACTTCTGTGT
1 TGCGAATTTGACTTATGTGT
673420 TGCGA
1 TGCGA
673425 TTTACAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.20, C:0.11, G:0.25, T:0.45
Consensus pattern (20 bp):
TGCGAATTTGACTTATGTGT
Found at i:673441 original size:20 final size:20
Alignment explanation
Indices: 673418--673508 Score: 58
Period size: 20 Copynumber: 4.5 Consensus size: 20
673408 TGACTTCTGT
673418 GTTGCGATTTACAAATTCGA
1 GTTGCGATTTACAAATTCGA
* * *
673438 GTTGTGATTTATATATTC-A
1 GTTGCGATTTACAAATTCGA
** ** *
673457 CGTTGCGAATTTGGAAAACCGC
1 -GTTGCG-ATTTACAAATTCGA
* *
673479 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACAAATTCGA
*
673499 GTCGCGATTT
1 GTTGCGATTT
673509 TCCAAACTGA
Statistics
Matches: 52, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
19 1 0.02
20 38 0.73
21 13 0.25
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGA
Found at i:691993 original size:17 final size:15
Alignment explanation
Indices: 691962--691992 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
691952 ATACCAAAAA
691962 TAAAAATTATATTAT
1 TAAAAATTATATTAT
691977 TAAAAA-TATATTAT
1 TAAAAATTATATTAT
691991 TA
1 TA
691993 TATTTTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAAAATTATATTAT
Found at i:693289 original size:18 final size:18
Alignment explanation
Indices: 693266--693302 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
693256 AGAATTCACA
693266 ATTCATTTTTAAAATTAT
1 ATTCATTTTTAAAATTAT
693284 ATTCATTTTTAAAATTAT
1 ATTCATTTTTAAAATTAT
693302 A
1 A
693303 ACTTTATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTCATTTTTAAAATTAT
Found at i:698525 original size:29 final size:29
Alignment explanation
Indices: 698488--698551 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
698478 ATTGAACCAA
*
698488 AATTTATTTGAAAATTATTAACAGAACCG
1 AATTAATTTGAAAATTATTAACAGAACCG
*
698517 AATTAATTTGAAAATTATTAACCGAACCG
1 AATTAATTTGAAAATTATTAACAGAACCG
698546 AATTAA
1 AATTAA
698552 CCATTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (29 bp):
AATTAATTTGAAAATTATTAACAGAACCG
Found at i:698688 original size:29 final size:29
Alignment explanation
Indices: 698624--698679 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
698614 AATTTAACAA
* *
698624 AAATTTATTTGAAAATTATTAACCGAACT
1 AAATTAATTTGAAAATTATTAACCAAACT
698653 AAATTAATTTGAAAATTATTAACCAAA
1 AAATTAATTTGAAAATTATTAACCAAA
698680 TCGAATTAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (29 bp):
AAATTAATTTGAAAATTATTAACCAAACT
Found at i:698828 original size:29 final size:29
Alignment explanation
Indices: 698754--698831 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 29
698744 ATTCGATTTG
* * *
698754 ATTAATCGAACCAAAATTTATTTGAAAAAT
1 ATTAACCGAACC-GAATTAATTTGAAAAAT
* * ** *
698784 ATTTACTGAATTGAATTAATTTGAAAATT
1 ATTAACCGAACCGAATTAATTTGAAAAAT
698813 ATTAACCGAACCGAATTAA
1 ATTAACCGAACCGAATTAA
698832 CCGATTTTTT
Statistics
Matches: 36, Mismatches: 12, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
29 29 0.81
30 7 0.19
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (29 bp):
ATTAACCGAACCGAATTAATTTGAAAAAT
Found at i:698940 original size:140 final size:139
Alignment explanation
Indices: 698451--698942 Score: 632
Period size: 140 Copynumber: 3.5 Consensus size: 139
698441 GGTTAAAGAA
* *
698451 AAAAATTCGGTTAATTCAGTTCGGTTAATTGAACCAAAATTTATTTGAAAATTATTAACAGAACC
1 AAAAATTCGGTTAATTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACAGAACC
*
698516 GAATTAATTTGAAAATTATTAACCGAACCGAATTAACC-ATTTTTTTT-AAATTATTAACCTAAT
66 GAATTAATTTGAAAATTATTAACCGAACCGAATTAACCGATTTTTTTTAAAATTATTAA-CGAAT
*
698579 TAATCGAGGC
130 TAATCGAAGC
** * ** * * *
698589 AAAAATTTAGTTAATTC-GTTTGGTTAATTTAACAAAAATTTATTTGAAAATTATTAACCGAACT
1 AAAAATTCGGTTAATTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACAGAACC
* * * * *
698653 AAATTAATTTGAAAATTATTAACCAAATCGAATTAACTGATTTTTTTATTGAAAACTATTAACTG
66 GAATTAATTTGAAAATTATTAACCGAACCGAATTAACCGA-TTTTTT-TT-AAAATTATTAAC-G
*
698718 AATTAATCGAAAC
127 AATTAATCGAAGC
* * * * * * **
698731 AAAAATTCGGTTAATTCGATTTGATTAATCGAACCAAAATTTATTTGAAAAATATTTACTGAATT
1 AAAAATTCGGTTAATTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACAGAACC
698796 GAATTAATTTGAAAATTATTAACCGAACCGAATTAACCGATTTTTTTTAAAATTATTAATCGAAT
66 GAATTAATTTGAAAATTATTAACCGAACCGAATTAACCGATTTTTTTTAAAATTATTAA-CGAAT
698861 TAATCGAAGC
130 TAATCGAAGC
* * *
698871 AACAATTCGGTTAATTCGGTTCGTTTAATCAAACCAAAATTTATTTGAAAATTATTAATC-GAAC
1 AAAAATTCGGTTAATTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAA-CAGAAC
698935 CGAATTAA
65 CGAATTAA
698943 CCGAATTTTT
Statistics
Matches: 304, Mismatches: 41, Indels: 16
0.84 0.11 0.04
Matches are distributed among these distances:
137 76 0.25
138 16 0.05
139 6 0.02
140 86 0.28
141 5 0.02
142 41 0.13
143 74 0.24
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (139 bp):
AAAAATTCGGTTAATTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACAGAACC
GAATTAATTTGAAAATTATTAACCGAACCGAATTAACCGATTTTTTTTAAAATTATTAACGAATT
AATCGAAGC
Found at i:699842 original size:2 final size:2
Alignment explanation
Indices: 699835--699866 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
699825 AAAATTATTA
699835 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
699867 TATCGGTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:700224 original size:6 final size:7
Alignment explanation
Indices: 700207--700233 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
700197 TAATTGTGAA
700207 AAAAATT
1 AAAAATT
700214 AAAAATT
1 AAAAATT
700221 AAAAATT
1 AAAAATT
700228 AAAAAT
1 AAAAAT
700234 CCGATTCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:700346 original size:5 final size:5
Alignment explanation
Indices: 700336--700381 Score: 53
Period size: 5 Copynumber: 9.8 Consensus size: 5
700326 TCAAAGAGAA
**
700336 AAAAT AAAAT AAAAT AAAAT -AAA- AAAAT -AAAT GTAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
700382 CTCATAATGG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
4 10 0.29
5 25 0.71
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:700367 original size:22 final size:23
Alignment explanation
Indices: 700334--700381 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
700324 AATCAAAGAG
700334 AAAAAATAAAATAAAATAAAATA
1 AAAAAATAAAATAAAATAAAATA
**
700357 AAAAAAT-AAATGTAATAAAATA
1 AAAAAATAAAATAAAATAAAATA
700379 AAA
1 AAA
700382 CTCATAATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (23 bp):
AAAAAATAAAATAAAATAAAATA
Found at i:700367 original size:27 final size:30
Alignment explanation
Indices: 700307--700381 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 30
700297 TAATAAGTAT
*
700307 TAAATAAATATTAAA-AAAATCAAAGAGAAA
1 TAAATAAA-ATAAAATAAAATCAAAGAGAAA
700337 -AAATAAAATAAAATAAAAT-AAA-A-AAA
1 TAAATAAAATAAAATAAAATCAAAGAGAAA
**
700363 TAAATGTAATAAAATAAAA
1 TAAATAAAATAAAATAAAA
700382 CTCATAATGG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 3 0.08
27 17 0.43
28 8 0.20
29 12 0.30
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (30 bp):
TAAATAAAATAAAATAAAATCAAAGAGAAA
Found at i:701735 original size:3 final size:3
Alignment explanation
Indices: 701707--701769 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
701697 GGACCCACAA
* * *
701707 AAT AAT TAT AAT ATAT AA- ATT AAT AAT AAT ACT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
701752 AAGT AAT TAT TAT AAT AA
1 AA-T AAT AAT AAT AAT AA
701770 CATATAATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
2 1 0.02
3 42 0.86
4 6 0.12
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:702494 original size:45 final size:46
Alignment explanation
Indices: 702440--702527 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
702430 CATCGAATGT
* * *
702440 ATTTTATGCATCAATGCAC-ATACCATGCATTGATGCACTCAGTGC
1 ATTTGATGCATCAATGCACAAGACCATGCATCGATGCACTCAGTGC
*
702485 ATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
1 ATTTGATGCATCAATGCACAAGACCATGCATCGATGCACTCAG
702528 GTTTTTTCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
45 17 0.45
46 21 0.55
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (46 bp):
ATTTGATGCATCAATGCACAAGACCATGCATCGATGCACTCAGTGC
Found at i:710041 original size:21 final size:21
Alignment explanation
Indices: 709999--710042 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
709989 ACTCCGGGAG
* *
709999 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
710020 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
710041 CT
1 CT
710043 CCTCCTCCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:711179 original size:20 final size:20
Alignment explanation
Indices: 711150--711207 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
711140 TTTCAAAGTG
*
711150 ATGCACCGATGCACCAATCC
1 ATGCATCGATGCACCAATCC
711170 ATGCATCGATGCACCAATCC
1 ATGCATCGATGCACCAATCC
711190 ATGCATCGATGCACCAAT
1 ATGCATCGATGCACCAAT
711208 TAATTTTTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.31, C:0.34, G:0.16, T:0.19
Consensus pattern (20 bp):
ATGCATCGATGCACCAATCC
Found at i:711259 original size:19 final size:19
Alignment explanation
Indices: 711235--711312 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 19
711225 AATGCATTTT
711235 ATGCATCGATGCACATACC
1 ATGCATCGATGCACATACC
* *
711254 ATGCATCGATGAACTCAGTACATTTT
1 ATGCATCGATG--CACA-TAC----C
711280 ATGCATCGATGCACATACC
1 ATGCATCGATGCACATACC
*
711299 ACGCATCGATGCAC
1 ATGCATCGATGCAC
711313 TCAGTGCATT
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
19 24 0.51
21 3 0.06
22 3 0.06
23 3 0.06
24 3 0.06
26 11 0.23
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (19 bp):
ATGCATCGATGCACATACC
Found at i:711278 original size:45 final size:45
Alignment explanation
Indices: 711229--711363 Score: 216
Period size: 45 Copynumber: 3.0 Consensus size: 45
711219 AAATTGAATG
*
711229 CATTTTATGCATCGATGCACATACCATGCATCGATGAACTCAGTA
1 CATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGTA
* *
711274 CATTTTATGCATCGATGCACATACCACGCATCGATGCACTCAGTG
1 CATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGTA
* *
711319 CATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAGT
1 CATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAGT
711364 TTTTTTCAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
45 61 0.73
46 22 0.27
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (45 bp):
CATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGTA
Found at i:712498 original size:84 final size:84
Alignment explanation
Indices: 712396--712735 Score: 396
Period size: 84 Copynumber: 4.1 Consensus size: 84
712386 CTAAGTTGTG
* * * * * *
712396 AATGATGTTCCTTTGAGCTGAGTGTAATCGAACTCGAAGGACTTTTGTTGGCAGATAACCCTTCT
1 AATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGACTTTTGTTGGCAAATAACCCTTCT
*
712461 AGCCTTGAGTTATGCTGCA
66 AGCCTTGAGCTATGCTGCA
* * * * * *
712480 AATGATATGCCTTGGAGCTGAGCGTAGTCAAACTTGAAGGTCTTTTGTTGGAAAATAACCTTTAT
1 AATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGACTTTTGTTGGCAAATAACCCTTCT
* *
712545 TGCCTTGAGCTATGTTGCA
66 AGCCTTGAGCTATGCTGCA
* * * * * *
712564 AATGATGTTCCTTAGAGTTGAGCGTAGTCAAACTCGAAGGTA-TTTTGTTGACAAAT-AGCATTC
1 AATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGG-ACTTTTGTTGGCAAATAACCCTTC
* *
712627 TTGCCTTGAGCTATGTTGCA
65 TAGCCTTGAGCTATGCTGCA
* * * * * *
712647 AATGATGTGCCTTGGAGCTAAGCGTAGTCGAACTCGAAGGTCTTTTGGTGGCAGATAGCCCTTCT
1 AATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGACTTTTGTTGGCAAATAACCCTTCT
712712 AGCCTTGAGCTATGCTGCA
66 AGCCTTGAGCTATGCTGCA
712731 AATGA
1 AATGA
712736 ACACGATATC
Statistics
Matches: 213, Mismatches: 40, Indels: 6
0.82 0.15 0.02
Matches are distributed among these distances:
83 70 0.33
84 143 0.67
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (84 bp):
AATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGACTTTTGTTGGCAAATAACCCTTCT
AGCCTTGAGCTATGCTGCA
Found at i:712662 original size:167 final size:167
Alignment explanation
Indices: 712371--712735 Score: 446
Period size: 167 Copynumber: 2.2 Consensus size: 167
712361 GACATATAGC
* * ** * * *
712371 CCTTTTTTCCTTGAGCTAAGTTGTGAATGATGTTCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
1 CCTTTTTGCCTTGAGCTATGTTGCAAATGATGTTCCTTAGAGCTGAGCGTAATCAAACTCGAAGG
* * * * *
712436 ACTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTGGAGCTGA
66 ACTTTTGTTGACAAATAACCATTCTAGCCTTGAGCTATGCTGCAAATGATATGCCTTGGAGCTAA
* *
712501 GCGTAGTCAAACTTGAAGGTCTTTTGTTGGAAAATAA
131 GCGTAGTCAAACTCGAAGGTCTTTTGGTGGAAAATAA
* *
712538 CCTTTATTGCCTTGAGCTATGTTGCAAATGATGTTCCTTAGAGTTGAGCGTAGTCAAACTCGAAG
1 CCTTT-TTGCCTTGAGCTATGTTGCAAATGATGTTCCTTAGAGCTGAGCGTAATCAAACTCGAAG
* * * *
712603 GTA-TTTTGTTGACAAAT-AGCATTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCT
65 G-ACTTTTGTTGACAAATAACCATTCTAGCCTTGAGCTATGCTGCAAATGATATGCCTTGGAGCT
* * * *
712666 AAGCGTAGTCGAACTCGAAGGTCTTTTGGTGGCAGATAGC
129 AAGCGTAGTCAAACTCGAAGGTCTTTTGGTGGAAAATA-A
* * *
712706 CCTTCTAGCCTTGAGCTATGCTGCAAATGA
1 CCTTTTTGCCTTGAGCTATGTTGCAAATGA
712736 ACACGATATC
Statistics
Matches: 168, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
167 100 0.60
168 67 0.40
169 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (167 bp):
CCTTTTTGCCTTGAGCTATGTTGCAAATGATGTTCCTTAGAGCTGAGCGTAATCAAACTCGAAGG
ACTTTTGTTGACAAATAACCATTCTAGCCTTGAGCTATGCTGCAAATGATATGCCTTGGAGCTAA
GCGTAGTCAAACTCGAAGGTCTTTTGGTGGAAAATAA
Found at i:717285 original size:5 final size:5
Alignment explanation
Indices: 717275--717348 Score: 59
Period size: 5 Copynumber: 14.8 Consensus size: 5
717265 TCAAAGGGAA
*
717275 AAAAT AAAAT AAAAT AACAT AAAAT -AAA- AAAAT AAAAGT --AAT AAAAGT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AAAA-T
717323 AATAA- AAGTAAT AAAAT AAAAT AAAA
1 AA-AAT AA--AAT AAAAT AAAAT AAAA
717349 CTCATAATGT
Statistics
Matches: 58, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
3 1 0.02
4 8 0.14
5 38 0.66
6 7 0.12
7 4 0.07
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:717296 original size:15 final size:13
Alignment explanation
Indices: 717273--717348 Score: 71
Period size: 13 Copynumber: 5.2 Consensus size: 13
717263 AATCAAAGGG
717273 AAAAAATAAAATA
1 AAAAAATAAAATA
717286 AAATAACATAAAATA
1 AAA-AA-ATAAAATA
717301 AAAAAATAAAAGTAA
1 AAAAAATAAAA-T-A
717316 TAAAAGTAATAAAAGTA
1 -AAAA--AATAAAA-TA
*
717333 ATAAAATAAAATA
1 AAAAAATAAAATA
717346 AAA
1 AAA
717349 CTCATAATGT
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
13 13 0.24
14 12 0.22
15 12 0.22
16 7 0.13
17 1 0.02
18 9 0.17
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (13 bp):
AAAAAATAAAATA
Found at i:717319 original size:9 final size:9
Alignment explanation
Indices: 717305--717338 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
717295 AAAATAAAAA
717305 AATAAAAGT
1 AATAAAAGT
717314 AATAAAAGT
1 AATAAAAGT
717323 AATAAAAGT
1 AATAAAAGT
717332 AATAAAA
1 AATAAAA
717339 TAAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (9 bp):
AATAAAAGT
Found at i:720264 original size:16 final size:16
Alignment explanation
Indices: 720243--720273 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
720233 AATTAAAATC
720243 ATATCTTAATTTATTT
1 ATATCTTAATTTATTT
*
720259 ATATCTTTATTTATT
1 ATATCTTAATTTATT
720274 ATTTAAAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (16 bp):
ATATCTTAATTTATTT
Found at i:721486 original size:105 final size:104
Alignment explanation
Indices: 721306--721506 Score: 280
Period size: 105 Copynumber: 1.9 Consensus size: 104
721296 AGCCCCAACT
* * *
721306 AGGTGATTTTGGGGATTAGGTTTTCGGCTTTCATCTCCAAAGATGCTACGTGATTTGGGTGTTCT
1 AGGTGATTTTGGGGATTAGGTTTTCGGCTTTCATCCCCAAAGATGCTACGTCATTTGGATGTTCT
* *
721371 TCGCTAG-TTTTGGTGAGACCGTTTCTTTCTATCTAGCC
66 TCGCTAGTTTTTGATGAGACCGTTTCATTCTATCTAGCC
* * *
721409 AGGTGATTTTGGGGATTAGGTTTTGTCGGTTTTTATCCCCAAAGCTGCTACG-CACTTTGGATGT
1 AGGTGATTTTGGGGATTAGG-TTT-TCGGCTTTCATCCCCAAAGATGCTACGTCA-TTTGGATGT
*
721473 TCTTCTCTAGTTTTTGATGAGACCGTTTCATTCT
63 TCTTCGCTAGTTTTTGATGAGACCGTTTCATTCT
721507 CTCCAGTTGT
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
103 20 0.24
104 4 0.05
105 40 0.47
106 21 0.25
ACGTcount: A:0.16, C:0.17, G:0.25, T:0.42
Consensus pattern (104 bp):
AGGTGATTTTGGGGATTAGGTTTTCGGCTTTCATCCCCAAAGATGCTACGTCATTTGGATGTTCT
TCGCTAGTTTTTGATGAGACCGTTTCATTCTATCTAGCC
Found at i:731800 original size:17 final size:17
Alignment explanation
Indices: 731778--731813 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
731768 AGATAGTTTG
731778 CCCAGAAGGTACCGATA
1 CCCAGAAGGTACCGATA
*
731795 CCCAGAGGGTACCGATA
1 CCCAGAAGGTACCGATA
731812 CC
1 CC
731814 TCTATGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (17 bp):
CCCAGAAGGTACCGATA
Found at i:733319 original size:30 final size:31
Alignment explanation
Indices: 733241--733319 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
733231 AGAGTCAAGG
*
733241 GTTACCTATGTTCTACGGAACATATGGACAA
1 GTTACCTATGTTCTTCGGAACATATGGACAA
* *
733272 TTTACCTATGTTATTCGGAACATATGGAC-A
1 GTTACCTATGTTCTTCGGAACATATGGACAA
* *
733302 GTTACATATGTCCTTCGG
1 GTTACCTATGTTCTTCGG
733320 GACAAATTTC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 15 0.37
31 26 0.63
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (31 bp):
GTTACCTATGTTCTTCGGAACATATGGACAA
Found at i:744348 original size:20 final size:19
Alignment explanation
Indices: 744306--744341 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
744296 AAAAAATTAA
744306 TTTTTGATTTTAATTATGG
1 TTTTTGATTTTAATTATGG
744325 TTTTTGA-TTTAATTATG
1 TTTTTGATTTTAATTATG
744342 TTGTTTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.22, C:0.00, G:0.14, T:0.64
Consensus pattern (19 bp):
TTTTTGATTTTAATTATGG
Found at i:746130 original size:13 final size:13
Alignment explanation
Indices: 746112--746182 Score: 96
Period size: 13 Copynumber: 5.6 Consensus size: 13
746102 GGGGGTAATT
746112 TTTCAAAACTTGA
1 TTTCAAAACTTGA
746125 TTTCAAAA--TGA
1 TTTCAAAACTTGA
746136 TTTTCAAAACTTGA
1 -TTTCAAAACTTGA
746150 TTTCAAAA--TGA
1 TTTCAAAACTTGA
746161 TTTTCAAAACTTGA
1 -TTTCAAAACTTGA
746175 TTTCAAAA
1 TTTCAAAA
746183 TGATTTTCAA
Statistics
Matches: 52, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.12
12 16 0.31
13 24 0.46
14 6 0.12
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (13 bp):
TTTCAAAACTTGA
Found at i:746144 original size:25 final size:25
Alignment explanation
Indices: 746111--746192 Score: 164
Period size: 25 Copynumber: 3.3 Consensus size: 25
746101 AGGGGGTAAT
746111 TTTTCAAAACTTGATTTCAAAATGA
1 TTTTCAAAACTTGATTTCAAAATGA
746136 TTTTCAAAACTTGATTTCAAAATGA
1 TTTTCAAAACTTGATTTCAAAATGA
746161 TTTTCAAAACTTGATTTCAAAATGA
1 TTTTCAAAACTTGATTTCAAAATGA
746186 TTTTCAA
1 TTTTCAA
746193 TTAGAAAATC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (25 bp):
TTTTCAAAACTTGATTTCAAAATGA
Found at i:746607 original size:19 final size:19
Alignment explanation
Indices: 746583--746629 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
746573 TGGAGGATAC
746583 CGATACCCCAAGGAGGTAT
1 CGATACCCCAAGGAGGTAT
746602 CGATACCCCAAGGAGGTAT
1 CGATACCCCAAGGAGGTAT
746621 CGATACCCC
1 CGATACCCC
746630 TAGTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.30, C:0.32, G:0.23, T:0.15
Consensus pattern (19 bp):
CGATACCCCAAGGAGGTAT
Found at i:747264 original size:30 final size:30
Alignment explanation
Indices: 747228--747289 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
747218 AATCGTTGTG
747228 CAATTATTTTCTATTTTCTATAAAAGTTTC
1 CAATTATTTTCTATTTTCTATAAAAGTTTC
747258 CAATTATTTTCTATTTTCTATAAAAGTTTC
1 CAATTATTTTCTATTTTCTATAAAAGTTTC
747288 CA
1 CA
747290 CCAAAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.52
Consensus pattern (30 bp):
CAATTATTTTCTATTTTCTATAAAAGTTTC
Found at i:764022 original size:20 final size:20
Alignment explanation
Indices: 763999--764036 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
763989 TGTACTATGC
763999 TTAA-GTTGAATGTTAGAATG
1 TTAATGTTG-ATGTTAGAATG
*
764019 TTAATTTTGATGTTAGAA
1 TTAATGTTGATGTTAGAA
764037 GGTTGATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (20 bp):
TTAATGTTGATGTTAGAATG
Found at i:764045 original size:20 final size:20
Alignment explanation
Indices: 764008--764045 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
763998 CTTAAGTTGA
*
764008 ATGTTAGAATGTTAATTTTG
1 ATGTTAGAAGGTTAATTTTG
*
764028 ATGTTAGAAGGTTGATTT
1 ATGTTAGAAGGTTAATTT
764046 GGATCGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (20 bp):
ATGTTAGAAGGTTAATTTTG
Found at i:764963 original size:24 final size:24
Alignment explanation
Indices: 764892--764972 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
764882 AGATCGATCA
* * * *
764892 TGTATTAATACATTTGTGCACTCC
1 TGTATTAGTGCATTTGTGTACTCT
*
764916 TATATTAGTGCATTTGTGCT-CTCT
1 TGTATTAGTGCATTTGTG-TACTCT
764940 TGTATTAGTGCATTTGTGTACTCT
1 TGTATTAGTGCATTTGTGTACTCT
*
764964 CGTATTAGT
1 TGTATTAGT
764973 ACCATTATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
23 1 0.02
24 47 0.98
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.47
Consensus pattern (24 bp):
TGTATTAGTGCATTTGTGTACTCT
Found at i:764996 original size:25 final size:24
Alignment explanation
Indices: 764936--765010 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
764926 CATTTGTGCT
* * **
764936 CTCTTGTATTAGTGCATTTGTGTA
1 CTCTCGTATTAGTACATTCATGTA
764960 CTCTCGTATTAGTACCATT-ATGTA
1 CTCTCGTATTAGTA-CATTCATGTA
764984 CTCAT-GTATTTAGTACATTCATGTA
1 CTC-TCGTA-TTAGTACATTCATGTA
765009 CT
1 CT
765011 ATTGGCATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
24 26 0.59
25 18 0.41
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (24 bp):
CTCTCGTATTAGTACATTCATGTA
Found at i:766000 original size:33 final size:33
Alignment explanation
Indices: 765962--766027 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
765952 AATATTTTAT
* *
765962 CGAATTACACTCGTTTTACGGCTATAAAATGAG
1 CGAATTACAATCATTTTACGGCTATAAAATGAG
765995 CGAATTACAATCATTTTACGGCTATAAAATGAG
1 CGAATTACAATCATTTTACGGCTATAAAATGAG
766028 ATTATCTCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (33 bp):
CGAATTACAATCATTTTACGGCTATAAAATGAG
Found at i:772919 original size:31 final size:31
Alignment explanation
Indices: 772881--772974 Score: 93
Period size: 31 Copynumber: 3.0 Consensus size: 31
772871 GAGTCGAGGG
772881 TTACCTATGTCTTTCGAGACATATGGACAGT
1 TTACCTATGTCTTTCGAGACATATGGACAGT
*** *
772912 TTACCTATGTTCTAAGGA-ACATATGGACAAT
1 TTACCTATG-TCTTTCGAGACATATGGACAGT
* * *
772943 TTACCTAGGT-TCTTCGGGACCTATGGACAGT
1 TTACCTATGTCT-TTCGAGACATATGGACAGT
772974 T
1 T
772975 GCCGAGGTTC
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 1 0.02
30 2 0.04
31 41 0.84
32 5 0.10
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (31 bp):
TTACCTATGTCTTTCGAGACATATGGACAGT
Found at i:779859 original size:15 final size:15
Alignment explanation
Indices: 779839--779877 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
779829 GTCCCGACAA
**
779839 TATTAATATTATTGT
1 TATTAATATTATCAT
*
779854 TATTAACATTATCAT
1 TATTAATATTATCAT
779869 TATTAATAT
1 TATTAATAT
779878 ATATATATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (15 bp):
TATTAATATTATCAT
Found at i:779881 original size:2 final size:2
Alignment explanation
Indices: 779874--779906 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
779864 ATCATTATTA
779874 AT AT 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 AT AT A
779907 ATTTTTACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:781203 original size:18 final size:18
Alignment explanation
Indices: 781182--781244 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
781172 TGTCCCAAAT
781182 GACCACTATGTCTCGAAG
1 GACCACTATGTCTCGAAG
781200 GACCACTGATTGT-TCCGAAG
1 GACCACT-A-TGTCT-CGAAG
* * * *
781220 AACCACGATGTCCCGAAT
1 GACCACTATGTCTCGAAG
781238 GACCACT
1 GACCACT
781245 CCTTAAGAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 19 0.54
19 3 0.09
20 13 0.37
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (18 bp):
GACCACTATGTCTCGAAG
Found at i:786178 original size:261 final size:261
Alignment explanation
Indices: 785701--786185 Score: 618
Period size: 261 Copynumber: 1.9 Consensus size: 261
785691 TCGATATTGA
* * * * **
785701 GAATAGTAATATCTTTTCATTTCGGTTGGAGTAATAAATGACTTCTTTAAGGCATGAGAGGTCAT
1 GAATAGTAATATCTTTACATTTCGATTGGAGCAATAAATGACTGCTTTAAGGCATGAGAAATCAT
* * *
785766 TTATTCTCGATTGGAAATAATTTGATATTACCATTTTCTCTCAAATCAATATTGATTTTTAAGAC
66 TTATTCTCGATTAGAAATAATTAGATATTA-CATTTTCTCTCAAATCAATATTGAATTTTAAGAC
* * * * *** *
785831 GGAATAATAATATCTTTCCATTTCGGTTGGAGTAATAAATAATTGTTTTAAGGCATGAGAGGTCA
130 GAAATAATAATATCTTTCCATTTCGATTGAAGTAATAAATAACTACCTTAAGGCATGAGAGATCA
* * *
785896 TTTATTCTCGATTGGAAATAATTTGATATCACCGTTTTCTCTCGAATCAATATTGATTTTTAAGA
195 TTTATTCTCGATCGAAAATAATTAGATATCACCGTTTTCTCTCGAATCAATATTGATTTTTAAGA
785961 CG
260 CG
* *
785963 GAATAGTGATATCTTTACATTTCGATTGGAGCAATAAATGGA-TGCTTTAAGGTATGAGAAATCA
1 GAATAGTAATATCTTTACATTTCGATTGGAGCAATAAAT-GACTGCTTTAAGGCATGAGAAATCA
* * * * * *
786027 TTTATTCTCGATTATAAATCATTAGATATTA-TTTTTTTACT-ATAATCGATTTTGAATTTTAAG
65 TTTATTCTCGATTAGAAATAATTAGATATTACATTTTCT-CTCA-AATCAATATTGAATTTTAAG
* * *
786090 ACGAAATAGTGATATCTCTT-CATTTCGATTGAAGTAATAAATGACTACCTTAAGGCATGAGAGA
128 ACGAAATAATAATATCT-TTCCATTTCGATTGAAGTAATAAATAACTACCTTAAGGCATGAGAGA
786154 TCATTTATTCTCGATCGAAAATAATTAGATAT
192 TCATTTATTCTCGATCGAAAATAATTAGATAT
786186 TATCATTTTC
Statistics
Matches: 188, Mismatches: 31, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
260 6 0.03
261 98 0.52
262 82 0.44
263 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (261 bp):
GAATAGTAATATCTTTACATTTCGATTGGAGCAATAAATGACTGCTTTAAGGCATGAGAAATCAT
TTATTCTCGATTAGAAATAATTAGATATTACATTTTCTCTCAAATCAATATTGAATTTTAAGACG
AAATAATAATATCTTTCCATTTCGATTGAAGTAATAAATAACTACCTTAAGGCATGAGAGATCAT
TTATTCTCGATCGAAAATAATTAGATATCACCGTTTTCTCTCGAATCAATATTGATTTTTAAGAC
G
Found at i:786217 original size:130 final size:131
Alignment explanation
Indices: 785701--786198 Score: 594
Period size: 131 Copynumber: 3.8 Consensus size: 131
785691 TCGATATTGA
* * * *
785701 GAATAGTAATATCTTTTCATTTCGGTTGGAGTAATAAATGACTTCTTTAAGGCATGAGAGGTCAT
1 GAATAGTAATATCTTTACATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGATCAT
* *
785766 TTATTCTCGATTGGAAATAATTTGATATTACCATTTTCTCTCAAATCAATATTGATTTTTAAGAC
66 TTATTCTCGATTGAAAATAATTAGATATTACCATTTTCTCTCAAATCAATATTGATTTTTAAGAC
785831 G
131 G
* * * * * * *
785832 GAATAATAATATCTTTCCATTTCGGTTGGAGTAATAAATAATTGTTTTAAGGCATGAGAGGTCAT
1 GAATAGTAATATCTTTACATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGATCAT
* * * * *
785897 TTATTCTCGATTGGAAATAATTTGATATCACCGTTTTCTCTCGAATCAATATTGATTTTTAAGAC
66 TTATTCTCGATTGAAAATAATTAGATATTACCATTTTCTCTCAAATCAATATTGATTTTTAAGAC
785962 G
131 G
* * * *
785963 GAATAGTGATATCTTTACATTTCGATTGGAGCAATAAATGGA-TGCTTTAAGGTATGAGAAATCA
1 GAATAGTAATATCTTTACATTTCGATTGGAGTAATAAAT-GACTGCTTTAAGGCATGAGAGATCA
* * * * * *
786027 TTTATTCTCGATT-ATAAATCATTAGATATTA--TTTTTTTACT-ATAATCGATTTTGAATTTTA
65 TTTATTCTCGATTGA-AAATAATTAGATATTACCATTTTCT-CTCA-AATCAATATTGATTTTTA
786088 AGACG
127 AGACG
* * * * *
786093 AAATAGTGATATCTCTT-CATTTCGATTGAAGTAATAAATGACTACCTTAAGGCATGAGAGATCA
1 GAATAGTAATATCT-TTACATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGATCA
* *
786157 TTTATTCTCGATCGAAAATAATTAGATATTATCATTTTCTCT
65 TTTATTCTCGATTGAAAATAATTAGATATTACCATTTTCTCT
786199 TTTAGAATTA
Statistics
Matches: 318, Mismatches: 40, Indels: 18
0.85 0.11 0.05
Matches are distributed among these distances:
129 7 0.02
130 100 0.31
131 205 0.64
132 6 0.02
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (131 bp):
GAATAGTAATATCTTTACATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGATCAT
TTATTCTCGATTGAAAATAATTAGATATTACCATTTTCTCTCAAATCAATATTGATTTTTAAGAC
G
Found at i:789813 original size:11 final size:11
Alignment explanation
Indices: 789795--789828 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
789785 CAACACCTTG
789795 CATTGCATTTA
1 CATTGCATTTA
* *
789806 CGTTGCATCTA
1 CATTGCATTTA
789817 CATTGCATTTA
1 CATTGCATTTA
789828 C
1 C
789829 TTTTCGTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (11 bp):
CATTGCATTTA
Found at i:797030 original size:18 final size:18
Alignment explanation
Indices: 796984--797114 Score: 81
Period size: 18 Copynumber: 6.9 Consensus size: 18
796974 TACTTCGCCT
*
796984 AAAGAAAGAAAAAGGAAA
1 AAAGAAAAAAAAAGGAAA
*
797002 AATGAAAAAAAAAGGAAA
1 AAAGAAAAAAAAAGGAAA
*
797020 AAAGAATAAAATGAAAATGAAAA
1 AAAG-A-AAAA--AAAA-GGAAA
797043 TAAAGAAAAAAATAA--AAA
1 -AAAGAAAAAAA-AAGGAAA
*
797061 GAAAGAAAGAAAAA-GAAA
1 -AAAGAAAAAAAAAGGAAA
*
797079 GAAAGAAAGAAAAAAGTAAA
1 -AAAGAAA-AAAAAAGGAAA
*
797099 AATA-AAAATAAAAGGA
1 AA-AGAAAAAAAAAGGA
797115 GGTTCAAGAT
Statistics
Matches: 92, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
17 2 0.02
18 50 0.54
19 11 0.12
20 10 0.11
21 2 0.02
22 8 0.09
23 5 0.05
24 4 0.04
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (18 bp):
AAAGAAAAAAAAAGGAAA
Found at i:797041 original size:22 final size:22
Alignment explanation
Indices: 797006--797106 Score: 82
Period size: 22 Copynumber: 4.5 Consensus size: 22
796996 AGGAAAAATG
*
797006 AAAAA-AAAAGGAAA-AAAGAA
1 AAAAATAAAAAGAAAGAAAGAA
* * *
797026 TAAAATGAAAATGAAAATAAAGAA
1 AAAAAT-AAAAAG-AAAGAAAGAA
797050 AAAAATAAAAAGAAAGAAAGAA
1 AAAAATAAAAAGAAAGAAAGAA
* *
797072 AAAGAA-AGAAAGAAAGAAAAAA
1 AAA-AATAAAAAGAAAGAAAGAA
797094 GTAAAAATAAAAA
1 --AAAAATAAAAA
797107 TAAAAGGAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
20 4 0.06
22 31 0.48
23 12 0.18
24 18 0.28
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (22 bp):
AAAAATAAAAAGAAAGAAAGAA
Found at i:797067 original size:4 final size:4
Alignment explanation
Indices: 797058--797094 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
797048 AAAAAAATAA
797058 AAAG AAAG AAAG -AA- AAAG AAAG AAAG AAAG AAA- AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
797095 TAAAAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 7 0.23
4 23 0.77
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:797099 original size:8 final size:7
Alignment explanation
Indices: 796988--797106 Score: 59
Period size: 7 Copynumber: 16.3 Consensus size: 7
796978 TCGCCTAAAG
796988 AAAGAAA
1 AAAGAAA
*
796995 AAGGAAA
1 AAAGAAA
*
797002 AATG--A
1 AAAGAAA
797007 AAA-AAA
1 AAAGAAA
*
797013 AAGGAAA
1 AAAGAAA
797020 AAAGAATA
1 AAAGAA-A
797028 AAATGAAA
1 AAA-GAAA
*
797036 ATGAA-AAT
1 A--AAGAAA
797044 AAAGAAA
1 AAAGAAA
797051 AAA-ATAA
1 AAAGA-AA
797058 AAAGAAA
1 AAAGAAA
797065 GAAAGAAAAA
1 -AAAG--AAA
797075 GAAAGAAA
1 -AAAGAAA
797083 GAAAGAAA
1 -AAAGAAA
*
797091 AAAGTAA
1 AAAGAAA
*
797098 AAATAAA
1 AAAGAAA
797105 AA
1 AA
797107 TAAAAGGAGG
Statistics
Matches: 89, Mismatches: 10, Indels: 26
0.71 0.08 0.21
Matches are distributed among these distances:
5 3 0.03
6 6 0.07
7 42 0.47
8 25 0.28
9 3 0.03
10 10 0.11
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (7 bp):
AAAGAAA
Found at i:798637 original size:133 final size:134
Alignment explanation
Indices: 798349--798784 Score: 397
Period size: 133 Copynumber: 3.3 Consensus size: 134
798339 GTAAATCGAA
* *
798349 CTCGATTCAATCTTCCCAGAAGAATAGTGGAATGAATCAACGTCCCTAGATCTGATATTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACGTCCCCAGATCTGATATTCCCTCA
* ** * * *
798414 AAAAGCAGCAAAACATATCCCTCTTTTTCCAGATTTGATCTTCCTTGAGGAATAGTGGAACAAGT
66 AAAAGCAGCAAAACAGATCAATCTTTTTCCAAATTTGATATTCCTTGAGGAATAGTAGAACAAGT
798479 CTTC
131 CTTC
* * * *
798483 CTCAATTCAATCTTCCTTGAAGAATAGTGGAATGAATCAACGTCCCCAGCTCTGATTTTCCCT-A
1 CTCGATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACGTCCCCAGATCTGATATTCCCTCA
** **
798547 TAGTAGCAGCGTAACAGATCAAT-TTTTTCCAAATTTGATATT-CTCTGAGGAATAGTAGAACAA
66 -AAAAGCAGCAAAACAGATCAATCTTTTTCCAAATTTGATATTCCT-TGAGGAATAGTAGAACAA
798610 GT-TTAC
129 GTCTT-C
* * * * *** *
798616 CTTGATTCAATCTTCCCTGAAGAACATTGGAATGAATCAACAT-TTGAGATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACGTCCCCAGATCTGATATTCCCTCA
* *** * ** * * * * *
798680 AGAAA-TAG-TGTACATATCCCTCTCTTTCC--A-TTGATCTTCCATGAGTAATAGTGGAACAAG
66 A-AAAGCAGCAAAACAGATCAATCTTTTTCCAAATTTGATATTCCTTGAGGAATAGTAGAACAAG
*
798740 TCTGC
130 TCTTC
* ** *
798745 CTCAATTCAATCTTCCCTGAAGAGCAATGGAATGAATCAA
1 CTCGATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAA
798785 TGTTTCTTGG
Statistics
Matches: 249, Mismatches: 45, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
129 62 0.25
130 3 0.01
131 7 0.03
132 28 0.11
133 77 0.31
134 72 0.29
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (134 bp):
CTCGATTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACGTCCCCAGATCTGATATTCCCTCA
AAAAGCAGCAAAACAGATCAATCTTTTTCCAAATTTGATATTCCTTGAGGAATAGTAGAACAAGT
CTTC
Found at i:798921 original size:18 final size:20
Alignment explanation
Indices: 798898--798934 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
798888 TGCCCTATTT
798898 TTAATATTA-ATAT-TATAA
1 TTAATATTATATATATATAA
798916 TTAATATTATATATATATA
1 TTAATATTATATATATATA
798935 TATAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 4 0.24
20 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAATATTATATATATATAA
Found at i:800502 original size:11 final size:11
Alignment explanation
Indices: 800488--800518 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
800478 ATTTTAATTT
800488 TTGCATGTTGC
1 TTGCATGTTGC
800499 TTGCATGTTGC
1 TTGCATGTTGC
800510 TTGCATGTT
1 TTGCATGTT
800519 AGTTCATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.10, C:0.16, G:0.26, T:0.48
Consensus pattern (11 bp):
TTGCATGTTGC
Found at i:803908 original size:51 final size:50
Alignment explanation
Indices: 803774--804247 Score: 384
Period size: 51 Copynumber: 9.1 Consensus size: 50
803764 TCTTTTGCCT
* * * *
803774 ACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTTGAAAATCTTCTGCAA
1 ACGGGTTCGCTCCCTTTTTCTTTAGGGAGTATAGAACTCGAACATC-T-T-C-A
* * *
803828 ACGGGTTCTCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCA
1 ACGGGTTCGCTCCCTTTTTCTTTAGGGAGTATAGAACTCGAACATCTTCA
* *
803878 ACTGGGTTCGCTCCCTTTTTCTTTACGGAGTATAGAACTCGAACATCTTCG
1 AC-GGGTTCGCTCCCTTTTTCTTTAGGGAGTATAGAACTCGAACATCTTCA
* * * *
803929 ACAGGGTTCGCTCCCTTTTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTTCTT
1 AC-GGGTTCGCTCCCTTTTTCTTTAGGGAGTATAGAACTC--GAA-CATCTTC-A
**
803984 ACGGGTTCGCT--CTTTCTCTCTTTAAAGAGTATAGAACTCGAACATCTTCAA
1 ACGGGTTCGCTCCCTTT-T-TCTTTAGGGAGTATAGAACTCGAACATCTTC-A
* * * *
804035 ACGGGTTCGCTCCCTTCTTTCTTTAAGGAGTATGGAACTCGGATATCTTCA
1 ACGGGTTCGCTCCCTT-TTTCTTTAGGGAGTATAGAACTCGAACATCTTCA
* * * *
804086 CACGGGTTCGCTCCCTCTTTT-TCTAGGGAGTATGGGACT-TAGACATCTCTTCAA
1 -ACGGGTTCGCTCCCT-TTTTCTTTAGGGAGTATAGAACTCGA-ACA--TCTTC-A
* * *
804140 ACGGGTTCGCT-CCTTCTTTCTTTAAGGAGAATAGAACTCGAATATCTTCA
1 ACGGGTTCGCTCCCTT-TTTCTTTAGGGAGTATAGAACTCGAACATCTTCA
** * * *
804190 ACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTAT-GAGACTCGAACGATCTTCA
1 AC--GGGT-TC-GCTCCCTTTTTCTTTAGGGAGTATAGA-ACTCGAAC-ATCTTCA
804245 ACG
1 ACG
804248 ATCGTGTCTG
Statistics
Matches: 347, Mismatches: 47, Indels: 53
0.78 0.11 0.12
Matches are distributed among these distances:
50 6 0.02
51 122 0.35
52 60 0.17
53 44 0.13
54 101 0.29
55 14 0.04
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (50 bp):
ACGGGTTCGCTCCCTTTTTCTTTAGGGAGTATAGAACTCGAACATCTTCA
Found at i:803916 original size:105 final size:104
Alignment explanation
Indices: 803776--804191 Score: 411
Period size: 105 Copynumber: 4.0 Consensus size: 104
803766 TTTTGCCTAC
* * * * *
803776 GGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTTGAAAATCTTCTGCAAACGGGTTCTCTCC
1 GGGTTCGCTCCCTTTTTCTTTAGGGAGTATAGAACTCGAACATC-TCTGCAAACGGGTTCGCTCC
* *
803841 CTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCAACT
65 CTCTTTCTTCAAGGAGTATAGAACTCGAATATCTTCAACT
* *
803881 GGGTTCGCTCCCTTTTTCTTTACGGAGTATAGAACTCGAACATCT-T-C-GACAGGGTTCGCTCC
1 GGGTTCGCTCCCTTTTTCTTTAGGGAGTATAGAACTCGAACATCTCTGCAAAC-GGGTTCGCTCC
* * * * **
803943 CTTTTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTTCTT
65 CTCTTTCTTCAAGGAGTATAGAACTCGAATATCTTCAAC-T
**
803984 ACGGGTTCGCT--CTTTCTCTCTTTAAAGAGTATAGAACTCGAACATCT-T-CAAACGGGTTCGC
1 --GGGTTCGCTCCCTTT-T-TCTTTAGGGAGTATAGAACTCGAACATCTCTGCAAACGGGTTCGC
* * *
804045 TCCCTTCTTTCTTTAAGGAGTATGGAACTCGGATATCTTCACAC-
62 TCCC-TCTTTCTTCAAGGAGTATAGAACTCGAATATCTTCA-ACT
* * * * *
804089 GGGTTCGCTCCCTCTTTT-TCTAGGGAGTATGGGACT-TAGACATCTCTTCAAACGGGTTCGCTC
1 GGGTTCGCTCCCT-TTTTCTTTAGGGAGTATAGAACTCGA-ACATCTCTGCAAACGGGTTCGCTC
* * *
804152 CTTCTTTCTTTAAGGAGAATAGAACTCGAATATCTTCAAC
64 CCTCTTTCTTCAAGGAGTATAGAACTCGAATATCTTCAAC
804192 AATCGTGTCT
Statistics
Matches: 262, Mismatches: 34, Indels: 32
0.80 0.10 0.10
Matches are distributed among these distances:
101 2 0.01
102 46 0.18
103 36 0.14
104 37 0.14
105 108 0.41
106 32 0.12
107 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (104 bp):
GGGTTCGCTCCCTTTTTCTTTAGGGAGTATAGAACTCGAACATCTCTGCAAACGGGTTCGCTCCC
TCTTTCTTCAAGGAGTATAGAACTCGAATATCTTCAACT
Found at i:804014 original size:156 final size:156
Alignment explanation
Indices: 803774--804191 Score: 565
Period size: 156 Copynumber: 2.7 Consensus size: 156
803764 TCTTTTGCCT
* * *
803774 ACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTTGAAAATCTTCTGCAAACGGGTTCTCT
1 ACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTTAAAAATCTTCTTCAAACGGGTTCGCT
* * *
803839 CCCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCAACTGGGTTCGCTCCCTT-TTTCTTTA
66 CCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAC-GGGTTCGCTCCCTTCTTTCTTTA
*
803903 CGGAGTATAGAACTCGAACATCTTCGAC
130 AGGAGTATAGAACTCGAACATCTTC-AC
* * **
803931 A-GGGTTCGCTCCCTTTTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCT
1 ACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTTAAAAATCTTCTTCAAACGGGTTCGCT
* * *
803995 CTTTCTCTCTTTAAAGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTTCTTTCTTTA
66 CCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTC-AACGGGTTCGCTCCCTTCTTTCTTTA
* * *
804060 AGGAGTATGGAACTCGGATATCTTCAC
130 AGGAGTATAGAACTCGAACATCTTCAC
* * * *
804087 ACGGGTTCGCTCCCTCTTT-TTCTAGGGAGTATGGGACTTAGACATC-TCTTCAAACGGGTTCGC
1 ACGGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTTAAAAATCTTCTTCAAACGGGTTCGC
* *
804150 TCCTTCTTTCTTTAAGGAGAATAGAACTCGAATATCTTCAAC
65 TCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAAC
804192 AATCGTGTCT
Statistics
Matches: 227, Mismatches: 30, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
155 3 0.01
156 157 0.69
157 67 0.30
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (156 bp):
ACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTTAAAAATCTTCTTCAAACGGGTTCGCT
CCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCAACGGGTTCGCTCCCTTCTTTCTTTAA
GGAGTATAGAACTCGAACATCTTCAC
Found at i:804318 original size:53 final size:55
Alignment explanation
Indices: 804175--804353 Score: 238
Period size: 55 Copynumber: 3.3 Consensus size: 55
804165 GGAGAATAGA
*
804175 ACTCGAA-TATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAG
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAG
* * * * *
804229 ACTCGAACGATCTTCAACGATCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAG
* * * *
804284 AC-C-CACAATCTTCATCAATTGCGTCTGCTCCCTATTTCTTCAGAGAGTATGAG
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAG
*
804337 ACTCGAACAACCTTCAA
1 ACTCGAACAATCTTCAA
804354 TAATTGTTGG
Statistics
Matches: 105, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
53 43 0.41
54 9 0.09
55 53 0.50
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (55 bp):
ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAG
Found at i:805314 original size:10 final size:10
Alignment explanation
Indices: 805299--805331 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
805289 CCATTTTTCA
805299 TTTTTTATTTT
1 TTTTTTA-TTT
805310 TTTTTTATTT
1 TTTTTTATTT
805320 TTTTTTATTT
1 TTTTTTATTT
805330 TT
1 TT
805332 CATTTTCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 15 0.68
11 7 0.32
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:805315 original size:11 final size:11
Alignment explanation
Indices: 805299--805331 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
805289 CCATTTTTCA
805299 TTTTTTATTTT
1 TTTTTTATTTT
805310 TTTTTTA-TTT
1 TTTTTTATTTT
805320 TTTTTTATTTT
1 TTTTTTATTTT
805331 T
1 T
805332 CATTTTCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTTTATTTT
Found at i:808861 original size:8 final size:8
Alignment explanation
Indices: 808848--808875 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
808838 GAAAAAGAAG
808848 ATATATAC
1 ATATATAC
808856 ATATATAC
1 ATATATAC
808864 ATATATAC
1 ATATATAC
808872 ATAT
1 ATAT
808876 GGGAGAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:819111 original size:131 final size:129
Alignment explanation
Indices: 818771--819136 Score: 518
Period size: 131 Copynumber: 2.8 Consensus size: 129
818761 TATTGAGAAT
818771 AATAATATCTTTTCATTTCGGTTGGAGTAATAAATGATTGCTTTAAGGCAATGAGAGGTCATTTA
1 AATAATATC-TTTCATTTCGGTTGGAGTAATAAATGATTGCTTTAAGGC-ATGAGAGGTCATTTA
* * *
818836 TTCTCGATTGGAAATAATTTGATATTACTGTTTTCTCTCGAATCAATATTGATTTTTAATACGAA
64 TTCTCGA-TGGAAATAATTAGATATTACTGTTTTCTCTCGAATCAATATTGAATTTTAAGACGAA
818901 AC
128 AC
* * *
818903 AATAATATCTTTCATTTCGGTTGAAGTAATAAATGATTGTTTTAAGGCATGAGAAGTCATTTATT
1 AATAATATCTTTCATTTCGGTTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATT
* * * *
818968 CTCAAATGGAAATAATTCGATATTACTGTTTTCTCTCGAATCGATATTGAATTTTAAGACGAAAT
66 CTC-GATGGAAATAATTAGATATTACTGTTTTCTCTCGAATCAATATTGAATTTTAAGACGAAAC
* * * *
819033 AGTGATATCTCTTCATTTCGATTGGTGTAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTAT
1 AATAATATCT-TTCATTTCGGTTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTAT
* *
819098 TCTCGATCAGAAATAATTAGATATTA-TCATTTTCTCTCG
65 TCTCGAT-GGAAATAATTAGATATTACT-GTTTTCTCTCG
819137 TAGAATTATG
Statistics
Matches: 210, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
130 84 0.40
131 117 0.56
132 9 0.04
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (129 bp):
AATAATATCTTTCATTTCGGTTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATT
CTCGATGGAAATAATTAGATATTACTGTTTTCTCTCGAATCAATATTGAATTTTAAGACGAAAC
Found at i:822394 original size:17 final size:19
Alignment explanation
Indices: 822354--822396 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
822344 ACTTCATACA
822354 ATTTTATTTTCTACATATT
1 ATTTTATTTTCTACATATT
*
822373 TTTTTATTTTCTA-A-ATT
1 ATTTTATTTTCTACATATT
822390 ATTTTAT
1 ATTTTAT
822397 CATTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 9 0.41
18 1 0.05
19 12 0.55
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTATTTTCTACATATT
Found at i:822584 original size:6 final size:6
Alignment explanation
Indices: 822573--822598 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
822563 GCTTTGCTCA
822573 TGGTCG TGGTCG TGGTCG TGGTCG TG
1 TGGTCG TGGTCG TGGTCG TGGTCG TG
822599 ATCATACGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.50, T:0.35
Consensus pattern (6 bp):
TGGTCG
Found at i:824834 original size:32 final size:30
Alignment explanation
Indices: 824798--824857 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
824788 ATATAAATAT
* *
824798 AAACTGAATGATTACTTAAAAATTAATTTTTA
1 AAACTGAAGGA-TAATTAAAAA-TAATTTTTA
*
824830 AAACTGGAGGATAATTAAAAATAATTTT
1 AAACTGAAGGATAATTAAAAATAATTTT
824858 AAATAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 7 0.28
31 9 0.36
32 9 0.36
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (30 bp):
AAACTGAAGGATAATTAAAAATAATTTTTA
Found at i:827651 original size:7 final size:7
Alignment explanation
Indices: 827633--827665 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
827623 CAAATATAAG
827633 AAGAAG-
1 AAGAAGA
827639 AAGAAGA
1 AAGAAGA
827646 AAGAAGA
1 AAGAAGA
827653 AAGAAGA
1 AAGAAGA
827660 AGAGAA
1 A-AGAA
827666 AAGTTCGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 15 0.60
8 4 0.16
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (7 bp):
AAGAAGA
Done.