Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 77 of 444
Found at i:18288037 original size:4 final size:4
Alignment explanation
Indices: 18288030--18288054 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
18288020 TTTAAATTAA
18288030 TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
18288055 AAATCAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:18289782 original size:27 final size:27
Alignment explanation
Indices: 18289745--18289806 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
18289735 ACAAAATGTA
18289745 AATC-TTTTAGTGAAAAGTAAAGGACT
1 AATCATTTTAGTGAAAAGTAAAGGACT
18289771 AATCATTTTAGTGAAAAGTAAAGGACT
1 AATCATTTTAGTGAAAAGTAAAGGACT
*
18289798 AATTATTTT
1 AATCATTTT
18289807 GAGAAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (27 bp):
AATCATTTTAGTGAAAAGTAAAGGACT
Found at i:18291567 original size:3 final size:3
Alignment explanation
Indices: 18291559--18291804 Score: 108
Period size: 3 Copynumber: 79.7 Consensus size: 3
18291549 GAATTAAATA
* * *
18291559 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TCT TGT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
18291607 CT-T TAT TAC TAT TAC TAT TGT TAT TAC TACT TCCAT TAT TTT TAT T-T
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T T--AT TAT TAT TAT TAT
* * **
18291654 CTAAC TAT TAT TTT TAT GTAT ATAT TAT TAT T-T ATAT TAT CGT TAT
1 -T-AT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT
* * * * * *
18291700 TAT TAC TAT TAT TAAA TAT CT-T TAT TAT TAC TAT TAT TTT TGT TCCT
1 TAT TAT TAT TAT T-AT TAT -TAT TAT TAT TAT TAT TAT TAT TAT T-AT
* * * * **
18291747 T-T TAT TAT TGTT TAT CAT CAT TA- TAT TAT TAT TAT TAC TCC TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
18291791 TAT TAT TAT CAT TA
1 TAT TAT TAT TAT TA
18291805 CTTCTTTTTT
Statistics
Matches: 184, Mismatches: 41, Indels: 36
0.70 0.16 0.14
Matches are distributed among these distances:
2 8 0.04
3 156 0.85
4 17 0.09
5 2 0.01
6 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:18301090 original size:14 final size:14
Alignment explanation
Indices: 18301030--18301092 Score: 67
Period size: 14 Copynumber: 4.5 Consensus size: 14
18301020 AGTGTTAGTT
18301030 TTATTATTTCTTTA
1 TTATTATTTCTTTA
*
18301044 TTAATATTGT-TTTA
1 TTATTATT-TCTTTA
* *
18301058 TTGTTATTTTTGTTA
1 TTATTATTTCT-TTA
18301073 -TATTATTTCTTTA
1 TTATTATTTCTTTA
18301086 TTATTAT
1 TTATTAT
18301093 CATTAGTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
13 4 0.10
14 32 0.80
15 4 0.10
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (14 bp):
TTATTATTTCTTTA
Found at i:18301548 original size:19 final size:20
Alignment explanation
Indices: 18301506--18301552 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
18301496 GTTTTTGTCC
18301506 ATATTATTTTAGGAGTAATT
1 ATATTATTTTAGGAGTAATT
* *
18301526 -TATTA-TTTAGGATTACTT
1 ATATTATTTTAGGAGTAATT
18301544 ATATT-TTTT
1 ATATTATTTT
18301553 CTTGCAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (20 bp):
ATATTATTTTAGGAGTAATT
Found at i:18308398 original size:15 final size:17
Alignment explanation
Indices: 18308378--18308411 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
18308368 AATTTAATAT
18308378 ATATTTTT-TATA-TTA
1 ATATTTTTGTATACTTA
18308393 ATATTTTTGTATACTTA
1 ATATTTTTGTATACTTA
18308410 AT
1 AT
18308412 TAAAATTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 4 0.24
17 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (17 bp):
ATATTTTTGTATACTTA
Found at i:18313210 original size:25 final size:25
Alignment explanation
Indices: 18313182--18313234 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
18313172 TTTTTATAAA
**
18313182 TTTAAATTA-GAAATTCTATTAGGAC
1 TTTAAATTAGGAAA-TAGATTAGGAC
18313207 TTTAAATTAGGAAATAGATTAGGAC
1 TTTAAATTAGGAAATAGATTAGGAC
18313232 TTT
1 TTT
18313235 CCCTTTGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (25 bp):
TTTAAATTAGGAAATAGATTAGGAC
Found at i:18317829 original size:25 final size:25
Alignment explanation
Indices: 18317801--18317855 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
18317791 TTTTTTATAA
**
18317801 ACTTTAAATTAAGAATTCTATTAGG
1 ACTTTAAATTAAGAATTAGATTAGG
18317826 ACTTTAAATTAAGAATTAGATTAGG
1 ACTTTAAATTAAGAATTAGATTAGG
18317851 ACTTT
1 ACTTT
18317856 CCCTTTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (25 bp):
ACTTTAAATTAAGAATTAGATTAGG
Found at i:18320839 original size:16 final size:16
Alignment explanation
Indices: 18320818--18320856 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
18320808 GTTTGGTTCA
18320818 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
18320834 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
18320850 CTGTAAT
1 CTGTAAT
18320857 CAGTAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:18320926 original size:44 final size:46
Alignment explanation
Indices: 18320842--18320931 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
18320832 AGCTGTAATT
*
18320842 GAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGGAATG
***
18320888 GAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGGAATG
18320932 ATGTTGTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 23 0.57
45 3 0.08
46 14 0.35
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.36
Consensus pattern (46 bp):
GAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGGAATG
Found at i:18324327 original size:9 final size:9
Alignment explanation
Indices: 18324313--18324437 Score: 69
Period size: 9 Copynumber: 13.4 Consensus size: 9
18324303 TTTTGGTGCG
18324313 ATAATTTTT
1 ATAATTTTT
18324322 ATAATTTTT
1 ATAATTTTT
*
18324331 ACGAA-TTTT
1 A-TAATTTTT
18324340 ATAATTTTT
1 ATAATTTTT
* *
18324349 ACATTTTTT
1 ATAATTTTT
18324358 ATAATTTTCT
1 ATAATTTT-T
**
18324368 -TACAACTTT
1 ATA-ATTTTT
*
18324377 ATAACATTTT
1 ATAA-TTTTT
*
18324387 ATAGTTTTT
1 ATAATTTTT
* *
18324396 TTATATTTCT
1 ATA-ATTTTT
18324406 AT-ATATTTT
1 ATAAT-TTTT
18324415 ATAATTTTT
1 ATAATTTTT
18324424 -TACGATTTTT
1 ATA--ATTTTT
18324434 ATAA
1 ATAA
18324438 AAAAATTCTA
Statistics
Matches: 88, Mismatches: 16, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
8 6 0.07
9 52 0.59
10 28 0.32
11 2 0.02
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.60
Consensus pattern (9 bp):
ATAATTTTT
Found at i:18324341 original size:18 final size:18
Alignment explanation
Indices: 18324318--18324437 Score: 77
Period size: 19 Copynumber: 6.4 Consensus size: 18
18324308 GTGCGATAAT
18324318 TTTTATAATTTTTACGA-A
1 TTTTATAATTTTTAC-ATA
*
18324336 TTTTATAATTTTTACATT
1 TTTTATAATTTTTACATA
18324354 TTTTATAATTTTCTTACA-A
1 TTTTATAA-TTT-TTACATA
* * *
18324373 CTTTATAACATTTTATAGT-
1 TTTTATAA-TTTTTACA-TA
* * *
18324392 TTTTTTATATTTCTATATA
1 TTTTATA-ATTTTTACATA
18324411 TTTTATAATTTTTTACGAT-
1 TTTTATAA-TTTTTAC-ATA
18324430 TTTTATAA
1 TTTTATAA
18324438 AAAAATTCTA
Statistics
Matches: 80, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
17 1 0.01
18 29 0.36
19 42 0.52
20 8 0.10
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTATAATTTTTACATA
Found at i:18324462 original size:18 final size:17
Alignment explanation
Indices: 18324439--18324481 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
18324429 TTTTTATAAA
18324439 AAAATTCTAATTTTTAAT
1 AAAATT-TAATTTTTAAT
*
18324457 AAAA-TT-ATTTTTATT
1 AAAATTTAATTTTTAAT
18324472 AAAATTTAAT
1 AAAATTTAAT
18324482 AATTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 12 0.55
16 3 0.14
17 3 0.14
18 4 0.18
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
AAAATTTAATTTTTAAT
Found at i:18325000 original size:7 final size:7
Alignment explanation
Indices: 18324994--18325030 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
18324984 TTTATAATTT
*
18324994 AATATTT
1 AATATTC
18325001 AATATTC
1 AATATTC
18325008 AATATTC
1 AATATTC
18325015 AATATTC
1 AATATTC
18325022 AATATTC
1 AATATTC
18325029 AA
1 AA
18325031 CATTTTAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (7 bp):
AATATTC
Found at i:18325344 original size:13 final size:13
Alignment explanation
Indices: 18325312--18325349 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
18325302 TTCCATCAGA
*
18325312 TTCTTTCCTTTTT
1 TTCTTTTCTTTTT
18325325 TTCTTTTCTTTTT
1 TTCTTTTCTTTTT
18325338 TT-TTTT-TTTTT
1 TTCTTTTCTTTTT
18325349 T
1 T
18325350 GCCTTTCACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 6 0.25
12 4 0.17
13 14 0.58
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (13 bp):
TTCTTTTCTTTTT
Found at i:18328256 original size:89 final size:89
Alignment explanation
Indices: 18328105--18328281 Score: 320
Period size: 89 Copynumber: 2.0 Consensus size: 89
18328095 CAAGAGTTAT
*
18328105 ATGTTAGGACACAAGTGAAAAATATGGAAATTGTTCATTGAAACTTGTAAGTTGCTGTATCATTG
1 ATGTTAGGACACAAGTGAAAAATATGGAAATTGTACATTGAAACTTGTAAGTTGCTGTATCATTG
18328170 AAGCAATGAA-CAAACAGAAGTGAC
66 AAGCAAT-AAGCAAACAGAAGTGAC
*
18328194 ATGTTAGGACACAAGTGAAAAATATGGAAATTGTACATTGAAACTTGTAAGTTTCTGTATCATTG
1 ATGTTAGGACACAAGTGAAAAATATGGAAATTGTACATTGAAACTTGTAAGTTGCTGTATCATTG
18328259 AAGCAATAAGCAAACAGAAGTGA
66 AAGCAATAAGCAAACAGAAGTGA
18328282 ACCATCAAGC
Statistics
Matches: 85, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
88 2 0.02
89 83 0.98
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (89 bp):
ATGTTAGGACACAAGTGAAAAATATGGAAATTGTACATTGAAACTTGTAAGTTGCTGTATCATTG
AAGCAATAAGCAAACAGAAGTGAC
Found at i:18336106 original size:19 final size:17
Alignment explanation
Indices: 18336082--18336117 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
18336072 TTTAAATGTA
18336082 TATATATGAGATTATATAT
1 TATATAT-AGATTA-ATAT
18336101 TATATATAGATTAATAT
1 TATATATAGATTAATAT
18336118 GTTAAACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 6 0.35
19 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (17 bp):
TATATATAGATTAATAT
Found at i:18336358 original size:18 final size:18
Alignment explanation
Indices: 18336335--18336369 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18336325 TAATTTAGTG
18336335 TATTTAGTATAAATATTA
1 TATTTAGTATAAATATTA
* *
18336353 TATTTATTTTAAATATT
1 TATTTAGTATAAATATT
18336370 TTAACATGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TATTTAGTATAAATATTA
Found at i:18348813 original size:60 final size:60
Alignment explanation
Indices: 18348729--18348845 Score: 191
Period size: 60 Copynumber: 1.9 Consensus size: 60
18348719 ATACTAAACT
* * *
18348729 AAACATAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
18348789 AAACACAACAAATTT-TAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAAT
1 AAACACAAC-AATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAAT
18348846 ATTAAAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
60 48 0.91
61 5 0.09
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:18353073 original size:15 final size:15
Alignment explanation
Indices: 18353053--18353094 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18353043 ACAAAATAAA
18353053 TAATACTTAATTTTC
1 TAATACTTAATTTTC
*
18353068 TAATACTTATTTTTC
1 TAATACTTAATTTTC
*
18353083 -AACACTT-ATTTT
1 TAATACTTAATTTT
18353095 TTTCAATTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 4 0.17
14 6 0.25
15 14 0.58
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATACTTAATTTTC
Found at i:18353089 original size:14 final size:15
Alignment explanation
Indices: 18353057--18353095 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
18353047 AATAAATAAT
* *
18353057 ACTTAATTTTCTAAT
1 ACTTATTTTTCTAAC
18353072 ACTTATTTTTC-AAC
1 ACTTATTTTTCTAAC
18353086 ACTTATTTTT
1 ACTTATTTTT
18353096 TTCAATTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (15 bp):
ACTTATTTTTCTAAC
Found at i:18361118 original size:16 final size:15
Alignment explanation
Indices: 18361091--18361128 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
18361081 TTTAGTTGAT
18361091 AAAAAA-ATAAAATA
1 AAAAAATATAAAATA
18361105 AAACAAATATAAAATA
1 AAA-AAATATAAAATA
18361121 AAAAAATA
1 AAAAAATA
18361129 GAATTATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 8 0.36
16 11 0.50
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAAAATATAAAATA
Found at i:18364316 original size:18 final size:19
Alignment explanation
Indices: 18364290--18364338 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
18364280 TTTTAGAAAA
18364290 ATATAAAAAATTAGAATTTT
1 ATAT-AAAAATTAGAATTTT
18364310 AT-TAAAAATTAGAATTTT
1 ATATAAAAATTAGAATTTT
*
18364328 TTATAAAAATT
1 ATATAAAAATT
18364339 GTAAAAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 16 0.59
19 9 0.33
20 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
ATATAAAAATTAGAATTTT
Found at i:18364316 original size:27 final size:27
Alignment explanation
Indices: 18364255--18364318 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
18364245 AGCCCTGCTC
*
18364255 TTATTAAAAATAATAAAAATATAACTT
1 TTATTAAAAATAATAAAAATATAAATT
*
18364282 TTA-GAAAAAT-ATAAAAA-ATTAGAATT
1 TTATTAAAAATAATAAAAATA-TA-AATT
18364308 TTATTAAAAAT
1 TTATTAAAAAT
18364319 TAGAATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 1 0.03
25 9 0.29
26 12 0.39
27 9 0.29
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (27 bp):
TTATTAAAAATAATAAAAATATAAATT
Found at i:18364518 original size:20 final size:20
Alignment explanation
Indices: 18364493--18364549 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
18364483 TACGATAATT
18364493 TTTATAATTTTTTTACGAAA
1 TTTATAATTTTTTTACGAAA
**
18364513 TTTAT-ATTTTTTTAC-ATT
1 TTTATAATTTTTTTACGAAA
*
18364531 TTATATAATTTTCTTACGA
1 TT-TATAATTTTTTTACGA
18364550 CTTTTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 3 0.10
19 13 0.42
20 14 0.45
21 1 0.03
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTATAATTTTTTTACGAAA
Found at i:18364525 original size:22 final size:23
Alignment explanation
Indices: 18364477--18364549 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 23
18364467 AAAATACTTC
*
18364477 TTTTGTTACGATAATTTTTATAA
1 TTTTGTTACGATAATTTATATAA
*
18364500 TTTTTTTACGA-AATTTATAT--
1 TTTTGTTACGATAATTTATATAA
18364520 TTTT-TTAC-AT--TTTATATAA
1 TTTTGTTACGATAATTTATATAA
*
18364539 TTTTCTTACGA
1 TTTTGTTACGA
18364550 CTTTTTAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
17 7 0.16
18 1 0.02
19 8 0.19
20 8 0.19
21 1 0.02
22 8 0.19
23 10 0.23
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (23 bp):
TTTTGTTACGATAATTTATATAA
Found at i:18364537 original size:19 final size:20
Alignment explanation
Indices: 18364492--18364655 Score: 66
Period size: 19 Copynumber: 8.7 Consensus size: 20
18364482 TTACGATAAT
18364492 TTTTATA-ATTTTTTTACGA
1 TTTTATATATTTTTTTACGA
**
18364511 AATT-TATATTTTTTTAC-A
1 TTTTATATATTTTTTTACGA
*
18364529 TTTTATATAATTTTCTTACGA
1 TTTTATAT-ATTTTTTTACGA
** **
18364550 CTTTT-TA-A-AATTTTAAAA
1 -TTTTATATATTTTTTTACGA
* * *
18364568 TTTT-TATATTTCTATA-TA
1 TTTTATATATTTTTTTACGA
18364586 -TTTATA-A-TTTTTTACGA
1 TTTTATATATTTTTTTACGA
*** *
18364603 TTTT-TATAAAATTTTACAA
1 TTTTATATATTTTTTTACGA
* *
18364622 TTTT-TATATTTTTTAATGA
1 TTTTATATATTTTTTTACGA
18364641 TTTTTATATATTTTT
1 -TTTTATATATTTTT
18364656 CTAATTTCTA
Statistics
Matches: 104, Mismatches: 27, Indels: 26
0.66 0.17 0.17
Matches are distributed among these distances:
16 5 0.05
17 13 0.12
18 18 0.17
19 39 0.38
20 13 0.12
21 12 0.12
22 4 0.04
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTATATATTTTTTTACGA
Found at i:18364599 original size:10 final size:9
Alignment explanation
Indices: 18364487--18364685 Score: 79
Period size: 9 Copynumber: 21.2 Consensus size: 9
18364477 TTTTGTTACG
18364487 ATAATTTTT
1 ATAATTTTT
18364496 ATAATTTTT
1 ATAATTTTT
* **
18364505 TTACGAAATTT
1 ATA--ATTTTT
18364516 AT-ATTTTT
1 ATAATTTTT
*
18364524 TTACATTTTAT
1 ATA-ATTTT-T
18364535 ATAATTTTCT
1 ATAATTTT-T
18364545 -TACGACTTTTT
1 ATA--A-TTTTT
*
18364556 A-AAATTTT
1 ATAATTTTT
*
18364564 AAAATTTTT
1 ATAATTTTT
*
18364573 AT-ATTTCT
1 ATAATTTTT
*
18364581 AT-ATATTT
1 ATAATTTTT
18364589 ATAATTTTT
1 ATAATTTTT
18364598 -TACGATTTTT
1 ATA--ATTTTT
*
18364608 ATAAAATTTT
1 AT-AATTTTT
*
18364618 ACAATTTTT
1 ATAATTTTT
*
18364627 ATATTTTTT
1 ATAATTTTT
*
18364636 AATGATTTTT
1 -ATAATTTTT
18364646 ATATATTTTT
1 ATA-ATTTTT
* *
18364656 CTAATTTCTA
1 ATAATTT-TT
*
18364666 ATAAATTTT
1 ATAATTTTT
18364675 -TAATATTTT
1 ATAAT-TTTT
18364684 AT
1 AT
18364686 TTTTATTAAA
Statistics
Matches: 140, Mismatches: 30, Indels: 39
0.67 0.14 0.19
Matches are distributed among these distances:
8 28 0.20
9 50 0.36
10 45 0.32
11 12 0.09
12 5 0.04
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (9 bp):
ATAATTTTT
Found at i:18364653 original size:29 final size:29
Alignment explanation
Indices: 18364555--18364683 Score: 90
Period size: 29 Copynumber: 4.6 Consensus size: 29
18364545 TACGACTTTT
* *
18364555 TAAAATTTTAAAATTTTTAT-ATTTCT-A
1 TAAATTTTTAATATTTTTATAATTTCTAA
* * ** *
18364582 TATATTTATAAT-TTTTTACGATTT-TTA
1 TAAATTTTTAATATTTTTATAATTTCTAA
* * *
18364609 TAAAATTTTACA-ATTTTTATATTTTTTAA
1 TAAATTTTTA-ATATTTTTATAATTTCTAA
* *
18364638 T-GATTTTTATATATTTTTCTAATTTCTAA
1 TAAATTTTTA-ATATTTTTATAATTTCTAA
18364667 TAAATTTTTAATATTTT
1 TAAATTTTTAATATTTT
18364684 ATTTTTATTA
Statistics
Matches: 76, Mismatches: 19, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
26 7 0.09
27 20 0.26
28 17 0.22
29 25 0.33
30 7 0.09
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (29 bp):
TAAATTTTTAATATTTTTATAATTTCTAA
Found at i:18364662 original size:38 final size:39
Alignment explanation
Indices: 18364576--18364676 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 39
18364566 AATTTTTATA
*
18364576 TTTCTATATATTTATAATTTTTTACGATTTTTATAAAATT
1 TTTCTA-ATTTTTATAATTTTTTACGATTTTTATAAAATT
* * *
18364616 TTAC-AATTTTTAT-ATTTTTTAATGATTTTTAT-ATATT
1 TTTCTAATTTTTATAATTTTTT-ACGATTTTTATAAAATT
* *
18364653 TTTCTAATTTCTAATAAATTTTTA
1 TTTCTAATTT-TTATAATTTTTTA
18364677 ATATTTTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
37 14 0.28
38 22 0.44
39 5 0.10
40 9 0.18
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (39 bp):
TTTCTAATTTTTATAATTTTTTACGATTTTTATAAAATT
Found at i:18365512 original size:16 final size:16
Alignment explanation
Indices: 18365461--18365513 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
18365451 TAGATAATCT
18365461 AATAAGATAATTACATGTA
1 AATAA-ATAA-TACAT-TA
* *
18365480 AA-AAATAATAAAATA
1 AATAAATAATACATTA
18365495 AATAAATAATACATTA
1 AATAAATAATACATTA
18365511 AAT
1 AAT
18365514 TAAAAAAGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 4 0.14
16 17 0.59
17 4 0.14
18 2 0.07
19 2 0.07
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (16 bp):
AATAAATAATACATTA
Found at i:18369006 original size:16 final size:16
Alignment explanation
Indices: 18368985--18369019 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
18368975 TTTCATTTTC
*
18368985 GTTAACGAATGTAGGT
1 GTTAACGAATGTAGAT
18369001 GTTAACGAATGTAGAT
1 GTTAACGAATGTAGAT
18369017 GTT
1 GTT
18369020 GTGTTTAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.34
Consensus pattern (16 bp):
GTTAACGAATGTAGAT
Found at i:18377606 original size:18 final size:18
Alignment explanation
Indices: 18377583--18377622 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
18377573 TTTCAATACC
18377583 AAAAAAAAAAGAAAAAAG
1 AAAAAAAAAAGAAAAAAG
* *
18377601 AAAAAAAGAAGAGAAAAG
1 AAAAAAAAAAGAAAAAAG
18377619 AAAA
1 AAAA
18377623 GAGAGGCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAGAAAAAAG
Found at i:18379345 original size:11 final size:11
Alignment explanation
Indices: 18379327--18379364 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
18379317 ATAATAACAA
18379327 CAAAATAATAG
1 CAAAATAATAG
*
18379338 CAATATAATAG
1 CAAAATAATAG
*
18379349 CAAAATGATAG
1 CAAAATAATAG
18379360 CAAAA
1 CAAAA
18379365 CAACGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.18
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:18379345 original size:22 final size:22
Alignment explanation
Indices: 18379320--18379362 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18379310 TATCCAAATA
18379320 ATAACAACAAAATAATAGCAAT
1 ATAACAACAAAATAATAGCAAT
* * *
18379342 ATAATAGCAAAATGATAGCAA
1 ATAACAACAAAATAATAGCAA
18379363 AACAACGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.09, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAATAGCAAT
Found at i:18379652 original size:15 final size:15
Alignment explanation
Indices: 18379608--18379654 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
18379598 ACTTAAATTC
*
18379608 AACATTTAATTTTTC
1 AACATTTAATTTTTT
* *
18379623 AATATTTATTTTTTT
1 AACATTTAATTTTTT
*
18379638 AACACTTAATTTTTT
1 AACATTTAATTTTTT
18379653 AA
1 AA
18379655 TTTATTAAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
AACATTTAATTTTTT
Found at i:18386030 original size:42 final size:43
Alignment explanation
Indices: 18385939--18386030 Score: 118
Period size: 42 Copynumber: 2.1 Consensus size: 43
18385929 TCCAGGACGC
18385939 TGGCATCGACTTATGATTTACGTGTAAGACCATGTCTGGAACA
1 TGGCATCGACTTATGATTTACGTGTAAGACCATGTCTGGAACA
* *
18385982 TCGGCATCGTA-TT-TGATTT-CGTGTAAGACCTTGTCTGGGACA
1 T-GGCATCG-ACTTATGATTTACGTGTAAGACCATGTCTGGAACA
18386024 GTGGCAT
1 -TGGCAT
18386031 TGATGTTTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
42 26 0.59
43 8 0.18
44 9 0.20
45 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (43 bp):
TGGCATCGACTTATGATTTACGTGTAAGACCATGTCTGGAACA
Found at i:18394971 original size:22 final size:23
Alignment explanation
Indices: 18394946--18394991 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
18394936 CAACCAAATC
18394946 AATTCA-GCATATTT-TCAAGATA
1 AATTCATGCATATTTAT-AAGATA
18394968 AATTCATGCATATTTATAAGATA
1 AATTCATGCATATTTATAAGATA
18394991 A
1 A
18394992 CGTCATCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (23 bp):
AATTCATGCATATTTATAAGATA
Found at i:18394997 original size:23 final size:25
Alignment explanation
Indices: 18394952--18395007 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 25
18394942 AATCAATTCA
*
18394952 GCATATTT-TCAAGATAAATTCAT-
1 GCATATTTATCAAGATAAAGTCATC
*
18394975 GCATATTTAT-AAGATAACGTCATC
1 GCATATTTATCAAGATAAAGTCATC
*
18394999 ACATATTTA
1 GCATATTTA
18395008 AAACCAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (25 bp):
GCATATTTATCAAGATAAAGTCATC
Found at i:18396262 original size:17 final size:17
Alignment explanation
Indices: 18396240--18396273 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
18396230 CACTATAAGT
18396240 AAGTGCCTTTTCCATTC
1 AAGTGCCTTTTCCATTC
18396257 AAGTGCCTTTTCCATTC
1 AAGTGCCTTTTCCATTC
18396274 CTTAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.29, G:0.12, T:0.41
Consensus pattern (17 bp):
AAGTGCCTTTTCCATTC
Found at i:18398462 original size:41 final size:41
Alignment explanation
Indices: 18398414--18398498 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
18398404 AAAAATAACA
*
18398414 AAAAGGTCTACTTATTTTTTTAAACTTA-CTCTAATAATCCC
1 AAAAGGTCTACTTATTTTATTAAAC-TAGCTCTAATAATCCC
*
18398455 AAAAGGTCTACTTATTTTATTAAACTAGCTTTAATAATCCC
1 AAAAGGTCTACTTATTTTATTAAACTAGCTCTAATAATCCC
18398496 AAA
1 AAA
18398499 GGGAACCGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
40 2 0.05
41 39 0.95
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.39
Consensus pattern (41 bp):
AAAAGGTCTACTTATTTTATTAAACTAGCTCTAATAATCCC
Found at i:18399234 original size:19 final size:19
Alignment explanation
Indices: 18399192--18399236 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
18399182 CATTAACATT
*
18399192 ATTAAAATTAAAAAATATA
1 ATTAAATTTAAAAAATATA
*
18399211 TTTAAATTTAAACAAAT-TA
1 ATTAAATTTAAA-AAATATA
18399230 ATTAAAT
1 ATTAAAT
18399237 GCTAACATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTAAATTTAAAAAATATA
Found at i:18399629 original size:16 final size:16
Alignment explanation
Indices: 18399608--18399661 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
18399598 TTTGGTTCAT
*
18399608 TGTAATGGAATAGGGC
1 TGTAATGGAATAGAGC
*
18399624 TGTAATTGAATAGAGC
1 TGTAATGGAATAGAGC
*
18399640 TGTAATGGAATAGAAC
1 TGTAATGGAATAGAGC
18399656 TGTAAT
1 TGTAAT
18399662 AAGTAATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.37, C:0.06, G:0.28, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAGC
Found at i:18399706 original size:46 final size:44
Alignment explanation
Indices: 18399649--18399736 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
18399639 CTGTAATGGA
18399649 ATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGAAATGTT
1 ATAGAACTGTAAT-AGT-ATTCAACTGTTTGGTTGAATGAAATGTT
* *** *
18399695 ATAGAATTGTAATAGTATTCTTGTGTTTGGTTGAATGGAATG
1 ATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATGAAATG
18399737 ATGTTGTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 22 0.59
45 3 0.08
46 12 0.32
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.40
Consensus pattern (44 bp):
ATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATGAAATGTT
Found at i:18399929 original size:18 final size:18
Alignment explanation
Indices: 18399906--18399940 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18399896 TAATTATTAT
*
18399906 TAAATATAATTTAATAAA
1 TAAATATAATGTAATAAA
18399924 TAAATATAATGTAATAA
1 TAAATATAATGTAATAA
18399941 CATTCTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
TAAATATAATGTAATAAA
Found at i:18401268 original size:17 final size:18
Alignment explanation
Indices: 18401246--18401286 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
18401236 AAAATAAAAC
* *
18401246 ATTAAAAA-TATGTTTTA
1 ATTAAAAATTATCTTTAA
18401263 ATTAAAAATTATCTTTAA
1 ATTAAAAATTATCTTTAA
18401281 ATTAAA
1 ATTAAA
18401287 TAGAGAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTAAAAATTATCTTTAA
Found at i:18401964 original size:17 final size:17
Alignment explanation
Indices: 18401942--18401983 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
18401932 GGCCACCGTA
* *
18401942 GCCGACGACGGGCGGTG
1 GCCGACGACAGGCGGCG
18401959 GCCGACGACAGGCGGCG
1 GCCGACGACAGGCGGCG
*
18401976 ACCGACGA
1 GCCGACGA
18401984 TCGATCGGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.19, C:0.33, G:0.45, T:0.02
Consensus pattern (17 bp):
GCCGACGACAGGCGGCG
Found at i:18404134 original size:12 final size:12
Alignment explanation
Indices: 18404117--18404152 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
18404107 TCATAACTGA
18404117 CATTCATGCATT
1 CATTCATGCATT
*
18404129 CATTCATGCATC
1 CATTCATGCATT
*
18404141 CATTCATTCATT
1 CATTCATGCATT
18404153 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:18404146 original size:16 final size:17
Alignment explanation
Indices: 18404125--18404156 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18404115 GACATTCATG
18404125 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
18404141 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
18404157 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:18412793 original size:73 final size:71
Alignment explanation
Indices: 18412606--18412839 Score: 301
Period size: 73 Copynumber: 3.3 Consensus size: 71
18412596 GAGTTAAGCC
* * *
18412606 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGC
1 TTTTCAATTTCTG-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
18412669 TGAGGTA
65 TGAGGTA
* * ** *
18412676 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
1 TTTTCAATTTCTGT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
18412741 TGAGGTA
65 TGAGGTA
* * *
18412748 ATTTCAATTTCTGTTTGTCAAGAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACG
1 TTTTCAATTTCTGTTT-TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
18412813 CCGAGGTA
64 CTGAGGTA
*
18412821 TTTTCAATTTCTGTCTTCA
1 TTTTCAATTTCTGTTTTCA
18412840 TTATTATGTT
Statistics
Matches: 142, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
70 5 0.04
71 47 0.33
72 31 0.22
73 59 0.42
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.37
Consensus pattern (71 bp):
TTTTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTA
Found at i:18412916 original size:88 final size:88
Alignment explanation
Indices: 18412767--18413094 Score: 462
Period size: 88 Copynumber: 3.7 Consensus size: 88
18412757 TCTGTTTGTC
*
18412767 AAGAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTC
1 AAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTC
*
18412832 TGTCTTCATTATTATGTTTTTGA
66 TGTTTTCATTATTATGTTTTTGA
* *
18412855 AAGAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACGCCGAGGTATTTTCAATTTC
1 AAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTC
18412920 TGTTTTCATTATTATGTTTTTGA
66 TGTTTTCATTATTATGTTTTTGA
* *
18412943 AAGAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATT
1 AAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATT
* * **
18413008 T-TCGTTTTTCAAT-TTCTGTCTTTCAAA
64 TCT-G-TTTTCATTATTATGT-TTT-TGA
* * * *
18413035 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 AAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCA
18413095 GTTGTCAAAA
Statistics
Matches: 218, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
88 124 0.57
89 1 0.00
90 44 0.20
91 10 0.05
92 39 0.18
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.34
Consensus pattern (88 bp):
AAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTC
TGTTTTCATTATTATGTTTTTGA
Found at i:18413112 original size:68 final size:69
Alignment explanation
Indices: 18413033--18413164 Score: 203
Period size: 68 Copynumber: 1.9 Consensus size: 69
18413023 CTGTCTTTCA
* *
18413033 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAGT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAGT
18413097 TGTC
66 TGTC
* * *
18413101 AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCA
18413165 ATTTCTGTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
68 40 0.70
70 17 0.30
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (69 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAGT
TGTC
Found at i:18413178 original size:14 final size:14
Alignment explanation
Indices: 18413159--18413185 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18413149 CGCCGAGGTA
18413159 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
18413173 TTTTCAATTTCTG
1 TTTTCAATTTCTG
18413186 CCTTTCAAAA
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:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:18413191 original size:14 final size:14
Alignment explanation
Indices: 18413160--18413193 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
18413150 GCCGAGGTAT
**
18413160 TTTCAATTTCTGTT
1 TTTCAATTTCTGCC
18413174 TTTCAATTTCTGCC
1 TTTCAATTTCTGCC
18413188 TTTCAA
1 TTTCAA
18413194 AAAAAATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTCAATTTCTGCC
Found at i:18413323 original size:76 final size:75
Alignment explanation
Indices: 18413174--18413617 Score: 294
Period size: 72 Copynumber: 5.7 Consensus size: 75
18413164 AATTTCTGTT
* *
18413174 TTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTG-CTTTCAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAACCTCAGCACA
*
18413239 CGCTGAGGTAA
65 CGCCGAGGTAA
* * *
18413250 TTTCAATTTCTG-TTGTC-AAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAACCTCAGATCA
1 TTTCAATTTCTGCTT-TCAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAACCTCAG--CA
*
18413313 CACGCCGAGGTAT
63 CACGCCGAGGTAA
* * **
18413326 TTTCAATTTCCATTTTTCAATTTCTGCCTTTAAAAAAAAATCAACTCATATTGTGAGAGGTGAGT
1 TTTCAATTT-C----TGC---TT-T--C--AAAAAAA--ATCAACTCATATTGCAAGAGGTGAGT
* * * *
18413391 TGAGCCTCGGGACACGCTGAGGTAA
51 TGAACCTCAGCACACGCCGAGGTAA
* * * ** *
18413416 TTTCAATTTCTGTTTTC---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACA
1 TTTCAATTTCTGCTTTCAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAACCTC-AGCACA
**
18413477 CGTTGAGGTAA
65 CGCCGAGGTAA
* * * ** *
18413488 TTTCAATTTCTGTTTTC--AAAAAATCGAA-TCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
1 TTTCAATTTCTGCTTTCAAAAAAAATC-AACTCATATTGCAAGAGGTGAGTTGAACCTCAGCACA
* *
18413550 CGCGCTGAGCTAT
65 CGC-C-GAGGTAA
* * *
18413563 TTTCAATTTCTATCTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTCAATTTCT-GCTTT-CAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGA
18413618 GCTTCAGATC
Statistics
Matches: 300, Mismatches: 38, Indels: 57
0.76 0.10 0.14
Matches are distributed among these distances:
72 61 0.20
73 36 0.12
74 46 0.15
75 18 0.06
76 36 0.12
77 1 0.00
78 2 0.01
79 32 0.11
81 2 0.01
82 2 0.01
85 4 0.01
87 1 0.00
89 1 0.00
90 27 0.09
92 31 0.10
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (75 bp):
TTTCAATTTCTGCTTTCAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAACCTCAGCACAC
GCCGAGGTAA
Found at i:18413330 original size:326 final size:326
Alignment explanation
Indices: 18412699--18413506 Score: 966
Period size: 326 Copynumber: 2.4 Consensus size: 326
18412689 TGTTTTAATT
*
18412699 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC-A----TGTTT
* * *
18412764 GTCAAGAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAAT
61 GTCAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAAT
* *** * * * *
18412829 TTCTGTCTTCATTATTATGTTTTTGAAAGAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTA
126 TTCTGTCTTCAATATTATGTTTCAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCA
* * *
18412894 GGTCACGCCGAGGTATTTTCAATTTCTGTTTTCATTATTATGTTTTTGAAAGAATCAACTCGTAT
191 GGACACGCCGAGGTAATTTCAATTTCTGTTGTCA-TA-TA------T-AAAG-ATCAACTCGTAT
* * * *
18412959 TGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTTCGTTTTTCAATTTC
246 TGCGAGAGGCGAGTTGAACCTCAGATCACACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTC
* *
18413024 TGTCTTTCAAAAAAAA
311 TGCCTTTAAAAAAAAA
18413040 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA-G-TTGTCAA
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCATGTTTGTC--
* *
18413103 AAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATT
64 AAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATT
* *
18413168 TCTGTTTTTCAAT-TTCTGCCTTTCAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
127 TCTG-TCTTCAATATTATG--TTTCAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
*
18413232 CAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCA-A-A-AAAG-TCAACTCGTATTGCGAGAG
189 CAGGACACGCCGAGGTAATTTCAATTTCTGTTGTCATATATAAAGATCAACTCGTATTGCGAGAG
*
18413293 GTGAGTTGAACCTCAGATCACACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTA
254 GCGAGTTGAACCTCAGATCACACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTA
18413358 AAAAAAAA
319 AAAAAAAA
* *
18413366 TCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAAT-TTCTGTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC-ATGTT-TG--
* *** * * ** *
18413430 TTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAAT
62 -TCAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAAT
*
18413495 TTCTGTTTTCAA
126 TTCTGTCTTCAA
18413507 AAAATCGAAT
Statistics
Matches: 413, Mismatches: 40, Indels: 42
0.83 0.08 0.08
Matches are distributed among these distances:
326 137 0.33
327 8 0.02
328 27 0.07
329 2 0.00
330 34 0.08
332 2 0.00
334 5 0.01
335 1 0.00
336 38 0.09
338 30 0.07
339 6 0.01
340 70 0.17
341 53 0.13
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (326 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCATGTTTGTCAA
AAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTG
TCTTCAATATTATGTTTCAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA
CGCCGAGGTAATTTCAATTTCTGTTGTCATATATAAAGATCAACTCGTATTGCGAGAGGCGAGTT
GAACCTCAGATCACACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTAAAAAAAA
A
Found at i:18413345 original size:166 final size:166
Alignment explanation
Indices: 18412946--18413503 Score: 821
Period size: 166 Copynumber: 3.4 Consensus size: 166
18412936 TTTTTGAAAG
* *
18412946 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTTC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCC
*
18413011 GTTTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
18413076 ACACGCTGAGGTAATTTC-A-----GTTGTCAAAAA
131 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * *
18413106 AATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCC
*
18413171 GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG
66 GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
18413236 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
131 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * *
18413272 AGTCAACTCGTATTGCGAGAGGTGAGTTGAACCTCAGATCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCC
* * * *
18413337 ATTTTTCAATTTCTGCCTTTAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGG
66 GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
18413402 ACACGCTGAGGTAATTTCAATTTCTGTTTTC--AAA
131 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * *** * ** * *
18413436 ATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTAATTTCAATTTCT
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCC
18413499 GTTTT
66 GTTTT
18413504 CAAAAAATCG
Statistics
Matches: 364, Mismatches: 28, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
160 143 0.39
161 1 0.00
162 25 0.07
163 1 0.00
164 34 0.09
166 160 0.44
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (166 bp):
AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCC
GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
Found at i:18413462 original size:72 final size:72
Alignment explanation
Indices: 18413361--18413619 Score: 304
Period size: 72 Copynumber: 3.5 Consensus size: 72
18413351 GCCTTTAAAA
*
18413361 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
18413426 TGTTTTC
66 TGTTTTC
* ** ** *
18413433 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
18413498 TGTTTTC
66 TGTTTTC
* * * * *
18413505 AAAAAATCGAA-TCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 -AAAAATC-AACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTAATTTCAA
* *
18413569 TTTCTATCTTTAAAAA
62 TTTCTGT-TTT----C
18413585 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
18413620 TTCAGATCAC
Statistics
Matches: 157, Mismatches: 20, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
72 65 0.41
73 31 0.20
74 2 0.01
75 22 0.14
76 3 0.02
78 2 0.01
79 32 0.20
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:18413603 original size:79 final size:77
Alignment explanation
Indices: 18413339--18413899 Score: 350
Period size: 85 Copynumber: 7.1 Consensus size: 77
18413329 CAATTTCCAT
* * * *
18413339 TTTTCAATTTCTGCCTTTAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGG-GA
1 TTTTCAATTTCTGTCTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTCA
18413403 CACGCTGAGGTA
66 CACGCTGAGGTA
* * * ** **
18413415 ATTTCAATTTCTGT-TTT---CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--
1 TTTTCAATTTCTGTCTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGTC
*
18413474 ACACGTTGAGGTA
65 ACACGCTGAGGTA
* *
18413487 ATTTCAATTTCTGT-TTT--CAAAAAATCGAA-TCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTCTGTCTTTAAAAAAAAATC-AACTCATATTGCGAGAGGTGAGTTGAGCCTTGG-T
* *
18413548 CACGCGCTGAGCTA
64 CACACGCTGAGGTA
* *
18413562 TTTTCAATTTCTATCTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGA
1 TTTTCAATTTCTGTCTTT-AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT--GG
*
18413626 TCACACACTGAGGTA
63 TCACACGCTGAGGTA
*** ** *
18413641 TTTTTTTTTTACT-TCAATTTATATTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGC
1 TTTTCAATTT-CTGTC--TTTA-A----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* ** *
18413705 CTTGAGTTACA-TATCAAGGTA
58 CTTG-GTCACACGCT-GAGGTA
** * * *
18413726 TTTTCAAAATCT-ACTTTTCAAGTTAAGTTTCAAAAATCAACTCATATTTCAAGAGGTGAGTTGA
1 TTTTCAATTTCTGTC-TTT-AA---AA-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
18413790 GCCTCAGG--ACACGCTGAGGTA
56 GCCT-TGGTCACACGCTGAGGTA
* * * * *
18413811 ATTTCAATTTCTGTCTTTCAAAAAAAAAATCAACTC--GTTGCGAGCGGCGAGTTGAGCCTCAGG
1 TTTTCAATTTCTGTCTTT--AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGG
*
18413874 TCACACGCCGAGGTA
63 TCACACGCTGAGGTA
18413889 TTTTCAATTTC
1 TTTTCAATTTC
18413900 CGTTTTTCAA
Statistics
Matches: 382, Mismatches: 67, Indels: 70
0.74 0.13 0.13
Matches are distributed among these distances:
72 63 0.16
73 32 0.08
74 2 0.01
75 25 0.07
76 37 0.10
78 39 0.10
79 53 0.14
80 4 0.01
81 4 0.01
82 1 0.00
83 6 0.02
84 6 0.02
85 67 0.18
86 7 0.02
87 35 0.09
88 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (77 bp):
TTTTCAATTTCTGTCTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTCA
CACGCTGAGGTA
Found at i:18413845 original size:78 final size:76
Alignment explanation
Indices: 18413757--18413909 Score: 175
Period size: 78 Copynumber: 2.0 Consensus size: 76
18413747 GTTAAGTTTC
* * *
18413757 AAAAATCAACTCATATTTCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
18413822 TGTCTTTCAAAAA
66 TGTCTTTC--AAA
* * * *
18413835 AAAAATCAACTC--GTTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATT
* *
18413898 TCCGTTTTTCAA
64 TCTGTCTTTCAA
18413910 TTTCTGACTT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
76 24 0.38
78 40 0.62
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (76 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTCTTTCAAA
Found at i:18413983 original size:92 final size:91
Alignment explanation
Indices: 18413812--18414001 Score: 222
Period size: 92 Copynumber: 2.1 Consensus size: 91
18413802 GCTGAGGTAA
* * * *
18413812 TTTCAATTTCTGTCTTTCAAAAAAAAAATCAACTCGTTGCGAGCGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGACTTTC-AAAAAAAAATCAACTCATTGCGAGAGGCGAGTTAAGCCTCAGGTCA
* *
18413877 CACGCCGAGGTATTTTCAATTTCCGTT
65 CACGCCGAGCTATTTTCAATTTCCGTC
* * *
18413904 TTTCAATTTCTGACTTTC-AAAAAAAATCGACTCATATTGCGAGAGGTGAGTTAAGCCT-TGGCT
1 TTTCAATTTCTGACTTTCAAAAAAAAATCAACTC--ATTGCGAGAGGCGAGTTAAGCCTCAGG-T
* * *
18413967 CACGCGCTGAGCTATTTTCAATTTCTGTC
63 CACACGCCGAGCTATTTTCAATTTCCGTC
18413996 TTTCAA
1 TTTCAA
18414002 AAAAAATCAA
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
90 14 0.17
91 2 0.02
92 67 0.81
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (91 bp):
TTTCAATTTCTGACTTTCAAAAAAAAATCAACTCATTGCGAGAGGCGAGTTAAGCCTCAGGTCAC
ACGCCGAGCTATTTTCAATTTCCGTC
Found at i:18414039 original size:78 final size:78
Alignment explanation
Indices: 18413903--18414445 Score: 324
Period size: 78 Copynumber: 6.7 Consensus size: 78
18413893 CAATTTCCGT
* * * *
18413903 TTTTCAATTTCTGACTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTAAGCCTTGGCTC
1 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTC
18413968 ACGCGCTGAGCTA
66 ACGCGCTGAGCTA
* ** *
18413981 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAATTGAGCCTCAGATC
1 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTC
* *
18414046 ACACG-TCGAGGTA
66 ACGCGCT-GAGCTA
* * *
18414059 TTTTCAATTTTCGTTTTTCAATTTCTGCCTTTAAAAAAAAGTTCGACTCATATTACGAGAGGTGA
1 TTTTCAA-TTTC---TGTC---TT-T--C--AAAAAAA-A--TCAACTCATATTACGAGAGGTGA
18414124 GTTGAGCCTTGGCTCACGCGCTGAGCTA
51 GTTGAGCCTTGGCTCACGCGCTGAGCTA
* * *
18414152 TTTTCAATTTCTGTCTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGAT
1 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTT-GGCT
* * *
18414214 CACACACTGAGGTA
65 CACGCGCTGAGCTA
* * * * *
18414228 TTTTTTTTCAATTTATATTTTTC---AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTA
1 ----TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTT-
* ***
18414290 AG-TCAC-ATATCGAGGC-A
61 GGCTCACGCGCT-GA-GCTA
** *
18414307 TTTTCAAAATCTG-CTTTTCAAGTTAAGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCTGTC-TTTC-A---AA-----AAAAATCAACTCATATTACGAGAGGTGAGTTGA
** * * *
18414371 GCC-T--CAAGACACGTTGAGGTA
56 GCCTTGGC-TCACGCGCTGAGCTA
* *
18414392 TTTTCAATTTCTGTCTTTC-AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGA
18414446 ACCTCAAGAC
Statistics
Matches: 371, Mismatches: 51, Indels: 89
0.73 0.10 0.17
Matches are distributed among these distances:
75 48 0.13
76 40 0.11
77 1 0.00
78 75 0.20
79 49 0.13
80 24 0.06
82 3 0.01
83 1 0.00
84 1 0.00
85 23 0.06
86 6 0.02
87 35 0.09
88 1 0.00
89 3 0.01
90 6 0.02
91 1 0.00
92 4 0.01
93 49 0.13
94 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (78 bp):
TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTC
ACGCGCTGAGCTA
Found at i:18414142 original size:171 final size:170
Alignment explanation
Indices: 18413757--18414231 Score: 653
Period size: 170 Copynumber: 2.8 Consensus size: 170
18413747 GTTAAGTTTC
* * * * * * *
18413757 AAAAATCAACTCATATTTCAAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAAT
1 AAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCAAT
* * * * *
18413819 TTCTGTCTTTCAAAAAAAAAATCAACTC--GTTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGC
65 TTCTGTCTTTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGA
18413882 CGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGACTTTCAAA
128 CGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGACTTTCAAA
* *
18413925 AAAAATCGACTCATATTGCGAGAGGTGAGTTAAGCCTTGGCTCACGCGCTGAGCTATTTTCAATT
1 AAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATT
* * *
18413990 TCTGTCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAATTGAGCCTCAGATCACACGTCGA
66 TCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGACGA
* *
18414055 GGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTT-AAA
131 GGTATTTTCAATTTCCGTTTTTCAATTTCTGACTTTCAAA
18414094 AAAAAGTTCGACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAA--TCGACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
*
18414159 TTTCTGTCTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACAC-AC
64 TTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGAC
18414221 TGAGGTATTTT
129 -GAGGTATTTT
18414232 TTTTCAATTT
Statistics
Matches: 276, Mismatches: 23, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
167 2 0.01
168 49 0.18
169 63 0.23
170 94 0.34
171 68 0.25
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (170 bp):
AAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATT
TCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGACGA
GGTATTTTCAATTTCCGTTTTTCAATTTCTGACTTTCAAA
Found at i:18414154 original size:93 final size:92
Alignment explanation
Indices: 18413981--18414161 Score: 249
Period size: 93 Copynumber: 2.0 Consensus size: 92
18413971 CGCTGAGCTA
*
18413981 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAATTGAGCCTCAGATC
1 TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAATTGAGCCTCAGATC
*
18414046 ACACGTCGAGGTATTTTCAATTTTCGT
66 ACACGTCGAGCTATTTTCAATTTTCGT
* * ** *
18414073 TTTTCAATTTCTGCCTTT-AAAAAAAAGTTCGACTCATATTACGAGAGGTGAGTTGAGCCTTGGC
1 TTTTCAATTTCTGCCTTTCAAAAAAAA--TCAACTCATATTACGAGAGGTGAATTGAGCCTCAGA
*
18414137 TCACGCG-CTGAGCTATTTTCAATTT
64 TCACACGTC-GAGCTATTTTCAATTT
18414162 CTGTCTTTCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
91 8 0.10
92 18 0.23
93 52 0.67
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (92 bp):
TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAATTGAGCCTCAGATC
ACACGTCGAGCTATTTTCAATTTTCGT
Found at i:18414296 original size:79 final size:79
Alignment explanation
Indices: 18414152--18414559 Score: 239
Period size: 87 Copynumber: 5.0 Consensus size: 79
18414142 CGCTGAGCTA
* * *
18414152 TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCA
1 TTTTCAATTTATATCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAG-TCA
18414216 CACACTGAGGTATTTT
65 CACA-TGAGGTATTTT
* *
18414232 TTTTCAATTTATATTTTTC-AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTAAGTCAC
1 TTTTCAATTTATATCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCAC
* *
18414296 ATATCGAGGCATTTT
66 ACAT-GAGGTATTTT
* * * **
18414311 CAAAATCTGC-TTTTCAAGTTAAGTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 -----TTTTCAATTT--A--TATCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
18414374 TCAAG--ACACGTTGAGGTA----
57 TTAAGTCACAC-ATGAGGTATTTT
* * * * *
18414392 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTATATCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCA
18414455 CAC-TGAGGTGTTTTCCATTTCT
65 CACATGA-G-G---T--ATTT-T
* * * * * * * *
18414477 GTTCTTCAATTTTTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTAAGCCTTGACT
1 -TT-TTCAATTTATATCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGT
*
18414542 CACACGCTGAGGTATTTT
63 CACAC-ATGAGGTATTTT
18414560 CAAATTCTGT
Statistics
Matches: 261, Mismatches: 34, Indels: 63
0.73 0.09 0.18
Matches are distributed among these distances:
73 8 0.03
74 1 0.00
75 44 0.17
76 3 0.01
77 3 0.01
78 2 0.01
79 48 0.18
80 22 0.08
83 4 0.02
84 7 0.03
85 9 0.03
86 4 0.02
87 97 0.37
89 5 0.02
90 1 0.00
91 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (79 bp):
TTTTCAATTTATATCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCAC
ACATGAGGTATTTT
Found at i:18414485 original size:73 final size:74
Alignment explanation
Indices: 18414338--18414478 Score: 230
Period size: 75 Copynumber: 1.9 Consensus size: 74
18414328 GTTAAGTTTC
*
18414338 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACG-TGAGGTATTTTCAATTTC
18414403 TGTCTTTCAA
65 TGTCTTTCAA
* * *
18414413 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC-TGAGGTGTTTTCCATTTCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTGAGGTATTTTCAATTTCT
18414477 GT
66 GT
18414479 TCTTCAATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
73 19 0.31
75 43 0.69
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTGAGGTATTTTCAATTTCT
GTCTTTCAA
Found at i:18414506 original size:162 final size:165
Alignment explanation
Indices: 18414152--18414577 Score: 440
Period size: 162 Copynumber: 2.6 Consensus size: 165
18414142 CGCTGAGCTA
* * * *
18414152 TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
1 TTTTCAATTTTTGTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACA-CAC
* * *
18414217 ACACTGAGGTATTTTTTTTCAATTTATATTTTTC--AAAAATCAACTCATATTGCGAGAGATGAG
65 ACGCTGAGGTA----TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAG
* *
18414280 TTGAGCCTTAAGTCACATATCGAGGCATTTTCAAAATCTGC
126 TTGAACCTCAAG-CACATATCGAGGCATTTTCAAAATCTGC
* ** *
18414321 TTTTCAA--GTTAAGTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-AGACA
1 TTTTCAATTTTTGTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACACA
* * * *
18414382 CGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAA
66 CGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAA
* ** * **
18414447 CCTCAAG-ACA-CT-GAGGTGTTTTCCATTTCTG-
131 CCTCAAGCACATATCGAGGCATTTTCAAAATCTGC
* * * * *
18414478 TTCTTCAATTTTTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTAAGCCTTGACTC
1 TT-TTCAATTTTTGTGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCACAC
*
18414543 ACACGCTGAGGTATTTTCAAATTCTGTTTTTCAAA
63 ACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAA
18414578 TTTTGTTTTT
Statistics
Matches: 214, Mismatches: 34, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
157 2 0.01
158 19 0.09
159 1 0.00
160 26 0.12
162 70 0.33
163 2 0.01
164 43 0.20
165 1 0.00
166 38 0.18
167 5 0.02
169 7 0.03
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (165 bp):
TTTTCAATTTTTGTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACACA
CGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAA
CCTCAAGCACATATCGAGGCATTTTCAAAATCTGC
Found at i:18414576 original size:249 final size:243
Alignment explanation
Indices: 18413903--18414655 Score: 659
Period size: 249 Copynumber: 3.0 Consensus size: 243
18413893 CAATTTCCGT
* * ** *
18413903 TTTTCAATTTCTGACTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTT-AAGCCTTGGCT
1 TTTTCAATTTCTGTCTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAA-CCTCAGAT
* * * * *
18413967 CACGCGCTGAGCTA----TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTACGAGAGG
63 CACACACTGAGGTATTTTTTTTCAATTTATGTCTTTC-AAAAAAATCAACTCATATTGCGAGAGG
* * * * *
18414028 TGAATTGAGCCTCAGATCACACGTCGAGGTATTTTC-AATTTTCGTTTTTCAATTTCTGCCTTTA
127 TGAGTTGAGCCT-TGATCACACGTCGAGGTATTTTCAAATTCT-GTTTTTCAAATTATG-CTTT-
* * * ** * *
18414092 AAAAAAAGTTCGACTCATATTACGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTA
188 ACAAAAA--TCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAAGACACGCTGAGGTA
* *
18414152 TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
1 TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGATCAC
* * *
18414217 ACACTGAGGTATTTTTTTTCAATTTATATTTTTC--AAAAATCAACTCATATTGCGAGAGATGAG
66 ACACTGAGGTATTTTTTTTCAATTTATGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
* ** * * * * *
18414280 TTGAGCCTTAAGTCACATATCGAGGCATTTTCAAAATCTGCTTTTCAAGTTAAG-TTT-CAAAAA
131 TTGAGCCTTGA-TCACACGTCGAGGTATTTTCAAATTCTGTTTTTCAAATTATGCTTTACAAAAA
*
18414343 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
195 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA
*
18414392 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA-C
1 TTTTCAATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC-AGATC
** * *** * * *
18414456 ACTGAGGTGTTTTCCATTTCTGTTCTTCAATTTTTGTGTTTCAAAAAAATCAGCTCATATTGCGA
64 ACACA-CTGAGGT--ATTT-T-TT-TTCAATTTATGTCTTTCAAAAAAATCAACTCATATTGCGA
* * * *
18414521 GTGGTGAGTTAAGCCTTGACTCACACG-CTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTT
123 GAGGTGAGTTGAGCCTTGA-TCACACGTC-GAGGTATTTTCAAATTCTGTTTTTCAAATTATG-C
* * *
18414585 TTTCCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAGGTA
185 TTT------ACAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA
18414650 TTTTCA
1 TTTTCA
18414656 TTTTTTTTTC
Statistics
Matches: 411, Mismatches: 65, Indels: 47
0.79 0.12 0.09
Matches are distributed among these distances:
239 1 0.00
240 29 0.07
241 41 0.10
242 35 0.09
244 9 0.02
245 1 0.00
246 5 0.01
247 61 0.15
248 64 0.16
249 89 0.22
251 19 0.05
258 57 0.14
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (243 bp):
TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGATCAC
ACACTGAGGTATTTTTTTTCAATTTATGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
TTGAGCCTTGATCACACGTCGAGGTATTTTCAAATTCTGTTTTTCAAATTATGCTTTACAAAAAT
CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA
Found at i:18414592 original size:15 final size:14
Alignment explanation
Indices: 18414556--18414588 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
18414546 CGCTGAGGTA
18414556 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
18414570 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
18414584 TTTTC
1 TTTTC
18414589 CAAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:18414595 original size:91 final size:90
Alignment explanation
Indices: 18414457--18414805 Score: 300
Period size: 91 Copynumber: 3.8 Consensus size: 90
18414447 CCTCAAGACA
* * * * * * *
18414457 CTGAGGTGTTTTCCATTTCTGTTCTTCAATTTTTGTGTTTCAAAAAAATCAGCTCATATTGCGAG
1 CTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCAAAAAAATCAACTCATATTGCGAG
*
18414522 TGGTGAGTTAAGCCTTGACTCACACG
66 AGGTGAGTTAAGCCTTGAC-CACACG
18414548 CTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCCAAAAAAAAAAATCAACTCATATT
1 CTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTT-C----AAAAAAATCAACTCATATT
* * **
18414613 GCGAGAGGTGAGTTCAGCC-TCAGGACACG
61 GCGAGAGGTGAGTTAAGCCTTGACCACACG
* * *
18414642 CTGAGGTATTTTC--ATT-TTTTTTTC-AATTTATGTTTGTCAAAAAAATTAACTCATATTGCGA
1 CTGAGGTATTTTCAAATTCTGTTTTTCAAATTT-TGTTTTTCAAAAAAATCAACTCATATTGCGA
* * *
18414703 GAGGTGAGTTGAGCCTCAGGCCACACG
65 GAGGTGAGTTAAGCCT-TGACCACACG
* * ** * *
18414730 CCGAGGTATTTTCAATTGATGT-TTTTTTTTTAATTTATGCTTTGC--AAAAATCAACTCATATT
1 CTGAGGTATTTTCAA---AT-TCTGTTTTTCAAATTT-TGTTTTTCAAAAAAATCAACTCATATT
*
18414792 ACGAGAGGTGAGTT
61 GCGAGAGGTGAGTT
18414806 GAGCTTCGGG
Statistics
Matches: 215, Mismatches: 28, Indels: 28
0.79 0.10 0.10
Matches are distributed among these distances:
86 36 0.17
88 17 0.08
90 6 0.03
91 47 0.22
92 4 0.02
93 31 0.14
94 26 0.12
95 13 0.06
96 35 0.16
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (90 bp):
CTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCAAAAAAATCAACTCATATTGCGAG
AGGTGAGTTAAGCCTTGACCACACG
Found at i:18414718 original size:86 final size:86
Alignment explanation
Indices: 18414392--18414809 Score: 380
Period size: 87 Copynumber: 4.6 Consensus size: 86
18414382 CGTTGAGGTA
* * * *
18414392 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTATGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
18414457 --CTGAGGTGTTTTCCATTTCTGT
65 CGCTGAGGTATTTTCAATTT-T-T
* * * * * * **
18414479 TCTTCAATTTTTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTAAGCCTTGACTCA
1 TTTTCAATTTATGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GGA
*
18414544 CACGCTGAGGTATTTTCAAATTCTGT
63 CACGCTGAGGTATTTTC-AATT-TTT
*
18414570 TTTTCAAATTT-TGTTTTTCCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTC
1 TTTTC-AATTTATG-TTTT-C----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
18414634 AGGACACGCTGAGGTATTTTC-ATTTTT
59 AGGACACGCTGAGGTATTTTCAATTTTT
*
18414661 TTTTCAATTTATGTTTGTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCA
1 TTTTCAATTTATGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
*
18414726 CACGCCGAGGTATTTTCAATTGATGTTTTT
63 CACGCTGAGGTATTTTC-A---A--TTTTT
* * *
18414756 TTTTTAATTTATGCTTTGC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGC
1 TTTTCAATTTATG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
18414810 TTCGGGTCAC
Statistics
Matches: 279, Mismatches: 27, Indels: 44
0.80 0.08 0.13
Matches are distributed among these distances:
86 41 0.15
87 51 0.18
88 19 0.07
89 3 0.01
90 9 0.03
91 32 0.11
92 13 0.05
93 35 0.13
94 18 0.06
95 20 0.07
96 38 0.14
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (86 bp):
TTTTCAATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTATTTTCAATTTTT
Found at i:18414730 original size:182 final size:183
Alignment explanation
Indices: 18414411--18414744 Score: 471
Period size: 182 Copynumber: 1.8 Consensus size: 183
18414401 TCTGTCTTTC
* * *
18414411 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACTGAGGTGTTTTCCATTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAAGACACTGAGGTATTTTCCATTTC
* * * *
18414476 TGTTCTTCAATTTTTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTAAGCCTTGAC
66 TGTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTAGAC
*
18414541 TCACACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCCAAAA
131 TCACACGCCGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCCAAAA
* *
18414594 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAGGTATTTT-CATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAAGACA--CTGAGGTATTTTCCATT
* * *
18414658 T-T-TTTTTCAATTTATGT-TTGTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC
64 TCTGTTCTTCAATTTATGTGTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT-
*
18414720 AGGC-CACACGCCGAGGTATTTTCAA
127 AGACTCACACGCCGAGGTATTTTCAA
18414745 TTGATGTTTT
Statistics
Matches: 133, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
181 2 0.02
182 70 0.53
183 45 0.34
184 5 0.04
185 11 0.08
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (183 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAAGACACTGAGGTATTTTCCATTTC
TGTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTAGAC
TCACACGCCGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCCAAAA
Found at i:18416349 original size:37 final size:37
Alignment explanation
Indices: 18416307--18416408 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 37
18416297 CTAATATTTT
18416307 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
18416344 CTTTTATTATATGCATATATATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATAT-TAT-TAT-TATTATTATGTACATA
*
18416387 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
18416409 CCAAATATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 8 0.15
40 3 0.05
41 3 0.05
42 11 0.20
43 11 0.20
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:18418250 original size:75 final size:75
Alignment explanation
Indices: 18418163--18418303 Score: 248
Period size: 75 Copynumber: 1.9 Consensus size: 75
18418153 GATTGGTGGT
* *
18418163 GACTCCCATGTTCGTTTTCATTTTCAAAACCAAAGTTGATCCCCGTTTTCAAAAAAATGGTTTCG
1 GACTCCCATGTTCGTTTTCATTTGCAAAACCAAAGTAGATCCCCGTTTTCAAAAAAATGGTTTCG
18418228 ATAGCTTGAC
66 ATAGCTTGAC
18418238 GACT-CCACTGTTCGTTTTCATTTGCAAAACCAAAGTAGATCCCCGTTTTCAAAAAAATGGTTTC
1 GACTCCCA-TGTTCGTTTTCATTTGCAAAACCAAAGTAGATCCCCGTTTTCAAAAAAATGGTTTC
18418302 GA
65 GA
18418304 CCACTGTTCG
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
74 3 0.05
75 60 0.95
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (75 bp):
GACTCCCATGTTCGTTTTCATTTGCAAAACCAAAGTAGATCCCCGTTTTCAAAAAAATGGTTTCG
ATAGCTTGAC
Found at i:18418341 original size:62 final size:62
Alignment explanation
Indices: 18418242--18418366 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
18418232 CTTGACGACT
18418242 CCACTGTTCGTTTTCATTTGCAAAACCAAAGTAGATCCCCGTTTTCAAAAAAATGGTTTCGA
1 CCACTGTTCGTTTTCATTTGCAAAACCAAAGTAGATCCCCGTTTTCAAAAAAATGGTTTCGA
* * * *
18418304 CCACTGTTCGTTTTCATTTTCAGAACCAAAGTTGATCCCTGTTTTCAAAAAAATGGTTTCGA
1 CCACTGTTCGTTTTCATTTGCAAAACCAAAGTAGATCCCCGTTTTCAAAAAAATGGTTTCGA
18418366 C
1 C
18418367 AGCTTGGCGA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (62 bp):
CCACTGTTCGTTTTCATTTGCAAAACCAAAGTAGATCCCCGTTTTCAAAAAAATGGTTTCGA
Found at i:18419938 original size:9 final size:9
Alignment explanation
Indices: 18419924--18419948 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
18419914 TTTCTTTTTG
18419924 CATGCATCT
1 CATGCATCT
18419933 CATGCATCT
1 CATGCATCT
18419942 CATGCAT
1 CATGCAT
18419949 TTGTATTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.32, G:0.12, T:0.32
Consensus pattern (9 bp):
CATGCATCT
Found at i:18422193 original size:17 final size:17
Alignment explanation
Indices: 18422167--18422200 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18422157 TTCTGCACAT
*
18422167 ATATGTAAAACATGAAA
1 ATATGGAAAACATGAAA
*
18422184 ATATGGAAAACTTGAAA
1 ATATGGAAAACATGAAA
18422201 TATAAAGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.06, G:0.15, T:0.24
Consensus pattern (17 bp):
ATATGGAAAACATGAAA
Found at i:18427048 original size:12 final size:12
Alignment explanation
Indices: 18427031--18427066 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
18427021 ATTCATTTAA
18427031 CATTCATGCATT
1 CATTCATGCATT
18427043 CATTCATGCATT
1 CATTCATGCATT
*
18427055 CATTCATACATT
1 CATTCATGCATT
18427067 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:18433842 original size:73 final size:73
Alignment explanation
Indices: 18433740--18434014 Score: 385
Period size: 73 Copynumber: 3.7 Consensus size: 73
18433730 CTATTTTTCA
*
18433740 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
18433805 TGTTTGTC
66 TGTTTGTC
* **
18433813 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGG-CACGCTGAGGTAATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-AGGACACGCTGAGGTAA-TTTCAATT
*
18433877 TCTG-TTGTTAAA
64 TCTGTTTG-T--C
* *
18433889 AAAAATTAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
18433954 TGTTT-TC
66 TGTTTGTC
* * **
18433961 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGTCTCAGGATGCGCTGAGGTA
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTA
18434015 TTTAAAAAAA
Statistics
Matches: 179, Mismatches: 16, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
72 49 0.27
73 50 0.28
74 17 0.09
75 14 0.08
76 49 0.27
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTGTC
Found at i:18433924 original size:76 final size:73
Alignment explanation
Indices: 18433734--18434014 Score: 388
Period size: 76 Copynumber: 3.8 Consensus size: 73
18433724 TTCAATCTAT
*
18433734 TTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAA-TTT
1 TTTT-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT
18433798 CAATTTCTG
65 CAATTTCTG
* * **
18433807 TTTGTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGG-CACGCTGAGGTAATTT
1 TTT-TAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-AGGACACGCTGAGGTAATTT
18433871 TCAATTTCTG
64 TCAATTTCTG
*
18433881 TTGTTAAAAAAAATTAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 TT-TT--AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
18433946 TT-AATTTCTG
63 TTCAATTTCTG
* * * **
18433956 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGTCTCAGGATGCGCTGAGGTA
1 TTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTA
18434015 TTTAAAAAAA
Statistics
Matches: 185, Mismatches: 16, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
72 49 0.26
73 50 0.27
74 21 0.11
75 14 0.08
76 51 0.28
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (73 bp):
TTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTC
AATTTCTG
Found at i:18434060 original size:60 final size:60
Alignment explanation
Indices: 18433961--18434074 Score: 174
Period size: 60 Copynumber: 1.9 Consensus size: 60
18433951 TTCTGTTTTC
* * **
18433961 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGTCTCAGGATGCGCTGAGGTATTTAAA
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTAAA
**
18434021 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTA
18434075 ATTTCAATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (60 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTAAA
Found at i:18434215 original size:13 final size:13
Alignment explanation
Indices: 18434197--18434230 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
18434187 CGCTGAGGTA
*
18434197 TTTTCAATTTCTG
1 TTTTCAATTTATG
18434210 TTTTCAATTTATG
1 TTTTCAATTTATG
18434223 TTGTTCAA
1 TT-TTCAA
18434231 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:18434242 original size:134 final size:137
Alignment explanation
Indices: 18434076--18434359 Score: 416
Period size: 140 Copynumber: 2.0 Consensus size: 137
18434066 GCTGAGGTAA
*
18434076 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAGTGGGTTGAACC-TTTCTACTT
1 TTTCAATTTATGTTGTC-AAAAAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTCTACTT
18434140 TTTCAAAATCAGCTCATATTGCGAAAGGTGAGTTGAGCCTCAGG-TCAC-GCTGAGGTATTTTCA
65 TTTCAAAATCAGCTCATATTGCGAAAGGTGAGTTGAGCCTC-GGTTCACAGCTGAGGTATTTTCA
18434203 ATTTCTGT-
129 ATTTCTGTC
* *
18434211 TTTCAATTTATGTTGTTC-AAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTC
1 TTTCAATTTATGTTG-TCAAAAAATCAACTCATATTGCGAGAAGTGGGTTGAACC---T--TTTC
*
18434275 TACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTAT
60 TACTTTTTCAAAATCAGCTCATATTGCGAAAGGTGAGTTGAGCCTCGGTTCACA-GCTGAGGTAT
18434340 TTTCAATTTCTGTC
124 TTTCAATTTCTGTC
18434354 TTTCAA
1 TTTCAA
18434360 AAAAAAAATT
Statistics
Matches: 134, Mismatches: 4, Indels: 14
0.88 0.03 0.09
Matches are distributed among these distances:
134 34 0.25
135 14 0.10
136 2 0.01
139 2 0.01
140 53 0.40
142 23 0.17
143 6 0.04
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.37
Consensus pattern (137 bp):
TTTCAATTTATGTTGTCAAAAAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTCTACTTT
TTCAAAATCAGCTCATATTGCGAAAGGTGAGTTGAGCCTCGGTTCACAGCTGAGGTATTTTCAAT
TTCTGTC
Found at i:18434477 original size:72 final size:72
Alignment explanation
Indices: 18434279--18434504 Score: 267
Period size: 72 Copynumber: 3.0 Consensus size: 72
18434269 AATTTCTACT
* ** * * * *
18434279 TTTTCAAAA-TCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTT
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTAATT
18434342 TCAATTTCTG
63 TCAATTTCTG
*
18434352 TCTTTCAAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGTT
1 T-TTTC------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
18434417 AATTTCAATTTCTG
59 AATTTCAATTTCTG
18434431 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
*
18434496 GTTTCTG
66 ATTTCTG
18434503 TT
1 TT
18434505 CAAAATGAGT
Statistics
Matches: 134, Mismatches: 10, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
72 67 0.50
73 1 0.01
74 4 0.03
78 4 0.03
79 23 0.17
80 4 0.03
81 30 0.22
82 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTG
Found at i:18434514 original size:49 final size:49
Alignment explanation
Indices: 18434458--18434553 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 49
18434448 ATATTGCGAG
** *
18434458 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAGTTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGTTCA
18434507 AAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGTT
18434554 TTCAAAATTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGTTCA
Found at i:18434600 original size:121 final size:121
Alignment explanation
Indices: 18434386--18434625 Score: 408
Period size: 121 Copynumber: 2.0 Consensus size: 121
18434376 ATATTGCGAG
** *
18434386 AAATGAGTTGAGCCTCAAGACACGTTGAGTTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* *
18434451 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAGTTTCTGTTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
18434507 AAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* * *
18434572 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTT
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
18434626 TTTTTTTAAA
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
121 111 1.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:18434670 original size:81 final size:77
Alignment explanation
Indices: 18434507--18434860 Score: 332
Period size: 81 Copynumber: 4.6 Consensus size: 77
18434497 TTTCTGTTCA
* ** * * *
18434507 AAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTG---TTTT--CAAAATTCAAC
1 AAATAAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTTTAAAAAAAATCAAC
18434567 TCATATTGCGAG
66 TCATATTGCGAG
*
18434579 AAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTTTTTAAAAAAAAAAT
1 AAATAAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTG--TTTTTTT--AAAAAAAAT
* *
18434644 CAACTCATATTGTGAT
62 CAACTCATATTGCGAG
*
18434660 AAATAAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTG--TTTTTCAAAAAAATCAAC
1 AAATAAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTTTAAAAAAAATCAAC
18434723 TCATATTGCGAG
66 TCATATTGCGAG
** * * * * * *
18434735 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG---TTGTCAAAAAAATCAAC
1 AAATAAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTTTAAAAAAAATCAAC
* *
18434797 TCGTATTGTGAG
66 TCATATTGCGAG
**** * * * *
18434809 AGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTT
1 AAATAAGTTGAGCCTCAAG--ACATGCTGAGGTATTTTCAATTTCTGTTTTT
18434861 CAATTTCTTC
Statistics
Matches: 243, Mismatches: 25, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
72 41 0.17
74 44 0.18
75 61 0.25
76 23 0.09
77 9 0.04
79 2 0.01
81 63 0.26
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (77 bp):
AAATAAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTTTAAAAAAAATCAAC
TCATATTGCGAG
Found at i:18434939 original size:94 final size:94
Alignment explanation
Indices: 18434785--18434957 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 94
18434775 TTCTGTTGTC
* * *
18434785 AAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAA
*
18434850 TTTCCGTTTTTCAATTTCTTCCTTTCAAA
66 TTTCCGTCTTTCAATTTCTTCCTTTCAAA
* * * *
18434879 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TCACACGCCGAGCTATTTTCA
*
18434943 ATTTCTGTCTTTCAA
65 ATTTCCGTCTTTCAA
18434958 AAAAATCAAC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
93 2 0.03
94 67 0.97
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (94 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAA
TTTCCGTCTTTCAATTTCTTCCTTTCAAA
Found at i:18434987 original size:77 final size:77
Alignment explanation
Indices: 18434879--18435452 Score: 363
Period size: 88 Copynumber: 7.0 Consensus size: 77
18434869 TCCTTTCAAA
*
18434879 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAA
*
18434944 TTTCTGTCTTTC
66 TTTCTGTTTTTC
* * * *
18434956 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACACTGAGGTATTTTTT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACACGCTGAGCTA--TTTT
* *
18435020 CAATTTATATTTTTC
63 CAATTTCTGTTTTTC
* * * * * *
18435035 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCT-GAGCTATTTTCA
**
18435099 AAATCTGTTTTTC
65 ATTTCTGTTTTTC
* **
18435112 AGATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 A-A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGA
18435177 GCTATTTTCAATTTCTGTTTTTTTTC
55 GCTATTTTCAATTTCTG---TTTTTC
* ** * * *
18435203 AAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTCTGCGAGA-GTTGAGT
1 -AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC---CT--TGGCT-C-ACACGCTGAGC
* *
18435267 TGAGTCTTTTAATTTATGTTTTTC
57 T-A-T-TTTCAATTTCTGTTTTTC
* * * ** *
18435291 --AAAAATCAACTCATATTTCGAGAGGTGAGTTGAACCTTCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACACGCT-GAGCTATTTTC
*
18435352 AAAATCTGCTTTTCAAGTTAAGTTTC
64 --AA------TTTC-TGTT---TTTC
**
18435378 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAA
*
18435442 TTTCTATTTTT
66 TTTCTGTTTTT
18435453 AATGTCTATT
Statistics
Matches: 390, Mismatches: 58, Indels: 99
0.71 0.11 0.18
Matches are distributed among these distances:
75 3 0.01
76 7 0.02
77 71 0.18
78 7 0.02
79 66 0.17
80 6 0.02
81 6 0.02
82 29 0.07
83 3 0.01
84 31 0.08
85 6 0.02
86 2 0.01
87 8 0.02
88 122 0.31
89 4 0.01
90 1 0.00
91 17 0.04
92 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (77 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAA
TTTCTGTTTTTC
Found at i:18435082 original size:79 final size:77
Alignment explanation
Indices: 18434879--18435241 Score: 287
Period size: 79 Copynumber: 4.5 Consensus size: 77
18434869 TCCTTTCAAA
* * * *
18434879 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACACTGAGCTATTTTCAA
* *
18434944 TTTCTGTCTTTC
66 TTTATATCTTTC
* * *
18434956 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACACTGAGCTA--TTTTC
*
18435021 AATTTATATTTTTC
64 AATTTATATCTTTC
* * * ** *
18435035 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACA-TGTCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACACT-GAGCTATTTTC-
* *
18435099 AAATCTGTTTTTCAGATTCTGTTT
64 -AA------TTT-ATA-TCT-TTC
** * * * ***
18435123 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACACTGAGCTATTTTCAA
* * *
18435188 TTTCTGTTTTTTTTC
66 -TT-T-ATATCTTTC
18435203 AAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
18435242 TTTTTAATTT
Statistics
Matches: 229, Mismatches: 39, Indels: 31
0.77 0.13 0.10
Matches are distributed among these distances:
77 56 0.24
78 1 0.00
79 67 0.29
80 2 0.01
81 10 0.04
82 30 0.13
85 3 0.01
86 4 0.02
87 2 0.01
88 53 0.23
89 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (77 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACACTGAGCTATTTTCAA
TTTATATCTTTC
Found at i:18435259 original size:30 final size:30
Alignment explanation
Indices: 18435223--18435281 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
18435213 CAACTCATAT
18435223 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
18435253 TGCGAGAGTTGAGTTGAGTCTTTTAATTT
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTT
18435282 ATGTTTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.20, C:0.08, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:18435391 original size:254 final size:247
Alignment explanation
Indices: 18434682--18435452 Score: 817
Period size: 254 Copynumber: 3.1 Consensus size: 247
18434672 CCTCAAGACA
*
18434682 TGCTGAGGTATTTTCAATTTCTG---TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
1 TGCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * * * * * * **
18434744 GAGCCTCAG--GACACGCTGAGGTA--ATTTCAATTTCT-GTTGTCAAAAAAATCAACTCGTATT
66 GAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATT
* * * *** ** * * *
18434804 GTGAGAGGCGAGTTGAGCCTC-AGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCA-ATTT
130 GCGAGAGGTGAGTTGAACCTCGA-GTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAGATTA
**
18434867 CTTCCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
194 AGT--TTTC----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
* *
18434927 CGCTGAGCTATTTTCAATTTCTG---TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
1 TGCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
*
18434989 GAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATT
66 GAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATT
* * * * * **
18435054 GCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAGATTCT
130 GCGAGAGGTGAGTTGAACCTCGAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAGATTAA
*
18435119 GTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
195 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
18435171 TGCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAAATTCAACTCATATTGCGAGAGGTGAG
1 TGCTGAGCTATTTTCAATTTCTGTTTTTTTTC-AAAAAAA-TCAACTCATATTGCGAGAGGTGAG
* * * * * *
18435236 TTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTATGTTTTTC-AAAAATC
64 TTGAGC--TTCAGA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATC
* *
18435298 AACTCATATTTCGAGAGGTGAGTTGAACCTTC-AGTCACATATCGAGGTATTTTCAAAATCTGCT
120 AACTCACATTGCGAGAGGTGAGTTGAACC-TCGAGTCACATATCGAGGTATTTTCAAAATCTGCT
18435362 TTTCA-AGTTAAG-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
184 TTTCAGA-TTAAGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
*
18435425 TGCTGAGCTATTTTCAATTTCTATTTTT
1 TGCTGAGCTATTTTCAATTTCTGTTTTT
18435453 AATGTCTATT
Statistics
Matches: 457, Mismatches: 45, Indels: 39
0.84 0.08 0.07
Matches are distributed among these distances:
244 67 0.15
245 67 0.15
247 17 0.04
248 7 0.02
249 44 0.10
250 71 0.16
251 7 0.02
252 2 0.00
253 6 0.01
254 143 0.31
255 7 0.02
256 14 0.03
257 5 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (247 bp):
TGCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTG
CGAGAGGTGAGTTGAACCTCGAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAGATTAAG
TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
Found at i:18435465 original size:13 final size:13
Alignment explanation
Indices: 18435432--18435466 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
18435422 ACGTGCTGAG
* *
18435432 CTATTTTCAATTT
1 CTATTTTTAATGT
18435445 CTATTTTTAATGT
1 CTATTTTTAATGT
18435458 CTATTTTTA
1 CTATTTTTA
18435467 GAGAGTCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.23, C:0.11, G:0.03, T:0.63
Consensus pattern (13 bp):
CTATTTTTAATGT
Found at i:18436727 original size:2 final size:2
Alignment explanation
Indices: 18436720--18436751 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18436710 AATACTATTT
18436720 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
18436752 AATACCATAT
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):
TA
Found at i:18441132 original size:15 final size:15
Alignment explanation
Indices: 18441112--18441148 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
18441102 TTTAATCCTT
*
18441112 TATAAATTTTTAAAA
1 TATAAATTATTAAAA
18441127 TATAAATTATTAAAA
1 TATAAATTATTAAAA
18441142 TAGTAAA
1 TA-TAAA
18441149 AATATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
TATAAATTATTAAAA
Found at i:18441300 original size:100 final size:100
Alignment explanation
Indices: 18441180--18441457 Score: 466
Period size: 100 Copynumber: 2.8 Consensus size: 100
18441170 CTAATTTTTA
18441180 TAATTAAGAAATAATAGTTGGTACCTAATTTTTTTCCCACGTCTTAAATGTGTAGTAATGTAATC
1 TAATTAAGAAATAATAGTTGGTACCTAATTTTTTTCCCACGTCTTAAATGTGTAGTAATGTAATC
18441245 TAATATAATTTTAATTAAAATCCTAGAAATAATTT
66 TAATATAATTTTAATTAAAATCCTAGAAATAATTT
* * *
18441280 TAATAAAGAAATAATGGTTGGTACCTAATTTTTTTCCCACGTCTTAAATATGTAGTAATGTAATC
1 TAATTAAGAAATAATAGTTGGTACCTAATTTTTTTCCCACGTCTTAAATGTGTAGTAATGTAATC
* *
18441345 TAACATAATTTTAATTAAAATCCTGGAAATAATTT
66 TAATATAATTTTAATTAAAATCCTAGAAATAATTT
* * *
18441380 TAATTAAGAAATAATAGTTGGTACCTAATTTTTTTTTCCCACGTCTTAATTGTGTAGTAGTCTAA
1 TAATTAAGAAATAATAGTTGGTACCTAA--TTTTTTTCCCACGTCTTAAATGTGTAGTAATGTAA
18441445 TCTAATATAATTT
64 TCTAATATAATTT
18441458 GATTTTATAG
Statistics
Matches: 164, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
100 121 0.74
102 43 0.26
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (100 bp):
TAATTAAGAAATAATAGTTGGTACCTAATTTTTTTCCCACGTCTTAAATGTGTAGTAATGTAATC
TAATATAATTTTAATTAAAATCCTAGAAATAATTT
Found at i:18444813 original size:20 final size:20
Alignment explanation
Indices: 18444776--18444815 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18444766 TAAAAAAAAA
*
18444776 TCAAAATAGTTTTCAAAATT
1 TCAAAATAGTTTTAAAAATT
18444796 TCAAAATA-TTTATAAAAATT
1 TCAAAATAGTTT-TAAAAATT
18444816 CCCAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (20 bp):
TCAAAATAGTTTTAAAAATT
Found at i:18445119 original size:15 final size:15
Alignment explanation
Indices: 18445099--18445147 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
18445089 TTAACTCGAA
*
18445099 CGATTTCACTTGATT
1 CGATTTCACTTGACT
*
18445114 CGATTTGACTTGACT
1 CGATTTCACTTGACT
* *
18445129 CGAATTTCAGTTCACT
1 CG-ATTTCACTTGACT
18445145 CGA
1 CGA
18445148 CTCAATTCGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (15 bp):
CGATTTCACTTGACT
Found at i:18446907 original size:22 final size:24
Alignment explanation
Indices: 18446847--18446916 Score: 80
Period size: 20 Copynumber: 3.2 Consensus size: 24
18446837 AAATTTCTTT
*
18446847 ATATATATTTAGAAATTTTT-T-A
1 ATATAAATTTAGAAATTTTTATAA
18446869 A-A-AAATTTAG-AATTTTTA-AA
1 ATATAAATTTAGAAATTTTTATAA
*
18446889 ATATAAATTTTGAAATTTTTATAA
1 ATATAAATTTAGAAATTTTTATAA
18446913 ATAT
1 ATAT
18446917 TTTTTAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
19 7 0.17
20 9 0.22
21 2 0.05
22 8 0.20
23 8 0.20
24 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
ATATAAATTTAGAAATTTTTATAA
Found at i:18446925 original size:20 final size:19
Alignment explanation
Indices: 18446879--18446947 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 19
18446869 AAAAATTTAG
*
18446879 AATTTTTAAAATATAAATTTT
1 AATTTTTAAAA-AT-TATTTT
18446900 GAAATTTTTATAAATATT-TTTT
1 --AATTTTTA-AAA-ATTATTTT
18446922 AA-TTTTAAAAATTATTTT
1 AATTTTTAAAAATTATTTT
18446940 ATATTTTT
1 A-ATTTTT
18446948 TGTTAAGAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
17 3 0.07
18 8 0.20
19 6 0.15
20 6 0.15
22 4 0.10
23 8 0.20
24 6 0.15
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (19 bp):
AATTTTTAAAAATTATTTT
Found at i:18446931 original size:42 final size:42
Alignment explanation
Indices: 18446815--18446913 Score: 107
Period size: 39 Copynumber: 2.4 Consensus size: 42
18446805 AAATTATTAT
* * * *
18446815 TTTATAAATTTTTTAAAATA-TTA-AATTTCTT--TATATATA
1 TTTAGAAATTTTTTAAAAAATTTAGAATTT-TTAAAATATAAA
18446854 TTTAGAAATTTTTTAAAAAATTTAGAATTTTTAAAATATAAA
1 TTTAGAAATTTTTTAAAAAATTTAGAATTTTTAAAATATAAA
*
18446896 TTTTGAAATTTTTATAAA
1 TTTAGAAATTTTT-TAAA
18446914 TATTTTTTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
39 18 0.36
40 5 0.10
41 5 0.10
42 18 0.36
43 4 0.08
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (42 bp):
TTTAGAAATTTTTTAAAAAATTTAGAATTTTTAAAATATAAA
Found at i:18447171 original size:76 final size:75
Alignment explanation
Indices: 18447023--18447162 Score: 244
Period size: 76 Copynumber: 1.9 Consensus size: 75
18447013 ATATGTTCTT
*
18447023 CAAGCTGTCGAAACTATTTTTTTGAAAACGAGGATCAACTTTGGTTTTGAAAATGAAAACGAACA
1 CAAGCTGTCGAAACCATTTTTTTGAAAACGAGGATCAACTTTGGTTTTGAAAATGAAAACGAACA
18447088 GTGGAGTCAC
66 GTGGAGTCAC
* *
18447098 CAAGCTGTCGAAACCATTTTTTTTGAAAACGGGGATCGACTTTGGTTTTGAAAATGAAAACGAAC
1 CAAGCTGTCGAAACCA-TTTTTTTGAAAACGAGGATCAACTTTGGTTTTGAAAATGAAAACGAAC
18447163 CTGGGAGTCG
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
75 15 0.25
76 46 0.75
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (75 bp):
CAAGCTGTCGAAACCATTTTTTTGAAAACGAGGATCAACTTTGGTTTTGAAAATGAAAACGAACA
GTGGAGTCAC
Found at i:18448024 original size:9 final size:9
Alignment explanation
Indices: 18448010--18448034 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
18448000 TGCAATACAA
18448010 ATGCATGAG
1 ATGCATGAG
18448019 ATGCATGAG
1 ATGCATGAG
18448028 ATGCATG
1 ATGCATG
18448035 TAAAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (9 bp):
ATGCATGAG
Found at i:18449663 original size:62 final size:62
Alignment explanation
Indices: 18449587--18449711 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
18449577 TCGCCAAGCT
18449587 GTCGAAACCATTTTTTTGAAAACAGGGATCAACTTTGGTTCTGAAAATGAAAACGAACAGTG
1 GTCGAAACCATTTTTTTGAAAACAGGGATCAACTTTGGTTCTGAAAATGAAAACGAACAGTG
* * * *
18449649 GTCGAAACCATTTTTTTGAAAACGGGGATCTACTTTGGTTTTGCAAATGAAAACGAACAGTG
1 GTCGAAACCATTTTTTTGAAAACAGGGATCAACTTTGGTTCTGAAAATGAAAACGAACAGTG
18449711 G
1 G
18449712 AGTCGTCAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (62 bp):
GTCGAAACCATTTTTTTGAAAACAGGGATCAACTTTGGTTCTGAAAATGAAAACGAACAGTG
Found at i:18449773 original size:75 final size:75
Alignment explanation
Indices: 18449650--18449790 Score: 248
Period size: 75 Copynumber: 1.9 Consensus size: 75
18449640 CGAACAGTGG
* *
18449650 TCGAAACCATTTTTTTGAAAACGGGGATCTACTTTGGTTTTGCAAATGAAAACGAACA-GTGGAG
1 TCGAAACCATTTTTTTGAAAACGGGGATCAACTTTGGTTTTGAAAATGAAAACGAACATG-GGAG
18449714 TCGTCAAGCTA
65 TCGTCAAGCTA
18449725 TCGAAACCATTTTTTTGAAAACGGGGATCAACTTTGGTTTTGAAAATGAAAACGAACATGGGAGT
1 TCGAAACCATTTTTTTGAAAACGGGGATCAACTTTGGTTTTGAAAATGAAAACGAACATGGGAGT
18449790 C
66 C
18449791 ACCACCAATC
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
75 62 0.98
76 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (75 bp):
TCGAAACCATTTTTTTGAAAACGGGGATCAACTTTGGTTTTGAAAATGAAAACGAACATGGGAGT
CGTCAAGCTA
Found at i:18451886 original size:25 final size:24
Alignment explanation
Indices: 18451858--18451904 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
18451848 TATATGTATA
* *
18451858 TAATAGTATTTAAGAAATATATAAC
1 TAATAGCA-TTAAAAAATATATAAC
*
18451883 TAATGGCATTAAAAAATATATA
1 TAATAGCATTAAAAAATATATA
18451905 CATAATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (24 bp):
TAATAGCATTAAAAAATATATAAC
Found at i:18453401 original size:13 final size:14
Alignment explanation
Indices: 18453369--18453401 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
18453359 TTTTTTTTTG
18453369 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
18453383 GAAAAACAGAATTT
1 GAAAAACAAAATTT
18453397 GAAAA
1 GAAAA
18453402 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:18453441 original size:96 final size:91
Alignment explanation
Indices: 18453211--18453546 Score: 311
Period size: 91 Copynumber: 3.7 Consensus size: 91
18453201 AAAAAACATC
* * *
18453211 AATTGAAAATACCTCGGCGTGTGGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-A---AT
1 AATTGAAAATACCTCAGCGTGTGGTC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
18453272 TTTTTTGACAAACATAAATTGAAAAAA
65 TTTTTTGAAAAACATAAATTGAAAAAA
* ** *
18453299 AAATGAAAATACCTCAGCGTGTCCT-GAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AATTGAAAATACCTCAGCGTGTGGTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
18453363 TTTTTGGAAAAACA-AAATTTGAAAAACA
66 TTTTT-GAAAAACATAAA-TTGAAAAA-A
* * * *
18453391 GAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTTAACTCACCACTCGCAATATGAGCTGA---
1 -AA-TTGAAAATACCTCAGCGTGTG-GTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* *
18453453 -TTTTTTTGAAACACAAAAATTGAAGAACAGA
63 TTTTTTTTGAAAAACATAAATTGAA-AA-A-A
* * * * * *
18453484 AATGGAAAACACCTCA--GTGT-CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
1 AATTGAAAATACCTCAGCGTGTGGTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
18453546 T
66 T
18453547 GAAAGACAGA
Statistics
Matches: 205, Mismatches: 25, Indels: 33
0.78 0.10 0.13
Matches are distributed among these distances:
86 30 0.15
87 31 0.15
88 20 0.10
89 4 0.02
90 10 0.05
91 42 0.20
92 15 0.07
93 4 0.02
94 19 0.09
95 1 0.00
96 29 0.14
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (91 bp):
AATTGAAAATACCTCAGCGTGTGGTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TTTTTGAAAAACATAAATTGAAAAAA
Found at i:18453458 original size:182 final size:183
Alignment explanation
Indices: 18453213--18453546 Score: 471
Period size: 182 Copynumber: 1.8 Consensus size: 183
18453203 AAAACATCAA
* * * *
18453213 TTGAAAATACCTCGGCGTGTGGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTT
1 TTGAAAATACCTCAGCGTGTGGCCTAAGGCTCAACTCACCACTCGCAATATGAGCTAATTTTTTT
* * *
18453278 GACAA-ACATAAATTGAA-AA-AAAAAT-GAAAATACCTCAGCGTGTCCTGAGGCTGAACTCACC
66 GA-AACACAAAAATTGAAGAACAAAAATGGAAAACACCTCA--GTGTCCTGAGGCTCAACTCACC
*
18453339 TCTCGCAATATGAGTTGATTTTTTTTTTTGGAAAAACAAAATTTGAAAAACAGAAT
128 TCTCGCAATATGAGCTGATTTTTTTTTTTGGAAAAACAAAATTTGAAAAACAGAAT
* * *
18453395 TTGAAAATACCTCAGCGTGTGAGTC-AAGGCTTAACTCACCACTCGCAATATGAGCTGATTTTTT
1 TTGAAAATACCTCAGCGTGTG-GCCTAAGGCTCAACTCACCACTCGCAATATGAGCTAATTTTTT
* * *
18453459 TGAAACACAAAAATTGAAGAACAGAAATGGAAAACACCTCAGTGTCTTGAGGTTCAACTCACCTC
65 TGAAACACAAAAATTGAAGAACAAAAATGGAAAACACCTCAGTGTCCTGAGGCTCAACTCACCTC
18453524 TCGCAATATGAGCTGATTTTTTT
130 TCGCAATATGAGCTGATTTTTTT
18453547 GAAAGACAGA
Statistics
Matches: 133, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
181 2 0.02
182 68 0.51
183 47 0.35
184 5 0.04
185 11 0.08
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (183 bp):
TTGAAAATACCTCAGCGTGTGGCCTAAGGCTCAACTCACCACTCGCAATATGAGCTAATTTTTTT
GAAACACAAAAATTGAAGAACAAAAATGGAAAACACCTCAGTGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGCTGATTTTTTTTTTTGGAAAAACAAAATTTGAAAAACAGAAT
Found at i:18453549 original size:87 final size:85
Alignment explanation
Indices: 18453214--18453805 Score: 378
Period size: 87 Copynumber: 6.9 Consensus size: 85
18453204 AAACATCAAT
* * * *
18453214 TGAAAATACCTCGGCGTGTGGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTG
1 TGAAAATACCTC-ACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG
* *
18453279 ACAAACATAAATTGAAAA-AAAAA
63 A-AAACAAAAATTGAAAACAGAAA
* * *
18453302 TGAAAATACCTCAGCGTGTCCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTT
1 TGAAAATACCTCA-CGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA----TTTTTT
* *
18453367 TGGAAAAACAAAATTTGAAAAACAGAATT
61 T-G-AAAACAAAAATTG-AAAACAGAA-A
* ** * *
18453396 TGAAAATACCTCAGCGTGTGAGTCAAGGCTTAACTCACCACTCGCAATATGAGCTGATTTTTTTG
1 TGAAAATACCTCA-CGTGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG
18453461 AAACACAAAAATTGAAGAACAGAAA
63 AAA-ACAAAAATTGAA-AACAGAAA
* *
18453486 TGGAAAACACCTCA-GTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG--
1 T-GAAAATACCTCACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAA
18453548 -----AAA--G---ACAGAAA
65 AACAAAAATTGAAAACAGAAA
*
18453559 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-
1 -TGAAAATACCTC-ACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA
** * **
18453621 AAACTTAACTTGAAAAGCAGATTT
64 AAACAAAAATTGAAAA-CAGA-AA
* * * * * *
18453645 TGAAAATGCCTCGATATGTGACTTAAGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTTTTG
1 TGAAAATACCTC---ACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG
18453708 AAAA-ATATAAATTG-----A-AAA
63 AAAACA-A-AAATTGAAAACAGAAA
* * * *
18453726 --AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG
1 TGAAAATACCTCA-CGTGT-CT-TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG
*
18453788 AAAGACAGAAATTGAAAA
63 AAA-ACAAAAATTGAAAA
18453806 TAGCTCAGCG
Statistics
Matches: 411, Mismatches: 47, Indels: 96
0.74 0.08 0.17
Matches are distributed among these distances:
73 23 0.06
74 2 0.00
75 38 0.09
76 1 0.00
77 5 0.01
78 1 0.00
79 45 0.11
80 15 0.04
81 2 0.00
82 2 0.00
83 1 0.00
84 1 0.00
85 15 0.04
86 34 0.08
87 82 0.20
88 20 0.05
89 9 0.02
90 13 0.03
91 39 0.09
92 12 0.03
93 3 0.01
94 19 0.05
96 29 0.07
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (85 bp):
TGAAAATACCTCACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA
ACAAAAATTGAAAACAGAAA
Found at i:18453599 original size:75 final size:73
Alignment explanation
Indices: 18453479--18453619 Score: 228
Period size: 75 Copynumber: 1.9 Consensus size: 73
18453469 AAATTGAAGA
*
18453479 ACAGAAATGGAAAACACCTCAGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 ACAGAAATGGAAAACACCTCAGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
18453544 TTTGAAAG
66 TTTGAAAG
* * *
18453552 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 ACAGAAATGGAAAACACCTC-A-GTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
18453617 TTT
64 TTT
18453620 GAAACTTAAC
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
73 18 0.29
74 1 0.02
75 43 0.69
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (73 bp):
ACAGAAATGGAAAACACCTCAGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
TTTGAAAG
Found at i:18453839 original size:76 final size:77
Alignment explanation
Indices: 18453669--18453884 Score: 231
Period size: 79 Copynumber: 2.8 Consensus size: 77
18453659 TATGTGACTT
* * * *
18453669 AAGGCTCAACTCATCTCTCGCAATATGAGTTGA-TTTTTGAAAAATATAAATTGAAAAAAAATAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTG----AAAATAC
* * * *
18453733 CTCAGTGTGTGATCTG
62 CTCAGCGCGTGAGCTC
*
18453749 AA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATAGCTCA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCA
18453813 GCGCGTGAGC-C
66 GCGCGTGAGCTC
* * * *
18453824 AAGGCTCAACTCACCTCTCGTAATATGAGTCGAACTTTTTTTTAAAGGCAGAAATTGAAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTG-A--TTTTTTGAAAGACAGAAATTGAAAA
18453885 ACGAAAATTG
Statistics
Matches: 118, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
75 2 0.02
76 44 0.37
77 1 0.01
79 52 0.44
80 19 0.16
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (77 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCA
GCGCGTGAGCTC
Found at i:18454141 original size:170 final size:168
Alignment explanation
Indices: 18453726--18454200 Score: 656
Period size: 170 Copynumber: 2.8 Consensus size: 168
18453716 AAATTGAAAA
* * *
18453726 AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGA
1 AAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGC-ATATGAGTTGATTTTTTTTGA
*
18453789 AAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGTAATATGAGT
65 AAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGAAATATGAGT
18453854 CGAACTTTTTTTTAAAGGCAGAAATTGAAAAACGAAAATTG
130 CG-A-TTTTTTTTAAAGGCAGAAATTGAAAAACGAAAATTG
* * *
18453895 AAAATACCTCGACGTGTGATCTGAGGCTCAATTCACCTCTCGTAATATGAGTTGATTTTTTTTGA
1 AAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCG-CATATGAGTTGATTTTTTTTGA
* *
18453960 AAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTTAACTCACCTCTCGCAATATGAGT
65 AAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGAAATATGAGT
* *
18454025 CGATTTTTTTTGAAAGTCAGAAATTGAAAAACGGAAATTG
130 CGATTTTTTTT-AAAGGCAGAAATTGAAAAACGAAAATTG
* * * *
18454065 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCA-ACGAGTTGATTTTTTTTTTG
1 AAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCATATGAGTTGA--TTTTTTTTG
* * * *
18454129 AAAGACAGAAATTGAAATTACCTCA--GCGTG-TCCTGAGGCTCAACTCACCTCTCGAAATATGA
64 AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGAAATATGA
*
18454191 GTTGATTTTT
128 GTCGATTTTT
18454201 GAAACTTAAC
Statistics
Matches: 275, Mismatches: 24, Indels: 15
0.88 0.08 0.05
Matches are distributed among these distances:
167 2 0.01
168 47 0.17
169 57 0.21
170 96 0.35
171 73 0.27
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (168 bp):
AAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCATATGAGTTGATTTTTTTTGAA
AGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGAAATATGAGTC
GATTTTTTTTAAAGGCAGAAATTGAAAAACGAAAATTG
Found at i:18454307 original size:87 final size:85
Alignment explanation
Indices: 18454164--18454372 Score: 228
Period size: 85 Copynumber: 2.4 Consensus size: 85
18454154 GCGTGTCCTG
* * * ****
18454164 AGGCTCAACTCACCTCTCGAAATATGAGTTGATTTTTGAAACTTAACTTGAAAAGTAGATTTTGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATTAAATTG-AAAGTA-A-AAAAA
*
18454229 AAATACCT-TGATATGT-AACTCA
63 AAATACCTCAG-TATGTGAACTCA
*
18454251 AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTGACAAATATAAATTG-AAGTAAAAAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAAT-TAAATTGAAAGTAAAAAAAA
* * *
18454315 AATACCTCAGTGTGTGATCTGA
64 AATACCTCAGTATGTGAACTCA
18454337 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
18454373 TTTTTAAAGA
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
85 47 0.45
86 7 0.07
87 42 0.40
88 3 0.03
89 6 0.06
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (85 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATTAAATTGAAAGTAAAAAAAAAA
TACCTCAGTATGTGAACTCA
Found at i:18454511 original size:73 final size:73
Alignment explanation
Indices: 18454338--18454597 Score: 299
Period size: 72 Copynumber: 3.5 Consensus size: 73
18454328 GTGATCTGAA
* * * * *
18454338 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAAAGATAAAAATTGAAAATAGCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTGAAA-ACAGAAATTGAAATTACCTCA
* ** *
18454403 GCGCGTGAGCCAAG
62 --ACGTGTCCCGAG
*
18454417 GCTCAACTCACCTCTCTCAATATGA-TTCGATTTTTTGAAAACAGAAATTGAAATTACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTT-GATTTTTTGAAAACAGAAATTGAAATTACCTCAACG
**
18454481 TGTCTTGAG
65 TGTCCCGAG
** * *
18454490 GCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAACGT
18454554 GTCCCGAG
66 GTCCCGAG
18454562 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
18454598 TTTAAAGGCA
Statistics
Matches: 156, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
72 66 0.42
73 34 0.22
74 2 0.01
75 17 0.11
76 9 0.06
78 2 0.01
79 26 0.17
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (73 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAACGT
GTCCCGAG
Found at i:18454700 original size:90 final size:89
Alignment explanation
Indices: 18454532--18454707 Score: 230
Period size: 90 Copynumber: 2.0 Consensus size: 89
18454522 TTTGAAAACA
* * *
18454532 GAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATACGAGTTGATCTTT
*
18454597 TTTTAAAGGCAGAAATTGAAAAATG
66 TTTGAAA-GCAGAAATTGAAAAATG
* * * *
18454622 GAAATTGAAAATACCTCGGCGTGTGATCTGAGGTTCAACTCACCTCTCGCAATACGAGTTGA-CT
1 GAAATTGAAAATACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATACGAGTTGATCT
18454686 TTTTTGACAA-CAGAAATTGAAA
64 TTTTTGA-AAGCAGAAATTGAAA
18454708 TTACCTCAGC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
90 34 0.45
91 7 0.09
92 34 0.45
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (89 bp):
GAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATACGAGTTGATCTTT
TTTGAAAGCAGAAATTGAAAAATG
Found at i:18454748 original size:74 final size:76
Alignment explanation
Indices: 18454622--18454784 Score: 215
Period size: 74 Copynumber: 2.1 Consensus size: 76
18454612 TTGAAAAATG
* * *
18454622 GAAATTGAAAATACCTCGGCGTGTGATCTGAGGTTCAACTCACCTCTCGCAATACGAGTTGA-CT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATCT
18454686 TTTTTGACAA-CA
65 TTTTTGA-AAGCA
* * * *
18454698 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATCTT
18454762 TTTTGAAAGGCA
66 TTTTGAAA-GCA
18454774 GAAATTGAAAA
1 GAAATTGAAAA
18454785 ACAGAAATTG
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
74 34 0.45
75 8 0.11
76 34 0.45
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (76 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATCTT
TTTTGAAAGCA
Found at i:18454764 original size:166 final size:165
Alignment explanation
Indices: 18454454--18455258 Score: 974
Period size: 166 Copynumber: 4.9 Consensus size: 165
18454444 CGATTTTTTG
* * ** * ** *
18454454 AAAACAGAAATTGAAATTACCTCAACGTGT--CTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* * *
18454517 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
66 TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
* *
18454581 ATATGAGTTGATTTTTTTTTAAAGGCAGAAATTGA
131 ATATGAGTTGATTTTTTTTGAAAGACAGAAATTGA
* * *
18454616 AAAATGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGTTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
*
18454681 TGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
*
18454746 AATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
130 AATATGAGTTGATTTTTTTTGAAAGACAGAAATTGA
* * *
18454782 AAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
18454847 TGATTTTTTTGACAAC------TGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
18454906 AATATGAGTTGATTTTTTTTGAAAGACAGAAATTGA
130 AATATGAGTTGATTTTTTTTGAAAGACAGAAATTGA
* *
18454942 AAAACGAAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* * * * *
18455007 TGATTCTTTCAAAAACATAATAATGAAAACAGAAATTGAAAATACCTCGGCGTGACCTAAGGCTC
66 TGA---TTT--------T--T--TGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTC
* * * * * *
18455072 AACTCACCTCTCGCAATATGAGCTGA--TTCTTTCAAAAACATAATAATG-
116 AACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAA-ATTGA
* * * *
18455120 AAGACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGC
1 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* *
18455183 TGA-TTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGATTTTTTGAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
18455247 AATATGAGTTGA
130 AATATGAGTTGA
18455259 AATTAAAACA
Statistics
Matches: 563, Mismatches: 54, Indels: 53
0.84 0.08 0.08
Matches are distributed among these distances:
160 145 0.26
161 58 0.10
162 29 0.05
164 30 0.05
166 165 0.29
170 1 0.00
172 3 0.01
174 6 0.01
176 37 0.07
178 36 0.06
179 3 0.01
180 50 0.09
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (165 bp):
AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTGAAAGACAGAAATTGA
Found at i:18454783 original size:14 final size:14
Alignment explanation
Indices: 18454772--18454798 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18454762 TTTTGAAAGG
18454772 CAGAAATTGAAAAA
1 CAGAAATTGAAAAA
18454786 CAGAAATTGAAAA
1 CAGAAATTGAAAA
18454799 TACCTCGGCG
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:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (14 bp):
CAGAAATTGAAAAA
Found at i:18454903 original size:326 final size:326
Alignment explanation
Indices: 18454452--18455258 Score: 957
Period size: 326 Copynumber: 2.4 Consensus size: 326
18454442 TTCGATTTTT
* ** * * *** * *
18454452 TGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCACTCGCAATACGAGC
*
18454517 TGAATT-TTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
66 TG-ATTCTTGACAAAC----A-TGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
* * * *
18454580 AATATGAGTTGATTTTTTTTTAAAGGCAGAAATTGAAAAATGGAAATTGAAAATACCTCGGCGTG
125 AATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAAACGAAAATTGAAAATACCTCGGCGTG
* * *
18454645 TGATCTGAGGTTCAACTCACCTCTCGCAATACGAGTTGA-CTTT-T-T-TGACAACAGAAATTGA
190 TGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATCTTTATATATGAAAACAGAAATTGA
* * * * * * * *
18454706 AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTGAAAG
255 AAATACCTCAGCGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGA--TTCTTTCAAAA
* *
18454771 GCAGAA-AT
318 ACAGAATAA
*
18454779 TGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACG
1 TG-AAAACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGCTCAACTCACCACTCGCAATACG
* *
18454844 AGTTGATTTTTTTGAC-AAC-TGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
63 AGCTGA--TTCTTGACAAACATGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
18454907 ATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAAACGAAAATTGAAAATACCTCGGCGTGT
126 ATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAAACGAAAATTGAAAATACCTCGGCGTGT
*
18454972 GACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTCTTTCAAAAACATAATAATGAAAAC
191 GACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA-TCTTT-------AT-AT-ATGAAAAC
*
18455037 AGAAATTGAAAATACCTCGGCGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGATTCT
246 AGAAATTGAAAATACCTCAGCGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGATTCT
*
18455102 TTCAAAAACATAATAA
311 TTCAAAAACAGAATAA
* * *
18455118 TGAAGACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGC
1 TGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCACTCGCAATACGAGC
*
18455183 TGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCA
66 TGATTCTTGACAAAC----A-TGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
18455248 ATATGAGTTGA
126 ATATGAGTTGA
18455259 AATTAAAACA
Statistics
Matches: 413, Mismatches: 38, Indels: 44
0.83 0.08 0.09
Matches are distributed among these distances:
326 139 0.34
327 2 0.00
328 27 0.07
329 1 0.00
330 32 0.08
331 2 0.00
332 7 0.02
334 7 0.02
335 3 0.01
336 37 0.09
338 38 0.09
339 3 0.01
340 61 0.15
341 54 0.13
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (326 bp):
TGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCACTCGCAATACGAGC
TGATTCTTGACAAACATGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTTTGAAAGACAGAAATTGAAAAACGAAAATTGAAAATACCTCGGCGTGTGACCT
GAGGCTCAACTCACCTCTCGCAATACGAGTTGATCTTTATATATGAAAACAGAAATTGAAAATAC
CTCAGCGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGATTCTTTCAAAAACAGAATA
A
Done.