Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008460.1 Hibiscus syriacus cultivar Beakdansim tig00111273_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2854393
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 15
Found at i:1419949 original size:42 final size:43
Alignment explanation
Indices: 1419902--1420008 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 43
1419892 GTTTGTCAAG
* *
1419902 TATAAAAGTAAAAAGTGAGATT-GAAATTTTTGGATACTTAAT
1 TATAAAAGTAAAAAGTGAGATTGGAAAATTTAGGATACTTAAT
*
1419944 TATAAATA-TAAAAAGAGAGATTGGAAAATTTAGGATACTTAAT
1 TATAAA-AGTAAAAAGTGAGATTGGAAAATTTAGGATACTTAAT
*
1419987 TATAAATGTAAAAAGTGAGATT
1 TATAAAAGTAAAAAGTGAGATT
1420009 AAAAAAAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
42 19 0.33
43 38 0.67
ACGTcount: A:0.49, C:0.02, G:0.17, T:0.33
Consensus pattern (43 bp):
TATAAAAGTAAAAAGTGAGATTGGAAAATTTAGGATACTTAAT
Found at i:1423786 original size:3 final size:3
Alignment explanation
Indices: 1423778--1423817 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
1423768 CCTTTAAATG
1423778 TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1423818 GGGTTAACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1424465 original size:39 final size:39
Alignment explanation
Indices: 1424351--1424469 Score: 111
Period size: 39 Copynumber: 3.1 Consensus size: 39
1424341 TTAATTTTTT
* * *
1424351 ATTCATAA-TTCTCAAATTATTTCGCTCTAACATTCTAA
1 ATTCATAATTTCTTAAATTATTTCACTTTAACATTCTAA
* * **
1424389 AATCCTAATTTCTTAAATT-TTGAT-A-TTATAATGTTCTAA
1 ATTCATAATTTCTTAAATTATT--TCACTT-TAACATTCTAA
*
1424428 ATTCTTAATTTCTTAAATTATTTCACTTTAACATTCTAA
1 ATTCATAATTTCTTAAATTATTTCACTTTAACATTCTAA
1424467 ATT
1 ATT
1424470 ATTTTTAAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
38 10 0.16
39 48 0.76
40 5 0.08
ACGTcount: A:0.34, C:0.15, G:0.03, T:0.48
Consensus pattern (39 bp):
ATTCATAATTTCTTAAATTATTTCACTTTAACATTCTAA
Found at i:1424728 original size:26 final size:24
Alignment explanation
Indices: 1424682--1424740 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 24
1424672 GACCCAAATT
1424682 ATATATTTTACATTAACTAATTAA
1 ATATATTTTACATTAACTAATTAA
* *
1424706 ATATATTTTATTATTAACTTAATTTA
1 ATATATTTTA-CATTAAC-TAATTAA
*
1424732 ATTTATTTT
1 ATATATTTT
1424741 TAATTTCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 10 0.33
25 6 0.20
26 14 0.47
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (24 bp):
ATATATTTTACATTAACTAATTAA
Found at i:1424738 original size:21 final size:21
Alignment explanation
Indices: 1424712--1424753 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1424702 TTAAATATAT
1424712 TTTATTATTAACTTAATTTAA
1 TTTATTATTAACTTAATTTAA
* * *
1424733 TTTATTTTTAATTTCATTTAA
1 TTTATTATTAACTTAATTTAA
1424754 AATTATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATTATTAACTTAATTTAA
Found at i:1424969 original size:3 final size:3
Alignment explanation
Indices: 1424961--1424993 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1424951 TAATTAATCT
*
1424961 ATA ATA ATA ATA ATA ATT ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1424994 CGAAACACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:1427086 original size:20 final size:20
Alignment explanation
Indices: 1427061--1427111 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1427051 CGATTTTCCA
1427061 AAATCGCAACGATAATATGT
1 AAATCGCAACGATAATATGT
1427081 AAATCGCAACGATAATATGT
1 AAATCGCAACGATAATATGT
*
1427101 AAATTGCAACG
1 AAATCGCAACG
1427112 CATTTTCCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.24
Consensus pattern (20 bp):
AAATCGCAACGATAATATGT
Found at i:1427144 original size:20 final size:20
Alignment explanation
Indices: 1427061--1427158 Score: 90
Period size: 20 Copynumber: 4.9 Consensus size: 20
1427051 CGATTTTCCA
**
1427061 AAATCGCAACGATAATATGT
1 AAATCGCAACGCGAATATGT
**
1427081 AAATCGCAACGATAATATGT
1 AAATCGCAACGCGAATATGT
* * * **
1427101 AAATTGCAACGC-ATTTTCCA
1 AAATCGCAACGCGAATAT-GT
1427121 AAATCGCAACGCGAATATGT
1 AAATCGCAACGCGAATATGT
*
1427141 AAATCGTAACGCGAATAT
1 AAATCGCAACGCGAATAT
1427159 TATTTTCGAA
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
19 3 0.05
20 58 0.91
21 3 0.05
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATCGCAACGCGAATATGT
Found at i:1427303 original size:22 final size:22
Alignment explanation
Indices: 1427278--1427328 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
1427268 TCACTCTCTA
* * *
1427278 CGGCGACATCTGTCCCCATCTC
1 CGGCGACATCCGTCCACATATC
*
1427300 CGGCGAAATCCGTCCACATATC
1 CGGCGACATCCGTCCACATATC
1427322 CGGCGAC
1 CGGCGAC
1427329 CCCCTCTATC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.20, C:0.41, G:0.22, T:0.18
Consensus pattern (22 bp):
CGGCGACATCCGTCCACATATC
Found at i:1427714 original size:20 final size:20
Alignment explanation
Indices: 1427667--1427714 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
1427657 AAACTCAAAT
*
1427667 TCGCAACACGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
1427687 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
1427707 TCGCAACG
1 TCGCAACG
1427715 TTGCGAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.48, C:0.23, G:0.19, T:0.10
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:1431304 original size:60 final size:64
Alignment explanation
Indices: 1431238--1431398 Score: 249
Period size: 64 Copynumber: 2.6 Consensus size: 64
1431228 TGGGTACACT
*
1431238 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTGA-TGA-G-G-AAATAAGAATTA
1 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATTA
***
1431298 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTA
1 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATTA
*
1431362 TTTTTTACTTGTTTAATTGATTTGTAAAAGTTGATTT
1 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTT
1431399 TGATTTGTTG
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
60 42 0.46
61 3 0.03
62 1 0.01
63 1 0.01
64 45 0.49
ACGTcount: A:0.27, C:0.02, G:0.17, T:0.53
Consensus pattern (64 bp):
TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATTA
Found at i:1431512 original size:20 final size:20
Alignment explanation
Indices: 1431460--1431515 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
1431450 GAAAGTACAC
*
1431460 TTTCACGTTGCGAATTTATA
1 TTTCGCGTTGCGAATTTATA
***
1431480 TTTCGCAAAGCGAATTTGAT-
1 TTTCGCGTTGCGAATTT-ATA
1431500 TTTCGCGTTGCGAATT
1 TTTCGCGTTGCGAATT
1431516 CAAGGAAAAC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTATA
Found at i:1431600 original size:16 final size:16
Alignment explanation
Indices: 1431571--1431606 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1431561 TGTAAATAAG
* *
1431571 AATTGTTTTTTTGTTT
1 AATTGATTTGTTGTTT
1431587 AATTGATTTGTTGTTT
1 AATTGATTTGTTGTTT
1431603 AATT
1 AATT
1431607 TCACTCTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.67
Consensus pattern (16 bp):
AATTGATTTGTTGTTT
Found at i:1431678 original size:20 final size:21
Alignment explanation
Indices: 1431653--1431710 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
1431643 GTCAAATTCG
1431653 CGTTGCAATTTTGA-TTTTCA
1 CGTTGCAATTTTGACTTTTCA
*
1431673 CGTTGCGATTTTGACTTTTGCA
1 CGTTGCAATTTTGACTTTT-CA
*
1431695 --TTGCAAATTTGACTTT
1 CGTTGCAATTTTGACTTT
1431711 CGTGATGCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 27 0.82
21 4 0.12
22 2 0.06
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.48
Consensus pattern (21 bp):
CGTTGCAATTTTGACTTTTCA
Found at i:1432030 original size:6 final size:6
Alignment explanation
Indices: 1432021--1432067 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
1432011 TTGTGATTGG
**
1432021 GATTTT GATTTT GATTTT GATTTT GATTGC GATTTT GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
1432068 CCTTTTTCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.17, C:0.02, G:0.19, T:0.62
Consensus pattern (6 bp):
GATTTT
Found at i:1434377 original size:24 final size:24
Alignment explanation
Indices: 1434350--1434396 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1434340 CAAAATACGA
1434350 GTATTGACCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
1434374 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
1434397 AATACTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:1434405 original size:24 final size:24
Alignment explanation
Indices: 1434354--1434405 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
1434344 ATACGAGTAT
** *
1434354 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
1434378 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
1434402 TGAC
1 TGAC
1434406 TAGTACCCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:1434538 original size:12 final size:12
Alignment explanation
Indices: 1434517--1434550 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1434507 GGTTGTGGGT
*
1434517 TTTGAGATTGTG
1 TTTGATATTGTG
1434529 TTTGATATTGTG
1 TTTGATATTGTG
*
1434541 TTTGGTATTG
1 TTTGATATTG
1434551 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:1435178 original size:14 final size:15
Alignment explanation
Indices: 1435142--1435179 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1435132 GAAATCATTG
1435142 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
1435157 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
1435172 AAAAATTA
1 AAAAATTA
1435180 GAGATTGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:1435370 original size:20 final size:20
Alignment explanation
Indices: 1435343--1435402 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
1435333 GTTGTTGTGA
1435343 AATT-AAAATTCGTGTTGCG
1 AATTCAAAATTCGTGTTGCG
*
1435362 AATTCAAAAATT-GAGTTGCG
1 AATTC-AAAATTCGTGTTGCG
*
1435382 AAATCAAAATTCGTGTTGCG
1 AATTCAAAATTCGTGTTGCG
1435402 A
1 A
1435403 TTTAGAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 10 0.29
20 19 0.54
21 6 0.17
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
AATTCAAAATTCGTGTTGCG
Found at i:1435420 original size:40 final size:39
Alignment explanation
Indices: 1435329--1435424 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 39
1435319 TTGCGAAAAT
* * *
1435329 AAAAGTTGTTGTGAAATTAAAATTCGTGTTGCGAATTCA
1 AAAATTTGTTGCGAAATCAAAATTCGTGTTGCGAATTCA
* *
1435368 AAAATTGAGTTGCGAAATCAAAATTCGTGTTGCG-ATTTA
1 AAAATT-TGTTGCGAAATCAAAATTCGTGTTGCGAATTCA
1435407 GAAAATCTTGTTGCGAAA
1 -AAAAT-TTGTTGCGAAA
1435425 AGGAAACTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
39 9 0.19
40 38 0.79
41 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.33
Consensus pattern (39 bp):
AAAATTTGTTGCGAAATCAAAATTCGTGTTGCGAATTCA
Found at i:1435480 original size:20 final size:20
Alignment explanation
Indices: 1435450--1435622 Score: 172
Period size: 20 Copynumber: 8.7 Consensus size: 20
1435440 TGAAAAATAA
*
1435450 ATTCACGTTGCGATTTACAT
1 ATTCGCGTTGCGATTTACAT
** *
1435470 ATTATCGTTGCAATTTACAT
1 ATTCGCGTTGCGATTTACAT
*
1435490 ATTCGCTTTGCGATTTACAT
1 ATTCGCGTTGCGATTTACAT
** *
1435510 ATTATCGTTGCGATTTACCT
1 ATTCGCGTTGCGATTTACAT
1435530 ATTCGCGTTGCGAATTTGAC-T
1 ATTCGCGTTGCG-ATTT-ACAT
* *
1435551 -TTCGCATTGCGAATTACAT
1 ATTCGCGTTGCGATTTACAT
*** *
1435570 ATTATTGTTGCGATTTGCAT
1 ATTCGCGTTGCGATTTACAT
1435590 ATTCGCGTTGCGATTTA-ACT
1 ATTCGCGTTGCGATTTACA-T
1435610 ATTCGCGTTGCGA
1 ATTCGCGTTGCGA
1435623 ATTTGGAACC
Statistics
Matches: 123, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
18 2 0.02
19 5 0.04
20 109 0.89
21 5 0.04
22 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (20 bp):
ATTCGCGTTGCGATTTACAT
Found at i:1435519 original size:60 final size:60
Alignment explanation
Indices: 1435455--1435625 Score: 213
Period size: 60 Copynumber: 2.9 Consensus size: 60
1435445 AATAAATTCA
** * *
1435455 CGTTGCGATTTACATATTATCGTTGCAATTTACATATTCGCTTTGCGATTTACATATTAT
1 CGTTGCGATTTACATATTCGCGTTGCAATTTACATATTCGCATTGCGAATTACATATTAT
*
1435515 CGTTGCGATTTACCTATTCGCGTTGCGAATTTGAC-T-TTCGCATTGCGAATTACATATTAT
1 CGTTGCGATTTACATATTCGCGTTGC-AATTT-ACATATTCGCATTGCGAATTACATATTAT
* * * *
1435575 TGTTGCGATTTGCATATTCGCGTTGCGATTTA-ACTATTCGCGTTGCGAATT
1 CGTTGCGATTTACATATTCGCGTTGCAATTTACA-TATTCGCATTGCGAATT
1435626 TGGAACCTGT
Statistics
Matches: 96, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
58 1 0.01
59 5 0.05
60 82 0.85
61 6 0.06
62 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (60 bp):
CGTTGCGATTTACATATTCGCGTTGCAATTTACATATTCGCATTGCGAATTACATATTAT
Found at i:1435639 original size:20 final size:20
Alignment explanation
Indices: 1435616--1435667 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1435606 AACTATTCGC
1435616 GTTGCGAATTTGGAACCT-GT
1 GTTGCGAATTTGG-ACCTCGT
* *
1435636 GTTGCGAAATTGGACTTCGT
1 GTTGCGAATTTGGACCTCGT
*
1435656 GTTGCGATTTTG
1 GTTGCGAATTTG
1435668 TTGGTCATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.17, C:0.13, G:0.31, T:0.38
Consensus pattern (20 bp):
GTTGCGAATTTGGACCTCGT
Found at i:1436121 original size:86 final size:86
Alignment explanation
Indices: 1435967--1436143 Score: 320
Period size: 86 Copynumber: 2.1 Consensus size: 86
1435957 TATAAATGCT
*
1435967 TATA-AGGTTTCATCATGCCATGATATACACATACTTGCACAAAGTTCACATATTTCCAATGTAC
1 TATATAGGTTTCATCATGCCATGATATACACATACTTACACAAAGTTCACATATTTCCAATGTAC
1436031 TAAAATCCATAATCGAATATA
66 TAAAATCCATAATCGAATATA
* *
1436052 TATATAGGTTTCATCATGCCATGATATACACATGCTTACACAAAGTTCACATATTTCCAATGTAG
1 TATATAGGTTTCATCATGCCATGATATACACATACTTACACAAAGTTCACATATTTCCAATGTAC
1436117 TAAAATCCATAATCGAATATA
66 TAAAATCCATAATCGAATATA
1436138 TATATA
1 TATATA
1436144 TATATATATA
Statistics
Matches: 88, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
85 4 0.05
86 84 0.95
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.33
Consensus pattern (86 bp):
TATATAGGTTTCATCATGCCATGATATACACATACTTACACAAAGTTCACATATTTCCAATGTAC
TAAAATCCATAATCGAATATA
Found at i:1436140 original size:2 final size:2
Alignment explanation
Indices: 1436133--1436188 Score: 103
Period size: 2 Copynumber: 27.5 Consensus size: 2
1436123 CCATAATCGA
1436133 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1436175 AT AT AT AT CAT AT A
1 AT AT AT AT -AT AT A
1436189 CTTTAATTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 51 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1439273 original size:15 final size:15
Alignment explanation
Indices: 1439241--1439274 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1439231 AGTTAAAAAG
* *
1439241 TAAATAAAATTATGA
1 TAAATAAAATAATAA
1439256 TAAATAAAATAATAA
1 TAAATAAAATAATAA
1439271 TAAA
1 TAAA
1439275 AATGCCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (15 bp):
TAAATAAAATAATAA
Found at i:1439694 original size:31 final size:31
Alignment explanation
Indices: 1439659--1439719 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
1439649 TCAGTGACCA
*
1439659 CATCTTAACTAAATAAAAATGAAAATGACAT
1 CATCTTAACTAAATAAAAACGAAAATGACAT
* *
1439690 CATCTTAATTAAATAAAAACGAAAGTGACA
1 CATCTTAACTAAATAAAAACGAAAATGACA
1439720 AAATATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.54, C:0.13, G:0.08, T:0.25
Consensus pattern (31 bp):
CATCTTAACTAAATAAAAACGAAAATGACAT
Found at i:1441243 original size:3 final size:3
Alignment explanation
Indices: 1441237--1441262 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1441227 ATCATCATCA
1441237 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
1441263 ATGTACGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:1442294 original size:2 final size:2
Alignment explanation
Indices: 1442287--1442322 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
1442277 AACATAGATG
1442287 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
1442323 AGAATAAGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1442686 original size:31 final size:31
Alignment explanation
Indices: 1442648--1442710 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
1442638 GAGTCGAGGG
1442648 TTACCTATGTTCTACGGAACATATGGACAGT
1 TTACCTATGTTCTACGGAACATATGGACAGT
*
1442679 TTACCTATGTTCTTCGGAACATATGGACAGT
1 TTACCTATGTTCTACGGAACATATGGACAGT
1442710 T
1 T
1442711 ACATAGGTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (31 bp):
TTACCTATGTTCTACGGAACATATGGACAGT
Found at i:1443531 original size:12 final size:12
Alignment explanation
Indices: 1443514--1443558 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
1443504 AAAAATTTTC
1443514 ACTGTTCATGGT
1 ACTGTTCATGGT
1443526 ACTGTTCATGGT
1 ACTGTTCATGGT
* * *
1443538 ATTATTGATGGT
1 ACTGTTCATGGT
*
1443550 ATTGTTCAT
1 ACTGTTCAT
1443559 ACCGTATAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.20, C:0.11, G:0.22, T:0.47
Consensus pattern (12 bp):
ACTGTTCATGGT
Found at i:1444070 original size:17 final size:18
Alignment explanation
Indices: 1444037--1444070 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1444027 ATGTAAAAAT
1444037 GGTACCGATACCCAAAGA
1 GGTACCGATACCCAAAGA
1444055 GGTACCGATA-CCAAAG
1 GGTACCGATACCCAAAG
1444071 GTAATGGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.26, G:0.24, T:0.12
Consensus pattern (18 bp):
GGTACCGATACCCAAAGA
Found at i:1444082 original size:107 final size:107
Alignment explanation
Indices: 1443949--1444174 Score: 364
Period size: 107 Copynumber: 2.1 Consensus size: 107
1443939 TGTTCATATT
* * * *
1443949 GTACCGATACCAAAGGTAATGGAAGTATCGATACTCATAAGATAGTATCGATACTACCGGCATTG
1 GTACCGATACCAAAGGTAATGGAAGTATCGATACTCACAAGACAGTATCAATACTACCAGCATTG
* * *
1444014 CTCAAATTCCAGAATGTAAAAATGGTACCGATACCC-AAAGAG
66 CTCAAATTCCAAAATGAAAAAATGGTACAGATACCCAAAAG-G
*
1444056 GTACCGATACCAAAGGTAATGGAAGTATCGATACTCACAAGGCAGTATCAATACTACCAGCATTG
1 GTACCGATACCAAAGGTAATGGAAGTATCGATACTCACAAGACAGTATCAATACTACCAGCATTG
1444121 CTCAAATTCCAAAATGAAAAAATGGTACAGATACCCAAAAGG
66 CTCAAATTCCAAAATGAAAAAATGGTACAGATACCCAAAAGG
1444163 GTACCGATACCA
1 GTACCGATACCA
1444175 GCATTGCTCA
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
107 106 0.96
108 4 0.04
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (107 bp):
GTACCGATACCAAAGGTAATGGAAGTATCGATACTCACAAGACAGTATCAATACTACCAGCATTG
CTCAAATTCCAAAATGAAAAAATGGTACAGATACCCAAAAGG
Found at i:1444165 original size:18 final size:18
Alignment explanation
Indices: 1444139--1444173 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1444129 CCAAAATGAA
*
1444139 AAAATGGTACAGATACCC
1 AAAAGGGTACAGATACCC
*
1444157 AAAAGGGTACCGATACC
1 AAAAGGGTACAGATACC
1444174 AGCATTGCTC
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:0.43, C:0.23, G:0.20, T:0.14
Consensus pattern (18 bp):
AAAAGGGTACAGATACCC
Found at i:1444293 original size:29 final size:30
Alignment explanation
Indices: 1444223--1444299 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 30
1444213 TAAAGTATAG
*
1444223 TACAATCCTCCAACTTTTAAAACTTGCATT
1 TACAATCCTCCAACTTTTAAAACTTGCATA
** *
1444253 TA-GGTCCCCCAACTTTTAAAACTTGCA-A
1 TACAATCCTCCAACTTTTAAAACTTGCATA
*
1444281 TACAATCCTCCAACATTTA
1 TACAATCCTCCAACTTTTA
1444300 GTCCGCTTGT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.05
29 34 0.89
30 2 0.05
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (30 bp):
TACAATCCTCCAACTTTTAAAACTTGCATA
Found at i:1445743 original size:35 final size:35
Alignment explanation
Indices: 1445699--1445804 Score: 169
Period size: 35 Copynumber: 3.0 Consensus size: 35
1445689 TTCACGTTCA
1445699 AAATTCCAAAATACTTCAATTACATTCTAAA-CCT
1 AAATTCCAAAATACTTCAATTACATTCTAAACCCT
*
1445733 CAAATTCCAAAATACTTCAATTATATTCTAAACCCT
1 -AAATTCCAAAATACTTCAATTACATTCTAAACCCT
* *
1445769 AAATTCTAAAATACTTCAGTTACATTCTAAACCCT
1 AAATTCCAAAATACTTCAATTACATTCTAAACCCT
1445804 A
1 A
1445805 TATTAAAGTA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
35 63 0.95
36 3 0.05
ACGTcount: A:0.42, C:0.24, G:0.01, T:0.33
Consensus pattern (35 bp):
AAATTCCAAAATACTTCAATTACATTCTAAACCCT
Found at i:1445860 original size:35 final size:35
Alignment explanation
Indices: 1445813--1445880 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
1445803 TATATTAAAG
*
1445813 TATTTTAAAATTTAGGGTTTAAAATATAATTGAAT
1 TATTTTAAAATTTAGGGTTTAAAATAAAATTGAAT
* *
1445848 TATTTTAGAATTTAGGGTTTAGAATAAAATTGA
1 TATTTTAAAATTTAGGGTTTAAAATAAAATTGA
1445881 GGACTGTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (35 bp):
TATTTTAAAATTTAGGGTTTAAAATAAAATTGAAT
Found at i:1446245 original size:19 final size:19
Alignment explanation
Indices: 1446221--1446258 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1446211 TCGTAATCCC
1446221 GGAGAAAAGGAAATACGGT
1 GGAGAAAAGGAAATACGGT
1446240 GGAGAAAAGGAAATACGGT
1 GGAGAAAAGGAAATACGGT
1446259 ACACCTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.37, T:0.11
Consensus pattern (19 bp):
GGAGAAAAGGAAATACGGT
Found at i:1446703 original size:41 final size:41
Alignment explanation
Indices: 1446652--1446768 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 41
1446642 TCGTAACGCG
*
1446652 AATATG-AAAATCGCAACGCG-AACATATAAATCGCAACGAGT
1 AATATGTAAAATCGCAACGCGTAAC-CATAAATCGCAACGA-T
* *
1446693 -ATATGTAAAATCGCAACGCGTATCCGTAAATCGCAACGAT
1 AATATGTAAAATCGCAACGCGTAACCATAAATCGCAACGAT
* * *
1446733 AATACGTAAAATCGCAACGCGTATCCGTAAATCGCA
1 AATATGTAAAATCGCAACGCGTAACCATAAATCGCA
1446769 TACGTAAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
40 6 0.09
41 61 0.88
42 2 0.03
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (41 bp):
AATATGTAAAATCGCAACGCGTAACCATAAATCGCAACGAT
Found at i:1446761 original size:21 final size:21
Alignment explanation
Indices: 1446640--1446768 Score: 117
Period size: 20 Copynumber: 6.3 Consensus size: 21
1446630 GATTTTCCAG
* * *
1446640 AATCGTAACGCGAATATG-AA
1 AATCGCAACGCGTATACGTAA
*
1446660 AATCGCAACGCG-A-ACATATA
1 AATCGCAACGCGTATACGTA-A
* *
1446680 AATCGCAACGAGTATATGTAA
1 AATCGCAACGCGTATACGTAA
*
1446701 AATCGCAACGCGTATCCGT-A
1 AATCGCAACGCGTATACGTAA
*
1446721 AATCGCAACG-ATAATACGTAA
1 AATCGCAACGCGT-ATACGTAA
*
1446742 AATCGCAACGCGTATCCGT-A
1 AATCGCAACGCGTATACGTAA
1446762 AATCGCA
1 AATCGCA
1446769 TACGTAAATC
Statistics
Matches: 89, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
18 1 0.01
19 3 0.03
20 47 0.53
21 34 0.38
22 4 0.04
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.19
Consensus pattern (21 bp):
AATCGCAACGCGTATACGTAA
Found at i:1446870 original size:40 final size:40
Alignment explanation
Indices: 1446794--1446871 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
1446784 GCGGAAATCG
*
1446794 CAATGAGAATACGTAAATCACAATGCGTATCCGTAAATTA
1 CAATGAGAATACGTAAATCACAATGCGAATCCGTAAATTA
* * * *
1446834 CAATGCGAATACGTAAATCGCAATGTGAATCTGTAAAT
1 CAATGAGAATACGTAAATCACAATGCGAATCCGTAAAT
1446872 CGCAACGAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.26
Consensus pattern (40 bp):
CAATGAGAATACGTAAATCACAATGCGAATCCGTAAATTA
Found at i:1446873 original size:20 final size:20
Alignment explanation
Indices: 1446788--1446876 Score: 99
Period size: 20 Copynumber: 4.5 Consensus size: 20
1446778 CGCAACGCGG
*
1446788 AAATCGCAATGAGAATACGT
1 AAATCGCAATGCGAATACGT
* * *
1446808 AAATCACAATGCGTATCCGT
1 AAATCGCAATGCGAATACGT
**
1446828 AAATTACAATGCGAATACGT
1 AAATCGCAATGCGAATACGT
*
1446848 AAATCGCAATGTGAAT-CTGT
1 AAATCGCAATGCGAATAC-GT
1446868 AAATCGCAA
1 AAATCGCAA
1446877 CGAGATTCTG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
19 1 0.02
20 57 0.98
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.24
Consensus pattern (20 bp):
AAATCGCAATGCGAATACGT
Found at i:1446886 original size:20 final size:20
Alignment explanation
Indices: 1446846--1446886 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1446836 ATGCGAATAC
* *
1446846 GTAAATCGCAATGTGAATCT
1 GTAAATCGCAACGAGAATCT
*
1446866 GTAAATCGCAACGAGATTCT
1 GTAAATCGCAACGAGAATCT
1446886 G
1 G
1446887 ACTATCGCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (20 bp):
GTAAATCGCAACGAGAATCT
Found at i:1447740 original size:24 final size:24
Alignment explanation
Indices: 1447683--1447742 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
1447673 TAGTCAGTAT
1447683 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
* * *
1447707 CCGGACTTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
*
1447731 TCGAATTTTGAT
1 TCGAAATTTGAT
1447743 AATTTTTCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (24 bp):
TCGAAATTTGATCTTGGTCAATAC
Found at i:1450290 original size:14 final size:14
Alignment explanation
Indices: 1450271--1450345 Score: 51
Period size: 14 Copynumber: 5.0 Consensus size: 14
1450261 GGAAATTACT
*
1450271 ATCGCAATGAGAGA
1 ATCGCAATGAGAAA
1450285 ATCGCAATGCGAAATGAAA
1 ATCGCAAT--G--A-GAAA
* *
1450304 ATCGCAACGTGAAA
1 ATCGCAATGAGAAA
* *
1450318 ATCGCAACGAGAGA
1 ATCGCAATGAGAAA
*
1450332 ATCGCAATGCGAAA
1 ATCGCAATGAGAAA
1450346 TGAAAATCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
14 35 0.73
16 1 0.02
17 1 0.02
18 1 0.02
19 10 0.21
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (14 bp):
ATCGCAATGAGAAA
Found at i:1450350 original size:33 final size:33
Alignment explanation
Indices: 1450313--1450392 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
1450303 AATCGCAACG
1450313 TGAAAATCGCAACGAGAGAATCGCAATGCGAAA
1 TGAAAATCGCAACGAGAGAATCGCAATGCGAAA
* *
1450346 TGAAAATCGCAACGAGGGAATCGCAATGTGAAA
1 TGAAAATCGCAACGAGAGAATCGCAATGCGAAA
1450379 TGAAAATCGCAACG
1 TGAAAATCGCAACG
1450393 CGAATTTAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.14
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATCGCAATGCGAAA
Found at i:1450368 original size:47 final size:47
Alignment explanation
Indices: 1450271--1450371 Score: 166
Period size: 47 Copynumber: 2.1 Consensus size: 47
1450261 GGAAATTACT
* *
1450271 ATCGCAATGAGAGAATCGCAATGCGAAATGAAAATCGCAACGTGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGAAA
**
1450318 ATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1450365 ATCGCAA
1 ATCGCAA
1450372 TGTGAAATGA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.44, C:0.19, G:0.25, T:0.13
Consensus pattern (47 bp):
ATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:1450427 original size:19 final size:19
Alignment explanation
Indices: 1450392--1450468 Score: 92
Period size: 19 Copynumber: 4.3 Consensus size: 19
1450382 AAATCGCAAC
*
1450392 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
1450411 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
1450430 GCGATTTT-G--T--CGTT
1 GCGATTTTAGTTTCGCGTT
* *
1450444 GCGATTTTAATTTCGCATT
1 GCGATTTTAGTTTCGCGTT
1450463 GCGATT
1 GCGATT
1450469 CTCTCGTTGC
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
14 12 0.24
16 1 0.02
17 1 0.02
18 1 0.02
19 35 0.70
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.45
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:1450449 original size:33 final size:32
Alignment explanation
Indices: 1450407--1450500 Score: 134
Period size: 33 Copynumber: 2.8 Consensus size: 32
1450397 TTTAGTTTCG
* * *
1450407 CGTTGCGATTTTAGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTA-TTTCGCATTGCGATTCTCT
1450440 CGTTGCGATTTTAATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTT-ATTTCGCATTGCGATTCTCT
1450473 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTT-ATTTCGCATTGCGAT
1450501 AGCAATTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 55 0.98
34 1 0.02
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.46
Consensus pattern (32 bp):
CGTTGCGATTTTATTTCGCATTGCGATTCTCT
Found at i:1450499 original size:19 final size:17
Alignment explanation
Indices: 1450392--1450500 Score: 68
Period size: 19 Copynumber: 6.3 Consensus size: 17
1450382 AAATCGCAAC
*
1450392 GCGAATTTAGTTTCGCGTT
1 GCGATTTTA-TTTCGC-TT
1450411 GCGATTTTAGTTTCGCGTT
1 GCGATTTTA-TTTCGC-TT
*
1450430 GCGA-TTT-TGTCG-TT
1 GCGATTTTATTTCGCTT
1450444 GCGATTTTAATTTCGCATT
1 GCGATTTT-ATTTCGC-TT
* *
1450463 GCGA--TTCTCTCG-TT
1 GCGATTTTATTTCGCTT
1450477 GCGATTTTCATTTCGCATT
1 GCGATTTT-ATTTCGC-TT
1450496 GCGAT
1 GCGAT
1450501 AGCAATTTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
14 12 0.16
15 3 0.04
16 10 0.14
17 10 0.14
18 3 0.04
19 35 0.48
ACGTcount: A:0.14, C:0.18, G:0.23, T:0.45
Consensus pattern (17 bp):
GCGATTTTATTTCGCTT
Found at i:1450626 original size:14 final size:14
Alignment explanation
Indices: 1450607--1450643 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1450597 CATCAATTAA
1450607 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1450621 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1450635 ACAAATCAA
1 ACAAATCAA
1450644 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1452053 original size:21 final size:21
Alignment explanation
Indices: 1451987--1452053 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1451977 GTGAATCGGG
*
1451987 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
1452007 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
1452029 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
1452050 CTCT
1 CTCT
1452054 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:1454079 original size:20 final size:20
Alignment explanation
Indices: 1454056--1454111 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
1454046 TGAAATGAAA
1454056 ATCGCAACGAGAGAATGACC
1 ATCGCAACGAGAGAATGACC
*
1454076 ATCGCAATGCG-GA-AATGACT
1 ATCGCAA--CGAGAGAATGACC
1454096 ATCGCAACGAGAGAAT
1 ATCGCAACGAGAGAAT
1454112 CGCAACGCGA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 23 0.74
21 2 0.06
22 2 0.06
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.14
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACC
Found at i:1454187 original size:33 final size:33
Alignment explanation
Indices: 1454146--1454214 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
1454136 GCGATTTTGG
1454146 TTCGCGTTGCGATTATCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTATCTCGTTGCGATTTTCAT
* *
1454179 TTCGCGTTGCGATTCTCTCGTTGCTATTTTCAT
1 TTCGCGTTGCGATTATCTCGTTGCGATTTTCAT
1454212 TTC
1 TTC
1454215 TCTCGTTGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.10, C:0.23, G:0.19, T:0.48
Consensus pattern (33 bp):
TTCGCGTTGCGATTATCTCGTTGCGATTTTCAT
Found at i:1454232 original size:21 final size:21
Alignment explanation
Indices: 1454191--1454235 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1454181 CGCGTTGCGA
* **
1454191 TTCTCTCGTTGCTATTTTCAT
1 TTCTCTCGTTGCAATAGTCAT
1454212 TTCTCTCGTTGCAATAGTCAT
1 TTCTCTCGTTGCAATAGTCAT
1454233 TTC
1 TTC
1454236 GTTGCATTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.13, C:0.24, G:0.11, T:0.51
Consensus pattern (21 bp):
TTCTCTCGTTGCAATAGTCAT
Found at i:1454775 original size:20 final size:20
Alignment explanation
Indices: 1454750--1454922 Score: 159
Period size: 20 Copynumber: 8.6 Consensus size: 20
1454740 CTTTAAAAAT
1454750 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1454770 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
1454790 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* * * ** *
1454811 TGCATTGTGATTTACATATT
1 CGCGTTGCGATTTACGGATA
* *
1454831 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* * * *
1454851 CGCATTACGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* *
1454871 CTCGTTGCGATTTACGAATA
1 CGCGTTGCGATTTACGGATA
1454891 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
1454912 CTCGTTGCGAT
1 CGCGTTGCGAT
1454923 AGTCAGAATC
Statistics
Matches: 121, Mismatches: 28, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
20 85 0.70
21 36 0.30
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1454836 original size:40 final size:41
Alignment explanation
Indices: 1454752--1454922 Score: 229
Period size: 40 Copynumber: 4.2 Consensus size: 41
1454742 TTAAAAATCG
* *
1454752 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
* * *
1454793 CGTTGCGATTTACGGATATGCATTGTGA-TTTACATATTCT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
* *
1454833 CGTTGCGATTTACAGATACGCATTACGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
* * * *
1454873 CGTTGCGATTTACGAATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
1454914 CGTTGCGAT
1 CGTTGCGAT
1454923 AGTCAGAATC
Statistics
Matches: 113, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 69 0.61
41 44 0.39
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
Found at i:1454958 original size:20 final size:20
Alignment explanation
Indices: 1454935--1454983 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1454925 TCAGAATCGA
*
1454935 GTTGCGATTTAT-ATGTTCGC
1 GTTGCGATTT-TCATATTCGC
1454955 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTTCATATTCGC
1454975 GTTGCGATT
1 GTTGCGATT
1454984 ATGGAAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.14, C:0.16, G:0.24, T:0.45
Consensus pattern (20 bp):
GTTGCGATTTTCATATTCGC
Found at i:1458518 original size:132 final size:132
Alignment explanation
Indices: 1458357--1458595 Score: 383
Period size: 132 Copynumber: 1.8 Consensus size: 132
1458347 ATACGGTTTT
* * * *
1458357 GCCCGAGCTAATATCCCAGGGATCAACAGTGTATGCTTGTCTATGTATTGTTGTAGTTT-ATTGC
1 GCCCGAACTAATATCCCAGGGAGCAACAGTGTATGCTTGTCTATGTATTATTGTACTTTCATTGC
*
1458421 TTTCTGGTTGGCCTATCCAAAGGTTTTGTCTGTTCCCCCTTTCTAGTTGAAACATGCAAAAAAAA
66 TTTCTGGTTGGCCTACCCAAAGGTTTTGTCTGTT-CCCCTTTCTAGTTGAAACATGCAAAAAAAA
1458486 AAA
130 AAA
* *
1458489 GCCCGAACTAATATCCCAGTGG-GCAACAGTGTATGCTTGTCTATGTATTATTGTTCTTTCTTTG
1 GCCCGAACTAATATCCCAG-GGAGCAACAGTGTATGCTTGTCTATGTATTATTGTACTTTCATTG
1458553 CTTTCTGGTTGGCCTACCCAAAGGTTTTGTCTGTTCCCCTTTC
65 CTTTCTGGTTGGCCTACCCAAAGGTTTTGTCTGTTCCCCTTTC
1458596 ATACTGGTCT
Statistics
Matches: 98, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
132 59 0.60
133 39 0.40
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (132 bp):
GCCCGAACTAATATCCCAGGGAGCAACAGTGTATGCTTGTCTATGTATTATTGTACTTTCATTGC
TTTCTGGTTGGCCTACCCAAAGGTTTTGTCTGTTCCCCTTTCTAGTTGAAACATGCAAAAAAAAA
AA
Found at i:1459496 original size:31 final size:31
Alignment explanation
Indices: 1459458--1459520 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
1459448 TAAAAGAACT
1459458 TAGACTAGGGATAAAGTTAGTATATGCCTGC
1 TAGACTAGGGATAAAGTTAGTATATGCCTGC
1459489 TAGACTAGGGATAAAGTTAGTATATGCCTGC
1 TAGACTAGGGATAAAGTTAGTATATGCCTGC
1459520 T
1 T
1459521 CCTCATTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (31 bp):
TAGACTAGGGATAAAGTTAGTATATGCCTGC
Found at i:1462485 original size:102 final size:102
Alignment explanation
Indices: 1462354--1462564 Score: 413
Period size: 102 Copynumber: 2.1 Consensus size: 102
1462344 TAAGCTGCTA
1462354 CTGTAGAAGCGTTCAAAGGTTCGTCACTACTGTTGCTGTTTTTTGTTGATTTCGGCCGATCCCGA
1 CTGTAGAAGCGTTCAAAGGTTCGTCACTACTGTTGCTGTTTTTTGTTGATTTCGGCCGATCCCGA
1462419 CATTCATAAGCCACGCCGTCACCATTATTCTGACCAC
66 CATTCATAAGCCACGCCGTCACCATTATTCTGACCAC
1462456 CTGTAGAAGCGTTCAAAGGTTCGTCACTACTGTTGCTGTTTTTTGTTGATTTCGGCCGATCCCGA
1 CTGTAGAAGCGTTCAAAGGTTCGTCACTACTGTTGCTGTTTTTTGTTGATTTCGGCCGATCCCGA
1462521 CATTCATAAGCCACGCCGTCACCATTATTCTGACCAC
66 CATTCATAAGCCACGCCGTCACCATTATTCTGACCAC
1462558 CGTGTAG
1 C-TGTAG
1462565 TTCCGCTTAA
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
102 103 0.95
103 5 0.05
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.32
Consensus pattern (102 bp):
CTGTAGAAGCGTTCAAAGGTTCGTCACTACTGTTGCTGTTTTTTGTTGATTTCGGCCGATCCCGA
CATTCATAAGCCACGCCGTCACCATTATTCTGACCAC
Found at i:1469410 original size:25 final size:28
Alignment explanation
Indices: 1469373--1469429 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 28
1469363 AAAATAATTT
1469373 TATTTTATGAATATAATATTAAT-AAAA
1 TATTTTATGAATATAATATTAATCAAAA
* *
1469400 TATTTT-T-AATATCATTTTAATCAAAA
1 TATTTTATGAATATAATATTAATCAAAA
1469426 TATT
1 TATT
1469430 AATTATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 12 0.44
26 9 0.33
27 6 0.22
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (28 bp):
TATTTTATGAATATAATATTAATCAAAA
Found at i:1469519 original size:20 final size:19
Alignment explanation
Indices: 1469490--1469535 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
1469480 TTTATTTTTA
1469490 ATATTATAATAAAATAATC
1 ATATTATAATAAAATAATC
* *
1469509 ATATATATAATAATATAA-G
1 ATAT-TATAATAAAATAATC
1469528 ATATTATA
1 ATATTATA
1469536 TTTTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.17
19 8 0.33
20 12 0.50
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
ATATTATAATAAAATAATC
Found at i:1469992 original size:14 final size:14
Alignment explanation
Indices: 1469970--1470002 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1469960 TAAACACCGT
*
1469970 AAAACGTTTTTTAG
1 AAAATGTTTTTTAG
1469984 AAAATGTTTTTTAG
1 AAAATGTTTTTTAG
1469998 AAAAT
1 AAAAT
1470003 ATAATTTATT
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:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (14 bp):
AAAATGTTTTTTAG
Found at i:1470254 original size:2 final size:2
Alignment explanation
Indices: 1470247--1470271 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1470237 ACTTTTTATG
1470247 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1470272 AGAACATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1470526 original size:14 final size:14
Alignment explanation
Indices: 1470507--1470537 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1470497 ACTTATCACT
1470507 CACTCTCTCACACA
1 CACTCTCTCACACA
*
1470521 CACTCTCTCTCACA
1 CACTCTCTCACACA
1470535 CAC
1 CAC
1470538 ACAAATGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.52, G:0.00, T:0.23
Consensus pattern (14 bp):
CACTCTCTCACACA
Found at i:1470530 original size:16 final size:16
Alignment explanation
Indices: 1470509--1470539 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1470499 TTATCACTCA
1470509 CTCTCTCACACACACT
1 CTCTCTCACACACACT
1470525 CTCTCTCACACACAC
1 CTCTCTCACACACAC
1470540 AAATGATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.52, G:0.00, T:0.23
Consensus pattern (16 bp):
CTCTCTCACACACACT
Found at i:1471462 original size:23 final size:23
Alignment explanation
Indices: 1471436--1471483 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
1471426 CTATTTAAGG
*
1471436 TATATTTTATTATATTTAA-TATT
1 TATATTTAATT-TATTTAAGTATT
1471459 TATATTTAATTTATTTAAGTATT
1 TATATTTAATTTATTTAAGTATT
1471482 TA
1 TA
1471484 AATTATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TATATTTAATTTATTTAAGTATT
Found at i:1471483 original size:17 final size:16
Alignment explanation
Indices: 1471447--1471497 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 16
1471437 ATATTTTATT
1471447 ATATTT-AA-TATTT-
1 ATATTTAAATTATTTA
*
1471460 ATATTTAATTTATTTA
1 ATATTTAAATTATTTA
1471476 AGTATTTAAATTATTTA
1 A-TATTTAAATTATTTA
1471493 ATATT
1 ATATT
1471498 GTATTTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 6 0.19
14 1 0.03
15 5 0.16
16 5 0.16
17 15 0.47
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
ATATTTAAATTATTTA
Found at i:1471512 original size:21 final size:21
Alignment explanation
Indices: 1471438--1471512 Score: 61
Period size: 21 Copynumber: 3.7 Consensus size: 21
1471428 ATTTAAGGTA
* *
1471438 TATTTTATTATATTTAATATTTA
1 TATTTAATTA-ATTTAATA-TTG
*
1471461 TATTTAATTTATTT-A-A--G
1 TATTTAATTAATTTAATATTG
1471478 TATTTAAATT-ATTTAATATTG
1 TATTT-AATTAATTTAATATTG
1471499 TATTTAATTAATTT
1 TATTTAATTAATTT
1471513 TTTTACAGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
17 9 0.21
18 5 0.12
19 1 0.02
20 5 0.12
21 11 0.26
22 4 0.09
23 8 0.19
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (21 bp):
TATTTAATTAATTTAATATTG
Found at i:1474165 original size:24 final size:24
Alignment explanation
Indices: 1474133--1474181 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
1474123 GGAAGAATGT
1474133 TGCGATTGCCATCTTAGACAACTG
1 TGCGATTGCCATCTTAGACAACTG
1474157 TGCGATTGCCATCTTAGACAACTG
1 TGCGATTGCCATCTTAGACAACTG
1474181 T
1 T
1474182 CCATAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (24 bp):
TGCGATTGCCATCTTAGACAACTG
Found at i:1479863 original size:37 final size:37
Alignment explanation
Indices: 1479822--1479911 Score: 144
Period size: 37 Copynumber: 2.4 Consensus size: 37
1479812 TCAAAGCTGG
* *
1479822 TATATTTGATTCTGCAACGTGTTCCCATATTTCTACT
1 TATATTTGATTCTGCAACATGTGCCCATATTTCTACT
*
1479859 TATATTTGATTCTGCAACATGTGCCCATGTTTCTACT
1 TATATTTGATTCTGCAACATGTGCCCATATTTCTACT
*
1479896 TATATTTGTTTCTGCA
1 TATATTTGATTCTGCA
1479912 TATTTTCATC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (37 bp):
TATATTTGATTCTGCAACATGTGCCCATATTTCTACT
Found at i:1490265 original size:25 final size:25
Alignment explanation
Indices: 1490237--1490286 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
1490227 AAAGAAGAAA
*
1490237 GAATAGAAGGATAAAATGGTCTTTT
1 GAATAGAAGGATAAAATGGTATTTT
1490262 GAATAGAAGGATAAAATGGTATTTT
1 GAATAGAAGGATAAAATGGTATTTT
1490287 ACAAGGACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.02, G:0.24, T:0.32
Consensus pattern (25 bp):
GAATAGAAGGATAAAATGGTATTTT
Found at i:1491465 original size:24 final size:21
Alignment explanation
Indices: 1491438--1491495 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 21
1491428 ATGTGAAATA
1491438 ATGAAAGTGATCACATGTGTGTAT
1 ATGAAAGTGAT-ACATGT-T-TAT
1491462 ATG-AAGTGAAATACATGTTTAT
1 ATGAAAGTG--ATACATGTTTAT
1491484 ATGAAAAGTGAT
1 ATG-AAAGTGAT
1491496 GAGAAGATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
22 8 0.27
23 6 0.20
24 14 0.47
25 2 0.07
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (21 bp):
ATGAAAGTGATACATGTTTAT
Found at i:1491776 original size:18 final size:20
Alignment explanation
Indices: 1491693--1491783 Score: 93
Period size: 18 Copynumber: 4.7 Consensus size: 20
1491683 GTTATTAAGG
1491693 AGTGGTCCTTCGGGACATATA
1 AGTGGTCCTTCGGGACA-ATA
*
1491714 CAGTGGTCTTTCGGGAC-AT-
1 -AGTGGTCCTTCGGGACAATA
* *
1491733 AGTGG-CTCTTCAGAACAATA
1 AGTGGTC-CTTCGGGACAATA
1491753 AGTGGTCCTTCGGGAC-AT-
1 AGTGGTCCTTCGGGACAATA
1491771 AGTGGTCCTTCGG
1 AGTGGTCCTTCGG
1491784 AATAAATATT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
17 1 0.02
18 24 0.41
19 4 0.07
20 14 0.24
21 1 0.02
22 15 0.25
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (20 bp):
AGTGGTCCTTCGGGACAATA
Found at i:1494585 original size:15 final size:15
Alignment explanation
Indices: 1494565--1494640 Score: 79
Period size: 15 Copynumber: 5.3 Consensus size: 15
1494555 ATTATCGATG
1494565 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
1494580 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
* *
1494595 -A--TAT-TATCAAT
1 AATTTTTATATAAAT
1494606 GAATTTTTATATAAAT
1 -AATTTTTATATAAAT
*
1494622 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
1494637 AATT
1 AATT
1494641 AGAATTTTAC
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
11 5 0.10
12 2 0.04
13 1 0.02
14 1 0.02
15 34 0.69
16 6 0.12
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:1494591 original size:19 final size:19
Alignment explanation
Indices: 1494569--1494638 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
1494559 TCGATGAATT
1494569 TTTATATAAATAATTTTTA
1 TTTATATAAATAATTTTTA
* **
1494588 TTTAAATATATTATCAATGAATT-
1 TTT--ATATA-AAT-AAT-TTTTA
1494611 TTTATATAAATAATTTTTA
1 TTTATATAAATAATTTTTA
*
1494630 TTTAAATAA
1 TTTATATAA
1494639 TTAGAATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
18 2 0.05
19 14 0.37
20 2 0.05
21 10 0.26
22 2 0.05
23 6 0.16
24 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (19 bp):
TTTATATAAATAATTTTTA
Found at i:1494602 original size:42 final size:42
Alignment explanation
Indices: 1494548--1494641 Score: 163
Period size: 42 Copynumber: 2.2 Consensus size: 42
1494538 TTAAATAATA
*
1494548 AAATAATATTATCGATGAATTTTTATATAAATAATTTTTATTT
1 AAAT-ATATTATCAATGAATTTTTATATAAATAATTTTTATTT
1494591 AAATATATTATCAATGAATTTTTATATAAATAATTTTTATTT
1 AAATATATTATCAATGAATTTTTATATAAATAATTTTTATTT
1494633 AAATA-ATTA
1 AAATATATTA
1494642 GAATTTTACT
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 4 0.08
42 42 0.84
43 4 0.08
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (42 bp):
AAATATATTATCAATGAATTTTTATATAAATAATTTTTATTT
Found at i:1495232 original size:21 final size:23
Alignment explanation
Indices: 1495188--1495236 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
1495178 ATTACCTAAA
1495188 AAAACTACATATATACTATTTTT
1 AAAACTACATATATACTATTTTT
1495211 AAAACTA-ATACTATA-T-TTTTT
1 AAAACTACATA-TATACTATTTTT
1495232 AAAAC
1 AAAAC
1495237 CATTTTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.40
22 4 0.16
23 11 0.44
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAACTACATATATACTATTTTT
Found at i:1495302 original size:29 final size:31
Alignment explanation
Indices: 1495241--1495311 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 31
1495231 TAAAACCATT
* *
1495241 TTTTTCAAAACTATATATATATACTATATTA
1 TTTTTCAAAACTATATATATATAATATACTA
*
1495272 -TTTTCAAAACTATAT-TTTATAATATACTA
1 TTTTTCAAAACTATATATATATAATATACTA
1495301 TTTTTCAAAAC
1 TTTTTCAAAAC
1495312 CATTTTTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 11 0.31
30 25 0.69
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (31 bp):
TTTTTCAAAACTATATATATATAATATACTA
Found at i:1495318 original size:13 final size:13
Alignment explanation
Indices: 1495300--1495324 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1495290 ATAATATACT
1495300 ATTTTTCAAAACC
1 ATTTTTCAAAACC
1495313 ATTTTTCAAAAC
1 ATTTTTCAAAAC
1495325 TATATATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTTTTCAAAACC
Found at i:1495367 original size:2 final size:2
Alignment explanation
Indices: 1495325--1495349 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1495315 TTTTCAAAAC
1495325 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1495350 TATTTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1495368 original size:75 final size:78
Alignment explanation
Indices: 1495252--1495411 Score: 247
Period size: 75 Copynumber: 2.1 Consensus size: 78
1495242 TTTTCAAAAC
1495252 TATATATATATACTATATTATTTTCAAAACTATATTTTATAATATACTATTTTTCAAAACCATTT
1 TATATATATATACTATATTATTTTCAAAACTATA--TTATAATATACTATTTTTCAAAACCATTT
*
1495317 TTCAAAACTATATATA
64 ATCAAAACTATATA-A
*
1495333 TATATATATATA-TATATTATTTTC-AAAC-CTA-TATAATATACTATTTTTCAAAACCATTTAT
1 TATATATATATACTATATTATTTTCAAAACTATATTATAATATACTATTTTTCAAAACCATTTAT
1495394 CAAAACTATATAA
66 CAAAACTATATAA
1495407 TATAT
1 TATAT
1495412 TATTTTTCAA
Statistics
Matches: 77, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
74 6 0.08
75 41 0.53
78 2 0.03
79 4 0.05
80 12 0.16
81 12 0.16
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (78 bp):
TATATATATATACTATATTATTTTCAAAACTATATTATAATATACTATTTTTCAAAACCATTTAT
CAAAACTATATAA
Found at i:1495377 original size:24 final size:26
Alignment explanation
Indices: 1495337--1495384 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
1495327 TATATATATA
*
1495337 TATATATATATATTA-TTTTCAAACC
1 TATATATATATACTATTTTTCAAACC
1495362 TATATA-ATATACTATTTTTCAAA
1 TATATATATATACTATTTTTCAAA
1495385 ACCATTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (26 bp):
TATATATATATACTATTTTTCAAACC
Found at i:1495380 original size:62 final size:64
Alignment explanation
Indices: 1495313--1495431 Score: 165
Period size: 62 Copynumber: 1.9 Consensus size: 64
1495303 TTTCAAAACC
* *
1495313 ATTTTTCAAAACTATATAT-ATATA-TATATATATATATTA-TTTTC-AAACCTATATAATATAC
1 ATTTTTCAAAACCATATATCA-AAACTATATA-ATATATTATTTTTCAAAACCTATATAATATAC
1495374 T
64 T
*
1495375 ATTTTTCAAAACCATTTATCAAAACTATATAATATATTATTTTTCAAAACCTATATA
1 ATTTTTCAAAACCATATATCAAAACTATATAATATATTATTTTTCAAAACCTATATA
1495432 TATTATTTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
62 27 0.54
63 12 0.24
64 11 0.22
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.45
Consensus pattern (64 bp):
ATTTTTCAAAACCATATATCAAAACTATATAATATATTATTTTTCAAAACCTATATAATATACT
Found at i:1495397 original size:38 final size:37
Alignment explanation
Indices: 1495289--1495425 Score: 161
Period size: 38 Copynumber: 3.6 Consensus size: 37
1495279 AACTATATTT
1495289 TATAATATACTATTTTTCAAAACCATTTTTCAAAACTA
1 TATAATATACTATTTTTCAAAACCA-TTTTCAAAACTA
* * * ** *
1495327 TATATATATA-TATATAT-ATATATTATTTTCAAACCTA
1 TATA-ATATACTATTTTTCA-AAACCATTTTCAAAACTA
1495364 TATAATATACTATTTTTCAAAACCATTTATCAAAACTA
1 TATAATATACTATTTTTCAAAACCATTT-TCAAAACTA
*
1495402 TATAATATATTATTTTTCAAAACC
1 TATAATATACTATTTTTCAAAACC
1495426 TATATATATT
Statistics
Matches: 81, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
36 5 0.06
37 27 0.33
38 44 0.54
39 5 0.06
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.44
Consensus pattern (37 bp):
TATAATATACTATTTTTCAAAACCATTTTCAAAACTA
Found at i:1495421 original size:25 final size:23
Alignment explanation
Indices: 1495388--1495440 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
1495378 TTTCAAAACC
*
1495388 ATTTATCAAAACTATATAATATATT
1 ATTTTTCAAAAC-ATAT-ATATATT
*
1495413 ATTTTTCAAAACCTATATATATT
1 ATTTTTCAAAACATATATATATT
1495436 ATTTT
1 ATTTT
1495441 ATTTATACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 12 0.46
24 3 0.12
25 11 0.42
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTTTCAAAACATATATATATT
Found at i:1495442 original size:28 final size:25
Alignment explanation
Indices: 1495388--1495446 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 25
1495378 TTTCAAAACC
1495388 ATTTATCAAAACTATATAATATATT
1 ATTTATCAAAACTATATAATATATT
* *
1495413 ATTTTTCAAAACCTATATATATTATTTT
1 ATTTATCAAAA-CTATATA-A-TATATT
1495441 ATTTAT
1 ATTTAT
1495447 ACTATACTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 10 0.36
26 7 0.25
27 1 0.04
28 10 0.36
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTTATCAAAACTATATAATATATT
Found at i:1496015 original size:13 final size:14
Alignment explanation
Indices: 1495979--1496008 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1495969 GAAATATAGA
*
1495979 TAATTAAATTTGTT
1 TAATAAAATTTGTT
1495993 TAATAAAATTTGTT
1 TAATAAAATTTGTT
1496007 TA
1 TA
1496009 TGGAATTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (14 bp):
TAATAAAATTTGTT
Found at i:1496330 original size:18 final size:17
Alignment explanation
Indices: 1496307--1496340 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
1496297 AATTTAAAAA
1496307 TTAAAAAATTCAAATAAT
1 TTAAAAAA-TCAAATAAT
1496325 TTAAAAAATCAAATAA
1 TTAAAAAATCAAATAA
1496341 CTGAATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAAAAAATCAAATAAT
Found at i:1496525 original size:22 final size:20
Alignment explanation
Indices: 1496492--1496538 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 20
1496482 TTGTTGTTCG
*
1496492 ATTTTATTATTT-TCAATTAT
1 ATTTTATTATTTAT-AATAAT
1496512 ATTTTGATGTATTTATAATAAT
1 ATTTT-AT-TATTTATAATAAT
1496534 ATTTT
1 ATTTT
1496539 TTCTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 5 0.22
21 2 0.09
22 15 0.65
23 1 0.04
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (20 bp):
ATTTTATTATTTATAATAAT
Found at i:1500588 original size:184 final size:185
Alignment explanation
Indices: 1500245--1500634 Score: 660
Period size: 184 Copynumber: 2.1 Consensus size: 185
1500235 TTTTTTAATT
* * *
1500245 TATATAA-AAATTAAATATTTTTTAATTCAAAAAAACAGTTTATAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTTTAATT-AAAAAAACAGTTTAAAATTAATTTAAATAATATATA
1500309 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
65 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
* * *
1500374 TTGAATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGACAGAGCCCACATGTTA
130 TTGAATCTTAAATTATTAATTAAATTTTAAATGGTTTGGACAGAGCCCACATATTA
1500430 TATATAATATATTTAATATTTTTTAATT-AAAAAACA-TGTTAAAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTTTAATTAAAAAAACAGT-TTAAAATTAATTTAAATAATATATA
1500493 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
65 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
* * *
1500558 TTGGATCTTAAATTATTAATTAAATTTTAAATGGTTTGGACTGAGCCCATATATTA
130 TTGAATCTTAAATTATTAATTAAATTTTAAATGGTTTGGACAGAGCCCACATATTA
1500614 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
1500635 AAAATTTAAT
Statistics
Matches: 194, Mismatches: 9, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
183 1 0.01
184 168 0.87
185 7 0.04
186 18 0.09
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (185 bp):
TATATAATATATTTAATATTTTTTAATTAAAAAAACAGTTTAAAATTAATTTAAATAATATATAA
TTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
TGAATCTTAAATTATTAATTAAATTTTAAATGGTTTGGACAGAGCCCACATATTA
Found at i:1501298 original size:15 final size:16
Alignment explanation
Indices: 1501278--1501312 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1501268 TTAGCATTTT
*
1501278 TAATATACTA-TTTAA
1 TAATATACTACTGTAA
1501293 TAATATACTACTGTAA
1 TAATATACTACTGTAA
1501309 TAAT
1 TAAT
1501313 CTTCAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.43
Consensus pattern (16 bp):
TAATATACTACTGTAA
Found at i:1506829 original size:167 final size:167
Alignment explanation
Indices: 1506553--1506886 Score: 659
Period size: 167 Copynumber: 2.0 Consensus size: 167
1506543 GTAACCAAGA
*
1506553 AATTTTAAATCTAAGCATCGTTTGAACCACAAAAATAGAAAAAGCCAAACATACCTGCCAGCTAA
1 AATTTTAAATCTAAGCATCGTTAGAACCACAAAAATAGAAAAAGCCAAACATACCTGCCAGCTAA
1506618 AACCCGATCCATGTCTTGTAGCTCTGCTTGAAGGAATCTACAGCCCCGCATAAACTTTTCATTTT
66 AACCCGATCCATGTCTTGTAGCTCTGCTTGAAGGAATCTACAGCCCCGCATAAACTTTTCATTTT
1506683 GATATGAATCCTTATTGCCTGCATAGGAAAGCTTAGT
131 GATATGAATCCTTATTGCCTGCATAGGAAAGCTTAGT
1506720 AATTTTAAATCTAAGCATCGTTAGAACCACAAAAATAGAAAAAGCCAAACATACCTGCCAGCTAA
1 AATTTTAAATCTAAGCATCGTTAGAACCACAAAAATAGAAAAAGCCAAACATACCTGCCAGCTAA
1506785 AACCCGATCCATGTCTTGTAGCTCTGCTTGAAGGAATCTACAGCCCCGCATAAACTTTTCATTTT
66 AACCCGATCCATGTCTTGTAGCTCTGCTTGAAGGAATCTACAGCCCCGCATAAACTTTTCATTTT
1506850 GATATGAATCCTTATTGCCTGCATAGGAAAGCTTAGT
131 GATATGAATCCTTATTGCCTGCATAGGAAAGCTTAGT
1506887 CAAATTTGTA
Statistics
Matches: 166, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
167 166 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (167 bp):
AATTTTAAATCTAAGCATCGTTAGAACCACAAAAATAGAAAAAGCCAAACATACCTGCCAGCTAA
AACCCGATCCATGTCTTGTAGCTCTGCTTGAAGGAATCTACAGCCCCGCATAAACTTTTCATTTT
GATATGAATCCTTATTGCCTGCATAGGAAAGCTTAGT
Found at i:1510180 original size:93 final size:92
Alignment explanation
Indices: 1509995--1510189 Score: 347
Period size: 92 Copynumber: 2.1 Consensus size: 92
1509985 ACCGGTCTAT
*
1509995 AAATGACAAAACAGGTAAAGCGCTACTAGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
1 AAATGACAAAACAGGTAAAGCGCTACGAGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
1510060 CGATACATAACAATATAACAGGTAAAA
66 CGATACATAACAATATAACAGGTAAAA
*
1510087 AAATGACAAAACAGGTAAAAGCGCTACGGGATATATTGAAAGTGTCGATACTTTAT-AAAATGTA
1 AAATGACAAAACAGGT-AAAGCGCTACGAGATATATTGAAAGTGTCGATACTTTATAAAAATGTA
*
1510151 TCGATCCATAACAATATAACAGGTAAAA
65 TCGATACATAACAATATAACAGGTAAAA
1510179 AAATGACAAAA
1 AAATGACAAAA
1510190 TCGGTCTATA
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
92 62 0.63
93 37 0.37
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (92 bp):
AAATGACAAAACAGGTAAAGCGCTACGAGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
CGATACATAACAATATAACAGGTAAAA
Found at i:1510298 original size:111 final size:112
Alignment explanation
Indices: 1510087--1510365 Score: 463
Period size: 112 Copynumber: 2.5 Consensus size: 112
1510077 ACAGGTAAAA
**
1510087 AAATGACAAAACAGGTAAAAGCGCTACGGGATATATTGAAAGTGTCGATACTTTATAAAATGTAT
1 AAATGACAAAACAGGT-AAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTATAAAATGTAT
*
1510152 CGATCCATAACAATATAACAGGTAAAAAAATGAC-AAAATCGGTCTAT
65 CGATCCATAACAATATAACAGGTAAAAAAATGACAAAAACCGGTCTAT
*
1510199 AAATGACAAAACAGGTAAAGCGTTACCAGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
1 AAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAT-AAAATGTAT
*
1510264 CGATTCATAACAATATAACAGGT-AAAAAATGACAAAAACCGGTCTAT
65 CGATCCATAACAATATAACAGGTAAAAAAATGACAAAAACCGGTCTAT
* *
1510311 AAATGACAAAACAGGTAAAGCGCTACCAGATATGTTGATAGTGTCGATACTTTAT
1 AAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAT
1510366 TATAAGTAAC
Statistics
Matches: 157, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
111 46 0.29
112 111 0.71
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (112 bp):
AAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTATAAAATGTATC
GATCCATAACAATATAACAGGTAAAAAAATGACAAAAACCGGTCTAT
Found at i:1510590 original size:162 final size:162
Alignment explanation
Indices: 1510313--1510807 Score: 803
Period size: 162 Copynumber: 3.1 Consensus size: 162
1510303 CGGTCTATAA
* ** ** * *
1510313 ATGACAAAACAGGTAAAGCGCTACCAGATATGTTGATAGTGTCGATACTTTATTATAAGTAACGA
1 ATGACAAAACCGGTAAAGAACTACTGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGA
* * * *
1510378 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGTACTAATAAAATGTCGATACTTTATAAAAATG
66 CACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCACCAATAAAGTGTCGATACTTTATAAAAATG
*
1510443 TATCGATCCATAACAATATAACATGTAAAAAT
131 TATCGATCCATAACAATATAACAGGTAAAAAT
*
1510475 ATGACAAAACCGGTAAAGAACTACTGGATATGTTGAAAGTGTCGATATTTTATTATAAGTATCGA
1 ATGACAAAACCGGTAAAGAACTACTGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGA
*
1510540 CACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCACCAATAAAGTGTCGATACTTTATAAAAATG
66 CACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCACCAATAAAGTGTCGATACTTTATAAAAATG
*
1510605 TATTGATCCATAACAATATAACAGGTAAAAAT
131 TATCGATCCATAACAATATAACAGGTAAAAAT
* *
1510637 ATAACAAAACCGGTAAAAAACTA-TCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCG
1 ATGACAAAACCGGTAAAGAACTACT-GGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCG
*
1510701 ACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAAT
65 ACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCACCAATAAAGTGTCGATACTTTATAAAAAT
1510766 GTATCGATCCATAACAATATAACAGGTAAAAAT
130 GTATCGATCCATAACAATATAACAGGTAAAAAT
*
1510799 ATGATAAAA
1 ATGACAAAA
1510808 TCGATCTCGA
Statistics
Matches: 309, Mismatches: 23, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
161 1 0.00
162 308 1.00
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (162 bp):
ATGACAAAACCGGTAAAGAACTACTGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGA
CACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCACCAATAAAGTGTCGATACTTTATAAAAATG
TATCGATCCATAACAATATAACAGGTAAAAAT
Found at i:1511713 original size:21 final size:21
Alignment explanation
Indices: 1511664--1511780 Score: 123
Period size: 21 Copynumber: 5.7 Consensus size: 21
1511654 CAATTTTCCC
* *
1511664 AATTCGCAATGCGAATAAGTA
1 AATTCGCAATGCGAATTAGGA
*
1511685 AA-TCGCAACGCGAATTAGGA
1 AATTCGCAATGCGAATTAGGA
*
1511705 AATTCGCAATGCGAATTGGGA
1 AATTCGCAATGCGAATTAGGA
* * *
1511726 AATTCACAATGCGAATAAGTA
1 AATTCGCAATGCGAATTAGGA
*
1511747 AA-TCGCAACGCGAATT-GAGA
1 AATTCGCAATGCGAATTAG-GA
*
1511767 AAATCGCAATGCGA
1 AATTCGCAATGCGA
1511781 TACTGACTAT
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
19 1 0.01
20 31 0.39
21 47 0.59
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (21 bp):
AATTCGCAATGCGAATTAGGA
Found at i:1511730 original size:62 final size:62
Alignment explanation
Indices: 1511664--1511780 Score: 200
Period size: 62 Copynumber: 1.9 Consensus size: 62
1511654 CAATTTTCCC
* *
1511664 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATT-AGGAAATTCGCAATGCGAATTGGGA
1 AATTCACAATGCGAATAAGTAAATCGCAACGCGAATTGA-GAAAATCGCAATGCGAATTGGGA
1511726 AATTCACAATGCGAATAAGTAAATCGCAACGCGAATTGAGAAAATCGCAATGCGA
1 AATTCACAATGCGAATAAGTAAATCGCAACGCGAATTGAGAAAATCGCAATGCGA
1511781 TACTGACTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
62 51 0.98
63 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (62 bp):
AATTCACAATGCGAATAAGTAAATCGCAACGCGAATTGAGAAAATCGCAATGCGAATTGGGA
Found at i:1511753 original size:41 final size:41
Alignment explanation
Indices: 1511664--1511780 Score: 128
Period size: 41 Copynumber: 2.8 Consensus size: 41
1511654 CAATTTTCCC
** * * *
1511664 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTAGGA
1 AATTCGCAATGCGAATTGGGAAATCGCAATGCGAATAAGGA
* *
1511705 AATTCGCAATGCGAATTGGGAAATTCACAATGCGAATAAGTA
1 AATTCGCAATGCGAATTGGGAAA-TCGCAATGCGAATAAGGA
* *
1511747 AA-TCGCAACGCGAATTGAGAAAATCGCAATGCGA
1 AATTCGCAATGCGAATTG-GGAAATCGCAATGCGA
1511781 TACTGACTAT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 44 0.69
42 20 0.31
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (41 bp):
AATTCGCAATGCGAATTGGGAAATCGCAATGCGAATAAGGA
Found at i:1511793 original size:41 final size:41
Alignment explanation
Indices: 1511748--1511843 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
1511738 GAATAAGTAA
* * * *
1511748 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGATAAT-AAAAAATCGCAACGAGATACTGACT
* *
1511789 ATCGCAATGCGATAATAAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGATAATAAAAAATCGCAACGAGATACTGACT
*
1511830 TTCGCAACGCGATA
1 ATCGCAACGCGATA
1511844 CTGACTTTCG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 44 0.96
42 2 0.04
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGATAATAAAAAATCGCAACGAGATACTGACT
Found at i:1511794 original size:20 final size:20
Alignment explanation
Indices: 1511769--1511862 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
1511759 AATTGAGAAA
*
1511769 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
1511789 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
1511810 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
1511830 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
1511850 TTCGCAACGCGAT
1 ATCGCAACGCGAT
1511863 TTACTTAGCG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1511812 original size:62 final size:61
Alignment explanation
Indices: 1511664--1511818 Score: 183
Period size: 62 Copynumber: 2.5 Consensus size: 61
1511654 CAATTTTCCC
* *
1511664 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTAGGAAATTCGCAATGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTAGGAAAATCGCAATGCGAACT-GGA
*
1511726 AATTCACAATGCGAATAAGTAAATCGCAACGCGAATT-GAGAAAATCGCAATGCGATACT-G-
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTAG-GAAAATCGCAATGCGA-ACTGGA
* *
1511786 ACTATCGCAATGCGATAATAA-AAAATCGCAACG
1 AAT-TCGCAATGCG--AATAAGTAAATCGCAACG
1511819 AGATACTTAC
Statistics
Matches: 82, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
60 2 0.02
61 11 0.13
62 62 0.76
63 7 0.09
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (61 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTAGGAAAATCGCAATGCGAACTGGA
Found at i:1512423 original size:19 final size:19
Alignment explanation
Indices: 1512385--1512451 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
1512375 TTCGAGAATG
*
1512385 AAAATCGCAAAGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
1512405 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
1512424 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
1512443 AAAATCGCA
1 AAAATCGCA
1512452 TTGCGATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 30 0.75
20 10 0.25
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:1512469 original size:19 final size:19
Alignment explanation
Indices: 1512447--1512515 Score: 129
Period size: 19 Copynumber: 3.6 Consensus size: 19
1512437 GAAACCAAAA
*
1512447 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1512466 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1512485 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1512504 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1512516 CTCTCGTCGC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1512535 original size:32 final size:32
Alignment explanation
Indices: 1512499--1512584 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 32
1512489 GTTGCGATTT
*
1512499 TCATTTCGCGTTGCGATCTCTCGTCGCGATAG
1 TCATTTCGCGTTGCGATCTCTCATCGCGATAG
*
1512531 TCATTTCGCGTTGCGATTCTCTCATTGCGATAG
1 TCATTTCGCGTTGCGA-TCTCTCATCGCGATAG
*
1512564 TCATTTCCGCGTTGCAATCTC
1 TCATTT-CGCGTTGCGATCTC
1512585 ATTATCTCGT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
32 16 0.33
33 24 0.49
34 9 0.18
ACGTcount: A:0.14, C:0.28, G:0.21, T:0.37
Consensus pattern (32 bp):
TCATTTCGCGTTGCGATCTCTCATCGCGATAG
Found at i:1514667 original size:21 final size:21
Alignment explanation
Indices: 1514643--1514709 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1514633 TCATTCCTCG
1514643 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
1514664 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
1514685 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
1514706 AGAG
1 AGAG
1514710 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:1516054 original size:14 final size:14
Alignment explanation
Indices: 1516035--1516070 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1516025 ATTGTTTAAT
1516035 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
* *
1516049 TGATTTGTACAAGT
1 TGATTTGTAAAAGG
1516063 TGATTTGT
1 TGATTTGT
1516071 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:1516271 original size:19 final size:19
Alignment explanation
Indices: 1516249--1516366 Score: 76
Period size: 19 Copynumber: 6.7 Consensus size: 19
1516239 CGAAATTAAA
1516249 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1516268 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
1516283 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1516301 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
1516316 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
1516334 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
1516353 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
1516367 GGACATTAAG
Statistics
Matches: 73, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
14 17 0.23
16 6 0.08
17 6 0.08
19 34 0.47
20 10 0.14
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:1516295 original size:33 final size:33
Alignment explanation
Indices: 1516253--1516346 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
1516243 ATTAAATTCG
*
1516253 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
1516286 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1516319 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
1516347 AGTAATTTCC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:1520123 original size:14 final size:14
Alignment explanation
Indices: 1520106--1520142 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1520096 ATCAATTAAA
1520106 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1520120 ACAAATCATCTTTT
1 ACAAATCAACATTT
1520134 ACAAATCAA
1 ACAAATCAA
1520143 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1520646 original size:8 final size:8
Alignment explanation
Indices: 1520633--1520657 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1520623 AAGCAGATGA
1520633 AAATCAAC
1 AAATCAAC
1520641 AAATCAAC
1 AAATCAAC
1520649 AAATCAAC
1 AAATCAAC
1520657 A
1 A
1520658 TTTACAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.24, G:0.00, T:0.12
Consensus pattern (8 bp):
AAATCAAC
Found at i:1520666 original size:14 final size:14
Alignment explanation
Indices: 1520647--1520683 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1520637 CAACAAATCA
1520647 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1520661 ACAAATCATCTTTT
1 ACAAATCAACATTT
1520675 ACAAATCAA
1 ACAAATCAA
1520684 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1521654 original size:20 final size:20
Alignment explanation
Indices: 1521629--1521683 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
1521619 TTCATTTGAC
*
1521629 TATCGCAATGCGAAAATGGT
1 TATCGCAACGCGAAAATGGT
1521649 TATCGCAACGCGAAAATGGT
1 TATCGCAACGCGAAAATGGT
*
1521669 TATCGCAACGAGAAA
1 TATCGCAACGCGAAA
1521684 TCGCAATGCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (20 bp):
TATCGCAACGCGAAAATGGT
Found at i:1521726 original size:14 final size:16
Alignment explanation
Indices: 1521706--1521779 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
1521696 ATGAAATCGC
1521706 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
1521721 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
1521738 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
1521757 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
1521773 -TTGCGAT
1 ATTGCGAT
1521780 AGCCATTTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:1521743 original size:19 final size:19
Alignment explanation
Indices: 1521702--1521769 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
1521692 CGAAATGAAA
1521702 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
1521718 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1521735 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1521754 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
1521770 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1521905 original size:14 final size:14
Alignment explanation
Indices: 1521886--1521922 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1521876 CATCAATTAA
1521886 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1521900 ACAAATCATCTTTT
1 ACAAATCAACATTT
1521914 ACAAATCAA
1 ACAAATCAA
1521923 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1523818 original size:39 final size:36
Alignment explanation
Indices: 1523773--1523896 Score: 139
Period size: 39 Copynumber: 3.4 Consensus size: 36
1523763 ACGAAACTTA
*
1523773 AAATCGCAACGCGAAATGACTATCGCAACGCGGAAATGG
1 AAATCGCAACGCGAAATGA-AATCGCAACGC-GAAAT-G
** *
1523812 CTATCGCAATGCGAAATGAAAATCGCAACGCGAAATG
1 AAATCGCAACGCGAAATG-AAATCGCAACGCGAAATG
*
1523849 AAATCGCAACGCGAAATGAAATCGCAA--CGACA--
1 AAATCGCAACGCGAAATGAAATCGCAACGCGAAATG
1523881 AAATCGCAACGCGAAA
1 AAATCGCAACGCGAAA
1523897 CACAAATCGC
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
32 16 0.21
34 4 0.05
36 9 0.12
37 16 0.21
38 5 0.07
39 25 0.33
40 1 0.01
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.12
Consensus pattern (36 bp):
AAATCGCAACGCGAAATGAAATCGCAACGCGAAATG
Found at i:1523854 original size:18 final size:18
Alignment explanation
Indices: 1523773--1523896 Score: 139
Period size: 19 Copynumber: 6.9 Consensus size: 18
1523763 ACGAAACTTA
1523773 AAATCGCAACGCGAAATG
1 AAATCGCAACGCGAAATG
*
1523791 ACTATCGCAACGCGGAAATGG
1 A-AATCGCAACGC-GAAAT-G
** *
1523812 CTATCGCAATGCGAAATG
1 AAATCGCAACGCGAAATG
1523830 AAAATCGCAACGCGAAATG
1 -AAATCGCAACGCGAAATG
1523849 AAATCGCAACGCGAAATG
1 AAATCGCAACGCGAAATG
*
1523867 AAATCGCAA--CGACA--
1 AAATCGCAACGCGAAATG
1523881 AAATCGCAACGCGAAA
1 AAATCGCAACGCGAAA
1523897 CACAAATCGC
Statistics
Matches: 92, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
14 9 0.10
16 8 0.09
18 29 0.32
19 30 0.33
20 15 0.16
21 1 0.01
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.12
Consensus pattern (18 bp):
AAATCGCAACGCGAAATG
Done.