Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007819.1 Hibiscus syriacus cultivar Beakdansim tig00110156_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: 3855360
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2745 characters in sequence are not A, C, G, or T
File 16 of 17
Found at i:3413952 original size:36 final size:36
Alignment explanation
Indices: 3413905--3413985 Score: 162
Period size: 36 Copynumber: 2.2 Consensus size: 36
3413895 TTTCGATGAC
3413905 TAAATTGATGCGAAAATACGATAGAGGTGAAATTGA
1 TAAATTGATGCGAAAATACGATAGAGGTGAAATTGA
3413941 TAAATTGATGCGAAAATACGATAGAGGTGAAATTGA
1 TAAATTGATGCGAAAATACGATAGAGGTGAAATTGA
3413977 TAAATTGAT
1 TAAATTGAT
3413986 CTACTAAGGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.27
Consensus pattern (36 bp):
TAAATTGATGCGAAAATACGATAGAGGTGAAATTGA
Found at i:3419148 original size:60 final size:60
Alignment explanation
Indices: 3419047--3419160 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
3419037 ATTTTGTAAC
* ** * *
3419047 TTTTAATAGTCAATGGACTCAACAAAGCAACTCCTTGTAGTCGGGGGACTATTTTACAAT
1 TTTTAATAGTCAATAGACTCAACAAAGCAACTCCTCATAGTCGGAGGACCATTTTACAAT
3419107 TTTTAATAGTCAATAGACTCAACAAAAG-AATCTCC-CATAGTCGGAGGACCATTT
1 TTTTAATAGTCAATAGACTCAAC-AAAGCAA-CTCCTCATAGTCGGAGGACCATTT
3419161 ATGTACTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 39 0.83
61 8 0.17
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (60 bp):
TTTTAATAGTCAATAGACTCAACAAAGCAACTCCTCATAGTCGGAGGACCATTTTACAAT
Found at i:3421024 original size:23 final size:23
Alignment explanation
Indices: 3420997--3421048 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
3420987 ACTCGAAAAT
* *
3420997 TCTGAAATAGAGTTTGACTCTAC
1 TCTGAAATAGAGTTCGACTCGAC
*
3421020 TCTGAAATGGAGTTCGACTCGAC
1 TCTGAAATAGAGTTCGACTCGAC
3421043 TC-GAAA
1 TCTGAAA
3421049 ACTCACGAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (23 bp):
TCTGAAATAGAGTTCGACTCGAC
Found at i:3423370 original size:18 final size:19
Alignment explanation
Indices: 3423332--3423370 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
3423322 TTGTTTTTTT
*
3423332 ATAATTTTAATAATATGAC
1 ATAATTTTAATAATATCAC
3423351 ATAATTTTAA-AATATCAC
1 ATAATTTTAATAATATCAC
3423369 AT
1 AT
3423371 CATTAGAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (19 bp):
ATAATTTTAATAATATCAC
Found at i:3423983 original size:21 final size:20
Alignment explanation
Indices: 3423957--3424001 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
3423947 TTAGAAAAAA
*
3423957 AATATTTATGTAACAA-TCTAC
1 AATATTGATGT-ACAATTC-AC
3423978 AATATTGATGTACAATTCAC
1 AATATTGATGTACAATTCAC
3423998 AATA
1 AATA
3424002 CTAATGTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (20 bp):
AATATTGATGTACAATTCAC
Found at i:3423999 original size:20 final size:21
Alignment explanation
Indices: 3423957--3424001 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
3423947 TTAGAAAAAA
*
3423957 AATATTTATGTAACAATCTAC
1 AATATTGATGTAACAATCTAC
3423978 AATATTGATGT-ACAAT-TCAC
1 AATATTGATGTAACAATCT-AC
3423998 AATA
1 AATA
3424002 CTAATGTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 11 0.50
21 10 0.45
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (21 bp):
AATATTGATGTAACAATCTAC
Found at i:3428403 original size:21 final size:21
Alignment explanation
Indices: 3428379--3428420 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3428369 CATTATAGTA
*
3428379 TTGATATGGCAGTTCATGATG
1 TTGATATAGCAGTTCATGATG
*
3428400 TTGATGTAGCAGTTCATGATG
1 TTGATATAGCAGTTCATGATG
3428421 CTGACGGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.38
Consensus pattern (21 bp):
TTGATATAGCAGTTCATGATG
Found at i:3429268 original size:2 final size:2
Alignment explanation
Indices: 3429261--3429285 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3429251 CAAAACTTTC
3429261 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
3429286 GACACACACG
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:3429715 original size:2 final size:2
Alignment explanation
Indices: 3429708--3429744 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3429698 GATGTAAAAC
3429708 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3429745 TTGGTAGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3430193 original size:35 final size:35
Alignment explanation
Indices: 3430140--3430208 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
3430130 CTATTAATCG
*
3430140 ATTAATCCAGATCAAAAACTGCAGAGACAAAGACA
1 ATTAATCCAAATCAAAAACTGCAGAGACAAAGACA
* *
3430175 ATTAATCCAAATCGAAAACTGCAGAGGCAAAGAC
1 ATTAATCCAAATCAAAAACTGCAGAGACAAAGAC
3430209 GACCCTCCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.49, C:0.20, G:0.16, T:0.14
Consensus pattern (35 bp):
ATTAATCCAAATCAAAAACTGCAGAGACAAAGACA
Found at i:3431159 original size:22 final size:21
Alignment explanation
Indices: 3431096--3431177 Score: 71
Period size: 22 Copynumber: 4.0 Consensus size: 21
3431086 AAAAATTAAA
*
3431096 TTAAAATTA-AATTATAAAAT
1 TTAAAATTATAATGATAAAAT
* * *
3431116 TTATAATTA-ACT-CTAAAAT
1 TTAAAATTATAATGATAAAAT
* *
3431135 TTAATATTATAATTATATAAAT
1 TTAAAATTATAATGATA-AAAT
*
3431157 TTAAAATTTTAATGATAAAAT
1 TTAAAATTATAATGATAAAAT
3431178 AAAGTGATTC
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
19 13 0.27
20 12 0.24
21 6 0.12
22 18 0.37
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (21 bp):
TTAAAATTATAATGATAAAAT
Found at i:3431442 original size:23 final size:23
Alignment explanation
Indices: 3431405--3431467 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
3431395 TCAATTTTTC
*
3431405 GACAT-TAAATGCTCATA-CCCCT
1 GACATCTAAATCCTCA-AGCCCCT
3431427 GACATCTAAATCCTCAAGCCCCT
1 GACATCTAAATCCTCAAGCCCCT
3431450 GACATCTAAATCCTCAAG
1 GACATCTAAATCCTCAAG
3431468 AAATAATAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
22 6 0.16
23 32 0.84
ACGTcount: A:0.33, C:0.33, G:0.10, T:0.24
Consensus pattern (23 bp):
GACATCTAAATCCTCAAGCCCCT
Found at i:3447300 original size:60 final size:60
Alignment explanation
Indices: 3447189--3447323 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 60
3447179 TAAATATTTT
**
3447189 AATTTCATCACT-AAACTATAACTCTCATTCTAAATTAGTCCTTAAAATTTT-GAACGTTAC
1 AATTTCAT-ACTCAAACTATAACTCTCATTCTAAATTAGTCCCCAAAATTTTGGAAC-TTAC
* ** * * * *
3447249 AATTTCATTCTCAAACTATGTCTCTCATTCTAAATTGGTCCCCAAACTTTTGGATCTTCC
1 AATTTCATACTCAAACTATAACTCTCATTCTAAATTAGTCCCCAAAATTTTGGAACTTAC
3447309 AATTTCATACTCAAA
1 AATTTCATACTCAAA
3447324 TTCATCAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
59 2 0.03
60 58 0.92
61 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.39
Consensus pattern (60 bp):
AATTTCATACTCAAACTATAACTCTCATTCTAAATTAGTCCCCAAAATTTTGGAACTTAC
Found at i:3447545 original size:29 final size:30
Alignment explanation
Indices: 3447474--3447533 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
3447464 CAATTTAAGG
3447474 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
3447505 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
3447534 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:3447653 original size:21 final size:21
Alignment explanation
Indices: 3447624--3447704 Score: 84
Period size: 21 Copynumber: 4.1 Consensus size: 21
3447614 TTCAAGATTT
*
3447624 CCCAGGGGGGTATAGATTCCCC
1 CCCA-GGGGGTACAGATTCCCC
*
3447646 CCCAGGGGGTACAGA-T--AC
1 CCCAGGGGGTACAGATTCCCC
*
3447664 CCC---GGGTACAGATACCCC
1 CCCAGGGGGTACAGATTCCCC
3447682 CCCAGGGGGTACAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
3447703 CC
1 CC
3447705 TGCAGGTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
15 9 0.19
18 8 0.17
20 1 0.02
21 26 0.54
22 4 0.08
ACGTcount: A:0.21, C:0.37, G:0.28, T:0.14
Consensus pattern (21 bp):
CCCAGGGGGTACAGATTCCCC
Found at i:3447672 original size:15 final size:15
Alignment explanation
Indices: 3447652--3447681 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3447642 CCCCCCCAGG
3447652 GGGTACAGATACCCC
1 GGGTACAGATACCCC
3447667 GGGTACAGATACCCC
1 GGGTACAGATACCCC
3447682 CCCAGGGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.27, T:0.13
Consensus pattern (15 bp):
GGGTACAGATACCCC
Found at i:3447682 original size:36 final size:36
Alignment explanation
Indices: 3447631--3447702 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
3447621 TTTCCCAGGG
* *
3447631 GGGTATAGATTCCCCCCCAGGGGGTACAGATACCCC
1 GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
*
3447667 GGGTACAGATACCCCCCCAGGGGGTACAGATTCCCC
1 GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
3447703 CCTGCAGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.22, C:0.35, G:0.28, T:0.15
Consensus pattern (36 bp):
GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
Found at i:3447777 original size:20 final size:21
Alignment explanation
Indices: 3447737--3447779 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3447727 AACAGAATGT
*
3447737 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCAATTCCCCC
3447758 CCAGGGGGTACCAATTCCCCC
1 CCAGGGGGTACCAATTCCCCC
3447779 C
1 C
3447780 TGTTCAACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.44, G:0.26, T:0.14
Consensus pattern (21 bp):
CCAGGGGGTACCAATTCCCCC
Found at i:3447841 original size:21 final size:21
Alignment explanation
Indices: 3447815--3447857 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3447805 ATTTGAATAT
*
3447815 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
3447836 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
3447857 T
1 T
3447858 CCATTCTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:3448179 original size:34 final size:32
Alignment explanation
Indices: 3448140--3448209 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
3448130 TTTTGTAAAG
*
3448140 GGGAAAGGTTATAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTATAGCTTAGCCCG-G-AAAAACTA
* *
3448174 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTATAGCTTAGCCCGGAAAAACTA
3448206 GGGA
1 GGGA
3448210 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTATAGCTTAGCCCGGAAAAACTA
Found at i:3449093 original size:19 final size:20
Alignment explanation
Indices: 3449069--3449116 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
3449059 AATGATTTTC
*
3449069 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
3449088 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
3449108 TTTTGAAAA
1 TTTTGAAAA
3449117 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:3450218 original size:22 final size:22
Alignment explanation
Indices: 3450192--3450238 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
3450182 GTTTGGTTTG
*
3450192 AAAAATTCAATTTCTTAATAAA
1 AAAAAATCAATTTCTTAATAAA
*
3450214 AAAAAATCAATTTCTTAATGAA
1 AAAAAATCAATTTCTTAATAAA
3450236 AAA
1 AAA
3450239 GGGGGAGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (22 bp):
AAAAAATCAATTTCTTAATAAA
Found at i:3450468 original size:29 final size:30
Alignment explanation
Indices: 3450397--3450456 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
3450387 CAATTTAAGG
3450397 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
3450428 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
3450457 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:3450571 original size:21 final size:21
Alignment explanation
Indices: 3450546--3450626 Score: 84
Period size: 21 Copynumber: 4.1 Consensus size: 21
3450536 TTCAAGATTG
*
3450546 CCCAGGGGGTATAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
*
3450567 CCCAGGGGGTACAGA-T--AC
1 CCCAGGGGGTACAGATTCCCC
*
3450585 CCC---GGGTACAGATACCCCC
1 CCCAGGGGGTACAGAT-TCCCC
3450604 CCCAGGGGGTACAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
3450625 CC
1 CC
3450627 TGCAGGTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
15 9 0.19
18 4 0.08
19 4 0.08
20 1 0.02
21 20 0.42
22 10 0.21
ACGTcount: A:0.21, C:0.38, G:0.27, T:0.14
Consensus pattern (21 bp):
CCCAGGGGGTACAGATTCCCC
Found at i:3450593 original size:15 final size:15
Alignment explanation
Indices: 3450573--3450602 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3450563 CCCCCCCAGG
3450573 GGGTACAGATACCCC
1 GGGTACAGATACCCC
3450588 GGGTACAGATACCCC
1 GGGTACAGATACCCC
3450603 CCCCAGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.27, T:0.13
Consensus pattern (15 bp):
GGGTACAGATACCCC
Found at i:3450699 original size:20 final size:21
Alignment explanation
Indices: 3450659--3450701 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
3450649 AACAGAATGT
3450659 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
3450680 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
3450701 C
1 C
3450702 TGTTCAACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.44, G:0.28, T:0.14
Consensus pattern (21 bp):
CCAGGGGGTACCGATTCCCCC
Found at i:3450763 original size:21 final size:21
Alignment explanation
Indices: 3450737--3450779 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3450727 ATTTGAATAT
*
3450737 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
3450758 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
3450779 T
1 T
3450780 CCATTCTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:3450840 original size:21 final size:21
Alignment explanation
Indices: 3450807--3450846 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
3450797 TTTGAGTAGA
*
3450807 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
3450829 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
3450847 ATATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:3455075 original size:26 final size:26
Alignment explanation
Indices: 3455046--3455110 Score: 67
Period size: 28 Copynumber: 2.4 Consensus size: 26
3455036 ATATTATTTT
*
3455046 TTATTTAATCAAAATATATACTTAAA
1 TTATTTAATCAAAATAGATACTTAAA
* *
3455072 TTATTTTATGTCAAAATAGATATTTAAA
1 TTA-TTTA-ATCAAAATAGATACTTAAA
* *
3455100 CTATTCAATCA
1 TTATTTAATCA
3455111 TTTTGATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
26 6 0.19
27 7 0.23
28 18 0.58
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (26 bp):
TTATTTAATCAAAATAGATACTTAAA
Found at i:3455079 original size:27 final size:28
Alignment explanation
Indices: 3455049--3455104 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
3455039 TTATTTTTTA
* *
3455049 TTTA-ATCAAAATATATACTTAAATTAT
1 TTTATATCAAAATAGATACTTAAACTAT
* *
3455076 TTTATGTCAAAATAGATATTTAAACTAT
1 TTTATATCAAAATAGATACTTAAACTAT
3455104 T
1 T
3455105 CAATCATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (28 bp):
TTTATATCAAAATAGATACTTAAACTAT
Found at i:3455249 original size:18 final size:17
Alignment explanation
Indices: 3455211--3455250 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
3455201 TTAAGTACTT
*
3455211 AAAGCATTTTTTGACCT
1 AAAGCATTTTTTGACCA
*
3455228 AAAGTATTTTTTGATCCA
1 AAAGCATTTTTTGA-CCA
3455246 AAAGC
1 AAAGC
3455251 GTACCTAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (17 bp):
AAAGCATTTTTTGACCA
Found at i:3455499 original size:30 final size:30
Alignment explanation
Indices: 3455454--3455510 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
3455444 ATAAAATATT
*
3455454 TTAGGTATCTATTTTGA-CTAAAAAATACCC
1 TTAGATATCTATTTTGATC-AAAAAATACCC
*
3455484 TTAGATATTTATTTTGATCAAAAAATA
1 TTAGATATCTATTTTGATCAAAAAATA
3455511 TTTTAGGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (30 bp):
TTAGATATCTATTTTGATCAAAAAATACCC
Found at i:3456192 original size:21 final size:22
Alignment explanation
Indices: 3456147--3456192 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
3456137 TACGATTTTA
*
3456147 AAAAATTAAAAATTTAATTACT
1 AAAAATTAAAAATTTAAGTACT
* *
3456169 AAAAA-TAATAATTTAAGTATT
1 AAAAATTAAAAATTTAAGTACT
3456190 AAA
1 AAA
3456193 TACGTAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
AAAAATTAAAAATTTAAGTACT
Found at i:3460246 original size:30 final size:30
Alignment explanation
Indices: 3460190--3460277 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
3460180 GTAGTTTAGA
* *
3460190 TACCTATTTTGA-CATAAAAT-ACTTTAAG
1 TACCTATTTTGATAAAAAAATAACTTTAAG
*
3460218 TACCTATTTTGATTAAAAAATAACTTTAAG
1 TACCTATTTTGATAAAAAAATAACTTTAAG
** *
3460248 TATTTATTTTGATAAAAAAAAATACTTTAA
1 TACCTATTTTGATAAAAAAATA-ACTTTAA
3460278 ATAATTAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
28 12 0.24
29 6 0.12
30 26 0.51
31 7 0.14
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (30 bp):
TACCTATTTTGATAAAAAAATAACTTTAAG
Found at i:3460263 original size:29 final size:28
Alignment explanation
Indices: 3460190--3460266 Score: 100
Period size: 30 Copynumber: 2.7 Consensus size: 28
3460180 GTAGTTTAGA
* *
3460190 TACCTATTTTGACATAAAATACTTTAAG
1 TACCTATTTTGATAAAAAATACTTTAAG
3460218 TACCTATTTTGATTAAAAAATAACTTTAAG
1 TACCTATTTTGA-TAAAAAAT-ACTTTAAG
**
3460248 TATTTATTTTGATAAAAAA
1 TACCTATTTTGATAAAAAA
3460267 AAATACTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 12 0.28
29 13 0.30
30 18 0.42
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (28 bp):
TACCTATTTTGATAAAAAATACTTTAAG
Found at i:3476593 original size:30 final size:29
Alignment explanation
Indices: 3476517--3476596 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 29
3476507 AATTAATACC
*
3476517 CATTTTATAATAATTTGATAAAATTTAATGA
1 CATTTTATAAT-ATTT-AAAAAATTTAATGA
** *
3476548 CCGTTTATGATTATTTAAAAAATTTAATGA
1 CATTTTAT-AATATTTAAAAAATTTAATGA
3476578 TCATTTTATAATATTTAAA
1 -CATTTTATAATATTTAAA
3476597 TTCTCATTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
30 22 0.55
31 16 0.40
32 2 0.05
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.46
Consensus pattern (29 bp):
CATTTTATAATATTTAAAAAATTTAATGA
Found at i:3476762 original size:13 final size:13
Alignment explanation
Indices: 3476744--3476776 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
3476734 AGGTGAGCAC
3476744 GTGGGCAGATTGA
1 GTGGGCAGATTGA
3476757 GTGGGCAGATTGA
1 GTGGGCAGATTGA
3476770 GTGGGCA
1 GTGGGCA
3476777 CGAGATGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.09, G:0.48, T:0.21
Consensus pattern (13 bp):
GTGGGCAGATTGA
Found at i:3476857 original size:35 final size:35
Alignment explanation
Indices: 3476811--3476880 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
3476801 TTTCATATAA
3476811 TTTAAAATAA-TTC-TATAAATTTAATATTTTAAAAT
1 TTTAAAATAATTTCTTA-AAATTT-ATATTTTAAAAT
*
3476846 TTTAATATAATTTCTTAAAATTTATATTTTAAAAT
1 TTTAAAATAATTTCTTAAAATTTATATTTTAAAAT
3476881 ATAAAATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 21 0.66
36 9 0.28
37 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (35 bp):
TTTAAAATAATTTCTTAAAATTTATATTTTAAAAT
Found at i:3481356 original size:20 final size:22
Alignment explanation
Indices: 3481306--3481356 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
3481296 AATTTAGATA
*
3481306 AAAATAAA-AAGTTTAAGTACT
1 AAAATAAATAAGTTTAAATACT
*
3481327 AAAATTAATAA-TTTAAATACT
1 AAAATAAATAAGTTTAAATACT
3481348 -AAATAAATA
1 AAAATAAATA
3481357 CATATTTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 8 0.31
21 16 0.62
22 2 0.08
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (22 bp):
AAAATAAATAAGTTTAAATACT
Found at i:3481690 original size:20 final size:22
Alignment explanation
Indices: 3481640--3481690 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
3481630 AATTTAGATA
*
3481640 AAAATAAA-AAGTTTAAGTACT
1 AAAATAAATAAGTTTAAATACT
*
3481661 AAAATTAATAA-TTTAAATACT
1 AAAATAAATAAGTTTAAATACT
3481682 -AAATAAATA
1 AAAATAAATA
3481691 CATATTTACC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 8 0.31
21 16 0.62
22 2 0.08
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (22 bp):
AAAATAAATAAGTTTAAATACT
Found at i:3482032 original size:20 final size:22
Alignment explanation
Indices: 3481982--3482032 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
3481972 AATTTAGATA
*
3481982 AAAATAAA-AAGTTTAAGTACT
1 AAAATAAATAAGTTTAAATACT
*
3482003 AAAATTAATAA-TTTAAATACT
1 AAAATAAATAAGTTTAAATACT
3482024 -AAATAAATA
1 AAAATAAATA
3482033 CATATTTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 8 0.31
21 16 0.62
22 2 0.08
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (22 bp):
AAAATAAATAAGTTTAAATACT
Found at i:3482049 original size:343 final size:343
Alignment explanation
Indices: 3481068--3482086 Score: 1884
Period size: 333 Copynumber: 3.0 Consensus size: 343
3481058 GAATTTAGTA
*
3481068 CTTAAATTATTAGTTTTAGTTTGTTTTAGTACCTAAACTTTCAGTTTTTCAAAACCATACCTAAT
1 CTTAAATTATTAGTTTTAGTTTGTTTTAGTATCTAAACTTTCAGTTTTTCAAAACCATACCTAAT
*
3481133 GTTTAATTTTCTAATACCTATACTATCAATTTTGGTTCATTTTAGTACCTAAACTTTTAGTTTTT
66 GTTTAATTTTCTAGTACCTATACTATCAATTTTGGTTCATTTTAGTACCTAAACTTTTAGTTTTT
3481198 TCAAAACTTAATATTAACTTTTGAACGGGATACTAATATAAAAAAACTAAAGTTTTTAATAGTGG
131 TCAAAACTTAATATTAACTTTTGAACGGGATACTAATATAAAAAAACTAAAGTTTTTAATAGTGG
3481263 GATATTAAAATAAAACAAAAAATTAAAAACTAAAATTTAGATAAAAATAAAAAGTTTAAGTACTA
196 GATATTAAAATAAAACAAAAAATTAAAAACTAAAATTTAGATAAAAATAAAAAGTTTAAGTACTA
3481328 AAATTAATAATTTAAATACTAAATAAATACATATTTTACCCTATGATATAGCATATAATAATATA
261 AAATTAATAATTTAAATACTAAATAAATACATATTTTACCCTATGATATAGCATATAATAATATA
3481393 AAATATATAATAAAACCC
326 AAATATATAATAAAACCC
3481411 CTT-AA--ATTA---TTA----GTTTTAGTATCTAAACTTTCAGTTTTTCAAAACCATACCTAAT
1 CTTAAATTATTAGTTTTAGTTTGTTTTAGTATCTAAACTTTCAGTTTTTCAAAACCATACCTAAT
* *
3481466 GTTTAATTTTCTAGTACCTATACTATCAGTTTTGGTTCATTTTAGTACCTAAACTTTTA-ATTTT
66 GTTTAATTTTCTAGTACCTATACTATCAATTTTGGTTCATTTTAGTACCTAAACTTTTAGTTTTT
3481530 TCAAAACTTAATATTAACTTTTGAACGGGATACTAATATAAAAAAAAACTAAAGTTTTTAATAGT
131 TCAAAACTTAATATTAACTTTTGAACGGGATACTAATAT--AAAAAAACTAAAGTTTTTAATAGT
*
3481595 GGGATATTAAAATAAAACAACAAATTAAAAACTAAAATTTAGATAAAAATAAAAAGTTTAAGTAC
194 GGGATATTAAAATAAAACAAAAAATTAAAAACTAAAATTTAGATAAAAATAAAAAGTTTAAGTAC
3481660 TAAAATTAATAATTTAAATACTAAATAAATACATA-TTTACCCTATGATATAGCATATAATAATA
259 TAAAATTAATAATTTAAATACTAAATAAATACATATTTTACCCTATGATATAGCATATAATAATA
3481724 TAAAATATATAATAAAACCC
324 TAAAATATATAATAAAACCC
3481744 CTTAAATTATTAGTTTTAGTTTGTTTTAGTATCTAAACTTTCAGTTTTTCAAAACCATACCTAAT
1 CTTAAATTATTAGTTTTAGTTTGTTTTAGTATCTAAACTTTCAGTTTTTCAAAACCATACCTAAT
3481809 GTTTAATTTTCTAGTACCTATACTATCAATTTTGGTTCATTTTAGTACCTAAACTTTTAGTTTTT
66 GTTTAATTTTCTAGTACCTATACTATCAATTTTGGTTCATTTTAGTACCTAAACTTTTAGTTTTT
3481874 TCAAAACTTAATATTAACTTTTGAACGGGATACTAATATAAAAAAACTAAAGTTTTTAATAGTGG
131 TCAAAACTTAATATTAACTTTTGAACGGGATACTAATATAAAAAAACTAAAGTTTTTAATAGTGG
3481939 GATATTAAAATAAAACAAAAAATTAAAAACTAAAATTTAGATAAAAATAAAAAGTTTAAGTACTA
196 GATATTAAAATAAAACAAAAAATTAAAAACTAAAATTTAGATAAAAATAAAAAGTTTAAGTACTA
3482004 AAATTAATAATTTAAATACTAAATAAATACATATTTTACCCTATGATATAGCATATAATAATATA
261 AAATTAATAATTTAAATACTAAATAAATACATATTTTACCCTATGATATAGCATATAATAATATA
3482069 AAATATAT-ATAAAACCC
326 AAATATATAATAAAACCC
3482086 C
1 C
3482087 ATAATTCTGT
Statistics
Matches: 654, Mismatches: 8, Indels: 29
0.95 0.01 0.04
Matches are distributed among these distances:
332 43 0.07
333 151 0.23
334 125 0.19
336 4 0.01
337 3 0.00
339 3 0.00
340 4 0.01
342 135 0.21
343 143 0.22
344 43 0.07
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (343 bp):
CTTAAATTATTAGTTTTAGTTTGTTTTAGTATCTAAACTTTCAGTTTTTCAAAACCATACCTAAT
GTTTAATTTTCTAGTACCTATACTATCAATTTTGGTTCATTTTAGTACCTAAACTTTTAGTTTTT
TCAAAACTTAATATTAACTTTTGAACGGGATACTAATATAAAAAAACTAAAGTTTTTAATAGTGG
GATATTAAAATAAAACAAAAAATTAAAAACTAAAATTTAGATAAAAATAAAAAGTTTAAGTACTA
AAATTAATAATTTAAATACTAAATAAATACATATTTTACCCTATGATATAGCATATAATAATATA
AAATATATAATAAAACCC
Found at i:3487202 original size:30 final size:30
Alignment explanation
Indices: 3487166--3487225 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
3487156 GTTGGCCTAG
* *
3487166 TATCCAACGAATAATGCCCTTCAGGTTCCT
1 TATCCAACGAATAATGCCCTCCAAGTTCCT
3487196 TATCCAACGAATAATGCCCTCCAAGTTCCT
1 TATCCAACGAATAATGCCCTCCAAGTTCCT
3487226 AATCTTATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.28
Consensus pattern (30 bp):
TATCCAACGAATAATGCCCTCCAAGTTCCT
Found at i:3501601 original size:113 final size:113
Alignment explanation
Indices: 3501403--3501627 Score: 450
Period size: 113 Copynumber: 2.0 Consensus size: 113
3501393 GTTTACTGTC
3501403 TAAACTTTTAAAAATCATTGATGGCCCTTCATGCAATAAGTCTTGCCCCCTTTTTATAAGGAATT
1 TAAACTTTTAAAAATCATTGATGGCCCTTCATGCAATAAGTCTTGCCCCCTTTTTATAAGGAATT
3501468 TTCCTAGTAGAAATATATAAATAAAATCCCTAAAATCTTCTAACCAAG
66 TTCCTAGTAGAAATATATAAATAAAATCCCTAAAATCTTCTAACCAAG
3501516 TAAACTTTTAAAAATCATTGATGGCCCTTCATGCAATAAGTCTTGCCCCCTTTTTATAAGGAATT
1 TAAACTTTTAAAAATCATTGATGGCCCTTCATGCAATAAGTCTTGCCCCCTTTTTATAAGGAATT
3501581 TTCCTAGTAGAAATATATAAATAAAATCCCTAAAATCTTCTAACCAA
66 TTCCTAGTAGAAATATATAAATAAAATCCCTAAAATCTTCTAACCAA
3501628 ATACACTATA
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 112 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (113 bp):
TAAACTTTTAAAAATCATTGATGGCCCTTCATGCAATAAGTCTTGCCCCCTTTTTATAAGGAATT
TTCCTAGTAGAAATATATAAATAAAATCCCTAAAATCTTCTAACCAAG
Found at i:3501936 original size:46 final size:46
Alignment explanation
Indices: 3501869--3501965 Score: 185
Period size: 46 Copynumber: 2.1 Consensus size: 46
3501859 ATGCATTGTA
*
3501869 TCTATTGGTACATCTTTTTCCAACATTTTATGTATGGATAATATTC
1 TCTATTGATACATCTTTTTCCAACATTTTATGTATGGATAATATTC
3501915 TCTATTGATACATCTTTTTCCAACATTTTATGTATGGATAATATTC
1 TCTATTGATACATCTTTTTCCAACATTTTATGTATGGATAATATTC
3501961 TCTAT
1 TCTAT
3501966 GCTCAAAATG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.27, C:0.15, G:0.09, T:0.48
Consensus pattern (46 bp):
TCTATTGATACATCTTTTTCCAACATTTTATGTATGGATAATATTC
Found at i:3509499 original size:18 final size:18
Alignment explanation
Indices: 3509476--3509516 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
3509466 CGACCCGTTT
3509476 ACCCGACCAGTTGACCCG
1 ACCCGACCAGTTGACCCG
*
3509494 ACCCGACCCGTTGACCCG
1 ACCCGACCAGTTGACCCG
3509512 ACCCG
1 ACCCG
3509517 TTGACCCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.49, G:0.22, T:0.10
Consensus pattern (18 bp):
ACCCGACCAGTTGACCCG
Found at i:3509509 original size:8 final size:8
Alignment explanation
Indices: 3509498--3509557 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
3509488 GACCCGACCC
3509498 GACCCGTT
1 GACCCGTT
3509506 GACCC---
1 GACCCGTT
3509511 GACCCGTT
1 GACCCGTT
3509519 GACCCGTT
1 GACCCGTT
3509527 GA-CCGTT
1 GACCCGTT
3509534 GACCCACGTT
1 GA-CC-CGTT
3509544 GACCACTGTT
1 GACC-C-GTT
3509554 GACC
1 GACC
3509558 AAAACTTTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
5 5 0.11
7 7 0.16
8 15 0.33
9 5 0.11
10 13 0.29
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.22
Consensus pattern (8 bp):
GACCCGTT
Found at i:3509509 original size:13 final size:13
Alignment explanation
Indices: 3509449--3509524 Score: 80
Period size: 13 Copynumber: 5.5 Consensus size: 13
3509439 AACCCGACCC
3509449 GACCCGACCCGTT
1 GACCCGACCCGTT
*
3509462 TACCCGACCCGTT
1 GACCCGACCCGTT
* *
3509475 TACCCGACCAGTT
1 GACCCGACCCGTT
3509488 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
3509506 GACCCGACCCGTT
1 GACCCGACCCGTT
3509519 GACCCG
1 GACCCG
3509525 TTGACCGTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
13 43 0.80
18 11 0.20
ACGTcount: A:0.17, C:0.46, G:0.21, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:3509520 original size:31 final size:31
Alignment explanation
Indices: 3509463--3509524 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
3509453 CGACCCGTTT
*
3509463 ACCCGACCCGTTTACCCGACCAGTTGACCCG
1 ACCCGACCCGTTGACCCGACCAGTTGACCCG
*
3509494 ACCCGACCCGTTGACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCGACCAGTTGACCCG
3509525 TTGACCGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.18, C:0.47, G:0.21, T:0.15
Consensus pattern (31 bp):
ACCCGACCCGTTGACCCGACCAGTTGACCCG
Found at i:3509558 original size:10 final size:9
Alignment explanation
Indices: 3509511--3509558 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 9
3509501 CCGTTGACCC
3509511 GACC-CGTT
1 GACCACGTT
3509519 GACC-CGTT
1 GACCACGTT
3509527 GA-C-CGTT
1 GACCACGTT
3509534 GACCCACGTT
1 GA-CCACGTT
3509544 GACCACTGTT
1 GACCAC-GTT
3509554 GACCA
1 GACCA
3509559 AAACTTTGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.19
8 10 0.28
9 5 0.14
10 14 0.39
ACGTcount: A:0.19, C:0.35, G:0.23, T:0.23
Consensus pattern (9 bp):
GACCACGTT
Found at i:3510860 original size:18 final size:18
Alignment explanation
Indices: 3510834--3510869 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3510824 TCGAAAGGAC
*
3510834 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
3510852 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
3510870 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:3512048 original size:12 final size:12
Alignment explanation
Indices: 3512033--3512102 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
3512023 GATAAATGAC
3512033 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
3512045 CTGATTTCTGAT
1 CTGAATTCTGTT
* *
3512057 ATGGATTCTGTT
1 CTGAATTCTGTT
3512069 CTG-ATATCTGTT
1 CTGAAT-TCTGTT
3512081 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
3512093 TTGATTTCTG
1 CTGAATTCTG
3512103 ATATCTTCGT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
11 2 0.04
12 43 0.91
13 2 0.04
ACGTcount: A:0.16, C:0.14, G:0.19, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:3512052 original size:48 final size:48
Alignment explanation
Indices: 3511996--3512106 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 48
3511986 AAATATTTTA
3511996 TCTGATTTCCGACT-TGAATTCTGTTCTGATAAATGACCTGAATTCTGT
1 TCTGATTTCCGA-TATGAATTCTGTTCTGATAAATGACCTGAATTCTGT
* * ** **
3512044 TCTGATTTCTGATATGGATTCTGTTCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCCGATATGAATTCTGTTCTGATAAATGACCTGAATTCTGT
* *
3512092 TTTGATTTCTGATAT
1 TCTGATTTCCGATAT
3512107 CTTCGTTTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 1 0.02
48 54 0.98
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.48
Consensus pattern (48 bp):
TCTGATTTCCGATATGAATTCTGTTCTGATAAATGACCTGAATTCTGT
Found at i:3512064 original size:24 final size:24
Alignment explanation
Indices: 3511996--3512106 Score: 107
Period size: 24 Copynumber: 4.6 Consensus size: 24
3511986 AAATATTTTA
*
3511996 TCTGATTTCCGACT-TGAATTCTGT
1 TCTGATTTCTGA-TATGAATTCTGT
*** **
3512020 TCTGATAAATGACCTGAATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
*
3512044 TCTGATTTCTGATATGGATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
* * *
3512068 TCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
*
3512092 TTTGATTTCTGATAT
1 TCTGATTTCTGATAT
3512107 CTTCGTTTAA
Statistics
Matches: 67, Mismatches: 19, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATTTCTGATATGAATTCTGT
Found at i:3512082 original size:17 final size:18
Alignment explanation
Indices: 3512039--3512090 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 18
3512029 TGACCTGAAT
3512039 TCTGTTCTGATTTCTGATA
1 TCTGTTCTGA-TTCTGATA
*
3512058 T-GGATTCTG-TTCTGATA
1 TCTG-TTCTGATTCTGATA
3512075 TCTGTTCTGAATTCTG
1 TCTGTTCTG-ATTCTG
3512091 TTTTGATTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
17 14 0.52
18 2 0.07
19 11 0.41
ACGTcount: A:0.15, C:0.15, G:0.19, T:0.50
Consensus pattern (18 bp):
TCTGTTCTGATTCTGATA
Found at i:3516535 original size:21 final size:21
Alignment explanation
Indices: 3516487--3516527 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
3516477 TTTATTTGGA
*
3516487 GAAAAAAAACTAACAATTATT
1 GAAAAAAAACTAAAAATTATT
3516508 GAAAAAAAA-TAAAAATTATT
1 GAAAAAAAACTAAAAATTATT
3516528 TTAAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (21 bp):
GAAAAAAAACTAAAAATTATT
Found at i:3525547 original size:16 final size:16
Alignment explanation
Indices: 3525526--3525568 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
3525516 ATTTATTTAT
*
3525526 TTTATTTTTATGATTA
1 TTTATTTTTATGAATA
***
3525542 TTTATTTACGTGAATA
1 TTTATTTTTATGAATA
3525558 TTTATTTTTAT
1 TTTATTTTTAT
3525569 CCTTAAGATA
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (16 bp):
TTTATTTTTATGAATA
Found at i:3525684 original size:22 final size:22
Alignment explanation
Indices: 3525633--3525684 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
3525623 TAGGTAAATG
* *
3525633 TTATATATGGATTTAAGTTTAG
1 TTATATATGAATTTAAGTTTAA
* *
3525655 TT-TGATATTAATTTGAGTTTAA
1 TTAT-ATATGAATTTAAGTTTAA
3525677 TTATATAT
1 TTATATAT
3525685 ATATATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (22 bp):
TTATATATGAATTTAAGTTTAA
Found at i:3536227 original size:29 final size:29
Alignment explanation
Indices: 3536193--3536249 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
3536183 TTGTTGAGTC
3536193 CATTGACTATCAAATA-TTACAAAATGATT
1 CATTGACTATCAAA-AGTTACAAAATGATT
* * *
3536222 CATTGATTATTAAAAGTTATAAAATGAT
1 CATTGACTATCAAAAGTTACAAAATGAT
3536250 CACCTAACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (29 bp):
CATTGACTATCAAAAGTTACAAAATGATT
Found at i:3539696 original size:22 final size:21
Alignment explanation
Indices: 3539666--3539713 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
3539656 GCGTTTAATG
*
3539666 TTAAAAGATTA-AGAGTTATAT
1 TTAAAAGA-TACAGAATTATAT
*
3539687 TTAAACAGATACCGAATTATAT
1 TTAAA-AGATACAGAATTATAT
3539709 TTAAA
1 TTAAA
3539714 GAGAATGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (21 bp):
TTAAAAGATACAGAATTATAT
Found at i:3539967 original size:2 final size:2
Alignment explanation
Indices: 3539960--3539993 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3539950 ATGCATTTTC
3539960 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
3539994 TCATTTTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3543456 original size:18 final size:18
Alignment explanation
Indices: 3543428--3543469 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
3543418 TCGTCGATAC
* *
3543428 TTTTTATTATTCTTTTATT
1 TTTTTATTATT-ATATATT
3543447 TTTTTA-TATTATATATT
1 TTTTTATTATTATATATT
3543464 TTTTTA
1 TTTTTA
3543470 ATTTTAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 11 0.52
18 4 0.19
19 6 0.29
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTATTATTATATATT
Found at i:3546196 original size:13 final size:14
Alignment explanation
Indices: 3546171--3546200 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
3546161 TTTGTATATA
3546171 TTTTTATTCAAGTT
1 TTTTTATTCAAGTT
3546185 TTTTTATT-AAGTT
1 TTTTTATTCAAGTT
3546198 TTT
1 TTT
3546201 AATCTTTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (14 bp):
TTTTTATTCAAGTT
Found at i:3547483 original size:3 final size:3
Alignment explanation
Indices: 3547477--3547514 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
3547467 ACTCAGAAGA
3547477 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AG
3547515 CTCAAAATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:3548717 original size:12 final size:12
Alignment explanation
Indices: 3548700--3548724 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3548690 TGTCGGTGTC
3548700 GCTCTCGTCGCT
1 GCTCTCGTCGCT
3548712 GCTCTCGTCGCT
1 GCTCTCGTCGCT
3548724 G
1 G
3548725 AAGGAATCCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.40, G:0.28, T:0.32
Consensus pattern (12 bp):
GCTCTCGTCGCT
Found at i:3550762 original size:44 final size:44
Alignment explanation
Indices: 3550694--3550797 Score: 181
Period size: 44 Copynumber: 2.4 Consensus size: 44
3550684 AATAAGTGAT
3550694 TAAATTGGGTTGGGAGAGTCGAAACTTGACATTTACGAACGAAA
1 TAAATTGGGTTGGGAGAGTCGAAACTTGACATTTACGAACGAAA
*
3550738 TAAATTGGGTTGGGAGAGTTGAAACTTGACATTTACGAACGAAA
1 TAAATTGGGTTGGGAGAGTCGAAACTTGACATTTACGAACGAAA
* *
3550782 CAAATTGAGTTGGGAG
1 TAAATTGGGTTGGGAG
3550798 GGTCACACTC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.36, C:0.10, G:0.29, T:0.26
Consensus pattern (44 bp):
TAAATTGGGTTGGGAGAGTCGAAACTTGACATTTACGAACGAAA
Found at i:3559797 original size:19 final size:20
Alignment explanation
Indices: 3559773--3559823 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
3559763 AATGACCAAT
3559773 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
3559792 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
3559812 AAAATCGCAACG
1 AAAATCGCAACG
3559824 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:3559817 original size:20 final size:20
Alignment explanation
Indices: 3559773--3559967 Score: 90
Period size: 20 Copynumber: 9.6 Consensus size: 20
3559763 AATGACCAAT
* *
3559773 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
3559792 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
3559812 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
3559832 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
3559852 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
3559873 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
3559896 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * * *
3559916 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * *
3559936 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
*
3559956 AGAATCGCAACG
1 AAAATCGCAACG
3559968 TTGAAAATAA
Statistics
Matches: 138, Mismatches: 29, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
19 17 0.12
20 94 0.68
21 14 0.10
23 13 0.09
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:3560823 original size:6 final size:6
Alignment explanation
Indices: 3560792--3560868 Score: 126
Period size: 6 Copynumber: 13.5 Consensus size: 6
3560782 TCTCGTCTCG
3560792 GGTCG- GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
3560836 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
3560869 AATACGTGTC
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 20 0.28
6 51 0.72
ACGTcount: A:0.00, C:0.17, G:0.53, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:3560983 original size:20 final size:20
Alignment explanation
Indices: 3560958--3561033 Score: 134
Period size: 20 Copynumber: 3.8 Consensus size: 20
3560948 CTTTTGACCG
3560958 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAGTCGCA
* *
3560978 TTGCGATTCTATCAGTCGCG
1 TTGCGATTCTCTCAGTCGCA
3560998 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAGTCGCA
3561018 TTGCGATTCTCTCAGT
1 TTGCGATTCTCTCAGT
3561034 TATAAAATAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.14, C:0.28, G:0.21, T:0.37
Consensus pattern (20 bp):
TTGCGATTCTCTCAGTCGCA
Found at i:3561935 original size:24 final size:24
Alignment explanation
Indices: 3561890--3561963 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
3561880 TGTCCTTGTG
* * *
3561890 ACACGTTTTTCTCTGTTTTTGTGAC
1 ACACG-TTCTCTCTGATCTTGTGAC
* *
3561915 ACATGTTCTCTCTTATCTTGTGAC
1 ACACGTTCTCTCTGATCTTGTGAC
* * *
3561939 ACGCGTTTTCTCTGCTCTTGTGAC
1 ACACGTTCTCTCTGATCTTGTGAC
3561963 A
1 A
3561964 TGTGATGAAG
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 35 0.90
25 4 0.10
ACGTcount: A:0.14, C:0.24, G:0.16, T:0.46
Consensus pattern (24 bp):
ACACGTTCTCTCTGATCTTGTGAC
Found at i:3565252 original size:23 final size:23
Alignment explanation
Indices: 3565224--3565271 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
3565214 TTCTCTTGTC
*
3565224 TTCACATATGACTTAGAATCTTG
1 TTCACATATGACTTAGAATATTG
* *
3565247 TTCACATGTGACTTGGAATATTG
1 TTCACATATGACTTAGAATATTG
3565270 TT
1 TT
3565272 TTTATATCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.42
Consensus pattern (23 bp):
TTCACATATGACTTAGAATATTG
Found at i:3566175 original size:6 final size:6
Alignment explanation
Indices: 3566149--3566193 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
3566139 CAAAAGAATC
* * * *
3566149 ACCTAC ACCTAC ACCTAT ACCTGT ACCTGT ACCTAT ACCTAT ACC
1 ACCTAT ACCTAT ACCTAT ACCTAT ACCTAT ACCTAT ACCTAT ACC
3566194 CTAATACCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.29, C:0.40, G:0.04, T:0.27
Consensus pattern (6 bp):
ACCTAT
Found at i:3569003 original size:62 final size:62
Alignment explanation
Indices: 3568906--3569029 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
3568896 AAACCATTAA
*
3568906 GCCTTAACCCATAACAAAGAATTATGGTTCACTACTCAAAACCACACAGTGAAACGATCATT
1 GCCTTAACCCATAACAAAGAATAATGGTTCACTACTCAAAACCACACAGTGAAACGATCATT
3568968 GCCTTAACCCATAACAAAGAATAATGGTTCACTACTCAAAACCACACAGTGAAACGATCATT
1 GCCTTAACCCATAACAAAGAATAATGGTTCACTACTCAAAACCACACAGTGAAACGATCATT
3569030 ATTCATCTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.41, C:0.26, G:0.11, T:0.22
Consensus pattern (62 bp):
GCCTTAACCCATAACAAAGAATAATGGTTCACTACTCAAAACCACACAGTGAAACGATCATT
Found at i:3570754 original size:48 final size:48
Alignment explanation
Indices: 3570700--3570801 Score: 195
Period size: 48 Copynumber: 2.1 Consensus size: 48
3570690 AAATGAAACA
3570700 AAAACTAAATGTTAGGTATGATTTTTAAAAAATAAAAGTTTAAGTACT
1 AAAACTAAATGTTAGGTATGATTTTTAAAAAATAAAAGTTTAAGTACT
*
3570748 AAAACTAAATGTTATGTATGATTTTTAAAAAATAAAAGTTTAAGTACT
1 AAAACTAAATGTTAGGTATGATTTTTAAAAAATAAAAGTTTAAGTACT
3570796 AAAACT
1 AAAACT
3570802 GATGTTTAGA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (48 bp):
AAAACTAAATGTTAGGTATGATTTTTAAAAAATAAAAGTTTAAGTACT
Found at i:3575332 original size:16 final size:16
Alignment explanation
Indices: 3575308--3575341 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3575298 TATCGTCGAC
*
3575308 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
3575324 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
3575340 CG
1 CG
3575342 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:3575781 original size:48 final size:48
Alignment explanation
Indices: 3575726--3575824 Score: 182
Period size: 48 Copynumber: 2.1 Consensus size: 48
3575716 AAGTGCAATG
3575726 ACTAAATGTTA-GTTATGATTTTTAAAAAATAAAAGTTTAAGTACTAAA
1 ACTAAATGTTATG-TATGATTTTTAAAAAATAAAAGTTTAAGTACTAAA
3575774 ACTAAATGTTATGTATGATTTTTAAAAAATAAAAGTTTAAGTACTAAA
1 ACTAAATGTTATGTATGATTTTTAAAAAATAAAAGTTTAAGTACTAAA
3575822 ACT
1 ACT
3575825 GATGTTTAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 49 0.98
49 1 0.02
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.37
Consensus pattern (48 bp):
ACTAAATGTTATGTATGATTTTTAAAAAATAAAAGTTTAAGTACTAAA
Found at i:3579957 original size:13 final size:13
Alignment explanation
Indices: 3579939--3579966 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3579929 AAAAATTGAC
3579939 GGTTGTATAAGAT
1 GGTTGTATAAGAT
3579952 GGTTGTATAAGAT
1 GGTTGTATAAGAT
3579965 GG
1 GG
3579967 ATATTAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.36, T:0.36
Consensus pattern (13 bp):
GGTTGTATAAGAT
Found at i:3582351 original size:60 final size:60
Alignment explanation
Indices: 3582279--3582439 Score: 268
Period size: 60 Copynumber: 2.7 Consensus size: 60
3582269 ATAGTCAAGT
* * *
3582279 GATCATTTTGTAACTTTTAATATTCAAAGGACTCAACAAAGCAACTCCCTATGGTCGAGG
1 GATCATTTTGTAACTTTTAATATTCAAGGGACTCAACAAAGCAACTCCATAGGGTCGAGG
3582339 GATCATTTTGTAACTTTTAATATTCAAGGGACTCAACAAAGCAACTCCATAGGGTCGAGG
1 GATCATTTTGTAACTTTTAATATTCAAGGGACTCAACAAAGCAACTCCATAGGGTCGAGG
* * *
3582399 GACCATTTTGTAACTTTTAATAGTCAAGGGACTCAATAAAG
1 GATCATTTTGTAACTTTTAATATTCAAGGGACTCAACAAAG
3582440 TAATATCATA
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 95 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (60 bp):
GATCATTTTGTAACTTTTAATATTCAAGGGACTCAACAAAGCAACTCCATAGGGTCGAGG
Found at i:3585228 original size:32 final size:32
Alignment explanation
Indices: 3585182--3585244 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
3585172 CACTACCCAC
* *
3585182 TAAATTTATACTCATCCTCGTCCCAATTAGAT
1 TAAAGTTATACTCATCCTCGCCCCAATTAGAT
3585214 TAAAGTTATACTCATCCTCGCCCCAATTAGA
1 TAAAGTTATACTCATCCTCGCCCCAATTAGA
3585245 GCGAATACGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (32 bp):
TAAAGTTATACTCATCCTCGCCCCAATTAGAT
Found at i:3589252 original size:17 final size:16
Alignment explanation
Indices: 3589227--3589278 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
3589217 TTTATTCATG
3589227 TTATTTTAAAATTAAA
1 TTATTTTAAAATTAAA
3589243 TTATTTTTAAAATTAAA
1 TTA-TTTTAAAATTAAA
* *
3589260 TTAATTTAAATTTAAA
1 TTATTTTAAAATTAAA
3589276 TTA
1 TTA
3589279 AATATTTCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
16 17 0.52
17 16 0.48
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATTTTAAAATTAAA
Found at i:3591543 original size:23 final size:21
Alignment explanation
Indices: 3591516--3591572 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 21
3591506 TCCTATAAAA
*
3591516 AATAAAATAAAAAATT-TATT
1 AATAAAATAAAAAATTATAAT
3591536 AATAATAATAAATAAATTATAAT
1 AATAA-AATAAA-AAATTATAAT
3591559 AATAAAAATAAAAA
1 AAT-AAAATAAAAA
3591573 TATAAAATCC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.16
21 6 0.19
22 7 0.22
23 12 0.38
24 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AATAAAATAAAAAATTATAAT
Found at i:3591558 original size:20 final size:22
Alignment explanation
Indices: 3591516--3591570 Score: 75
Period size: 20 Copynumber: 2.7 Consensus size: 22
3591506 TCCTATAAAA
3591516 AATAA-AATAAA-AAATTTATT
1 AATAATAATAAATAAATTTATT
3591536 AATAATAATAAATAAA-TTA-T
1 AATAATAATAAATAAATTTATT
3591556 AATAATAA-AAATAAA
1 AATAATAATAAATAAA
3591571 AATATAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.21
20 14 0.42
21 9 0.27
22 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AATAATAATAAATAAATTTATT
Found at i:3591576 original size:20 final size:20
Alignment explanation
Indices: 3591535--3591577 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
3591525 AAAAATTTAT
*
3591535 TAATAATAATAAATAAATTA
1 TAATAATAATAAATAAAATA
3591555 TAATAATAA-AAATAAAAATA
1 TAATAATAATAAAT-AAAATA
3591575 TAA
1 TAA
3591578 AATCCGGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
TAATAATAATAAATAAAATA
Found at i:3592133 original size:106 final size:106
Alignment explanation
Indices: 3591943--3592780 Score: 1390
Period size: 106 Copynumber: 7.9 Consensus size: 106
3591933 TCGTGAAGTT
* *
3591943 GAAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTC
1 GAAA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* * *
3592008 CAATATCCTTTGCTATGAAGTTGAAATTGACTCTGAAATTGG
65 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
*
3592050 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* * *
3592115 AATATCCTTTGCTGTGAAGTTGAAATTGGCTTTGAAATTGA
66 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
* *
3592156 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGGAGTCC
1 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
3592221 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
66 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
* * *
3592262 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCAGGAGTCC
1 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* * *
3592327 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATATTGA
66 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
* *
3592368 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
1 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
3592433 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
66 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
*
3592474 GAAATTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
3592539 AATATCCTTCGCTGTGAAGTTGAAATTAGCTCTGAAATT-G
66 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
*
3592579 AAAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
1 GAAA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* * *
3592644 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATATTGA
65 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
* *
3592686 GAAGTTGTTTGTTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
3592751 AATATCCTTCGTTGTGAAGTTGAAATTGGC
66 AATATCCTTCGCTGTGAAGTTGAAATTGGC
3592781 ACTCGAGCAA
Statistics
Matches: 691, Mismatches: 38, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
105 4 0.01
106 681 0.99
107 6 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
Found at i:3598360 original size:23 final size:21
Alignment explanation
Indices: 3598333--3598389 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 21
3598323 TCCTATAAAA
*
3598333 AATAAAATAAAAAATT-TATT
1 AATAAAATAAAAAATTATAAT
3598353 AATAATAATAAATAAATTATAAT
1 AATAA-AATAAA-AAATTATAAT
3598376 AATAAAAATAAAAA
1 AAT-AAAATAAAAA
3598390 TATAAAATCC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.16
21 6 0.19
22 7 0.22
23 12 0.38
24 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AATAAAATAAAAAATTATAAT
Found at i:3598375 original size:20 final size:22
Alignment explanation
Indices: 3598333--3598387 Score: 75
Period size: 20 Copynumber: 2.7 Consensus size: 22
3598323 TCCTATAAAA
3598333 AATAA-AATAAA-AAATTTATT
1 AATAATAATAAATAAATTTATT
3598353 AATAATAATAAATAAA-TTA-T
1 AATAATAATAAATAAATTTATT
3598373 AATAATAA-AAATAAA
1 AATAATAATAAATAAA
3598388 AATATAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.21
20 14 0.42
21 9 0.27
22 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AATAATAATAAATAAATTTATT
Found at i:3598393 original size:20 final size:20
Alignment explanation
Indices: 3598352--3598394 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
3598342 AAAAATTTAT
*
3598352 TAATAATAATAAATAAATTA
1 TAATAATAATAAATAAAATA
3598372 TAATAATAA-AAATAAAAATA
1 TAATAATAATAAAT-AAAATA
3598392 TAA
1 TAA
3598395 AATCCGGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
TAATAATAATAAATAAAATA
Found at i:3601686 original size:243 final size:243
Alignment explanation
Indices: 3601252--3601747 Score: 755
Period size: 243 Copynumber: 2.0 Consensus size: 243
3601242 TTGGTTTATG
* * * *
3601252 TCCATTATAATATAAGGTTGAAGCTAAGACACATGCAAAGCAAAAGTTCACAATAGTTATAAATG
1 TCCATTATAATATAAGGTTGAAGCTAAGACACATGCAAAACAAAAGTGCACAAGAGTTAGAAATG
* * *
3601317 GGTTTTAATCCAATTAATCTTAAGAATTTTTTTGAAGAATAGGATCTACTAAATGCATGGATTAA
66 GGTTTTAATCCAATTAATCTTAAGAATATTTTTGAAGAAGAGGATATACTAAATGCATGGATTAA
* * *
3601382 GGAAAGAAATAATACTACGCTTGATAGTGAACAAAATTTATCATAGCTGTCTGAGGAGTTACTTA
131 GGAAAGAAATAATACTACACTTGATAATGAACAAAATTTATCATAGCTGCCTGAGGAGTTACTTA
*
3601447 ATGAAATTGATGAAGAAAGTAAGGTAAAGATATGAATAGTTCA-CTTGC
196 ATGAAATTGATGAAGAAACTAAGGTAAAGATATGAATAGTTCATC-TGC
* *
3601495 TCCATTATAATATGAGGTTGAAGCTAAGACACATGCAAAATAAAAGTGCACAAGAGTTAGAAATG
1 TCCATTATAATATAAGGTTGAAGCTAAGACACATGCAAAACAAAAGTGCACAAGAGTTAGAAATG
* *
3601560 GGTTTTAATCCAATTAATCTTGAGAATATTTTTGAAGAAGATGATATACTAAATGCATGGATTGA
66 GGTTTTAATCCAATTAATCTTAAGAATATTTTTGAAGAAGAGGATATACTAAATGCATGGATT-A
* * * * * * *
3601625 A-GAAAGAGATGATGCTACACTTGATAATGAACAAAATTTCTCATGGTTGCCTGATGAGTTACTT
130 AGGAAAGAAATAATACTACACTTGATAATGAACAAAATTTATCATAGCTGCCTGAGGAGTTACTT
3601689 AATGAAATTGATGAAGAAACTAAGGTAAAGATATGAATAGTTCATCTGC
195 AATGAAATTGATGAAGAAACTAAGGTAAAGATATGAATAGTTCATCTGC
3601738 TCCA-TATAAT
1 TCCATTATAAT
3601748 GAGGAAAATG
Statistics
Matches: 229, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
242 6 0.03
243 220 0.96
244 3 0.01
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (243 bp):
TCCATTATAATATAAGGTTGAAGCTAAGACACATGCAAAACAAAAGTGCACAAGAGTTAGAAATG
GGTTTTAATCCAATTAATCTTAAGAATATTTTTGAAGAAGAGGATATACTAAATGCATGGATTAA
GGAAAGAAATAATACTACACTTGATAATGAACAAAATTTATCATAGCTGCCTGAGGAGTTACTTA
ATGAAATTGATGAAGAAACTAAGGTAAAGATATGAATAGTTCATCTGC
Found at i:3602413 original size:12 final size:12
Alignment explanation
Indices: 3602396--3602423 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
3602386 ACTTGTATGG
3602396 TTTATATTTGTT
1 TTTATATTTGTT
3602408 TTTATATTTGTT
1 TTTATATTTGTT
3602420 TTTA
1 TTTA
3602424 ATAAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (12 bp):
TTTATATTTGTT
Found at i:3603984 original size:41 final size:41
Alignment explanation
Indices: 3603939--3604019 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
3603929 GTCTATAGTG
*
3603939 ACGTTTATATAAAAACGCCACT-AAAGTACGAGCCTTTAGCA
1 ACGTTTATATAAAAACGCCA-TGAAAGTACAAGCCTTTAGCA
* * * *
3603980 ACGTTTGTATATAATCGCCATGAAAGTACAAGTCTTTAGC
1 ACGTTTATATAAAAACGCCATGAAAGTACAAGCCTTTAGC
3604020 GGCGTTTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 1 0.03
41 33 0.97
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (41 bp):
ACGTTTATATAAAAACGCCATGAAAGTACAAGCCTTTAGCA
Found at i:3604677 original size:14 final size:14
Alignment explanation
Indices: 3604658--3604685 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3604648 TCGGATGCTT
3604658 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
3604672 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
3604686 ATGCCTAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:3604752 original size:29 final size:29
Alignment explanation
Indices: 3604719--3604776 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
3604709 ATGTTCTCTT
**
3604719 GTAGGTCGCCGGGAAGACATGGCGACCTA
1 GTAGGTCGCCCAGAAGACATGGCGACCTA
*
3604748 GTAGGTCGCCCAGAAGGCATGGCGACCTA
1 GTAGGTCGCCCAGAAGACATGGCGACCTA
3604777 CGGCCAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.24, C:0.26, G:0.36, T:0.14
Consensus pattern (29 bp):
GTAGGTCGCCCAGAAGACATGGCGACCTA
Found at i:3607613 original size:2 final size:2
Alignment explanation
Indices: 3607606--3607645 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
3607596 CCCACGGCTA
3607606 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
3607646 TCTTTTAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3610655 original size:31 final size:31
Alignment explanation
Indices: 3610620--3610710 Score: 110
Period size: 31 Copynumber: 2.9 Consensus size: 31
3610610 TCATACCTAG
* *
3610620 TGTTTAGTTTTTGTTTCATTTTAGTACTCAT
1 TGTTTACTTTTTGTTTCATTTTAGTACCCAT
** *
3610651 TGTTTACTTTTTGTTTCGCTTTAGTACCCCTT
1 TGTTTACTTTTTGTTTCATTTTAGTA-CCCAT
* *
3610683 TGTTAACTTTTTATTTCATTTTAGTACC
1 TGTTTACTTTTTGTTTCATTTTAGTACC
3610711 TAAAATTTCA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
31 25 0.50
32 25 0.50
ACGTcount: A:0.15, C:0.15, G:0.11, T:0.58
Consensus pattern (31 bp):
TGTTTACTTTTTGTTTCATTTTAGTACCCAT
Found at i:3610692 original size:32 final size:32
Alignment explanation
Indices: 3610627--3610710 Score: 107
Period size: 32 Copynumber: 2.7 Consensus size: 32
3610617 TAGTGTTTAG
* *
3610627 TTTTTGTTTCATTTTAGTA-CTCATTGTTTAC
1 TTTTTGTTTCATTTTAGTACCCCATTGTTAAC
** *
3610658 TTTTTGTTTCGCTTTAGTACCCCTTTGTTAAC
1 TTTTTGTTTCATTTTAGTACCCCATTGTTAAC
*
3610690 TTTTTATTTCATTTTAGTACC
1 TTTTTGTTTCATTTTAGTACC
3610711 TAAAATTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 17 0.39
32 27 0.61
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.58
Consensus pattern (32 bp):
TTTTTGTTTCATTTTAGTACCCCATTGTTAAC
Found at i:3611503 original size:6 final size:6
Alignment explanation
Indices: 3611492--3611537 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
3611482 AGTTTTTCAA
*
3611492 CCCTTT CCCTTT CCCCTT CCCTTT CCCTTT CCCTTT CCCTTT CCCT
1 CCCTTT CCCTTT CCCTTT CCCTTT CCCTTT CCCTTT CCCTTT CCCT
3611538 ATAAGCTACC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (6 bp):
CCCTTT
Found at i:3613878 original size:24 final size:24
Alignment explanation
Indices: 3613823--3613892 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
3613813 TTTACCCTTT
**
3613823 ATTTTT-ACTAATTTACCATTA-A
1 ATTTTTAACTAATTTATAATTATA
3613845 ATTTTTAACTAATTTATAATTATA
1 ATTTTTAACTAATTTATAATTATA
*
3613869 GTTTTTAACTAATTTATAATTATA
1 ATTTTTAACTAATTTATAATTATA
3613893 CGTGCAGTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
22 6 0.14
23 13 0.30
24 24 0.56
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (24 bp):
ATTTTTAACTAATTTATAATTATA
Found at i:3614721 original size:2 final size:2
Alignment explanation
Indices: 3614714--3614760 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
3614704 TCCTCATTAC
3614714 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3614756 TA TA T
1 TA TA T
3614761 CATAAACCCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3618757 original size:15 final size:15
Alignment explanation
Indices: 3618737--3618786 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
3618727 ACTCCTTTTA
*
3618737 AAATTTTATAAATTT
1 AAATTTTATGAATTT
* *
3618752 AAA-TTTATGACTTG
1 AAATTTTATGAATTT
3618766 AAATTTTATGAATTT
1 AAATTTTATGAATTT
3618781 AAATTT
1 AAATTT
3618787 ACTCCCTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (15 bp):
AAATTTTATGAATTT
Found at i:3619010 original size:15 final size:15
Alignment explanation
Indices: 3618990--3619026 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
3618980 TGAGACATTA
*
3618990 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
3619005 CCCGCCCCACATCCG
1 CCCGCCCCACATCCG
3619020 CCCGCCC
1 CCCGCCC
3619027 AGCTAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.08, C:0.70, G:0.16, T:0.05
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:3624792 original size:31 final size:31
Alignment explanation
Indices: 3624755--3624813 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
3624745 AGTTGTATGG
* *
3624755 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATTCCAGTATTGCAAAACTAAA
3624786 ATTATTTAAATTCCAGTATTGCAAAACT
1 ATTATTTAAATTCCAGTATTGCAAAACT
3624814 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATTCCAGTATTGCAAAACTAAA
Found at i:3625257 original size:60 final size:61
Alignment explanation
Indices: 3625164--3625287 Score: 205
Period size: 60 Copynumber: 2.0 Consensus size: 61
3625154 TGTGATTTTA
* * *
3625164 TTAAATTAACTGATAATTGATTGAGTTAAAGTCAA-TTTTTAATTCTTCAACTGAATCTTT
1 TTAAATTAACTGATAATTGATCGAGTTAAAGTCAATTTTTTAACTCTTCAACTCAATCTTT
*
3625224 TTAAATTAACTGATAATTGATCGAGTTAAAGTCAATTTTTTAACTCTTTAACTCAATCTTT
1 TTAAATTAACTGATAATTGATCGAGTTAAAGTCAATTTTTTAACTCTTCAACTCAATCTTT
3625285 TTA
1 TTA
3625288 GATAGTTGTA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
60 34 0.58
61 25 0.42
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (61 bp):
TTAAATTAACTGATAATTGATCGAGTTAAAGTCAATTTTTTAACTCTTCAACTCAATCTTT
Found at i:3625328 original size:3 final size:3
Alignment explanation
Indices: 3625320--3625389 Score: 86
Period size: 3 Copynumber: 23.0 Consensus size: 3
3625310 TTCATTTTAA
**
3625320 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
3625368 AAT AGT AAT ATT ATTT ATT ATT
1 ATT ATT ATT ATT A-TT ATT ATT
3625390 TAAATATTAC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
3 55 0.95
4 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:3625395 original size:18 final size:18
Alignment explanation
Indices: 3625320--3625398 Score: 81
Period size: 18 Copynumber: 4.2 Consensus size: 18
3625310 TTCATTTTAA
3625320 ATTATTATTATTA-AAATT
1 ATTATTATTATTATAAA-T
* *
3625338 ATTATTATTATTATTATT
1 ATTATTATTATTATAAAT
3625356 ATTATTATTATTAATAGTAAT
1 ATTATTATTATT-ATA--AAT
3625377 ATTATTTATTATT-TAAAT
1 ATTA-TTATTATTATAAAT
3625395 ATTA
1 ATTA
3625399 CAAAGCCCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 33 0.63
19 3 0.06
20 2 0.04
21 6 0.12
22 8 0.15
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (18 bp):
ATTATTATTATTATAAAT
Found at i:3625916 original size:10 final size:10
Alignment explanation
Indices: 3625880--3625924 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
3625870 AACCAGAAGG
3625880 ACAGAGAGCA
1 ACAGAGAGCA
* *
3625890 ACAGACAGCC
1 ACAGAGAGCA
3625900 ACAGAGAGCA
1 ACAGAGAGCA
* *
3625910 ACGGAGAACA
1 ACAGAGAGCA
3625920 ACAGA
1 ACAGA
3625925 AAAACAGACG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.49, C:0.24, G:0.27, T:0.00
Consensus pattern (10 bp):
ACAGAGAGCA
Found at i:3626885 original size:18 final size:18
Alignment explanation
Indices: 3626858--3626899 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
3626848 ACATTATTTA
*
3626858 ATCA-TATGTTACATTTAT
1 ATCATTATGTT-CATATAT
3626876 AT-ATTATGTTCATATAT
1 ATCATTATGTTCATATAT
3626893 ATCATTA
1 ATCATTA
3626900 CTATTATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.50
Consensus pattern (18 bp):
ATCATTATGTTCATATAT
Found at i:3634906 original size:93 final size:93
Alignment explanation
Indices: 3634747--3635008 Score: 463
Period size: 93 Copynumber: 2.8 Consensus size: 93
3634737 TAAGGAGACC
3634747 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
3634812 ATCATTGAATTTGGAAGATGGATGTGCT
66 ATCATTGAATTTGGAAGATGGATGTGCT
3634840 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
3634905 ATCATTGAATTTGGAAGATGGATGTGCT
66 ATCATTGAATTTGGAAGATGGATGTGCT
* * * * *
3634933 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGGTTTGATA-GGAACTACAGAACCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
3634997 ATCATTGGAATT
66 ATCATT-GAATT
3635009 AAAAGATGAG
Statistics
Matches: 163, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
92 18 0.11
93 145 0.89
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (93 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
ATCATTGAATTTGGAAGATGGATGTGCT
Found at i:3634915 original size:45 final size:45
Alignment explanation
Indices: 3634771--3634915 Score: 107
Period size: 45 Copynumber: 3.2 Consensus size: 45
3634761 GAAGTGTTCT
3634771 TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
1 TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
* * * * * * ** * ** *
3634816 TTGAATT-T-GGAAGATGGATGTGCTCATAGCATCTTCTGGAAGT-GTTCT
1 TTGAATTATCTG-ATATGG-TTTGGT-AT-GAAACCAC-AGAA-TCAATCA
3634864 TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
1 TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
3634909 TTGAATT
1 TTGAATT
3634916 TGGAAGATGG
Statistics
Matches: 67, Mismatches: 24, Indels: 18
0.61 0.22 0.17
Matches are distributed among these distances:
43 1 0.01
44 7 0.10
45 23 0.34
46 6 0.09
47 6 0.09
48 16 0.24
49 7 0.10
50 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (45 bp):
TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
Found at i:3638178 original size:113 final size:113
Alignment explanation
Indices: 3637980--3638470 Score: 670
Period size: 113 Copynumber: 4.3 Consensus size: 113
3637970 TAGCAAAGAT
* *
3637980 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATTAGAAGAGCTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
3638045 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGC
*
3638093 TCAAATCCATCATCTGATGGATTAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
3638158 AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGT
66 AGAAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTT-GC
** * * * * * * *
3638207 TTGAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCATC
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAA--C-TCATC
* *
3638272 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
63 TGAAGAAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* *
3638323 TCAAATCCATCTTCTGATGGATCAGCTTTTCCAAAAAAAAAGTTCATAATGAGAAGAACTCATCT
1 TCAAATCCATCATCTGATGGATCAGCTTTTCC--AGAAAAAGTTCATAATGAGAAGAACTCATCT
* *
3638388 G-A-AAA-AA-AA-AAGTTCATAATGAGAAGAGCTTGTTCAACC-TTTGC
64 GAAGAAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* *
3638432 TCAAATCCATCTTCTGATGGATCAGCTTTTCCAAAAAAA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAA
3638471 AAAAAGTTCA
Statistics
Matches: 336, Mismatches: 36, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
107 7 0.02
109 37 0.11
110 27 0.08
111 2 0.01
112 2 0.01
113 107 0.32
114 48 0.14
115 7 0.02
116 27 0.08
117 51 0.15
118 21 0.06
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.28
Consensus pattern (113 bp):
TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGC
Found at i:3638469 original size:72 final size:73
Alignment explanation
Indices: 3638391--3638563 Score: 233
Period size: 77 Copynumber: 2.3 Consensus size: 73
3638381 CTCATCTGAA
* *
3638391 AAAAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGCTCAAATCCATC-TTCTGATGGATC
1 AAAAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGCTCAAATCCATCACT-TGATAGATC
3638455 AGCTTTTCC
65 AGCTTTTCC
*
3638464 AAAAAAAAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTCAAATCCATCACTTGATAG
1 ----AAAAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGCTCAAATCCATCACTTGATAG
*
3638529 ATCAGTTTTTCC
62 ATCAGCTTTTCC
* *
3638541 -AGAGAAAGTTCATAATGAGAAGA
1 AAAAAAAAGTTCATAATGAGAAGA
3638564 ACTCATCTGA
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
72 21 0.24
77 67 0.75
78 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (73 bp):
AAAAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGCTCAAATCCATCACTTGATAGATCA
GCTTTTCC
Found at i:3638491 original size:230 final size:228
Alignment explanation
Indices: 3637980--3638470 Score: 721
Period size: 230 Copynumber: 2.2 Consensus size: 228
3637970 TAGCAAAGAT
* *
3637980 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATTAGAAG-AGCTCATCTG
1 TCAAATCCATCTTCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAAGCTCATCTG
3638044 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTG
* *
3638109 ATGGATTAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGT
131 ATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGT
*
3638174 TCATAATGAGAAGAACTTGTTCAACCTTTTGGT
196 TCATAATGAGAAGAACTTGTTCAACCTTTTGGC
** * * * * * * *
3638207 TTGAATTCATCATT-TGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCAT
1 TCAAATCCATC-TTCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAA-GC-TCAT
*
3638271 CTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCTT
63 CTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCAT
3638336 CTGATGGATCAGCTTTTCCAAAAAAAAAGTTCATAATGAGAAGAACTCATCTG-A-AAA-AA-AA
128 CTGATGGATCAGCTTTTCC--AAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAA
*
3638397 -AAGTTCATAATGAGAAGAGCTTGTTCAACC-TTT-GC
191 GAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGC
*
3638432 TCAAATCCATCTTCTGATGGATCAGCTTTTCCAAAAAAA
1 TCAAATCCATCTTCTGATGGATCAGCTTTTCCAGAAAAA
3638471 AAAAAGTTCA
Statistics
Matches: 232, Mismatches: 25, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
224 2 0.01
225 28 0.12
226 3 0.01
227 71 0.31
228 4 0.02
229 3 0.01
230 89 0.38
231 1 0.00
232 31 0.13
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.28
Consensus pattern (228 bp):
TCAAATCCATCTTCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAAGCTCATCTG
AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTG
ATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGT
TCATAATGAGAAGAACTTGTTCAACCTTTTGGC
Found at i:3638514 original size:77 final size:77
Alignment explanation
Indices: 3638389--3638541 Score: 254
Period size: 77 Copynumber: 2.0 Consensus size: 77
3638379 AACTCATCTG
* *
3638389 AAAAAAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGCTCAAATCCATC-TTCTGATGGA
1 AAAAAAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGCTCAAATCCATCACT-TGATAGA
3638453 TCAGCTTTTCCAA
65 TCAGCTTTTCCAA
*
3638466 AAAAAAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTCAAATCCATCACTTGATAGAT
1 AAAAAAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGCTCAAATCCATCACTTGATAGAT
*
3638531 CAGTTTTTCCA
66 CAGCTTTTCCA
3638542 GAGAAAGTTC
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
77 70 0.99
78 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (77 bp):
AAAAAAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGCTCAAATCCATCACTTGATAGAT
CAGCTTTTCCAA
Found at i:3638602 original size:112 final size:112
Alignment explanation
Indices: 3638474--3638733 Score: 441
Period size: 112 Copynumber: 2.3 Consensus size: 112
3638464 AAAAAAAAAA
* ** * *
3638474 AAGTTCATAATGAGAAGAGCTTGTTCAACC-TTTGTTCAAATCCATCACTTGATAGATCAGTTTT
1 AAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATAGATCAGCTTT
3638538 TCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
66 TCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
*
3638586 AAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTT
1 AAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATAGATCAGCTTT
3638651 TCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
66 TCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
*
3638698 AAGTTCATAATAAGAAGAATTTGTTCAACTTTTTGC
1 AAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGC
3638734 ATAATTCTAT
Statistics
Matches: 140, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
112 102 0.73
113 38 0.27
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.29
Consensus pattern (112 bp):
AAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATAGATCAGCTTT
TCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
Found at i:3638604 original size:299 final size:304
Alignment explanation
Indices: 3638170--3638726 Score: 819
Period size: 299 Copynumber: 1.8 Consensus size: 304
3638160 AAAGAAGAAG
** * * *
3638170 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGTTTGAATTCATCATTTGATGGATCAACAT
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGTTCAAATCCATCACTTGATAGATCAACAT
*
3638235 TGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAATTCATAATGA
66 TGCCAGGAAGAGTTCATAATGAGAAGAAC-CGTCATCTGAAGAAGGAAGAAGAAATTCATAATAA
*
3638300 GAAGAATTTGTTCAACCTTTTGCTCAAATCCATC-TTCTGATGGATCAGCTTTTCCAAAAAAAAA
130 GAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACT-TGATGGATCAGCTTTTCC---AAAAAA
* *
3638364 GTTCATAATGAGAAGAACTCATCTGAA-AA-AA-AA-AAGTTCATAATGAGAAGAGCTTGTTCAA
191 GTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA
3638425 CCTTTGCTCAAATCCATCTTCTGATGGATCAGCTTTTCCAAAAAAAAAA
256 CCTTTGCTCAAATCCATCTTCTGATGGATCAGCTTTTCCAAAAAAAAAA
* ***
3638474 AAGTTCATAATGAGAAGAGCTTGTTCAACC-TTT-GTTCAAATCCATCACTTGATAGATCAGTTT
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGTTCAAATCCATCACTTGATAGATCAACAT
* *
3638537 TTCCAGAGAA-AGTTCATAATGAGAAGAA-C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATAA
66 TGCCAG-GAAGAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGGAAGAAGAAATTCATAATAA
* *
3638599 GAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTC
130 GAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAAAAAAGTTC
*
3638664 ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAAC
195 ATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAAC
3638727 TTTTTGCATA
Statistics
Matches: 228, Mismatches: 18, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
296 31 0.14
297 2 0.01
299 85 0.37
300 4 0.02
301 26 0.11
302 45 0.20
303 6 0.03
304 29 0.13
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (304 bp):
AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGTTCAAATCCATCACTTGATAGATCAACAT
TGCCAGGAAGAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGGAAGAAGAAATTCATAATAAG
AAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAAAAAAGTTCA
TAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTT
GCTCAAATCCATCTTCTGATGGATCAGCTTTTCCAAAAAAAAAA
Found at i:3639551 original size:76 final size:76
Alignment explanation
Indices: 3639142--3639932 Score: 1367
Period size: 76 Copynumber: 10.5 Consensus size: 76
3639132 CTATTTCCCA
* *
3639142 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTAT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
3639206 AGCCTTAGGGT
66 AGCCTTCGGGT
*
3639217 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
3639281 AGCCTTAGGGT
66 AGCCTTCGGGT
3639292 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
3639356 AGCCTTAGGGT
66 AGCCTTCGGGT
*
3639367 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
3639431 AGCCTTAGGGT
66 AGCCTTCGGGT
*
3639442 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAGAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
3639507 ATCCTTCGGGT
66 AGCCTTCGGGT
* *
3639518 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
3639583 AGCCTTCGGGT
66 AGCCTTCGGGT
*
3639594 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
3639659 ATCCTTCGGGT
66 AGCCTTCGGGT
* * *
3639670 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
3639735 AGCC-TCAGGGT
66 AGCCTTC-GGGT
3639746 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
3639811 AGCCTTCGGGT
66 AGCCTTCGGGT
*
3639822 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
3639887 AGCCTTCGGGT
66 AGCCTTCGGGT
*
3639898 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
3639933 CATTTCCATC
Statistics
Matches: 691, Mismatches: 22, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
75 284 0.41
76 405 0.59
77 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:3640066 original size:3 final size:3
Alignment explanation
Indices: 3640058--3640136 Score: 104
Period size: 3 Copynumber: 26.0 Consensus size: 3
3640048 TTCATTTTAA
**
3640058 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
3640106 ATT ATT ATT AAT AGT AAT ATT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
3640137 TAAATATTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 64 0.96
4 3 0.04
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:3640142 original size:18 final size:16
Alignment explanation
Indices: 3640058--3640145 Score: 81
Period size: 18 Copynumber: 5.2 Consensus size: 16
3640048 TTCATTTTAA
3640058 ATTATTATTATTAAA-
1 ATTATTATTATTAAAT
*
3640073 ATTATTATTATT-ATT
1 ATTATTATTATTAAAT
*
3640088 ATTATTATTATTATTATT
1 ATTATTATTATTA--AAT
*
3640106 ATTATTATTAATAGTAAT
1 ATTATTATTATTA--AAT
3640124 ATTATTTATTATTTAAAT
1 ATTA-TTATTA-TTAAAT
3640142 ATTA
1 ATTA
3640146 CAAAGCCCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
14 1 0.02
15 24 0.39
18 29 0.47
19 6 0.10
20 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (16 bp):
ATTATTATTATTAAAT
Found at i:3640662 original size:10 final size:10
Alignment explanation
Indices: 3640626--3640670 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
3640616 AACCAGAAGG
3640626 ACAGAGAGCA
1 ACAGAGAGCA
* *
3640636 ACAGACAGCC
1 ACAGAGAGCA
3640646 ACAGAGAGCA
1 ACAGAGAGCA
* *
3640656 ACGGAGAACA
1 ACAGAGAGCA
3640666 ACAGA
1 ACAGA
3640671 AAAACAGACG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.49, C:0.24, G:0.27, T:0.00
Consensus pattern (10 bp):
ACAGAGAGCA
Found at i:3643939 original size:12 final size:13
Alignment explanation
Indices: 3643920--3643951 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
3643910 TGAAAATCCA
3643920 TCTTTTCCTCCCT
1 TCTTTTCCTCCCT
3643933 T-TTTTCCTCCCT
1 TCTTTTCCTCCCT
3643945 TCTTTTC
1 TCTTTTC
3643952 ACGTCAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (13 bp):
TCTTTTCCTCCCT
Done.