Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008650.1 Hibiscus syriacus cultivar Beakdansim tig00111640_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: 1713193
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 6
Found at i:615086 original size:15 final size:17
Alignment explanation
Indices: 615066--615102 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
615056 CCTAACTTCT
615066 GTTTTA-GG-AGTCTGG
1 GTTTTAGGGAAGTCTGG
*
615081 GTTTTAGGGAAGTTTGG
1 GTTTTAGGGAAGTCTGG
615098 GTTTT
1 GTTTT
615103 TACATCATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 6 0.32
16 2 0.11
17 11 0.58
ACGTcount: A:0.14, C:0.03, G:0.38, T:0.46
Consensus pattern (17 bp):
GTTTTAGGGAAGTCTGG
Found at i:621175 original size:13 final size:13
Alignment explanation
Indices: 621159--621202 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
621149 TAACTGTAAA
621159 AAATAAAATAATT
1 AAATAAAATAATT
621172 AAATAAAATAA-T
1 AAATAAAATAATT
621184 --A-AAAA-AATT
1 AAATAAAATAATT
621193 AAATAAAATA
1 AAATAAAATA
621203 CTAACAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
8 2 0.08
9 5 0.19
10 1 0.04
11 1 0.04
12 5 0.19
13 12 0.46
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAATAAAATAATT
Found at i:626021 original size:23 final size:23
Alignment explanation
Indices: 625995--626041 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
625985 GTCACCACAG
*
625995 CTCGTATAATTGCACCGAAGTGC
1 CTCGTAGAATTGCACCGAAGTGC
* *
626018 CTCGTAGAATTGCATCGTAGTGC
1 CTCGTAGAATTGCACCGAAGTGC
626041 C
1 C
626042 ATATAATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (23 bp):
CTCGTAGAATTGCACCGAAGTGC
Found at i:628770 original size:23 final size:23
Alignment explanation
Indices: 628744--628790 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
628734 GTCACCACAG
*
628744 CTCGTATAATTGCACCGAAGTGC
1 CTCGTAGAATTGCACCGAAGTGC
* *
628767 CTCGTAGAATTGCATCGTAGTGC
1 CTCGTAGAATTGCACCGAAGTGC
628790 C
1 C
628791 ATATAATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (23 bp):
CTCGTAGAATTGCACCGAAGTGC
Found at i:629011 original size:149 final size:149
Alignment explanation
Indices: 628769--629072 Score: 520
Period size: 149 Copynumber: 2.0 Consensus size: 149
628759 CGAAGTGCCT
* * *
628769 CGTAGAATTGCATCGTAGTGCCATATAATGATGTCCATGAGGACCACATATAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
** *
628834 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATATTCCACAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATATTCCAAAGAATATA
628899 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
628918 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
* *
628983 CATATACATATGCTAGGGATCATA-TATGTGTCTCACCAGACTTCACACATGTTCCAAAGAATAT
66 CATATACATATGCTAGGGATCA-AGTATGTGTCTCACAAGACTTCACACATATTCCAAAGAATAT
629047 ATATATATCCCGAAGGACCG
130 ATATATATCCCGAAGGACCG
629067 CGTAGA
1 CGTAGA
629073 CCCTCGACTC
Statistics
Matches: 146, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
149 145 0.99
150 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATATTCCAAAGAATATA
TATATATCCCGAAGGACCG
Found at i:630702 original size:21 final size:21
Alignment explanation
Indices: 630678--630722 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
630668 TGTTGTTCGT
* *
630678 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
630699 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
630720 TTG
1 TTG
630723 CCCATAAATC
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:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:631729 original size:18 final size:22
Alignment explanation
Indices: 631686--631731 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 22
631676 AAAAAAAATA
631686 AAAGAAAATAAAGATATGATAT
1 AAAGAAAATAAAGATATGATAT
631708 AAAGAAAA-AAA-ATAT-A-AT
1 AAAGAAAATAAAGATATGATAT
631726 AAAGAA
1 AAAGAA
631732 TACTGACTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.33
19 1 0.04
20 4 0.17
21 3 0.12
22 8 0.33
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (22 bp):
AAAGAAAATAAAGATATGATAT
Found at i:644497 original size:5 final size:5
Alignment explanation
Indices: 644489--644520 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
644479 GAAGCCGGGT
*
644489 TTTGG TTTGG TTTGG TTTGG TTTGG CTTGG TT
1 TTTGG TTTGG TTTGG TTTGG TTTGG TTTGG TT
644521 GTTTTGTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.03, G:0.38, T:0.59
Consensus pattern (5 bp):
TTTGG
Found at i:646852 original size:111 final size:112
Alignment explanation
Indices: 646658--646990 Score: 555
Period size: 111 Copynumber: 3.0 Consensus size: 112
646648 TGAAAATCAT
* *
646658 ATATCTCTACACTTTGTTGATA-AGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTA
1 ATATCTCGACACTTTGCTGATACAGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTA
*
646722 ATATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 ATAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
646769 ATATCTCGACACTTTGCTGATACAG-TAACATTTTAATGTTTTAATTTAATTTAAATTATTAGTA
1 ATATCTCGACACTTTGCTGATACAGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTA
*
646833 ATAATTAGTTGATTTATTTAATGCATGATTATTAAATTAAGAATTAA
66 ATAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
* * * *
646880 ATATCTCGACACTTTGCTGATAC-GATAATATTTTAACGTTTTTATTTAATTTAAATAATTAATA
1 ATATCTCGACACTTTGCTGATACAGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTA
*
646944 ATAATTAGTTGATTTATTTAATGCATGATTATTAGAGTAAGAATTAA
66 ATAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
646991 TTTTTGTAAT
Statistics
Matches: 208, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
110 1 0.00
111 205 0.99
112 2 0.01
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (112 bp):
ATATCTCGACACTTTGCTGATACAGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTA
ATAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:648506 original size:18 final size:18
Alignment explanation
Indices: 648483--648522 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
648473 ACAGCAGCCA
648483 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
648501 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
648519 CCGC
1 CCGC
648523 CATCGCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.33, G:0.23, T:0.20
Consensus pattern (18 bp):
CCGCAGCCATATATGATG
Found at i:648886 original size:12 final size:12
Alignment explanation
Indices: 648861--648898 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
648851 ACCTGCTCAG
*
648861 GACGACGACAAC
1 GACGATGACAAC
*
648873 GACGATGACGAC
1 GACGATGACAAC
648885 GACGATGACAAC
1 GACGATGACAAC
648897 GA
1 GA
648899 GGAGTCAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.39, C:0.26, G:0.29, T:0.05
Consensus pattern (12 bp):
GACGATGACAAC
Found at i:653049 original size:11 final size:11
Alignment explanation
Indices: 653033--653081 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
653023 CCTTTCAAAT
653033 TTTATTAATTA
1 TTTATTAATTA
*
653044 TTTATT-ATGAA
1 TTTATTAAT-TA
*
653055 ATTATT-ATTA
1 TTTATTAATTA
653065 -TTATTAATTA
1 TTTATTAATTA
653075 TTTATTA
1 TTTATTA
653082 TGAGATTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
9 5 0.16
10 7 0.22
11 20 0.62
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
TTTATTAATTA
Found at i:653057 original size:24 final size:24
Alignment explanation
Indices: 653029--653075 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
653019 TTATCCTTTC
*
653029 AAATT-TTATTAATTATTTATTATG
1 AAATTATTATT-ATTATTAATTATG
653053 AAATTATTATTATTATTAATTAT
1 AAATTATTATTATTATTAATTAT
653076 TTATTATGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
AAATTATTATTATTATTAATTATG
Found at i:653062 original size:14 final size:15
Alignment explanation
Indices: 653039--653096 Score: 66
Period size: 14 Copynumber: 3.9 Consensus size: 15
653029 AAATTTTATT
653039 AATTATTTATTATGA
1 AATTATTTATTATGA
*
653054 AATTATTATTATTAT-T
1 AATTA-T-TTATTATGA
653070 AATTATTTATTATGA
1 AATTATTTATTATGA
*
653085 GATTA-TTATTAT
1 AATTATTTATTAT
653097 TAATTACTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 14 0.38
15 10 0.27
16 6 0.16
17 7 0.19
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (15 bp):
AATTATTTATTATGA
Found at i:653070 original size:31 final size:31
Alignment explanation
Indices: 653034--653098 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
653024 CTTTCAAATT
653034 TTATTAATTATTTATTATGAAATTATTATTA
1 TTATTAATTATTTATTATGAAATTATTATTA
*
653065 TTATTAATTATTTATTATGAGATTATTATTA
1 TTATTAATTATTTATTATGAAATTATTATTA
653096 TTA
1 TTA
653099 ATTACTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (31 bp):
TTATTAATTATTTATTATGAAATTATTATTA
Found at i:653869 original size:16 final size:16
Alignment explanation
Indices: 653848--653883 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
653838 AATCCGAGTC
*
653848 GAAAATAATTCGAACT
1 GAAAATAATTCAAACT
653864 GAAAATAATTCAAACT
1 GAAAATAATTCAAACT
653880 GAAA
1 GAAA
653884 GCAATCCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (16 bp):
GAAAATAATTCAAACT
Found at i:653910 original size:16 final size:16
Alignment explanation
Indices: 653889--653921 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
653879 TGAAAGCAAT
653889 CCGAATCAAATTTAAC
1 CCGAATCAAATTTAAC
*
653905 CCGAATCGAATTTAAC
1 CCGAATCAAATTTAAC
653921 C
1 C
653922 TGATTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.24
Consensus pattern (16 bp):
CCGAATCAAATTTAAC
Found at i:656282 original size:15 final size:15
Alignment explanation
Indices: 656262--656305 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
656252 CTATGTAATT
656262 TTCCTTCTCTTCCCC
1 TTCCTTCTCTTCCCC
656277 TTCCTTCTCTTCCCC
1 TTCCTTCTCTTCCCC
* **
656292 GTCAGTCTCTTCCC
1 TTCCTTCTCTTCCC
656306 ACTCTTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.02, C:0.50, G:0.05, T:0.43
Consensus pattern (15 bp):
TTCCTTCTCTTCCCC
Found at i:659970 original size:2 final size:2
Alignment explanation
Indices: 659965--660004 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
659955 TAATTTTTTA
659965 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
660005 TAAAATTGTG
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:663088 original size:25 final size:24
Alignment explanation
Indices: 663042--663088 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
663032 GGGTTTGTAT
* *
663042 TAAAGTTATCATCAAAATATTTGA
1 TAAAGTTATAATCAAAACATTTGA
*
663066 TAAAGTTAATAATTAAAACATTT
1 TAAAGTT-ATAATCAAAACATTT
663089 AAATAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.38
Consensus pattern (24 bp):
TAAAGTTATAATCAAAACATTTGA
Found at i:665073 original size:43 final size:43
Alignment explanation
Indices: 664754--665061 Score: 490
Period size: 43 Copynumber: 7.2 Consensus size: 43
664744 TTCTTTCTTG
* *
664754 TGTTGATGGCTTTCGGTCTAAGGTCTTCCTGTTCCTTATAATA
1 TGTTGATGGCTTTCAGTCTAAGGTCTTCCTGTTCCTCATAATA
664797 TGTTGATGGCTTTCAGTCTAAGGTCTTCCTGTTCCTCATAATA
1 TGTTGATGGCTTTCAGTCTAAGGTCTTCCTGTTCCTCATAATA
** *
664840 TGTTGATGAATTTCAGTCTAAGGTCTTCCTGTTTCTCATAATA
1 TGTTGATGGCTTTCAGTCTAAGGTCTTCCTGTTCCTCATAATA
*
664883 TGTCGATGGCTTTCAGTCTAAGGTCTTCCTGTTCCTCATAATA
1 TGTTGATGGCTTTCAGTCTAAGGTCTTCCTGTTCCTCATAATA
* *
664926 TGTTGATTGATTTCAGTCTAAGGTCTTCCTGTTCCTCATAATA
1 TGTTGATGGCTTTCAGTCTAAGGTCTTCCTGTTCCTCATAATA
* * *
664969 TATTGATGGCTTTCAGTCTAAGGTCCTCCTGTTCCTCGTAATA
1 TGTTGATGGCTTTCAGTCTAAGGTCTTCCTGTTCCTCATAATA
* * *
665012 TATTGATGGCTTTCATTCTAAGGTCTTCCTGTTCTTCATAATA
1 TGTTGATGGCTTTCAGTCTAAGGTCTTCCTGTTCCTCATAATA
665055 TGTTGAT
1 TGTTGAT
665062 TCTGTTAATT
Statistics
Matches: 243, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 243 1.00
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.43
Consensus pattern (43 bp):
TGTTGATGGCTTTCAGTCTAAGGTCTTCCTGTTCCTCATAATA
Found at i:671628 original size:2 final size:2
Alignment explanation
Indices: 671623--671676 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
671613 AGGTTAAAGA
671623 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
671665 AT AT AT AT AT AT
1 AT AT AT AT AT AT
671677 GAAAGAGAGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:678965 original size:21 final size:21
Alignment explanation
Indices: 678939--678981 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
678929 AAAACCATAT
678939 TCCTTGATAGCCCTTATTTTG
1 TCCTTGATAGCCCTTATTTTG
678960 TCCTTGATAGCCCTTATTTTG
1 TCCTTGATAGCCCTTATTTTG
678981 T
1 T
678982 ACGTCAAGAG
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:0.23, G:0.14, T:0.49
Consensus pattern (21 bp):
TCCTTGATAGCCCTTATTTTG
Found at i:687651 original size:59 final size:60
Alignment explanation
Indices: 687546--687660 Score: 139
Period size: 59 Copynumber: 1.9 Consensus size: 60
687536 ATGAAATTTG
*
687546 AATGTTCAAAAAGTTTAGGGACTAATTTAGAATGAACATCATAGTTT-GGGATGAACCTGA
1 AATGTTCAAAAAGTTTAGGGACTAATTTAAAATGAACA-CATAGTTTAGGGATGAACCTGA
* *
687606 AATGTTC-AAAA-TTTTGAGGACTAATTTAAAATGATAGC-CATAGTTTAGGTATGAA
1 AATGTTCAAAAAGTTTAG-GGACTAATTTAAAATGA-A-CACATAGTTTAGGGATGAA
687661 ATTGGAACAT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
58 4 0.08
59 28 0.58
60 15 0.31
61 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (60 bp):
AATGTTCAAAAAGTTTAGGGACTAATTTAAAATGAACACATAGTTTAGGGATGAACCTGA
Found at i:689844 original size:3 final size:3
Alignment explanation
Indices: 689746--689833 Score: 133
Period size: 3 Copynumber: 29.7 Consensus size: 3
689736 AGTTGAACAC
* * *
689746 ATA ATA AAA ATA ACA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
689794 ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
689834 GCTATAATAA
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
2 2 0.03
3 76 0.97
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:695617 original size:21 final size:21
Alignment explanation
Indices: 695587--695678 Score: 96
Period size: 21 Copynumber: 4.4 Consensus size: 21
695577 GCTTTAACGT
695587 CTCATTTTCTAGTTGAAGTGC
1 CTCATTTTCTAGTTGAAGTGC
* *
695608 CTCGTTTTCTAGTTGAACTGC
1 CTCATTTTCTAGTTGAAGTGC
* * * *
695629 CTCGTATTTC-CGTTTAAGTGT
1 CTCAT-TTTCTAGTTGAAGTGC
* *
695650 CTCATTTTCTTGTTGATGTGC
1 CTCATTTTCTAGTTGAAGTGC
695671 CTCATTTT
1 CTCATTTT
695679 TCAGTTCAAG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
20 4 0.07
21 50 0.86
22 4 0.07
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.48
Consensus pattern (21 bp):
CTCATTTTCTAGTTGAAGTGC
Found at i:695690 original size:42 final size:42
Alignment explanation
Indices: 695587--695690 Score: 102
Period size: 42 Copynumber: 2.5 Consensus size: 42
695577 GCTTTAACGT
* *
695587 CTCA-TTTTCTAGTTGAAGTGCCTCGTTTTCTAGTTGAACTGC
1 CTCATTTTTC-AGTTCAAGTGCCTCATTTTCTAGTTGAACTGC
* * * * * * **
695629 CTCGTATTTCCGTTTAAGTGTCTCATTTTCTTGTTGATGTGC
1 CTCATTTTTCAGTTCAAGTGCCTCATTTTCTAGTTGAACTGC
695671 CTCATTTTTCAGTTCAAGTG
1 CTCATTTTTCAGTTCAAGTG
695691 ACTTCATATG
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
42 44 0.92
43 4 0.08
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.46
Consensus pattern (42 bp):
CTCATTTTTCAGTTCAAGTGCCTCATTTTCTAGTTGAACTGC
Found at i:696358 original size:77 final size:78
Alignment explanation
Indices: 696211--696568 Score: 495
Period size: 78 Copynumber: 4.6 Consensus size: 78
696201 ATTGGTGGAT
* * * * * * * * *
696211 ATGAAGCTTCAGATGTTTCGGCTTGAGTCTGGT-AATTGGAGCCTCCATCGGTCCATTGCTTATA
1 ATGAAGCTTCAGACGGTTCGACTCGAGTCTGGTCATTTTGAGCCTCCATCAGTCCACTGTTTATA
*
696275 GTTTTTGCTCGAA
66 GTTCTTGCTCGAA
* * *
696288 ATGAAGCTTCAGACGGTTCGACTGGAGTCTGGTCCTTTTGAGCCTCCACCAGTCCACTGTTTATA
1 ATGAAGCTTCAGACGGTTCGACTCGAGTCTGGTCATTTTGAGCCTCCATCAGTCCACTGTTTATA
696353 GTT-TTGCTCGAA
66 GTTCTTGCTCGAA
* * *
696365 ATGAAGCTTCAGATGGTTCGACTTGAGTCCGGTCATTTTGAGCCTCCATCAGTCCACTGTTTATA
1 ATGAAGCTTCAGACGGTTCGACTCGAGTCTGGTCATTTTGAGCCTCCATCAGTCCACTGTTTATA
*
696430 GTTCTTTCTCGAA
66 GTTCTTGCTCGAA
* * *
696443 ATGAAGCTTCATACGGTTCCACTCGAGTCTGGTCGTTTTGAGCCTCCATCAGTCCACTGTTTATA
1 ATGAAGCTTCAGACGGTTCGACTCGAGTCTGGTCATTTTGAGCCTCCATCAGTCCACTGTTTATA
696508 GTTCTTGCTCGAA
66 GTTCTTGCTCGAA
* * *
696521 ATGAAGCTTCATACGGTTCCACTCGAGTCTGGTCGTTTTGAGCCTCCA
1 ATGAAGCTTCAGACGGTTCGACTCGAGTCTGGTCATTTTGAGCCTCCA
696569 ATGATCCACC
Statistics
Matches: 255, Mismatches: 24, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
77 101 0.40
78 154 0.60
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (78 bp):
ATGAAGCTTCAGACGGTTCGACTCGAGTCTGGTCATTTTGAGCCTCCATCAGTCCACTGTTTATA
GTTCTTGCTCGAA
Found at i:696496 original size:155 final size:156
Alignment explanation
Indices: 696211--696568 Score: 524
Period size: 155 Copynumber: 2.3 Consensus size: 156
696201 ATTGGTGGAT
* * * * * *
696211 ATGAAGCTTCAGATGTTTCGGCTTGAGTCTGGT-AATTGGAGCCTCCATCGGTCCATTGCTTATA
1 ATGAAGCTTCAGATGGTTCGACTTGAGTCTGGTCATTTTGAGCCTCCATCAGTCCACTGCTTATA
* *
696275 GTTTTTGCTCGAAATGAAGCTTCAGACGGTTCGACTGGAGTCTGGTCCTTTTGAGCCTCCACCAG
66 GTTTTTGCTCGAAATGAAGCTTCAGACGGTTCCACTCGAGTCTGGTCCTTTTGAGCCTCCACCAG
696340 TCCACTGTTTATAGTT-TTGCTCGAA
131 TCCACTGTTTATAGTTCTTGCTCGAA
* *
696365 ATGAAGCTTCAGATGGTTCGACTTGAGTCCGGTCATTTTGAGCCTCCATCAGTCCACTGTTTATA
1 ATGAAGCTTCAGATGGTTCGACTTGAGTCTGGTCATTTTGAGCCTCCATCAGTCCACTGCTTATA
* * *
696430 GTTCTTT-CTCGAAATGAAGCTTCATACGGTTCCACTCGAGTCTGGTCGTTTTGAGCCTCCATCA
66 GTT-TTTGCTCGAAATGAAGCTTCAGACGGTTCCACTCGAGTCTGGTCCTTTTGAGCCTCCACCA
696494 GTCCACTGTTTATAGTTCTTGCTCGAA
130 GTCCACTGTTTATAGTTCTTGCTCGAA
* * * * *
696521 ATGAAGCTTCATACGGTTCCACTCGAGTCTGGTCGTTTTGAGCCTCCA
1 ATGAAGCTTCAGATGGTTCGACTTGAGTCTGGTCATTTTGAGCCTCCA
696569 ATGATCCACC
Statistics
Matches: 182, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
154 30 0.16
155 98 0.54
156 54 0.30
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (156 bp):
ATGAAGCTTCAGATGGTTCGACTTGAGTCTGGTCATTTTGAGCCTCCATCAGTCCACTGCTTATA
GTTTTTGCTCGAAATGAAGCTTCAGACGGTTCCACTCGAGTCTGGTCCTTTTGAGCCTCCACCAG
TCCACTGTTTATAGTTCTTGCTCGAA
Found at i:698747 original size:76 final size:75
Alignment explanation
Indices: 698605--698786 Score: 233
Period size: 76 Copynumber: 2.4 Consensus size: 75
698595 TACCCTTTAA
* * * * * * *
698605 AAAACCGTCCGAGTTGGAATTTTCGGGCGATTGGAGCATGTGGCTGTTGGTCGATAAATATATAT
1 AAAATCGTACGAGTTGGAATTATCGGGCGAATGAAGCATGTGGCCGTCGGTCGATAAATATATAT
698670 TAAAAAAA-G
66 TAAAAAAAGG
698679 AACAATCGTACGAGTTGAGAATTATCGGGCGAATGAAGC-TGATGGCCGTCGGTCGATAAATATA
1 AA-AATCGTACGAGTTG-GAATTATCGGGCGAATGAAGCATG-TGGCCGTCGGTCGATAAATATA
698743 TATTAAAAAAAGG
63 TATTAAAAAAAGG
* *
698756 AAAGTCGTGCGAGTTGGGAATTATCGGGCGA
1 AAAATCGTACGAGTT-GGAATTATCGGGCGA
698787 TTGGAGTAGA
Statistics
Matches: 94, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
74 2 0.02
75 14 0.15
76 74 0.79
77 4 0.04
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.25
Consensus pattern (75 bp):
AAAATCGTACGAGTTGGAATTATCGGGCGAATGAAGCATGTGGCCGTCGGTCGATAAATATATAT
TAAAAAAAGG
Found at i:716443 original size:26 final size:25
Alignment explanation
Indices: 716392--716448 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
716382 TATATTTTTT
*
716392 TAAATAATAAAAATATTATTTTTTAA
1 TAAA-AATAAAAATATTATTTATTAA
716418 TAAAAATAAAAA-ACTTAATTTATTAA
1 TAAAAATAAAAATA-TT-ATTTATTAA
*
716444 CAAAA
1 TAAAA
716449 GAACCTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 1 0.04
25 10 0.37
26 16 0.59
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAAAATAAAAATATTATTTATTAA
Found at i:726081 original size:27 final size:27
Alignment explanation
Indices: 726046--726101 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
726036 CCTTGGTAAT
* * *
726046 ATATTTTATACTTGTTTTTTTTAAATA
1 ATATCTTATACTTATTTTATTTAAATA
*
726073 ATATCTTATACTTATTTTATTTCAATA
1 ATATCTTATACTTATTTTATTTAAATA
726100 AT
1 AT
726102 TTTATTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (27 bp):
ATATCTTATACTTATTTTATTTAAATA
Found at i:726687 original size:25 final size:25
Alignment explanation
Indices: 726659--726740 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 25
726649 ATATGTTTCT
726659 TGGTTAGATTTAATCTTTCCTTGTA
1 TGGTTAGATTTAATCTTTCCTTGTA
* * * * * *
726684 TGGTTATTATGTGATC-TTCGTGTTTCT
1 TGGTTA-GATTTAATCTTTCCT-TGT-A
*
726711 TGGTTAGATTTAATCTTTCTTTGTA
1 TGGTTAGATTTAATCTTTCCTTGTA
726736 TGGTT
1 TGGTT
726741 CTTATGTGAC
Statistics
Matches: 41, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
25 15 0.37
26 16 0.39
27 10 0.24
ACGTcount: A:0.16, C:0.10, G:0.20, T:0.55
Consensus pattern (25 bp):
TGGTTAGATTTAATCTTTCCTTGTA
Found at i:737819 original size:2 final size:2
Alignment explanation
Indices: 737806--737843 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
737796 AAGGGATAGC
*
737806 AT AT AA 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
737844 CCAGGACCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:740787 original size:17 final size:18
Alignment explanation
Indices: 740752--740789 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
740742 TAAAATTCAA
* *
740752 ATTATGTTATATTATTTT
1 ATTATGTTATATGAATTT
740770 ATTAT-TTATATGAATTT
1 ATTATGTTATATGAATTT
740787 ATT
1 ATT
740790 TCAGTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (18 bp):
ATTATGTTATATGAATTT
Found at i:741292 original size:40 final size:37
Alignment explanation
Indices: 741229--741313 Score: 116
Period size: 40 Copynumber: 2.2 Consensus size: 37
741219 AAAACAACAT
*
741229 TAAATTTTCAACATGAATACTAAAATGAAACAAAAAT
1 TAAATTTTCAACATGAATACTAAAATGAAACAAAAAC
* *
741266 TAAAATTTTTAACAGTGCAGTACTAAAATGAAACAAAAAC
1 T-AAATTTTCAACA-TG-AATACTAAAATGAAACAAAAAC
741306 TAAATTTT
1 TAAATTTT
741314 AGGTATGATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
37 1 0.02
38 11 0.26
39 9 0.21
40 21 0.50
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.29
Consensus pattern (37 bp):
TAAATTTTCAACATGAATACTAAAATGAAACAAAAAC
Found at i:743286 original size:29 final size:29
Alignment explanation
Indices: 743244--743302 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
743234 AACCCATACC
743244 TCGCTTTTCAGCTTACTTAGTAATGCACA
1 TCGCTTTTCAGCTTACTTAGTAATGCACA
743273 TCGCTTTTCAGCTTACTTAGTAATGCACA
1 TCGCTTTTCAGCTTACTTAGTAATGCACA
743302 T
1 T
743303 TAAGATAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.39
Consensus pattern (29 bp):
TCGCTTTTCAGCTTACTTAGTAATGCACA
Found at i:743665 original size:88 final size:88
Alignment explanation
Indices: 743512--743692 Score: 328
Period size: 88 Copynumber: 2.1 Consensus size: 88
743502 TAAACAAAGC
*
743512 TTCA-TAAAACTAACCTCTACATACCATATACTACAAATATTCGAAACATCAAGCAAGCAAAATC
1 TTCATTAAAACTAACCTCTACATACCATATACTACAAATATTCAAAACATCAAGCAAGCAAAATC
*
743576 ATATTAGACAATCAAGCCAATGA
66 ATATTAGACAATCAAGCAAATGA
*
743599 TTCATTAAAACTAAGCTCTACATACCATATACTACAAATATTCAAAACATCAAGCAAGCAAAATC
1 TTCATTAAAACTAACCTCTACATACCATATACTACAAATATTCAAAACATCAAGCAAGCAAAATC
743664 ATATTAGACAATCAAGCAAATGA
66 ATATTAGACAATCAAGCAAATGA
743687 TTCATT
1 TTCATT
743693 CTTAATCACA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
87 4 0.04
88 86 0.96
ACGTcount: A:0.47, C:0.22, G:0.07, T:0.25
Consensus pattern (88 bp):
TTCATTAAAACTAACCTCTACATACCATATACTACAAATATTCAAAACATCAAGCAAGCAAAATC
ATATTAGACAATCAAGCAAATGA
Found at i:746224 original size:21 final size:17
Alignment explanation
Indices: 746181--746214 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
746171 TGTTGATACA
746181 ATCATACACAATTAATG
1 ATCATACACAATTAATG
746198 ATCATACACAATTAATG
1 ATCATACACAATTAATG
746215 GATGAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (17 bp):
ATCATACACAATTAATG
Found at i:755207 original size:14 final size:14
Alignment explanation
Indices: 755196--755230 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
755186 AAAATAAATT
755196 ATATTTTCTAAAAA
1 ATATTTTCTAAAAA
*
755210 ATATTTTCTGAAAA
1 ATATTTTCTAAAAA
*
755224 ATGTTTT
1 ATATTTT
755231 ATTTGAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (14 bp):
ATATTTTCTAAAAA
Found at i:755358 original size:23 final size:23
Alignment explanation
Indices: 755307--755364 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
755297 AAATATAAAA
*
755307 TATAATAAA-TAATATTTTTTAT
1 TATAAAAAATTAATATTTTTTAT
*
755329 TATAAAAAATTAATA-TTATTAT
1 TATAAAAAATTAATATTTTTTAT
*
755351 TTTAAAAATATTAA
1 TATAAAAA-ATTAA
755365 AATAATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 21 0.68
23 10 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TATAAAAAATTAATATTTTTTAT
Found at i:755377 original size:23 final size:22
Alignment explanation
Indices: 755324--755378 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
755314 AATAATATTT
* *
755324 TTTATTATAAAAAATTAATATTA
1 TTTATT-TAAAAAATTAAAATAA
755347 -TTATTTTAAAAATATTAAAATAA
1 TTTA-TTTAAAAA-ATTAAAATAA
755370 TTTATTTAA
1 TTTATTTAA
755379 TACTATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 9 0.33
23 15 0.56
24 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTATTTAAAAAATTAAAATAA
Found at i:759358 original size:41 final size:41
Alignment explanation
Indices: 759298--759696 Score: 123
Period size: 41 Copynumber: 9.7 Consensus size: 41
759288 TATCATTTTA
*
759298 TAGCGAC-TTTTTCTAAAAAATGCCACTAAAGTACAAGTTTG
1 TAGCGACGTTTGT-TAAAAAATGCCACTAAAGTACAAGTTTG
* * * * * * *
759339 TCGCGACGTTTGTTTAAAAATGCCACTATA-TATGAAATCTA
1 TAGCGACGTTTGTTAAAAAATGCCACTAAAGTA-CAAGTTTG
* * * * *
759380 TTGCGGCGTTT-TCTAAAAAACGCCATTAAGGTACAAGTTTG
1 TAGCGACGTTTGT-TAAAAAATGCCACTAAAGTACAAGTTTG
* * *
759421 TAGCGACGTTTGTTCAAAAATGCCATTATATA-TGA-AACCTATTG
1 TAGCGACGTTTGTTAAAAAATGCCACTA-A-AGT-ACAA-GT-TTG
*
759465 T-G-G-TGTTTGTGTAAAAACA--CCACTAAAGTACCAA-TTTG
1 TAGCGACGTTTGT-TAAAAA-ATGCCACTAAAGTA-CAAGTTTG
* * * * * * ** *
759503 TTGCAACGATTGTTTAAAAACGCCACGATATATGTAC-CCTAT-
1 TAGCGACGTTTGTTAAAAAATGCCAC--TA-AAGTACAAGTTTG
* * *
759545 TA-CGACGTTTGTCT-AAAAATGCCACTAAA-TAACTATTTTT
1 TAGCGACGTTTGT-TAAAAAATGCCACTAAAGT-ACAAGTTTG
* * * ** * * *
759585 TGGCGGCGTTTGTTTAAAAACACCATTAAAGTACTTA-TCTG
1 TAGCGACGTTTGTTAAAAAATGCCACTAAAGTAC-AAGTTTG
* * *
759626 TAGCGGCGTTTGTCAAATAAACGCCACTAAAGTACAAGTTT-
1 TAGCGACGTTTGTTAAA-AAATGCCACTAAAGTACAAGTTTG
** *
759667 TAGCGGGGTTTGTAAAAAAATGCCACTAAA
1 TAGCGACGTTTGTTAAAAAATGCCACTAAA
759697 TCATAACATT
Statistics
Matches: 264, Mismatches: 60, Indels: 69
0.67 0.15 0.18
Matches are distributed among these distances:
37 1 0.00
38 7 0.03
39 9 0.03
40 24 0.09
41 167 0.63
42 39 0.15
43 9 0.03
44 8 0.03
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (41 bp):
TAGCGACGTTTGTTAAAAAATGCCACTAAAGTACAAGTTTG
Found at i:759414 original size:82 final size:83
Alignment explanation
Indices: 759309--759694 Score: 322
Period size: 82 Copynumber: 4.7 Consensus size: 83
759299 AGCGACTTTT
* *
759309 TCTAAAAAATGCCACTAAAGTACAAGTTTGTCGCGACGTTTGTTTAAAAATGCCACTATATATGA
1 TCTAAAAAACGCCACTAAAGTACAAGTTTGTAGCGACGTTTGTTTAAAAATGCCACTATATATGA
*
759374 AATCTATTGCGGCGTTT-
66 AACCTATTGCGGCGTTTG
* * * *
759391 TCTAAAAAACGCCATTAAGGTACAAGTTTGTAGCGACGTTTGTTCAAAAATGCCATTATATATGA
1 TCTAAAAAACGCCACTAAAGTACAAGTTTGTAGCGACGTTTGTTTAAAAATGCCACTATATATGA
* *
759456 AACCTATTGTGGTGTTTG
66 AACCTATTGCGGCGTTTG
* * * * * * *
759474 TGT-AAAAACACCACTAAAGTACCAA-TTTGTTGCAACGATTGTTTAAAAACGCCACGATATATG
1 TCTAAAAAACGCCACTAAAGTA-CAAGTTTGTAGCGACGTTTGTTTAAAAATGCCACTATATATG
* * * *
759537 TACCCTATTACGACGTTTG
65 AAACCTATTGCGGCGTTTG
* * * * * * ** * *
759556 TCT-AAAAATGCCACTAAA-TAACTATTTTTTGGCGGCGTTTGTTTAAAAACACCATTAAAGTAC
1 TCTAAAAAACGCCACTAAAGT-ACAAGTTTGTAGCGACGTTTGTTTAAAAATGCCACTATA-TA-
* * * *
759619 T--TATCTGTAGCGGCGTTTG
63 TGAAACCTATTGCGGCGTTTG
** **
759638 TC-AAATAAACGCCACTAAAGTACAAGTTT-TAGCGGGGTTTGTAAAAAAATGCCACTA
1 TCTAAA-AAACGCCACTAAAGTACAAGTTTGTAGCGACGTTTGTTTAAAAATGCCACTA
759695 AATCATAACA
Statistics
Matches: 239, Mismatches: 56, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
81 3 0.01
82 209 0.87
83 25 0.10
84 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (83 bp):
TCTAAAAAACGCCACTAAAGTACAAGTTTGTAGCGACGTTTGTTTAAAAATGCCACTATATATGA
AACCTATTGCGGCGTTTG
Found at i:760220 original size:13 final size:13
Alignment explanation
Indices: 760192--760223 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
760182 TGTCATTACT
760192 AATA-AAAATAAG
1 AATAGAAAATAAG
760204 -ATAGAAAATAAG
1 AATAGAAAATAAG
760216 AATAGAAA
1 AATAGAAA
760224 TATATACCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 8 0.44
13 7 0.39
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
AATAGAAAATAAG
Found at i:760857 original size:2 final size:2
Alignment explanation
Indices: 760850--760887 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
760840 ATTAGTTTGA
760850 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
760888 GAGTGAACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:771262 original size:42 final size:42
Alignment explanation
Indices: 771210--771298 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
771200 CTTAATATTA
* *
771210 AAAAATTAATATCTAATTTAAAATTTTATGTTTAAACACTTG
1 AAAAACTAATATCTAATTTAAAATTTTATGTCTAAACACTTG
*
771252 AAAAACTAATATCTGATTTAAAATTTTATGTCTAAACACTTG
1 AAAAACTAATATCTAATTTAAAATTTTATGTCTAAACACTTG
771294 AAAAA
1 AAAAA
771299 AAAATACATA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (42 bp):
AAAAACTAATATCTAATTTAAAATTTTATGTCTAAACACTTG
Found at i:777215 original size:32 final size:32
Alignment explanation
Indices: 777168--777228 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
777158 TTAGACTTTG
*
777168 GACTGTGGACATTGTTTACTT-AACTTTAGTTA
1 GACTATGGACATTGTTTA-TTGAACTTTAGTTA
*
777200 GACTATGGACGTTGTTTATTGAACTTTAG
1 GACTATGGACATTGTTTATTGAACTTTAG
777229 ACCTTGATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 2 0.08
32 24 0.92
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.43
Consensus pattern (32 bp):
GACTATGGACATTGTTTATTGAACTTTAGTTA
Found at i:779152 original size:6 final size:6
Alignment explanation
Indices: 779141--779170 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
779131 TGCTCTGCGC
*
779141 CCTCTA CCTCTA CCTCTG CCTCTA CCTCTA
1 CCTCTA CCTCTA CCTCTA CCTCTA CCTCTA
779171 GTAGCTGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.13, C:0.50, G:0.03, T:0.33
Consensus pattern (6 bp):
CCTCTA
Found at i:781740 original size:29 final size:29
Alignment explanation
Indices: 781685--781740 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
781675 TCAGTACGCT
* *
781685 AAATAAAAAAATTAAAAGTATAGTGAATA
1 AAATAAAAAAAATAAAAGTATAATGAATA
*
781714 AAATAAGAAAAAAT-AAAGTTTAATGAA
1 AAATAA-AAAAAATAAAAGTATAATGAA
781741 AAACGGTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 17 0.74
30 6 0.26
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (29 bp):
AAATAAAAAAAATAAAAGTATAATGAATA
Found at i:782488 original size:2 final size:2
Alignment explanation
Indices: 782481--782556 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
782471 TATTTTTGAC
782481 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
782523 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
782557 AGAAACCTAA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:783636 original size:23 final size:24
Alignment explanation
Indices: 783606--783657 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
783596 CTGAATGATT
*
783606 CAGTGCTGACTGATTCAGCA-AAA
1 CAGTGCTGAATGATTCAGCACAAA
*
783629 CAGTGCTGAATGATTTAGCACAAA
1 CAGTGCTGAATGATTCAGCACAAA
783653 -AGTGC
1 CAGTGC
783658 ATTTTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (24 bp):
CAGTGCTGAATGATTCAGCACAAA
Found at i:783764 original size:15 final size:16
Alignment explanation
Indices: 783726--783766 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
783716 TCAGAGCCTC
*
783726 TGAATCATTCAGCATT
1 TGAATCATTCAGCACT
*
783742 TGAATCATTCAGCGCT
1 TGAATCATTCAGCACT
783758 T-AATCATTC
1 TGAATCATTC
783767 TGAAATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (16 bp):
TGAATCATTCAGCACT
Found at i:785791 original size:23 final size:23
Alignment explanation
Indices: 785765--785833 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
785755 CACCACAGCT
*
785765 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
785788 CGTAGAATTGCACCTAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
785811 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
785834 TATAAGATGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:785943 original size:20 final size:20
Alignment explanation
Indices: 785920--785958 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
785910 CAAAAGACCT
*
785920 CATAGATGTTCCAAAGGATA
1 CATAGATGTCCCAAAGGATA
* *
785940 CATATATGTCCCGAAGGAT
1 CATAGATGTCCCAAAGGAT
785959 TGCGTAGACC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (20 bp):
CATAGATGTCCCAAAGGATA
Found at i:787031 original size:20 final size:20
Alignment explanation
Indices: 787006--787060 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
786996 TCGGATTCTC
787006 ATGCATCGATGCACCCCTTA
1 ATGCATCGATGCACCCCTTA
787026 ATGCATCGATGCACCCCTTA
1 ATGCATCGATGCACCCCTTA
*
787046 ATACATCGATGCACC
1 ATGCATCGATGCACC
787061 TTCAAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.24
Consensus pattern (20 bp):
ATGCATCGATGCACCCCTTA
Found at i:796313 original size:24 final size:24
Alignment explanation
Indices: 796273--796325 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
796263 CTCGGGTTCT
*
796273 TCTTCCTTTTCAGTTTCTTCCTCC
1 TCTTCCTTTTCAGTTTCTTCATCC
* *
796297 TCTTCCTCTTTC-TTTTCTTCATCT
1 TCTTCCT-TTTCAGTTTCTTCATCC
796321 TCTTC
1 TCTTC
796326 AGGAGGGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.04, C:0.36, G:0.02, T:0.58
Consensus pattern (24 bp):
TCTTCCTTTTCAGTTTCTTCATCC
Found at i:800561 original size:19 final size:19
Alignment explanation
Indices: 800539--800587 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
800529 TTTTTTTCTC
*
800539 TAAAATTA-ACCCTTAAATT
1 TAAAATTATACCC-TAAATA
* *
800558 TAAATTTATTCCCTAAATA
1 TAAAATTATACCCTAAATA
800577 TAAAATTATAC
1 TAAAATTATAC
800588 GTTCATTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 21 0.88
20 3 0.12
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAATTATACCCTAAATA
Found at i:804279 original size:42 final size:43
Alignment explanation
Indices: 804189--804331 Score: 146
Period size: 43 Copynumber: 3.3 Consensus size: 43
804179 AAAAATGCCA
* * * *
804189 CAAAAGGTCAAGATTTATAGTGTCATTTTTTGAACAAACGCCAG
1 CAAAAGGTCAAGATCTATAGCGGCATTTTTCGAACAAACG-CAG
* * **
804233 -AAAA-GTTAAGATCTATAGCGGCATTTTTGGAACAAACGTTG
1 CAAAAGGTCAAGATCTATAGCGGCATTTTTCGAACAAACGCAG
* ** *
804274 CAAAAGGTCAATATCTATAGCGGTGTTTTTCGAACAAACGCCG
1 CAAAAGGTCAAGATCTATAGCGGCATTTTTCGAACAAACGCAG
804317 CAAAAGGTCAGAGAT
1 CAAAAGGTCA-AGAT
804332 AAAAATGCAG
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 33 0.41
43 44 0.54
44 3 0.04
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (43 bp):
CAAAAGGTCAAGATCTATAGCGGCATTTTTCGAACAAACGCAG
Found at i:813401 original size:23 final size:23
Alignment explanation
Indices: 813375--813436 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
813365 AGAGCTTTGC
* *
813375 AGAGAGTTTTACCGTGAGATTGG
1 AGAGAGCTTTACCGTGAGACTGG
813398 AGAGAGCTTTACCGTGAGACTGG
1 AGAGAGCTTTACCGTGAGACTGG
* *
813421 AGAGAACTTTGCCGTG
1 AGAGAGCTTTACCGTG
813437 GGAGGGAGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.26
Consensus pattern (23 bp):
AGAGAGCTTTACCGTGAGACTGG
Found at i:822230 original size:22 final size:20
Alignment explanation
Indices: 822213--822250 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
822203 CAATTTGATC
822213 ATAATTTTA-ATTCAATTTA
1 ATAATTTTATATTCAATTTA
822232 ATAATTTTATTATTCAATT
1 ATAATTTTA-TATTCAATT
822251 ATACAGTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
21 8 0.47
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
ATAATTTTATATTCAATTTA
Found at i:824287 original size:24 final size:23
Alignment explanation
Indices: 824264--824327 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 23
824254 CTCCACCTTC
824264 CTCAACCCCATCGCCTCCTTC-T
1 CTCAACCCCATCGCCTCCTTCTT
* *
824286 -TCAACTCCATCGCCTCCTTCTA
1 CTCAACCCCATCGCCTCCTTCTT
* *
824308 CATCTACCCCTTCGCCTCCT
1 C-TCAACCCCATCGCCTCCT
824328 AGATCTACTC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 19 0.56
24 15 0.44
ACGTcount: A:0.14, C:0.52, G:0.05, T:0.30
Consensus pattern (23 bp):
CTCAACCCCATCGCCTCCTTCTT
Found at i:824306 original size:21 final size:21
Alignment explanation
Indices: 824259--824306 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
824249 TGCATCTCCA
*
824259 CCTTCCTCAACCCCATCGCCT
1 CCTTCTTCAACCCCATCGCCT
*
824280 CCTTCTTCAACTCCATCGCCT
1 CCTTCTTCAACCCCATCGCCT
824301 CCTTCT
1 CCTTCT
824307 ACATCTACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.12, C:0.52, G:0.04, T:0.31
Consensus pattern (21 bp):
CCTTCTTCAACCCCATCGCCT
Found at i:852150 original size:32 final size:31
Alignment explanation
Indices: 852076--852162 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 31
852066 TGATAAATTT
* *
852076 TAATAAATTTAAGGATTATTTTATAATAATT
1 TAATAAATTTAATGATTATTTTATAATAATA
*
852107 TAATAAA-TTAATGATTATATTT-TAATAGTA
1 TAATAAATTTAATGATTAT-TTTATAATAATA
* *
852137 TGATAAAATTTAATAATTATTTTATA
1 TAAT-AAATTTAATGATTATTTTATA
852163 TTTTTAGAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
30 19 0.40
31 16 0.34
32 12 0.26
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (31 bp):
TAATAAATTTAATGATTATTTTATAATAATA
Found at i:858780 original size:21 final size:21
Alignment explanation
Indices: 858754--858798 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
858744 GATTTTTGGG
* *
858754 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
858775 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
858796 CAA
1 CAA
858799 ACGAACAAAA
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:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:860535 original size:149 final size:149
Alignment explanation
Indices: 860354--860668 Score: 560
Period size: 149 Copynumber: 2.1 Consensus size: 149
860344 GAGTCGAGGG
* *
860354 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
* *
860419 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTACTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATAGACATTATTA
*
860484 TATGGCACTACGGTGCAAT
131 TATGGCAATACGGTGCAAT
*
860503 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
860568 ACTTGATCCCTACTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATAGACATTATTA
66 ACTTGATCCCTACTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATAGACATTATTA
860633 TATGGCAATACGGTGCAAT
131 TATGGCAATACGGTGCAAT
860652 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
860669 TGCAATTATA
Statistics
Matches: 159, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
148 1 0.01
149 158 0.99
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTACTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATAGACATTATTA
TATGGCAATACGGTGCAAT
Found at i:861529 original size:19 final size:19
Alignment explanation
Indices: 861464--861530 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 19
861454 ACTCATTCTT
* *
861464 AAATTCAGAGCTTGTTTTC
1 AAATTCATAGCTTATTTTC
** * *
861483 GGACTCATAACTTA-TTTC
1 AAATTCATAGCTTATTTTC
* *
861501 AGATTAATAGCTTATTTTC
1 AAATTCATAGCTTATTTTC
861520 AAATTCATAGC
1 AAATTCATAGC
861531 CCAATGCATA
Statistics
Matches: 35, Mismatches: 12, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
18 14 0.40
19 21 0.60
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.40
Consensus pattern (19 bp):
AAATTCATAGCTTATTTTC
Found at i:863899 original size:28 final size:28
Alignment explanation
Indices: 863867--863921 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
863857 TAATTTCATG
863867 ATAATTTGTCATTTATTAAGCTTAAATC
1 ATAATTTGTCATTTATTAAGCTTAAATC
863895 ATAATTTGTCATTTATTAAGCTTAAAT
1 ATAATTTGTCATTTATTAAGCTTAAAT
863922 GAATTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.47
Consensus pattern (28 bp):
ATAATTTGTCATTTATTAAGCTTAAATC
Found at i:864570 original size:14 final size:15
Alignment explanation
Indices: 864545--864573 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
864535 GGGTATTAAA
864545 AATATATAAATATTT
1 AATATATAAATATTT
864560 AATAT-TAAATATTT
1 AATATATAAATATTT
864574 TTTGTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATATAAATATTT
Found at i:864651 original size:2 final size:2
Alignment explanation
Indices: 864644--864669 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
864634 CAGCTAAATA
864644 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
864670 TATTAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:866620 original size:21 final size:21
Alignment explanation
Indices: 866594--866636 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
866584 AATTAGACAA
866594 CATGGTGTATATATTTTGTAT
1 CATGGTGTATATATTTTGTAT
*
866615 CATGGTGTATGTATTTTGTAT
1 CATGGTGTATATATTTTGTAT
866636 C
1 C
866637 TTAGTATATA
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:0.21, C:0.07, G:0.21, T:0.51
Consensus pattern (21 bp):
CATGGTGTATATATTTTGTAT
Found at i:866740 original size:27 final size:25
Alignment explanation
Indices: 866688--866752 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 25
866678 TAACACAAAA
* *
866688 AAATATTTTTTA-TATTAAGTTATT
1 AAATATATTTTATTATTAACTTATT
866712 AAATATATTTTATTATTAACTTAATTT
1 AAATATATTTTATTATTAACTT-A-TT
*
866739 AAAAATATTTTATT
1 AAATATATTTTATT
866753 TTATTTTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.31
25 8 0.23
26 1 0.03
27 15 0.43
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (25 bp):
AAATATATTTTATTATTAACTTATT
Found at i:866771 original size:26 final size:26
Alignment explanation
Indices: 866710--866786 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
866700 TATTAAGTTA
* *
866710 TTAAATATATTTTATTATTAACTTAAT
1 TTAAAAATATTTTATT-TTATCTTAAT
* *
866737 TTAAAAATATTTTATTTTATTTTCAT
1 TTAAAAATATTTTATTTTATCTTAAT
* *
866763 TTAAAAATA-TATATTTTATGTTAA
1 TTAAAAATATTTTATTTTATCTTAA
866787 AATTTACTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 12 0.28
26 16 0.37
27 15 0.35
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (26 bp):
TTAAAAATATTTTATTTTATCTTAAT
Found at i:866979 original size:31 final size:31
Alignment explanation
Indices: 866906--866980 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
866896 TAACCTGTGA
* * *
866906 TGACCACATCTTAATTGAATAAAAATGAAAG
1 TGACCAAATCTTAATTAAATAAAAACGAAAG
* * * *
866937 TAATCATATCTTAATTAAATAAGAACGAAAG
1 TGACCAAATCTTAATTAAATAAAAACGAAAG
866968 TGACCAAATCTTA
1 TGACCAAATCTTA
866981 TGTTTTTTGA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (31 bp):
TGACCAAATCTTAATTAAATAAAAACGAAAG
Found at i:867580 original size:21 final size:21
Alignment explanation
Indices: 867551--867598 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
867541 CCTAATATTG
867551 CAATATCAAAATTAGGTGCAA
1 CAATATCAAAATTAGGTGCAA
*
867572 CAATGTCAAAATTAGGTGCAA
1 CAATATCAAAATTAGGTGCAA
*
867593 TAATAT
1 CAATAT
867599 TTGAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (21 bp):
CAATATCAAAATTAGGTGCAA
Found at i:872236 original size:21 final size:21
Alignment explanation
Indices: 872211--872258 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
872201 CCTAATATTG
872211 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
872232 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
*
872253 TAATGT
1 CAATGT
872259 TTGAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:878532 original size:135 final size:137
Alignment explanation
Indices: 878305--878576 Score: 485
Period size: 135 Copynumber: 2.0 Consensus size: 137
878295 AGAAAGGCCC
* *
878305 CCAGCAGTGTATTGAAGGCCATAACAATGTCGTACTTGACTGGAAGTAAATTTATGTTACGACAC
1 CCAGCAGTGTATTCAAGGCCATAACAATGTCATACTTGACTGGAAGTAAATTTATGTTACGACAC
* * *
878370 TGAAGAAATGTTTTACGCTTCAGCTCTGACTAGAAGTAGCAGGATTGGTACCTGG-AAT-TCGTT
66 TGAAAAAATGTTTTACGCTTCAACTCTGACTAGAAGCAGCAGGATTGGTACCTGGAAATGTCGTT
878433 AAACCAT
131 AAACCAT
878440 CCAGCAGTGTATTCAAGGCCATAACAATGTCATACTTGACTGGAAGTAAATTTATGTTACGACAC
1 CCAGCAGTGTATTCAAGGCCATAACAATGTCATACTTGACTGGAAGTAAATTTATGTTACGACAC
878505 TGAAAAAATGTTTTACGCTTCAACTCTGACTAGAAGCAGCAGGATTGGTACCTGGAAATGTCGTT
66 TGAAAAAATGTTTTACGCTTCAACTCTGACTAGAAGCAGCAGGATTGGTACCTGGAAATGTCGTT
878570 AAACCAT
131 AAACCAT
878577 TGTTATTATC
Statistics
Matches: 130, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
135 115 0.88
136 3 0.02
137 12 0.09
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (137 bp):
CCAGCAGTGTATTCAAGGCCATAACAATGTCATACTTGACTGGAAGTAAATTTATGTTACGACAC
TGAAAAAATGTTTTACGCTTCAACTCTGACTAGAAGCAGCAGGATTGGTACCTGGAAATGTCGTT
AAACCAT
Found at i:879219 original size:2 final size:2
Alignment explanation
Indices: 879212--879241 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
879202 AACAAATCCA
879212 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
879242 CATTCCTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:885573 original size:18 final size:17
Alignment explanation
Indices: 885540--885573 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
885530 GAACAATTAA
885540 ATAAAATATCAAAATAT
1 ATAAAATATCAAAATAT
*
885557 ATAAAATCATTAAAATA
1 ATAAAAT-ATCAAAATA
885574 AAACAGACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATATCAAAATAT
Found at i:888577 original size:19 final size:21
Alignment explanation
Indices: 888544--888582 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
888534 TGTAAATTAA
*
888544 TGTTAGAGTGATG-AATTTGG
1 TGTTAGAATGATGAAATTTGG
888564 TGTTAGAATG-TGAAATTTG
1 TGTTAGAATGATGAAATTTG
888583 ACTAATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (21 bp):
TGTTAGAATGATGAAATTTGG
Found at i:890264 original size:19 final size:19
Alignment explanation
Indices: 890242--890314 Score: 58
Period size: 19 Copynumber: 3.9 Consensus size: 19
890232 GTTATTAACT
890242 TGAAAATAAGTTATGAATA
1 TGAAAATAAGTTATGAATA
* * *
890261 TG-AAATAAGTTTTGAGTC
1 TGAAAATAAGTTATGAATA
* * * *
890279 CGAAAAAAAATTATGAATT
1 TGAAAATAAGTTATGAATA
* *
890298 TGAAAATGAGTTCTGAA
1 TGAAAATAAGTTATGAA
890315 ATGTGAAAGT
Statistics
Matches: 39, Mismatches: 14, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
18 14 0.36
19 25 0.64
ACGTcount: A:0.47, C:0.04, G:0.18, T:0.32
Consensus pattern (19 bp):
TGAAAATAAGTTATGAATA
Found at i:890367 original size:25 final size:27
Alignment explanation
Indices: 890311--890368 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
890301 AAATGAGTTC
*
890311 TGAAATGTGAAAGTTCGTATTATAAAAA
1 TGAAATGTGAAAG-TCGTACTATAAAAA
*
890339 TGAAATGTGAAAG-CG-ACTATAAAAG
1 TGAAATGTGAAAGTCGTACTATAAAAA
890364 TGAAA
1 TGAAA
890369 GATGAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 13 0.46
26 2 0.07
28 13 0.46
ACGTcount: A:0.48, C:0.05, G:0.21, T:0.26
Consensus pattern (27 bp):
TGAAATGTGAAAGTCGTACTATAAAAA
Found at i:890441 original size:18 final size:18
Alignment explanation
Indices: 890418--890482 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
890408 TGAAAAAGAA
890418 TATGATATGACTATTATG
1 TATGATATGACTATTATG
** *
890436 TATGATATTGTTTATCATGG
1 TATGATA-TGACTATTAT-G
* *
890456 CTTTGATACGACTATTATG
1 -TATGATATGACTATTATG
890475 TATGATAT
1 TATGATAT
890483 TGTTTATCAT
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
18 13 0.38
19 8 0.24
20 7 0.21
21 6 0.18
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (18 bp):
TATGATATGACTATTATG
Found at i:890469 original size:39 final size:39
Alignment explanation
Indices: 890420--890502 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
890410 AAAAAGAATA
* *
890420 TGATATGACTATTATGTATGATATTGTTTATCATGGCTT
1 TGATACGACTATTATGTATGATATTGTTTATCATGACTT
*
890459 TGATACGACTATTATGTATGATATTGTTTATCATGATTT
1 TGATACGACTATTATGTATGATATTGTTTATCATGACTT
890498 TGATA
1 TGATA
890503 AAATCATGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (39 bp):
TGATACGACTATTATGTATGATATTGTTTATCATGACTT
Found at i:900139 original size:4 final size:4
Alignment explanation
Indices: 900132--900158 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
900122 CGTCAAATAA
900132 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
900159 AATGAGGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:901176 original size:111 final size:111
Alignment explanation
Indices: 900982--901203 Score: 399
Period size: 111 Copynumber: 2.0 Consensus size: 111
900972 TGGAAATCAT
*
900982 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* * *
901047 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATAATTATTAGAGTAAGAATTAA
901093 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
901158 TAATTAGTTGATTTATTTAATGTATAATTATTAGAGTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATAATTATTAGAGTAAGAATTAA
901204 TTTTTGTAAC
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 106 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATAATTATTAGAGTAAGAATTAA
Found at i:904837 original size:12 final size:12
Alignment explanation
Indices: 904820--904851 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
904810 ATTTATAAGA
904820 GAGGAGAGATGT
1 GAGGAGAGATGT
904832 GA-G-GAGATGT
1 GAGGAGAGATGT
904842 GAGGAGAGAT
1 GAGGAGAGAT
904852 ACGAGAACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.50
11 2 0.11
12 7 0.39
ACGTcount: A:0.34, C:0.00, G:0.50, T:0.16
Consensus pattern (12 bp):
GAGGAGAGATGT
Found at i:911652 original size:64 final size:63
Alignment explanation
Indices: 911578--911805 Score: 212
Period size: 64 Copynumber: 3.6 Consensus size: 63
911568 TTATATGAAT
* *** *
911578 GTGCATCGATGCATTGGTAGTGCATCGATGCACTATTTTTAAATAAT-AACATCGAATGTAATTC
1 GTGCATCGATGCATAGGTAGTGCATCGATGCA-TACCGTT-AATAATAAACATCGAATGCAATTC
* * *
911642 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCGTTAATAATGAAACATCGAATGCAATTG
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATACCGTTAATAAT-AAACATCGAATGCAATTC
* *** * * * *
911706 GTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAACAATAATACTACATCGAATAC-CTTT
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCATACCGTTAATAATA-AACATCGAATGCAATTC
*
911769 GATGCACCGATGCATCA-GTAGTGCATCGATGCATACC
1 G-TGCATCGATGCAT-AGGTAGTGCATCGATGCATACC
911806 TTCATTAAAA
Statistics
Matches: 139, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
62 6 0.04
63 8 0.06
64 123 0.88
65 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (63 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCATACCGTTAATAATAAACATCGAATGCAATTC
Found at i:912126 original size:12 final size:12
Alignment explanation
Indices: 912096--912145 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
912086 ATATGCATAA
912096 GACATGT-ATAT
1 GACATGTGATAT
*
912107 GTTCATGTGATAT
1 G-ACATGTGATAT
*
912120 GATATGTGATAT
1 GACATGTGATAT
912132 GACATGTGATAT
1 GACATGTGATAT
912144 GA
1 GA
912146 GAACACGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
11 1 0.03
12 27 0.82
13 5 0.15
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (12 bp):
GACATGTGATAT
Found at i:912310 original size:15 final size:15
Alignment explanation
Indices: 912290--912336 Score: 94
Period size: 15 Copynumber: 3.1 Consensus size: 15
912280 GAGGGTATAA
912290 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
912305 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
912320 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
912335 TA
1 TA
912337 ATGGTCCTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.15, C:0.19, G:0.32, T:0.34
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:918613 original size:64 final size:63
Alignment explanation
Indices: 918539--918766 Score: 212
Period size: 64 Copynumber: 3.6 Consensus size: 63
918529 TTATATGAAT
* *** * *
918539 GTGCATCGATGCATTGGTAGTGCATCGATGCACTATTTTTAAATAAT-AACATCGAATGTAATTC
1 GTGCATCGATGCATAGGTAGTGCATCGATGCA-TACCGTT-AATAATAAACATCGAATGCAATTA
* *
918603 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCGTTAATAATGAAACATCGAATGCAATTA
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATACCGTTAATAAT-AAACATCGAATGCAATTA
* *** * * * *
918667 GTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAACAATAATACTACATCGAATAC-CTTT
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCATACCGTTAATAATA-AACATCGAATGCAATTA
*
918730 GATGCACCGATGCATCA-GTAGTGCATCGATGCATACC
1 G-TGCATCGATGCAT-AGGTAGTGCATCGATGCATACC
918767 TTCATTAAAA
Statistics
Matches: 139, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
62 6 0.04
63 8 0.06
64 123 0.88
65 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (63 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCATACCGTTAATAATAAACATCGAATGCAATTA
Found at i:919087 original size:12 final size:12
Alignment explanation
Indices: 919057--919106 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
919047 ATATGCATAA
919057 GACATGT-ATAT
1 GACATGTGATAT
*
919068 GTTCATGTGATAT
1 G-ACATGTGATAT
*
919081 GATATGTGATAT
1 GACATGTGATAT
919093 GACATGTGATAT
1 GACATGTGATAT
919105 GA
1 GA
919107 GAACACGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
11 1 0.03
12 27 0.82
13 5 0.15
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (12 bp):
GACATGTGATAT
Found at i:919269 original size:15 final size:15
Alignment explanation
Indices: 919251--919282 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
919241 GAGGGTATAA
919251 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
919266 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
919281 TA
1 TA
919283 ATGGTCCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.16, C:0.19, G:0.31, T:0.34
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:920510 original size:40 final size:40
Alignment explanation
Indices: 920466--920542 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
920456 TTCCAAAATC
* *
920466 GCAACACGGATAGTTAAATCGCAACGATAATATGTAATTA
1 GCAACACGAATAGGTAAATCGCAACGATAATATGTAATTA
*
920506 GCAACGCGAATAGGTAAATCGCAACGATAATATGTAA
1 GCAACACGAATAGGTAAATCGCAACGATAATATGTAA
920543 ATCACAACGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (40 bp):
GCAACACGAATAGGTAAATCGCAACGATAATATGTAATTA
Found at i:920545 original size:20 final size:20
Alignment explanation
Indices: 920480--920551 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
920470 CACGGATAGT
920480 TAAATCGCAACGATAATATG
1 TAAATCGCAACGATAATATG
* * ** *
920500 TAATTAGCAACGCGAATAGG
1 TAAATCGCAACGATAATATG
920520 TAAATCGCAACGATAATATG
1 TAAATCGCAACGATAATATG
*
920540 TAAATCACAACG
1 TAAATCGCAACG
920552 CAAATTCTCC
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (20 bp):
TAAATCGCAACGATAATATG
Found at i:920551 original size:40 final size:40
Alignment explanation
Indices: 920461--920552 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
920451 ACAGGTTCCA
* * * *
920461 AAATCGCAACACGGATAGTTAAATCGCAACGATAATATGT
1 AAATCACAACGCGAATAGGTAAATCGCAACGATAATATGT
*
920501 -AATTAGCAACGCGAATAGGTAAATCGCAACGATAATATGT
1 AAATCA-CAACGCGAATAGGTAAATCGCAACGATAATATGT
920541 AAATCACAACGC
1 AAATCACAACGC
920553 AAATTCTCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
39 3 0.07
40 37 0.84
41 4 0.09
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.21
Consensus pattern (40 bp):
AAATCACAACGCGAATAGGTAAATCGCAACGATAATATGT
Found at i:920675 original size:20 final size:20
Alignment explanation
Indices: 920650--920702 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
920640 TTTTCCAAAT
920650 TCGCAACGCGAATAGGTAAA
1 TCGCAACGCGAATAGGTAAA
** *
920670 TCGCAACGATAATATGTAAA
1 TCGCAACGCGAATAGGTAAA
*
920690 TCGCAGCGCGAAT
1 TCGCAACGCGAAT
920703 TCTCCAAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATAGGTAAA
Found at i:920885 original size:14 final size:14
Alignment explanation
Indices: 920852--920885 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
920842 TGCGAATTCT
*
920852 CCAATTTTGCAACT
1 CCAATTTTGCAACG
*
920866 CGAATTTTGCAACG
1 CCAATTTTGCAACG
920880 CCAATT
1 CCAATT
920886 ACCGATATAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (14 bp):
CCAATTTTGCAACG
Found at i:920926 original size:20 final size:20
Alignment explanation
Indices: 920898--920972 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
920888 CGATATAGGT
*
920898 AATTAGCGTTGCGAAAATGA
1 AATTCGCGTTGCGAAAATGA
***
920918 AATTCGCGTTGCGATTTTGGA
1 AATTCGCGTTGCGAAAAT-GA
*
920939 GAA-TCGTGTTGCGAAAATGA
1 -AATTCGCGTTGCGAAAATGA
*
920959 AATTCGCGTAGCGA
1 AATTCGCGTTGCGA
920973 TTTTCCAAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
19 2 0.05
20 25 0.60
21 13 0.31
22 2 0.05
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (20 bp):
AATTCGCGTTGCGAAAATGA
Found at i:920936 original size:146 final size:146
Alignment explanation
Indices: 920511--920953 Score: 663
Period size: 146 Copynumber: 3.0 Consensus size: 146
920501 AATTAGCAAC
* * *
920511 GCGAATAGGTAAATCGCAACGATAATATGTAAATCACAACGCAAATTCTCCAAATTCGCAACTCG
1 GCGAATAGGTAAATCGCAACGATAATATGTAAATCGCAACGCGAATTCTCCAAATTTGCAACTCG
* * *
920576 AATTTCGTAACGCTAATTACTGATATAGGTAATTAGCGTTGCGAAAACGAAATTCGCTTTGCGAT
66 AATTTCGCAACGCTAATTACCGATATAGGTAATTAGCGTTGCGAAAACGAAATTCGCGTTGCGAT
** ***
920641 TTTCCA-AATTCGCAAC
131 TTTGGAGAA-TCGCGTT
*
920657 GCGAATAGGTAAATCGCAACGATAATATGTAAATCGCAGCGCGAATTCTCCAAATTTGCAACTCG
1 GCGAATAGGTAAATCGCAACGATAATATGTAAATCGCAACGCGAATTCTCCAAATTTGCAACTCG
* * * * *
920722 AATTTCGCAACGCTAATTACCGATATAGGTACTTAGTGTTACGAAAACGAAATTCACGTTACGAT
66 AATTTCGCAACGCTAATTACCGATATAGGTAATTAGCGTTGCGAAAACGAAATTCGCGTTGCGAT
920787 TTTGGAGAATCGCGTT
131 TTTGGAGAATCGCGTT
* *
920803 GCGAATAGGTAAATCGCAACGATAATATGTAAATCGCAATGCGAATTCTCCAATTTTGCAACTCG
1 GCGAATAGGTAAATCGCAACGATAATATGTAAATCGCAACGCGAATTCTCCAAATTTGCAACTCG
* * *
920868 AATTTTGCAACGCCAATTACCGATATAGGTAATTAGCGTTGCGAAAATGAAATTCGCGTTGCGAT
66 AATTTCGCAACGCTAATTACCGATATAGGTAATTAGCGTTGCGAAAACGAAATTCGCGTTGCGAT
*
920933 TTTGGAGAATCGTGTT
131 TTTGGAGAATCGCGTT
920949 GCGAA
1 GCGAA
920954 AATGAAATTC
Statistics
Matches: 267, Mismatches: 29, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
146 265 0.99
147 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (146 bp):
GCGAATAGGTAAATCGCAACGATAATATGTAAATCGCAACGCGAATTCTCCAAATTTGCAACTCG
AATTTCGCAACGCTAATTACCGATATAGGTAATTAGCGTTGCGAAAACGAAATTCGCGTTGCGAT
TTTGGAGAATCGCGTT
Found at i:921030 original size:20 final size:20
Alignment explanation
Indices: 920983--921093 Score: 93
Period size: 20 Copynumber: 5.5 Consensus size: 20
920973 TTTTCCAAAT
* *
920983 TCGCAACACGAA-AGTCACAA
1 TCGCAACGCGAATAGTTA-AA
921003 TCGCAACGCGAATAGTTAAA
1 TCGCAACGCGAATAGTTAAA
** *
921023 TCGCAACGATAATA-TGTAAT
1 TCGCAACGCGAATAGT-TAAA
* *
921043 TCACAACGCGAATAGGTAAA
1 TCGCAACGCGAATAGTTAAA
**
921063 TCGCAACGATAATA-TGTAAA
1 TCGCAACGCGAATAGT-TAAA
921083 TCGCAACGCGA
1 TCGCAACGCGA
921094 TTTCTCCAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
19 1 0.01
20 66 0.93
21 4 0.06
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATAGTTAAA
Found at i:921050 original size:40 final size:40
Alignment explanation
Indices: 921001--921093 Score: 150
Period size: 40 Copynumber: 2.3 Consensus size: 40
920991 CGAAAGTCAC
* *
921001 AATCGCAACGCGAATAGTTAAATCGCAACGATAATATGTA
1 AATCACAACGCGAATAGGTAAATCGCAACGATAATATGTA
*
921041 ATTCACAACGCGAATAGGTAAATCGCAACGATAATATGTA
1 AATCACAACGCGAATAGGTAAATCGCAACGATAATATGTA
*
921081 AATCGCAACGCGA
1 AATCACAACGCGA
921094 TTTCTCCAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.20
Consensus pattern (40 bp):
AATCACAACGCGAATAGGTAAATCGCAACGATAATATGTA
Found at i:921199 original size:20 final size:20
Alignment explanation
Indices: 921145--921200 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
921135 CGATATAGGT
* * *
921145 AATTAGCGTTGCGAAAATGA
1 AATTCGCGTTGCGATAACGA
921165 AATTCGCGTTGCGATAACGA
1 AATTCGCGTTGCGATAACGA
921185 AATTCGCGTTGCGATA
1 AATTCGCGTTGCGATA
921201 GTATTGTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (20 bp):
AATTCGCGTTGCGATAACGA
Found at i:921272 original size:20 final size:20
Alignment explanation
Indices: 921249--921305 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
921239 TGACTTATGT
921249 GTTGCGATTTACATATT-TGC
1 GTTGCGATTTACATATTAT-C
921269 GTTGCGATTTACATATTATC
1 GTTGCGATTTACATATTATC
* *
921289 GTTGTGATTTACCTATT
1 GTTGCGATTTACATATT
921306 CGTGTTGTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 33 0.97
21 1 0.03
ACGTcount: A:0.21, C:0.14, G:0.18, T:0.47
Consensus pattern (20 bp):
GTTGCGATTTACATATTATC
Found at i:921312 original size:20 final size:19
Alignment explanation
Indices: 921246--921318 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
921236 ATTTGACTTA
921246 TGTGTTGCGATTTACATATT
1 TGTGTTGCGATTTACATA-T
*
921266 TGCGTTGCGATTTACATAT
1 TGTGTTGCGATTTACATAT
* * *
921285 TATCGTTGTGATTTACCTAT
1 TGT-GTTGCGATTTACATAT
*
921305 TCGTGTTGTGATTT
1 T-GTGTTGCGATTT
921319 TGGAACTTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.93
21 1 0.02
ACGTcount: A:0.18, C:0.12, G:0.21, T:0.49
Consensus pattern (19 bp):
TGTGTTGCGATTTACATAT
Found at i:923428 original size:3 final size:3
Alignment explanation
Indices: 923420--923486 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
923410 CCGTCAACTC
923420 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
923468 TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT T
923487 GCTGACCAGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:934943 original size:15 final size:15
Alignment explanation
Indices: 934907--934950 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
934897 GGTGTGCAAA
*
934907 TCCGGATACCCAGATT
1 TCCGGGTACCC-GATT
*
934923 TTCGGGTACCCGATT
1 TCCGGGTACCCGATT
934938 TCCGGGTACCCGA
1 TCCGGGTACCCGA
934951 AACTTCCGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.18, C:0.32, G:0.25, T:0.25
Consensus pattern (15 bp):
TCCGGGTACCCGATT
Found at i:935205 original size:16 final size:15
Alignment explanation
Indices: 935179--935214 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
935169 CGAAATATAA
935179 AATATAATAATTCAT
1 AATATAATAATTCAT
935194 AATATAAATAATTCAT
1 AATAT-AATAATTCAT
*
935210 TATAT
1 AATAT
935215 TTTATATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATAATAATTCAT
Found at i:936259 original size:2 final size:2
Alignment explanation
Indices: 936252--936276 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
936242 TTTACCCCTT
936252 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
936277 TAAAATTATA
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:936353 original size:29 final size:32
Alignment explanation
Indices: 936302--936361 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 32
936292 TTTAAGGTAA
* *
936302 AAATATATTATTTTTATTATTTAAATTATTAT
1 AAATATATTATTTCTATTATTTAAAATATTAT
936334 AAATATATT-TTTCTA-T-TTTAAAATATTA
1 AAATATATTATTTCTATTATTTAAAATATTA
936362 ATATATTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 11 0.42
30 1 0.04
31 5 0.19
32 9 0.35
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (32 bp):
AAATATATTATTTCTATTATTTAAAATATTAT
Found at i:944651 original size:166 final size:166
Alignment explanation
Indices: 944377--944874 Score: 951
Period size: 166 Copynumber: 3.0 Consensus size: 166
944367 ATTAGATTGG
* *
944377 GCGAAAAGCGGATTGTTCTTCCCTTCAGCCTGGCAACGGGCAATGCTTCGAACCAGATAATCTAG
1 GCGAAAAGCGGATTGTTCTGCCCTTCAGCCTGGCAACGGGCAATGCTTTGAACCAGATAATCTAG
*
944442 TTTCTCGCGCCTCATTTGCGTTCAACAATTACTACCAGAAAAATGGGCTCACTGATGAAGCATGC
66 TTTCTCGCGCCTCATTTGCGTTCAACAATTACTACAAGAAAAATGGGCTCACTGATGAAGCATGC
944507 AGTTCTGGAGGAACTGGGATCAAAGTTTATATTGAC
131 AGTTCTGGAGGAACTGGGATCAAAGTTTATATTGAC
944543 GCGAAAAGCGGATTGTTCTGCCCTTCAGCCTGGCAACGGGCAATGCTTTGAACCAGATAATCTAG
1 GCGAAAAGCGGATTGTTCTGCCCTTCAGCCTGGCAACGGGCAATGCTTTGAACCAGATAATCTAG
944608 TTTCTCGCGCCTCATTTGCGTTCAACAATTACTACAAGAAAAATGGGCTCACTGATGAAGCATGC
66 TTTCTCGCGCCTCATTTGCGTTCAACAATTACTACAAGAAAAATGGGCTCACTGATGAAGCATGC
944673 AGTTCTGGAGGAACTGGGATCAAAGTTTATATTGAC
131 AGTTCTGGAGGAACTGGGATCAAAGTTTATATTGAC
*
944709 GCGAAAAGCGGATTGTTCTGCCCTCCAGCCTGGCAACGGGCAATGCTTTGAACCAGATAATCTAG
1 GCGAAAAGCGGATTGTTCTGCCCTTCAGCCTGGCAACGGGCAATGCTTTGAACCAGATAATCTAG
*
944774 TTTCTCGCGCCTCATTTGCGTTCAACAATTACTACAAGAAAAATGGGCTTACTGATGAAGCATGC
66 TTTCTCGCGCCTCATTTGCGTTCAACAATTACTACAAGAAAAATGGGCTCACTGATGAAGCATGC
944839 AGTTCTGGAGGAACTGGGATCAAAGTTTATATTGAC
131 AGTTCTGGAGGAACTGGGATCAAAGTTTATATTGAC
944875 CCTAGTAAGT
Statistics
Matches: 327, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
166 327 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (166 bp):
GCGAAAAGCGGATTGTTCTGCCCTTCAGCCTGGCAACGGGCAATGCTTTGAACCAGATAATCTAG
TTTCTCGCGCCTCATTTGCGTTCAACAATTACTACAAGAAAAATGGGCTCACTGATGAAGCATGC
AGTTCTGGAGGAACTGGGATCAAAGTTTATATTGAC
Found at i:948366 original size:40 final size:36
Alignment explanation
Indices: 948311--948403 Score: 109
Period size: 35 Copynumber: 2.5 Consensus size: 36
948301 CTCGAACCCG
* *
948311 AAAATATTATATATATATATACAATTAATATAAAATATAT
1 AAAATATTATATATATATAT-CAA-TAA-A-AAAATAAAA
*
948351 AAAATATTATATATATA-ATTAATAAAAAAATAAAA
1 AAAATATTATATATATATATCAATAAAAAAATAAAA
948386 AAAATATTATATA-ATATA
1 AAAATATTATATATATATA
948404 ATCGGAGCGG
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
34 3 0.06
35 21 0.43
36 1 0.02
37 3 0.06
38 2 0.04
39 2 0.04
40 17 0.35
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (36 bp):
AAAATATTATATATATATATCAATAAAAAAATAAAA
Found at i:951949 original size:388 final size:383
Alignment explanation
Indices: 951241--951986 Score: 1186
Period size: 388 Copynumber: 1.9 Consensus size: 383
951231 CAACCCATTT
* * *
951241 TGGTTTTACTATGATGAGTCTGATTGTATTAAAACATATATTATTAATGATGCAATCGGTATATA
1 TGGTTTTACTATGATGAGCCTGATTGTATTAAAACATATATTATTAATGATGCAATCAGAATATA
*
951306 ATGAATCCTTTAATTTCAAAAAAATGATTAAAGAATGAAAAAGAGAGAAGAAGTCCATATTATTT
66 ATGAATCCTTTAATTTCAAAAAAATGATTAAAGAAGGAAAAAGAGAGAAGAAGTCCATATTATTT
*
951371 GAGCTCTTCGATGTTCCCATCCCAATTATAATTCAATGACACACATATATATATTGATAAATTAA
131 GAGCTCTTCGATGTTCCCATCCCAATTATAATTCAATGACACACACATATATATTGATAAATTAA
* * *
951436 AGTTTAGGTCAGAGGTGGCTCCTTCAGTCCAGGGTCAAGGCATACATAATACTCAATTGGGATTT
196 AGTTTAGGTCAGAGGTGACTCATTCAGTCCAGGGTCAAGGCATACATAATACTCAATTAGGATTT
* * * * * * *
951501 ATATAAGACTTTATAAATTGTCCACCAAGAGGCGGTGGTAGGATTTGAACTTGGCCTTACAAGCA
261 ACATAAGAATTTACAAATTGCCCACCAAGAGACGGTGATAGGATTTGAACTTGACCTTACAAGCA
*
951566 CAAATTCTTGAATCTCAACCACTTGTGCCAACACTCGTTACAAAGGTCCAACCCGTCC
326 CAAATTATTGAATCTCAACCACTTGTGCCAACACTCGTTACAAAGGTCCAACCCGTCC
*
951624 TGGTTTTACTATGATGAGCCTGATTGTATTAAAACATATATTATTAATGATGTAATCAGAATATA
1 TGGTTTTACTATGATGAGCCTGATTGTATTAAAACATATATTATTAATGATGCAATCAGAATATA
* * *
951689 ATGAATCCTTTAATTTCAAAAAAAAAATGATTAAAGAAGGTAAAATATAGAAGAAGTCCATATTA
66 ATGAATCCTTTAATTTC---AAAAAAATGATTAAAGAAGGAAAAAGAGAGAAGAAGTCCATATTA
* *
951754 TTTGAGCTCTTCGATGTTCCCATCCCAATTATAATTCGATGACACGCACACGTATATATTGATAA
128 TTTGAGCTCTTCGATGTTCCCATCCCAATTATAATTCAATGACA--CACACATATATATTGATAA
* * * * *
951819 ATTAAAGTTTAGGTCAGGGGTGACTCATTTAGTCCAGGGTCAAGGCATACCTAATTCTCGATTAG
191 ATTAAAGTTTAGGTCAGAGGTGACTCATTCAGTCCAGGGTCAAGGCATACATAATACTCAATTAG
*
951884 GATTTACATAAGAATTTACAGATTGCCCACCAAGAGACGGTGATAGGATTTGAACTTGACCTTAC
256 GATTTACATAAGAATTTACAAATTGCCCACCAAGAGACGGTGATAGGATTTGAACTTGACCTTAC
*
951949 AAGCACAAATTATTGAATCTCAACCACTTGTGTCAACA
321 AAGCACAAATTATTGAATCTCAACCACTTGTGCCAACA
951987 TTCATTAGAT
Statistics
Matches: 329, Mismatches: 29, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
383 78 0.24
386 84 0.26
388 167 0.51
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (383 bp):
TGGTTTTACTATGATGAGCCTGATTGTATTAAAACATATATTATTAATGATGCAATCAGAATATA
ATGAATCCTTTAATTTCAAAAAAATGATTAAAGAAGGAAAAAGAGAGAAGAAGTCCATATTATTT
GAGCTCTTCGATGTTCCCATCCCAATTATAATTCAATGACACACACATATATATTGATAAATTAA
AGTTTAGGTCAGAGGTGACTCATTCAGTCCAGGGTCAAGGCATACATAATACTCAATTAGGATTT
ACATAAGAATTTACAAATTGCCCACCAAGAGACGGTGATAGGATTTGAACTTGACCTTACAAGCA
CAAATTATTGAATCTCAACCACTTGTGCCAACACTCGTTACAAAGGTCCAACCCGTCC
Found at i:952002 original size:2 final size:2
Alignment explanation
Indices: 951995--952028 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
951985 CATTCATTAG
951995 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
952029 GAATTTGAGT
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:952822 original size:39 final size:39
Alignment explanation
Indices: 952778--952888 Score: 145
Period size: 39 Copynumber: 2.8 Consensus size: 39
952768 TTTTAAAAAT
952778 AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAG
1 AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAG
* *
952817 AATTTAGAATGTT-ATGGTGGTAA-AATTTAAGAAATTAGG
1 AATTTAGAATGTTAAT-GT-GAAATAATTTAAGAAATTAAG
** *
952856 AATTTAGAATGTTAGGGTGAAATAATTTGAGAA
1 AATTTAGAATGTTAATGTGAAATAATTTAAGAA
952889 TTATAAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
38 5 0.08
39 54 0.87
40 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (39 bp):
AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAG
Found at i:961570 original size:24 final size:24
Alignment explanation
Indices: 961538--961613 Score: 125
Period size: 24 Copynumber: 3.2 Consensus size: 24
961528 TTGTACTAAG
961538 CATAAATGAACGCACATAAACAAA
1 CATAAATGAACGCACATAAACAAA
*
961562 CATAAATGAACTCACATAAACAAA
1 CATAAATGAACGCACATAAACAAA
* *
961586 CATAAATGAACGAACATAAACGAA
1 CATAAATGAACGCACATAAACAAA
961610 CATA
1 CATA
961614 TTACCGAACG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.58, C:0.20, G:0.08, T:0.14
Consensus pattern (24 bp):
CATAAATGAACGCACATAAACAAA
Found at i:961757 original size:40 final size:41
Alignment explanation
Indices: 961655--961749 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
961645 ACGAGTCCTC
961655 TATTCATGTTCGTTCATTTAATTAAACGAACAAAAAAATAT
1 TATTCATGTTCGTTCATTTAATTAAACGAACAAAAAAATAT
961696 TATTCATGTTCGTTCATTTAATTAAACGAAC-AAAAAATAT
1 TATTCATGTTCGTTCATTTAATTAAACGAACAAAAAAATAT
961736 TATTCATGTTCGTT
1 TATTCATGTTCGTT
961750 TGTTTAATAA
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 23 0.43
41 31 0.57
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (41 bp):
TATTCATGTTCGTTCATTTAATTAAACGAACAAAAAAATAT
Found at i:971062 original size:16 final size:17
Alignment explanation
Indices: 971022--971055 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
971012 GGTTCTAGGA
971022 GTTTGTTGTTTGTTTCT
1 GTTTGTTGTTTGTTTCT
971039 GTTGTGTT-TTTGTTTCT
1 GTT-TGTTGTTTGTTTCT
971056 TCTTGTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.00, C:0.06, G:0.24, T:0.71
Consensus pattern (17 bp):
GTTTGTTGTTTGTTTCT
Found at i:983337 original size:76 final size:72
Alignment explanation
Indices: 983205--983342 Score: 163
Period size: 76 Copynumber: 1.9 Consensus size: 72
983195 GTGTCTACCC
* *
983205 TAGAACTCGAATTTATTTATGTTGTTCATTTTATTAAAGGTGTCCACCCGAAAATTTTATTTGTG
1 TAGAACTCGAATTTATTTATGTTGTTCATTTTACTAAAGGTGTCCACCCGAAAATTTCATTTGTG
983270 TCCATCT
66 TCCATCT
* * *
983277 TAGAATTCGAATTTCTTTATGTTAGTCGTTCATTTTACTAAATGTG-CTCACCCTG-AAATTTCA
1 TAGAACTCGAATTTATTTATG-T--T-GTTCATTTTACTAAAGGTGTC-CACCC-GAAAATTTCA
983340 TTT
60 TTT
983343 ATATCCACCT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
72 19 0.35
73 1 0.02
75 2 0.04
76 32 0.58
77 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (72 bp):
TAGAACTCGAATTTATTTATGTTGTTCATTTTACTAAAGGTGTCCACCCGAAAATTTCATTTGTG
TCCATCT
Found at i:987409 original size:21 final size:21
Alignment explanation
Indices: 987385--987438 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
987375 GTTTCCAGAT
*
987385 TCGCAACGTGAACTTGGACTA
1 TCGCAATGTGAACTTGGACTA
*
987406 TCGCAATGCGAACTTGGACTA
1 TCGCAATGTGAACTTGGACTA
987427 TCGCAATGTGAA
1 TCGCAATGTGAA
987439 TATGTAAACC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (21 bp):
TCGCAATGTGAACTTGGACTA
Done.