Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008982.1 Hibiscus syriacus cultivar Beakdansim tig00112344_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: 2253222
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 12
Found at i:539133 original size:27 final size:26
Alignment explanation
Indices: 539101--539156 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
539091 TGATTAATAC
539101 AAATAAAT-GAACGAAATTAACATTAGA
1 AAATAAATAGAA-GAAATTAACATTA-A
* *
539128 AAATAAATAGTAGAGATTAACATTAA
1 AAATAAATAGAAGAAATTAACATTAA
539154 AAA
1 AAA
539157 GAACCTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 20 0.77
28 2 0.08
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.23
Consensus pattern (26 bp):
AAATAAATAGAAGAAATTAACATTAA
Found at i:541575 original size:2 final size:2
Alignment explanation
Indices: 541568--541604 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
541558 ACCAAACCAA
541568 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
541605 TAAGTTCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:541670 original size:14 final size:15
Alignment explanation
Indices: 541651--541679 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
541641 TGAAACATTT
541651 AACAATCCA-AAACA
1 AACAATCCAGAAACA
541665 AACAATCCAGAAACA
1 AACAATCCAGAAACA
541680 TTAAAATCAA
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:0.62, C:0.28, G:0.03, T:0.07
Consensus pattern (15 bp):
AACAATCCAGAAACA
Found at i:543650 original size:44 final size:42
Alignment explanation
Indices: 543599--543694 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 42
543589 TGACCTTGTG
* *
543599 TATCGATGCACATTCAAGGCATGCATCGGTGCACCT-TTATGGTA
1 TATCGATGCACATTCAAGG-ATGCATCGATACA-CTGTTA-GGTA
* *
543643 TATCGATGTACATTCAAGGATGCATCGATACACTGTTAGGTG
1 TATCGATGCACATTCAAGGATGCATCGATACACTGTTAGGTA
543685 TATCGATGCA
1 TATCGATGCA
543695 TTAAGCACAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 14 0.30
43 14 0.30
44 18 0.39
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (42 bp):
TATCGATGCACATTCAAGGATGCATCGATACACTGTTAGGTA
Found at i:543792 original size:15 final size:15
Alignment explanation
Indices: 543772--543802 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
543762 TATTGGCAAC
543772 TCATATAATGAAAAT
1 TCATATAATGAAAAT
543787 TCATATAATGAAAAT
1 TCATATAATGAAAAT
543802 T
1 T
543803 AATCATGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (15 bp):
TCATATAATGAAAAT
Found at i:547565 original size:22 final size:21
Alignment explanation
Indices: 547523--547562 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
547513 GAGTTTATTT
*
547523 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
547544 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
547563 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:549273 original size:12 final size:14
Alignment explanation
Indices: 549232--549272 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
549222 AAACTTGAGG
* *
549232 TTTGATGCTTTCTC
1 TTTGATTCTCTCTC
549246 TTTGATTCTCTCTC
1 TTTGATTCTCTCTC
549260 TTTGATTCTCTCT
1 TTTGATTCTCTCT
549273 TAATTCTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.07, C:0.24, G:0.10, T:0.59
Consensus pattern (14 bp):
TTTGATTCTCTCTC
Found at i:549644 original size:64 final size:65
Alignment explanation
Indices: 549531--549673 Score: 186
Period size: 64 Copynumber: 2.2 Consensus size: 65
549521 TGTACTAAGA
549531 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGG-TAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGAT-T
549595 -
65 G
** * *
549595 GTGCATCGATGCATAAAATGCATTCGATG-TTCAATTTATTCTATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATA-GCCA-GAGTGCATCGATGCATGGAT
549658 TG
64 TG
*
549660 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
549674 CACTCTGAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
63 7 0.10
64 48 0.69
65 15 0.21
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGATTG
Found at i:551339 original size:45 final size:45
Alignment explanation
Indices: 551280--551385 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 45
551270 TTCACATACC
* * *
551280 ATGCACCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCACTTG
* * *
551326 ATGCATTG-TGCACTCTGGCTATTTTGAAACATCGAATGCACTTG
1 ATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCACTTG
551370 ATGCATCGATGCACTC
1 ATGCATCGATGCACTC
551386 TTAGTGCACC
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
44 24 0.47
45 18 0.35
46 9 0.18
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (45 bp):
ATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCACTTG
Found at i:555780 original size:21 final size:20
Alignment explanation
Indices: 555753--555832 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 20
555743 TAACCCAGGT
555753 TCCAAATTCGCAACGCGAAAG
1 TCCAAATTCGCAACGCG-AAG
* *
555774 TCGAAATTCGCAACGCG-AT
1 TCCAAATTCGCAACGCGAAG
**
555793 TTTAAGATTCGCAACGCGATAG
1 TCCAA-ATTCGCAACGCGA-AG
555815 TCCAAATTCGCAACGCGA
1 TCCAAATTCGCAACGCGA
555833 CAGGATGGGA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
19 4 0.08
20 12 0.24
21 29 0.59
22 4 0.08
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (20 bp):
TCCAAATTCGCAACGCGAAG
Found at i:556735 original size:21 final size:18
Alignment explanation
Indices: 556685--556741 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 18
556675 AATTTTGGAG
556685 TATCGCGTTGCGAATCTTA
1 TATCGCGTTGCGAAT-TTA
* *
556704 AATCACGTTGCGAATTTCGA
1 TATCGCGTTGCGAATTT--A
556724 CTATCGCGTTGCGAATTT
1 -TATCGCGTTGCGAATTT
556742 GGAACCTGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 2 0.06
19 13 0.42
20 1 0.03
21 15 0.48
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (18 bp):
TATCGCGTTGCGAATTTA
Found at i:557818 original size:22 final size:22
Alignment explanation
Indices: 557777--557843 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
557767 CTCGTATAAA
557777 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
557800 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
557822 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
557844 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:559554 original size:21 final size:21
Alignment explanation
Indices: 559530--559574 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
559520 TCTTGTTCGT
* *
559530 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
559551 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
559572 TTG
1 TTG
559575 CCCAGAAATC
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:563132 original size:21 final size:18
Alignment explanation
Indices: 563089--563125 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
563079 TCACGAGCTA
563089 CTCCTAGCTCTTCTCGTG
1 CTCCTAGCTCTTCTCGTG
*
563107 CTCCTAGCTCTTCTTGTG
1 CTCCTAGCTCTTCTCGTG
563125 C
1 C
563126 CCCTCCTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.05, C:0.38, G:0.16, T:0.41
Consensus pattern (18 bp):
CTCCTAGCTCTTCTCGTG
Found at i:563652 original size:2 final size:2
Alignment explanation
Indices: 563645--563674 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
563635 CAGCTTAAGC
563645 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
563675 TTAATCAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:564337 original size:64 final size:64
Alignment explanation
Indices: 564131--564340 Score: 212
Period size: 65 Copynumber: 3.2 Consensus size: 64
564121 TTTTTTAGAG
* * ** *
564131 TGATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGAATTAAATTG-AACATCGAATGTA
1 TGATGCATCGATGCACCAA-CCATGCATCGATGCACTC-TGGA-TATTTTGAAACATCGAATGCA
564194 TT
63 TT
* * * ** *
564196 TCATGCATCGATTCA-CATACCATGCACCGATGCACTGAGGAT-TTTATGAAAACATTGAATGCA
1 TGATGCATCGATGCACCA-ACCATGCATCGATGCACTCTGGATATTT-TG-AAACATCGAATGCA
564259 TT
63 TT
* * *
564261 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCACCAACCATGCATCGATGCACTCTGGATATTTTGAAACATCGAATGCATT
564325 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
564341 TCTTAGTGCA
Statistics
Matches: 118, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 3 0.03
64 49 0.42
65 60 0.51
66 5 0.04
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (64 bp):
TGATGCATCGATGCACCAACCATGCATCGATGCACTCTGGATATTTTGAAACATCGAATGCATT
Found at i:564886 original size:21 final size:21
Alignment explanation
Indices: 564862--564939 Score: 113
Period size: 21 Copynumber: 3.7 Consensus size: 21
564852 TCCATTTTCA
* *
564862 AAATGATTGATCCCTTG-AAG
1 AAATGATCGATCCCTCGAAAG
564882 AAAATGATCGATCCCTCGAAAG
1 -AAATGATCGATCCCTCGAAAG
*
564904 AAATTATCGATCCCTCGAAAG
1 AAATGATCGATCCCTCGAAAG
564925 AAATGATCGATCCCT
1 AAATGATCGATCCCT
564940 TTTCTCTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
21 49 0.94
22 3 0.06
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (21 bp):
AAATGATCGATCCCTCGAAAG
Found at i:575021 original size:30 final size:31
Alignment explanation
Indices: 574985--575062 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 31
574975 ATTTAGGTGT
574985 TAAAATGAAACAAAAAATTGA-CAGAT-GG-AC
1 TAAAATGAAA-AAAAAATT-ATCAGATAGGTAC
* *
575015 TAAAATGAAATAAAAAGTTATCAGATAGGTAT
1 TAAAATGAAA-AAAAAATTATCAGATAGGTAC
575047 TAAAATGAAAAAAAAA
1 TAAAATGAAAAAAAAA
575063 GTTAATTACG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 1 0.02
30 22 0.54
31 7 0.17
32 11 0.27
ACGTcount: A:0.60, C:0.05, G:0.14, T:0.21
Consensus pattern (31 bp):
TAAAATGAAAAAAAAATTATCAGATAGGTAC
Found at i:575056 original size:32 final size:31
Alignment explanation
Indices: 574978--575066 Score: 103
Period size: 32 Copynumber: 2.9 Consensus size: 31
574968 AATTAAAATT
*
574978 TAGGTGTTAAAATGAAACAAAAAA-TTGACAGA
1 TAGGTATTAAAATGAAA-AAAAAAGTT-ACAGA
* *
575010 T-GG-ACTAAAATGAAATAAAAAGTTATCAGA
1 TAGGTATTAAAATGAAAAAAAAAGTTA-CAGA
575040 TAGGTATTAAAATGAAAAAAAAAGTTA
1 TAGGTATTAAAATGAAAAAAAAAGTTA
575067 ATTACGGTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
29 6 0.12
30 17 0.35
31 4 0.08
32 21 0.44
ACGTcount: A:0.55, C:0.04, G:0.17, T:0.24
Consensus pattern (31 bp):
TAGGTATTAAAATGAAAAAAAAAGTTACAGA
Found at i:575082 original size:31 final size:31
Alignment explanation
Indices: 574985--575095 Score: 106
Period size: 31 Copynumber: 3.6 Consensus size: 31
574975 ATTTAGGTGT
574985 TAAAATGAAACAAAAAA-TTGACAGAT-GG-AC
1 TAAAATGAAA-AAAAAAGTT-ACAGATAGGTAC
* *
575015 TAAAATGAAATAAAAAGTTATCAGATAGGTAT
1 TAAAATGAAAAAAAAAGTTA-CAGATAGGTAC
*
575047 TAAAATGAAAAAAAAAGTTA-A-TTACGGTTAC
1 TAAAATGAAAAAAAAAGTTACAGATA-GG-TAC
*
575078 TAAAATGAAACAAAAAGT
1 TAAAATGAAAAAAAAAGT
575096 AAACGTTAAG
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
29 8 0.12
30 20 0.29
31 21 0.30
32 20 0.29
ACGTcount: A:0.57, C:0.06, G:0.14, T:0.23
Consensus pattern (31 bp):
TAAAATGAAAAAAAAAGTTACAGATAGGTAC
Found at i:581208 original size:141 final size:144
Alignment explanation
Indices: 580938--581218 Score: 403
Period size: 141 Copynumber: 2.0 Consensus size: 144
580928 TATTAACCTA
*
580938 AAAAAATTAATCAAAAGAAATTAAAATTTGAAACACAACAAATCAAGACAAATTGAGAGAAGTGC
1 AAAAAATTAATCAAAAGAAACTAAAATTTGAAACACAACAAATCAAGACAAATTGAGAGAAGTGC
* * *
581003 AGAAATGGTTCTAAATATCAAATTCCCACTAACTATTAAAATCATGGAAACCTACTTGAAATACA
66 AGAAATGGTTCTAAATATCAAATTCCCACTAACAATTAAAATCACGGAAACATACTTGAAATACA
581068 AAAGACAATAGCCT
131 AAAGACAATAGCCT
* * * *
581082 AAAATATT-ATCAGAAGAAACTAAAATTTGAAACACAATATATCAAGACAAATTGAGAG-A-TGC
1 AAAAAATTAATCAAAAGAAACTAAAATTTGAAACACAACAAATCAAGACAAATTGAGAGAAGTGC
* *
581144 AGAAATAGTT-TCAAATATCAAATTCCTAC-AACCAATTAAAATCACGGAAACATAC-TGCAAAT
66 AGAAATGGTTCT-AAATATCAAATTCCCACTAA-CAATTAAAATCACGGAAACATACTTG-AAAT
581206 ACAAAAGACAATA
128 ACAAAAGACAATA
581219 ACAGGAGTCA
Statistics
Matches: 124, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
140 5 0.04
141 65 0.52
142 1 0.01
143 46 0.37
144 7 0.06
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.22
Consensus pattern (144 bp):
AAAAAATTAATCAAAAGAAACTAAAATTTGAAACACAACAAATCAAGACAAATTGAGAGAAGTGC
AGAAATGGTTCTAAATATCAAATTCCCACTAACAATTAAAATCACGGAAACATACTTGAAATACA
AAAGACAATAGCCT
Found at i:586544 original size:111 final size:111
Alignment explanation
Indices: 586369--586597 Score: 271
Period size: 111 Copynumber: 2.1 Consensus size: 111
586359 ATCCAATTCC
* * * * * *
586369 TCTTCCATTACAGGGTCCTCCTCAGCCTCGTCCATTTCCGTACCTGCTGCCCCTACGGCATGAAT
1 TCTTCCATCACAGGGTCCTCCTCAGCCTCGGCCATATCAGTACCTACTGCCCCTACAGCATGAAT
* * * **
586434 ATCCTCCATATTTTCAGTTTGCCCAGGCACATTATTCACCATATTTT
66 ATCCTCCAAAATTACAGTTTGCCCAACCACATTATTCACCAT-TTTT
* * * * *
586481 T-TTCCATCACAGGGTCCTCCTCTGGCTCGGCCATATCAGTACTTACTTCCTCTACAGCATGAAT
1 TCTTCCATCACAGGGTCCTCCTCAGCCTCGGCCATATCAGTACCTACTGCCCCTACAGCATGAAT
* * *
586545 ATCCTCCAAAATTACAGTTTGCTCAACCACATTATTTACCCTTTTT
66 ATCCTCCAAAATTACAGTTTGCCCAACCACATTATTCACCATTTTT
586591 TCTTCCA
1 TCTTCCA
586598 AAGTTACACC
Statistics
Matches: 97, Mismatches: 19, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
110 5 0.05
111 91 0.94
112 1 0.01
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (111 bp):
TCTTCCATCACAGGGTCCTCCTCAGCCTCGGCCATATCAGTACCTACTGCCCCTACAGCATGAAT
ATCCTCCAAAATTACAGTTTGCCCAACCACATTATTCACCATTTTT
Found at i:587988 original size:21 final size:21
Alignment explanation
Indices: 587947--587989 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
587937 ATATATTTAT
*
587947 TTAAATTTTATAATATTAAAA
1 TTAAATTTTATAATATAAAAA
*
587968 TTAAATTTTTTTAATA-AAAAA
1 TTAAA-TTTTATAATATAAAAA
587989 T
1 T
587990 ATTTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAAATTTTATAATATAAAAA
Found at i:587989 original size:16 final size:17
Alignment explanation
Indices: 587970--588003 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
587960 TATTAAAATT
587970 AAAT-TTTTTTAATAAA
1 AAATATTTTTTAATAAA
*
587986 AAATATTTTTTATTAAA
1 AAATATTTTTTAATAAA
588003 A
1 A
588004 TTCGTCACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATATTTTTTAATAAA
Found at i:588365 original size:37 final size:36
Alignment explanation
Indices: 588292--588365 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 36
588282 TACTATAATT
**
588292 AATTTATATATTTTCTTTAAAAAATTAAATTCATAA
1 AATTTATATATTTTCTTTAAAAAATTAAAAACATAA
* *
588328 AATTTATATAAATTTT-TTTACAAAATTAAAAAGATAA
1 AATTTATAT--ATTTTCTTTAAAAAATTAAAAACATAA
588365 A
1 A
588366 TAGGTTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 9 0.28
37 18 0.56
38 5 0.16
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (36 bp):
AATTTATATATTTTCTTTAAAAAATTAAAAACATAA
Found at i:588780 original size:44 final size:44
Alignment explanation
Indices: 588698--588781 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
588688 TCTGTGAAGG
* **
588698 AATTGGAATCCAATTCCATATTCTATTTGGTTGGCAGAAAATGA
1 AATTGGAATCCAATTCCATATTCTATTTAGTTCACAGAAAATGA
* * *
588742 AATTGGAATTCAATTCCATATTTTGTTTAGTTCACAGAAA
1 AATTGGAATCCAATTCCATATTCTATTTAGTTCACAGAAA
588782 TATCAGATGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (44 bp):
AATTGGAATCCAATTCCATATTCTATTTAGTTCACAGAAAATGA
Found at i:589347 original size:32 final size:33
Alignment explanation
Indices: 589271--589358 Score: 133
Period size: 32 Copynumber: 2.7 Consensus size: 33
589261 TTTTCACCCT
**
589271 AAACCCGACCCCGACCCGAATATCACTCTTAAAA
1 AAACCCGA-CCCGACCCGAATATCAAACTTAAAA
589305 AAACCCGACCCGACCCGAATATCAAACTT-AAA
1 AAACCCGACCCGACCCGAATATCAAACTTAAAA
*
589337 AAACCTGACCCGACCCGAATAT
1 AAACCCGACCCGACCCGAATAT
589359 ATGAATAAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
32 24 0.47
33 19 0.37
34 8 0.16
ACGTcount: A:0.40, C:0.36, G:0.10, T:0.14
Consensus pattern (33 bp):
AAACCCGACCCGACCCGAATATCAAACTTAAAA
Found at i:595320 original size:31 final size:30
Alignment explanation
Indices: 595255--595341 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 30
595245 TTAGAGGGTC
* * *
595255 CAATTATTTTTAATACTTGTTATTATTGGTT
1 CAATT-TTTTTAATATTTATTATTATTGGCT
595286 CAATTTTTTCTAATATTTATTATTA-TGAGCT
1 CAATTTTTT-TAATATTTATTATTATTG-GCT
*
595317 CAATTTTTTAATAACATTTATTATT
1 CAATTTTTT--TAATATTTATTATT
595342 TGGGTCTTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
30 6 0.12
31 29 0.60
32 13 0.27
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (30 bp):
CAATTTTTTTAATATTTATTATTATTGGCT
Found at i:602576 original size:26 final size:24
Alignment explanation
Indices: 602538--602595 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 24
602528 AATATTGCAA
602538 AATTATT-TTAATTAACTTATATTT
1 AATTATTATTAATTAACTTATA-TT
*
602562 AATTTATTATTAATTAATTTATATT
1 AA-TTATTATTAATTAACTTATATT
602587 AATTATTAT
1 AATTATTAT
602596 AAAACTAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 9 0.29
25 9 0.29
26 13 0.42
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
AATTATTATTAATTAACTTATATT
Found at i:602586 original size:14 final size:14
Alignment explanation
Indices: 602540--602591 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
602530 TATTGCAAAA
* *
602540 TTATTTTAATTAAC
1 TTATATTAATTAAT
602554 TTATA-T--TTAAT
1 TTATATTAATTAAT
602565 TTATTATTAATTAAT
1 TTA-TATTAATTAAT
602580 TTATATTAATTA
1 TTATATTAATTA
602592 TTATAAAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 7 0.22
12 2 0.06
13 2 0.06
14 13 0.41
15 8 0.25
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
TTATATTAATTAAT
Found at i:602592 original size:21 final size:22
Alignment explanation
Indices: 602548--602594 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
602538 AATTATTTTA
*
602548 ATTAACTTATATTTAATTTATT
1 ATTAACTTATATTTAATTAATT
602570 ATTAA-TTA-ATTTATATTAATT
1 ATTAACTTATATTTA-ATTAATT
602591 ATTA
1 ATTA
602595 TAAAACTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 5 0.22
21 13 0.57
22 5 0.22
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTAACTTATATTTAATTAATT
Found at i:602604 original size:25 final size:26
Alignment explanation
Indices: 602554--602606 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
602544 TTTAATTAAC
* *
602554 TTATATTTAATTTATTATTAATTAAT
1 TTATATTTAATTTATTATAAACTAAT
602580 TTATA-TTAA-TTATTATAAAACTAAT
1 TTATATTTAATTTATTAT-AAACTAAT
602605 TT
1 TT
602607 TTAGTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 12 0.50
26 5 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
TTATATTTAATTTATTATAAACTAAT
Found at i:603866 original size:2 final size:2
Alignment explanation
Indices: 603859--603884 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
603849 TAAGCTCTCA
603859 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
603885 TTAGATCGAG
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:604302 original size:2 final size:2
Alignment explanation
Indices: 604295--604327 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
604285 TAGCTTAATA
604295 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
604328 ATTTCATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:606007 original size:37 final size:37
Alignment explanation
Indices: 605966--606069 Score: 111
Period size: 41 Copynumber: 2.7 Consensus size: 37
605956 TTAACATTTT
*
605966 ATTAATATTATTATTATTTCAATAAATAATTAATATA
1 ATTAATATTATTATTATTTTAATAAATAATTAATATA
* *
606003 ATTAATAATATATTTTTCATATTTAATAAATAATTTATATA
1 ATTAAT-AT-TATTATT-AT-TTTAATAAATAATTAATATA
* *
606044 ATTTATAGTA-TATTTATTTTAATAAA
1 ATTAATATTATTA-TTATTTTAATAAA
606070 ATATAAATGT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
37 15 0.27
38 5 0.09
39 10 0.18
40 3 0.05
41 23 0.41
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (37 bp):
ATTAATATTATTATTATTTTAATAAATAATTAATATA
Found at i:606038 original size:21 final size:20
Alignment explanation
Indices: 605976--606048 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
605966 ATTAATATTA
605976 TTAT-TATTTCAATAAATAAT
1 TTATATATTT-AATAAATAAT
* *
605996 TAATATAATTAAT-AATATAT
1 TTATATATTTAATAAATA-AT
*
606016 TTTTCATATTTAATAAATAAT
1 TTAT-ATATTTAATAAATAAT
606037 TTATATAATTTA
1 TTATAT-ATTTA
606049 TAGTATATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
19 4 0.10
20 12 0.29
21 22 0.52
22 4 0.10
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATATATTTAATAAATAAT
Found at i:606043 original size:41 final size:42
Alignment explanation
Indices: 605980--606058 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 42
605970 ATATTATTAT
605980 TATTTCAATAAATAATTAATATAATTAATAATATATTTTTCA
1 TATTTCAATAAATAATTAATATAATTAATAATATATTTTTCA
* * *
606022 TATTT-AATAAATAATTTATATAATTTATAGTATATTT
1 TATTTCAATAAATAATTAATATAATTAATAATATATTT
606059 ATTTTAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 29 0.85
42 5 0.15
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.51
Consensus pattern (42 bp):
TATTTCAATAAATAATTAATATAATTAATAATATATTTTTCA
Found at i:614847 original size:30 final size:31
Alignment explanation
Indices: 614797--614899 Score: 93
Period size: 31 Copynumber: 3.4 Consensus size: 31
614787 AGACCCCGGT
* * * *
614797 AACTATCCAGAGGTCATAAAGAACCTCGG-C
1 AACTGTCCATAGGTCATAAAGAACCTAGGTA
*
614827 AACTGTCCATAGGTCCTAAAGAACCTAGGTA
1 AACTGTCCATAGGTCATAAAGAACCTAGGTA
* * * *
614858 AACTGTCCATATGTTCCT-TAGAACATAGGTA
1 AACTGTCCATA-GGTCATAAAGAACCTAGGTA
*
614889 TACTGTCCATA
1 AACTGTCCATA
614900 TGTCTCGAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
30 25 0.40
31 32 0.52
32 5 0.08
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (31 bp):
AACTGTCCATAGGTCATAAAGAACCTAGGTA
Found at i:614865 original size:31 final size:31
Alignment explanation
Indices: 614827--614921 Score: 104
Period size: 31 Copynumber: 3.1 Consensus size: 31
614817 GAACCTCGGC
*
614827 AACTGTCCATAGGTCCTAAAGAACCTAGGTA
1 AACTGTCCATAGGTCCTAAAGAACATAGGTA
* *
614858 AACTGTCCATATGTTCCT-TAGAACATAGGTA
1 AACTGTCCATA-GGTCCTAAAGAACATAGGTA
* * *
614889 TACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATAGGTC-CTAAAGAACATAGGTA
614920 AA
1 AA
614922 ACCCTCGACT
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
30 2 0.04
31 43 0.83
32 7 0.13
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (31 bp):
AACTGTCCATAGGTCCTAAAGAACATAGGTA
Found at i:615683 original size:64 final size:65
Alignment explanation
Indices: 615572--615720 Score: 196
Period size: 64 Copynumber: 2.3 Consensus size: 65
615562 TCTTTCAATG
* * * *
615572 AAGGTATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTT-TTTATTTTA
1 AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTATTTT-
615636 A
65 A
* * *
615637 AAGG-ATGCATCGATGCATTAGC-TATGCATCGATGCATCAAAGGCATTCGATGTTCTTTCTTTT
1 AAGGAATGCATCGATGCACTA-CTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTATTTT
615700 A
65 A
615701 AAGGAATGCATCGATGCACT
1 AAGGAATGCATCGATGCACT
615721 TATGAATGTG
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
64 48 0.65
65 26 0.35
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (65 bp):
AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTATTTTA
Found at i:619048 original size:31 final size:31
Alignment explanation
Indices: 619010--619104 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 31
619000 GAACCTCGGC
* *
619010 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* **
619041 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* *
619072 TACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTC-CCAAAGAACATAGGTA
619103 AA
1 AA
619105 ACCCTCGACT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 49 0.94
32 3 0.06
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:619261 original size:14 final size:16
Alignment explanation
Indices: 619234--619269 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
619224 CATATATCTC
619234 ATATCATATCACATGT
1 ATATCATATCACATGT
619250 ATAT-ATAT-ACATGT
1 ATATCATATCACATGT
619264 AT-TCAT
1 ATATCAT
619270 GTAAATCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 1 0.05
14 10 0.53
15 4 0.21
16 4 0.21
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.42
Consensus pattern (16 bp):
ATATCATATCACATGT
Found at i:620979 original size:154 final size:153
Alignment explanation
Indices: 620727--621036 Score: 532
Period size: 154 Copynumber: 2.0 Consensus size: 153
620717 GATAGATGGC
*
620727 ATGGAGTTAGTCATAGAGGAATTTAGGGTATAGTTTCACTGATAAAGAGTAATGTTACGTTGAGA
1 ATGGAGTTAGTCATAGAGGAATTTAGGGTATAGTTTCACTGATAAAGAGTAATGTTACGCTGAGA
* * * *
620792 TTAAAGGTGTGTACTCAGGGCAGGTCTTCGGTGCTTGGTGCTGAATGGGATCTATTATAGGATTT
66 TTAAAGGGGTGTACTCAGGGCAGGTCTTCGGTGCTTGCTGCGGAATGAGATCTATTATAGGATTT
*
620857 GTTTTTTTATTTCCATTCTTTATT
131 G-TTTTTTATTTCCATTCTTTAAT
*
620881 ATGGAGTTAGTCATAGTGGAATTTAGGGTATAGTTTCACTGATAAAGAGTAATGTTACGCTGAGA
1 ATGGAGTTAGTCATAGAGGAATTTAGGGTATAGTTTCACTGATAAAGAGTAATGTTACGCTGAGA
620946 TTAAAGGGGTGTACTC-GGGACAGGTCTTCGGTGCTTGCTGCGGAATGAGATCTATTATAGGATT
66 TTAAAGGGGTGTACTCAGGG-CAGGTCTTCGGTGCTTGCTGCGGAATGAGATCTATTATAGGATT
621010 TGTTTTTTATTTCCATTCTTTAAT
130 TGTTTTTTATTTCCATTCTTTAAT
621034 ATG
1 ATG
621037 CAGGATCTAA
Statistics
Matches: 148, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
153 27 0.18
154 121 0.82
ACGTcount: A:0.25, C:0.10, G:0.26, T:0.38
Consensus pattern (153 bp):
ATGGAGTTAGTCATAGAGGAATTTAGGGTATAGTTTCACTGATAAAGAGTAATGTTACGCTGAGA
TTAAAGGGGTGTACTCAGGGCAGGTCTTCGGTGCTTGCTGCGGAATGAGATCTATTATAGGATTT
GTTTTTTATTTCCATTCTTTAAT
Found at i:621861 original size:13 final size:13
Alignment explanation
Indices: 621843--621869 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
621833 AATCAAATTG
621843 AAATGCAAATCCC
1 AAATGCAAATCCC
621856 AAATGCAAATCCC
1 AAATGCAAATCCC
621869 A
1 A
621870 CGCGTTAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.30, G:0.07, T:0.15
Consensus pattern (13 bp):
AAATGCAAATCCC
Found at i:630754 original size:81 final size:80
Alignment explanation
Indices: 630669--630837 Score: 248
Period size: 81 Copynumber: 2.1 Consensus size: 80
630659 GAAGAATGTT
* *
630669 CTTCTCCTGATGTTCCTTTGGGAAGTTCGAAAGAATCAGCACAAACTCTGAAAAGAAAGAAGAGA
1 CTTCTCC-AATGTTCCTTTGGGAAGCTCGAAAGAATCAGCACAAACTCTGAAAAGAAAGAAGAGA
* *
630734 GACAACGGCGATTCTG
65 GACAACAGCGATTCGG
* * *
630750 CTTCTTCCAATGTTCCTTTGGGAAGCTCGAAAGAATCAGTACAGACTTTGAAAAGAAAGAAGAGA
1 CTTC-TCCAATGTTCCTTTGGGAAGCTCGAAAGAATCAGCACAAACTCTGAAAAGAAAGAAGAGA
*
630815 GACAACAGTGATTCGG
65 GACAACAGCGATTCGG
630831 CTTCTCC
1 CTTCTCC
630838 CAGTTTGAGT
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
80 3 0.04
81 73 0.92
82 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (80 bp):
CTTCTCCAATGTTCCTTTGGGAAGCTCGAAAGAATCAGCACAAACTCTGAAAAGAAAGAAGAGAG
ACAACAGCGATTCGG
Found at i:633970 original size:23 final size:23
Alignment explanation
Indices: 633939--633991 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
633929 TAAACTACCA
* *
633939 AAAGGCAGAGAAAAATGTGTCAC
1 AAAGACAGAGAAAAATGTATCAC
* *
633962 AAAGACAGAGATAAATGTATCAT
1 AAAGACAGAGAAAAATGTATCAC
633985 AAAGACA
1 AAAGACA
633992 TACAACATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.53, C:0.11, G:0.21, T:0.15
Consensus pattern (23 bp):
AAAGACAGAGAAAAATGTATCAC
Found at i:634848 original size:16 final size:16
Alignment explanation
Indices: 634827--634874 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
634817 AATTATATTA
*
634827 TAATAATATATGATTT
1 TAATAATATATAATTT
634843 TAATAATATATAATTT
1 TAATAATATATAATTT
634859 TAATAATATATAATTT
1 TAATAATATATAATTT
634875 ATTATAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATAATATATAATTT
Found at i:634869 original size:18 final size:18
Alignment explanation
Indices: 634796--634870 Score: 66
Period size: 16 Copynumber: 4.1 Consensus size: 18
634786 CATATTTTTA
634796 ATAATTTTATATAATATACT
1 ATAATTTTA-ATAATATA-T
*
634816 A-AATTATATTATAATAATAT
1 ATAATT-T-TAATAAT-ATAT
*
634836 ATGATTTTAAT-A-ATAT
1 ATAATTTTAATAATATAT
634852 ATAATTTTAATAATATAT
1 ATAATTTTAATAATATAT
634870 A
1 A
634871 ATTTATTATA
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
16 14 0.31
17 1 0.02
18 6 0.13
19 7 0.16
20 10 0.22
21 7 0.16
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
ATAATTTTAATAATATAT
Found at i:635232 original size:19 final size:19
Alignment explanation
Indices: 635189--635232 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
635179 TATATTTATT
*
635189 TATAATTTTTTAAATATAA
1 TATAATTTTTTAAAAATAA
635208 TATAATTTTTTAAAAAATAA
1 TATAATTTTTT-AAAAATAA
635228 T-TAAT
1 TATAAT
635233 ATAATTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATAATTTTTTAAAAATAA
Found at i:635502 original size:24 final size:23
Alignment explanation
Indices: 635475--635529 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
635465 AACATCTTTC
*
635475 AAATATTGAAATATATTTTTCGAA
1 AAATATTCAAA-ATATTTTTCGAA
* *
635499 AAATGTATCACAATATTTTTCGAA
1 AAATAT-TCAAAATATTTTTCGAA
635523 AAATATT
1 AAATATT
635530 TTCAATAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 1 0.04
24 22 0.85
25 3 0.12
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (23 bp):
AAATATTCAAAATATTTTTCGAA
Found at i:636395 original size:183 final size:183
Alignment explanation
Indices: 636009--636395 Score: 629
Period size: 183 Copynumber: 2.1 Consensus size: 183
635999 ATTAAATTTT
*
636009 AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAATCATTTAAAACCTAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAACCATTTAAAACCTAATTAATAA
* * *
636074 TTTAAGATCCAATAACTTTTAAATTTAAATCAATATTAATTAATTAAAAAATTATATAAATTTTT
66 TTTAAGATCAAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
* *
636139 TATTTTATAATTATATATTATTTAAATTATTTGTAAACTGTTTTTTAATTAAA
131 TATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAA
636192 AAATATTAAATATATTATATATAACATATGGGCT-AAGCCCAAACCATTTAAAA-CTCAATTAAT
1 AAATATTAAATATATTATATATAACATATGGGCTCAA-CCCAAACCATTTAAAACCT-AATTAAT
*
636255 AATTTAAGATCAAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTTATCTAAAAT
64 AATTTAAGATCAAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAA-TTATATAAAAT
636320 TTTTATTTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTGAATTAAA
128 TTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTT-AATTAAA
* *
636376 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
636396 AATTTGAAAT
Statistics
Matches: 191, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
182 4 0.02
183 121 0.63
184 66 0.35
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (183 bp):
AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAACCATTTAAAACCTAATTAATAA
TTTAAGATCAAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
TATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAA
Found at i:636687 original size:30 final size:30
Alignment explanation
Indices: 636651--636756 Score: 203
Period size: 30 Copynumber: 3.5 Consensus size: 30
636641 CTCCATGATT
636651 AAAGATCCAGGACCTTTCACCAATAAAAAC
1 AAAGATCCAGGACCTTTCACCAATAAAAAC
636681 AAAGATCCAGGACCTTTCACCAATAAAAAC
1 AAAGATCCAGGACCTTTCACCAATAAAAAC
636711 AAAGATCCAGGACCTTTCACCAATAAAAAC
1 AAAGATCCAGGACCTTTCACCAATAAAAAC
636741 AAAGATCCAGGGACCT
1 AAAGATCCA-GGACCT
636757 GGTTTCAAAA
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
30 69 0.92
31 6 0.08
ACGTcount: A:0.45, C:0.26, G:0.12, T:0.16
Consensus pattern (30 bp):
AAAGATCCAGGACCTTTCACCAATAAAAAC
Found at i:639935 original size:60 final size:62
Alignment explanation
Indices: 639835--639958 Score: 171
Period size: 60 Copynumber: 2.0 Consensus size: 62
639825 GTTATTAATG
* *
639835 TGATAATAATTTTGAATGTAACTTTTTTTTATTAATACGAGGTTAGTACAAAATAGGATATGT
1 TGATAATAATTTTGAATGTAAC-TTTCTTTATTAATACGAGATTAGTACAAAATAGGATATGT
* * * *
639898 TGATAATAATTTTGACT-TAA-TTTCTTTGTTAATACGAGATTAGTATAAAATATGATATGT
1 TGATAATAATTTTGAATGTAACTTTCTTTATTAATACGAGATTAGTACAAAATAGGATATGT
639958 T
1 T
639959 CAAAGATAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
60 36 0.65
62 3 0.05
63 16 0.29
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (62 bp):
TGATAATAATTTTGAATGTAACTTTCTTTATTAATACGAGATTAGTACAAAATAGGATATGT
Found at i:642892 original size:13 final size:13
Alignment explanation
Indices: 642874--642900 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
642864 AAAAATTAAT
642874 ATAATAACTCATA
1 ATAATAACTCATA
642887 ATAATAACTCATA
1 ATAATAACTCATA
642900 A
1 A
642901 AACCATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAATAACTCATA
Found at i:643807 original size:17 final size:17
Alignment explanation
Indices: 643787--643820 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
643777 AAAAATGAAC
643787 GAAATAAATTAAAAATT
1 GAAATAAATTAAAAATT
643804 GAAATAAATTAAAAATT
1 GAAATAAATTAAAAATT
643821 CAGGATTAGT
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:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
GAAATAAATTAAAAATT
Found at i:645947 original size:2 final size:2
Alignment explanation
Indices: 645940--645972 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
645930 CCCCGTTTTC
645940 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
645973 AACGATGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:646133 original size:24 final size:24
Alignment explanation
Indices: 646106--646155 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
646096 TTATTCACAA
* *
646106 ATAATCTCATTTGA-AAGTTCATTT
1 ATAAACTCATTT-ATAAGTTAATTT
646130 ATAAACTCATTTATAAGTTAATTT
1 ATAAACTCATTTATAAGTTAATTT
646154 AT
1 AT
646156 CCGGTTCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (24 bp):
ATAAACTCATTTATAAGTTAATTT
Found at i:646366 original size:25 final size:23
Alignment explanation
Indices: 646337--646383 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
646327 TAACATTTAT
646337 GAACATATTCGACAACATGTTAAAA
1 GAACATATTC-ACAA-ATGTTAAAA
* *
646362 GAACATGTTCACGAATGTTAAA
1 GAACATATTCACAAATGTTAAA
646384 CAAACTCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 3 0.15
25 9 0.45
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.26
Consensus pattern (23 bp):
GAACATATTCACAAATGTTAAAA
Found at i:647897 original size:41 final size:40
Alignment explanation
Indices: 647836--647989 Score: 107
Period size: 40 Copynumber: 3.8 Consensus size: 40
647826 CATCTTTCGA
* * *
647836 GATGAATTTCATTTGGAAATATCAATGGATTCACTCATCGG
1 GATGAATTTTATTT-AAAATATCAATGGATTCACTCATCAG
* * * * * *
647877 GATGAATTTTACTTTAAAATATTAACGTATTC-GTCCTTCTG
1 GATGAATTTTA-TTTAAAATATCAATGGATTCACT-CATCAG
* * * *
647918 GATGAATTTCATTTGAAATATTAATAGATTCAC-CATTCAG
1 GATGAATTTTATTTAAAATATCAATGGATTCACTCA-TCAG
* *
647958 GATGAA-TTTATTTCAGAATATCAGTGGATTCA
1 GATGAATTTTATTT-AAAATATCAATGGATTCA
647990 TCCTTAAAGG
Statistics
Matches: 86, Mismatches: 22, Indels: 11
0.72 0.18 0.09
Matches are distributed among these distances:
39 7 0.08
40 39 0.45
41 37 0.43
42 3 0.03
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (40 bp):
GATGAATTTTATTTAAAATATCAATGGATTCACTCATCAG
Found at i:647961 original size:40 final size:40
Alignment explanation
Indices: 647836--647970 Score: 125
Period size: 41 Copynumber: 3.4 Consensus size: 40
647826 CATCTTTCGA
* * *
647836 GATGAATTTCATTTGGAAATATCAATGGATTCACTCA-TCGG
1 GATGAATTTCATTT-GAAATATTAATAGATTCAC-CATTCAG
* * * * *
647877 GATGAATTTTACTTTAAAATATTAA-CGTATTCGTCC-TTCTG
1 GATGAATTTCA-TTTGAAATATTAATAG-ATTC-ACCATTCAG
647918 GATGAATTTCATTTGAAATATTAATAGATTCACCATTCAG
1 GATGAATTTCATTTGAAATATTAATAGATTCACCATTCAG
647958 GATGAATTT-ATTT
1 GATGAATTTCATTT
647971 CAGAATATCA
Statistics
Matches: 77, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
39 6 0.08
40 30 0.39
41 37 0.48
42 4 0.05
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.40
Consensus pattern (40 bp):
GATGAATTTCATTTGAAATATTAATAGATTCACCATTCAG
Found at i:647988 original size:40 final size:41
Alignment explanation
Indices: 647917--648025 Score: 116
Period size: 40 Copynumber: 2.7 Consensus size: 41
647907 TCGTCCTTCT
* * * * *
647917 GGATGAATTTCATTTGAAATATTAATAGATTCA-CCATT-CA
1 GGATGAATTTCATTTCAAATATCAGTGGATTCATCC-TTAAA
647957 GGATGAATTT-ATTTCAGAATATCAGTGGATTCATCCTTAAA
1 GGATGAATTTCATTTCA-AATATCAGTGGATTCATCCTTAAA
*
647998 GGATGAATTTCACTTCAAATTATCAGTG
1 GGATGAATTTCATTTCAAA-TATCAGTG
648026 ACTCCTCCCT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
39 5 0.09
40 25 0.43
41 15 0.26
42 13 0.22
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (41 bp):
GGATGAATTTCATTTCAAATATCAGTGGATTCATCCTTAAA
Found at i:648002 original size:81 final size:82
Alignment explanation
Indices: 647836--648009 Score: 194
Period size: 81 Copynumber: 2.1 Consensus size: 82
647826 CATCTTTCGA
* * *
647836 GATGAATTTCATTTGGAAATATCAATGGATTCACTCATCGGGATGAATTTTACTTTAAAATATTA
1 GATGAATTTCATTTGGAAATATCAATAGATTCACTCATCAGGATGAATTTTACTTTAAAATATCA
* * **
647901 ACGTATTCGTCCTTCTG
66 ACGGATTCATCCTTAAG
* *
647918 GATGAATTTCATTT-GAAATATTAATAGATTCAC-CATTCAGGATGAA-TTTA-TTTCAGAATAT
1 GATGAATTTCATTTGGAAATATCAATAGATTCACTCA-TCAGGATGAATTTTACTTT-AAAATAT
**
647979 CAGTGGATTCATCCTTAAAG
64 CAACGGATTCATCCTT-AAG
647999 GATGAATTTCA
1 GATGAATTTCA
648010 CTTCAAATTA
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
79 3 0.04
80 23 0.29
81 38 0.49
82 14 0.18
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (82 bp):
GATGAATTTCATTTGGAAATATCAATAGATTCACTCATCAGGATGAATTTTACTTTAAAATATCA
ACGGATTCATCCTTAAG
Found at i:651957 original size:2 final size:2
Alignment explanation
Indices: 651950--651982 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
651940 GTCGATTAGG
651950 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
651983 TTTTAAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:655632 original size:2 final size:2
Alignment explanation
Indices: 655625--655663 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
655615 AATGATCTTT
*
655625 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
655664 TGTTATCCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:657332 original size:20 final size:22
Alignment explanation
Indices: 657296--657344 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
657286 ATTAAATCCC
657296 TATTTTTATTGAATAAAATAAA
1 TATTTTTATTGAATAAAATAAA
*
657318 TATTTTT-TT-AATAAAATATAT
1 TATTTTTATTGAATAAAATA-AA
657339 TATTTT
1 TATTTT
657345 GAATCGGATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 9 0.36
21 9 0.36
22 7 0.28
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTTTTATTGAATAAAATAAA
Found at i:657344 original size:18 final size:19
Alignment explanation
Indices: 657307--657344 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
657297 ATTTTTATTG
*
657307 AATAAAATAAATATTTTTTT
1 AATAAAAT-AATATTATTTT
657327 AATAAAAT-ATATTATTTT
1 AATAAAATAATATTATTTT
657345 GAATCGGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATAAAATAATATTATTTT
Found at i:659255 original size:15 final size:14
Alignment explanation
Indices: 659179--659257 Score: 52
Period size: 15 Copynumber: 5.4 Consensus size: 14
659169 ATAATTATAT
*
659179 ATATATATAATATTA
1 ATATATTTAAT-TTA
* *
659194 ATAAATTTAATATA
1 ATATATTTAATTTA
* *
659208 ATTTAATTTAAATT-
1 ATAT-ATTTAATTTA
* *
659222 ATATATATAATATTT
1 ATATATTTAAT-TTA
659237 ATATATTTAATTTAA
1 ATATATTTAATTT-A
659252 ATATAT
1 ATATAT
659258 ATACCTGACC
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
13 5 0.10
14 11 0.23
15 32 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATATATTTAATTTA
Found at i:659259 original size:34 final size:34
Alignment explanation
Indices: 659194--659260 Score: 104
Period size: 33 Copynumber: 2.0 Consensus size: 34
659184 TATAATATTA
659194 ATAAATTTAATATAATTTAATTTAAATTATATAT
1 ATAAATTTAATATAATTTAATTTAAATTATATAT
659228 ATAATATTT-ATAT-ATTTAATTTAAA-TATATAT
1 ATAA-ATTTAATATAATTTAATTTAAATTATATAT
659260 A
1 A
659261 CCTGACCCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 8 0.25
33 12 0.38
34 8 0.25
35 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (34 bp):
ATAAATTTAATATAATTTAATTTAAATTATATAT
Found at i:668014 original size:16 final size:16
Alignment explanation
Indices: 667993--668024 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
667983 TTCAATAACC
667993 TACTATGTAATTAAAT
1 TACTATGTAATTAAAT
668009 TACTATGTAATTAAAT
1 TACTATGTAATTAAAT
668025 AAAATTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (16 bp):
TACTATGTAATTAAAT
Found at i:670872 original size:9 final size:9
Alignment explanation
Indices: 670860--670925 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
670850 CATTTTAATT
670860 TTATTTATA
1 TTATTTATA
670869 TTA-TTATTA
1 TTATTTA-TA
670878 TTA-TTATAA
1 TTATTTAT-A
670887 TTA-TTATTA
1 TTATTTA-TA
*
670896 TTAATATATA
1 TT-ATTTATA
670906 TTATTTAT-
1 TTATTTATA
*
670914 TTATTAATA
1 TTATTTATA
670923 TTA
1 TTA
670926 CAAAACCCGG
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
8 11 0.23
9 29 0.60
10 6 0.12
11 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TTATTTATA
Found at i:670875 original size:3 final size:3
Alignment explanation
Indices: 670867--670925 Score: 64
Period size: 3 Copynumber: 18.7 Consensus size: 3
670857 ATTTTATTTA
* *
670867 TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT TAA TAT ATAT TATT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TA-T
*
670915 TAT TAA TAT TA
1 TAT TAT TAT TA
670926 CAAAACCCGG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
3 38 0.79
4 10 0.21
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:671070 original size:28 final size:28
Alignment explanation
Indices: 671038--671108 Score: 133
Period size: 28 Copynumber: 2.5 Consensus size: 28
671028 AGCCGCCTCT
671038 GCCTCCAGCCGCCTCAGCCAACGGTCCA
1 GCCTCCAGCCGCCTCAGCCAACGGTCCA
671066 GCCTCCAGCCGCCTCAGCCAACGGTCCA
1 GCCTCCAGCCGCCTCAGCCAACGGTCCA
*
671094 GCTTCCAGCCGCCTC
1 GCCTCCAGCCGCCTC
671109 TGCTGCCAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.15, C:0.51, G:0.21, T:0.13
Consensus pattern (28 bp):
GCCTCCAGCCGCCTCAGCCAACGGTCCA
Found at i:671411 original size:15 final size:14
Alignment explanation
Indices: 671391--671433 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
671381 ACAACGCAGT
671391 AAAGAAACAGAAAAG
1 AAAGAAA-AGAAAAG
671406 AAAGAAAAGAAAAAAG
1 AAAGAAAAG--AAAAG
*
671422 AAAGAAGAGAAA
1 AAAGAAAAGAAA
671434 CTTACCGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 5 0.20
15 7 0.28
16 13 0.52
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAGAAAAGAAAAG
Found at i:671422 original size:16 final size:16
Alignment explanation
Indices: 671401--671433 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
671391 AAAGAAACAG
671401 AAAAGAAAGAAAAGAA
1 AAAAGAAAGAAAAGAA
*
671417 AAAAGAAAGAAGAGAA
1 AAAAGAAAGAAAAGAA
671433 A
1 A
671434 CTTACCGAGG
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:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAAGAAAGAAAAGAA
Found at i:676735 original size:30 final size:29
Alignment explanation
Indices: 676711--676785 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 29
676701 ATCCTGTATC
*
676711 TTTCGACCAAGAACCTATGTATCCTCTAGGT
1 TTTCCACC-AGAACCTATGTATCCTCTA-GT
676742 TTTCCACCAGAACCTATGTATCCTCTAGGT
1 TTTCCACCAGAACCTATGTATCCTCTA-GT
676772 TTTCCACCAGAACC
1 TTTCCACCAGAACC
676786 AATTTATCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 36 0.84
31 7 0.16
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (29 bp):
TTTCCACCAGAACCTATGTATCCTCTAGT
Found at i:683736 original size:6 final size:6
Alignment explanation
Indices: 683725--683797 Score: 67
Period size: 6 Copynumber: 11.3 Consensus size: 6
683715 ATTATGCTTG
* *
683725 AAGAAA AAGAAAA AGAGAGAA AAGAAA AAGAAA GAGATGA AA-AAA AAGAAA
1 AAGAAA AAG-AAA A-AGA-AA AAGAAA AAGAAA AAGA-AA AAGAAA AAGAAA
683776 AAGAAAA AGAGAAA AAGAAA AA
1 AAG-AAA A-AGAAA AAGAAA AA
683798 AGGGGTCAAG
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
5 3 0.05
6 28 0.50
7 18 0.32
8 7 0.12
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (6 bp):
AAGAAA
Found at i:683749 original size:15 final size:15
Alignment explanation
Indices: 683729--683797 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
683719 TGCTTGAAGA
*
683729 AAAAGAAAAAGAGAG
1 AAAAGAAAAAGAAAG
683744 AAAAGAAAAAGAAAG
1 AAAAGAAAAAGAAAG
* *
683759 AGATGAAAAA-AAAG
1 AAAAGAAAAAGAAAG
*
683773 AAAAAGAAAAAGAGA-
1 -AAAAGAAAAAGAAAG
683788 AAAAGAAAAA
1 AAAAGAAAAA
683798 AGGGGTCAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
14 14 0.30
15 30 0.65
16 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.01
Consensus pattern (15 bp):
AAAAGAAAAAGAAAG
Found at i:683776 original size:24 final size:23
Alignment explanation
Indices: 683725--683791 Score: 93
Period size: 24 Copynumber: 3.0 Consensus size: 23
683715 ATTATGCTTG
*
683725 AAGAAAAAGAAAAAGAG--AGAA
1 AAGAAAAAGAAAAAGAGAAAAAA
*
683746 AAGAAAAAGAAAGAGATGAAAAAA
1 AAGAAAAAGAAAAAGA-GAAAAAA
683770 AAGAAAAAGAAAAAGAGAAAAA
1 AAGAAAAAGAAAAAGAGAAAAA
683792 GAAAAAAGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
21 15 0.38
22 1 0.03
23 6 0.15
24 18 0.45
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (23 bp):
AAGAAAAAGAAAAAGAGAAAAAA
Found at i:683799 original size:15 final size:14
Alignment explanation
Indices: 683726--683797 Score: 83
Period size: 14 Copynumber: 4.9 Consensus size: 14
683716 TTATGCTTGA
683726 AGAAAAAGAAAAAG
1 AGAAAAAGAAAAAG
683740 AGAGAAAAGAAAAAG
1 AGA-AAAAGAAAAAG
* *
683755 A-AAGAGATGAAAAAAA
1 AGAA-A-AAG-AAAAAG
683771 AGAAAAAGAAAAAG
1 AGAAAAAGAAAAAG
683785 AGAAAAAGAAAAA
1 AGAAAAAGAAAAA
683798 AGGGGTCAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
13 1 0.02
14 23 0.47
15 16 0.33
16 7 0.14
17 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (14 bp):
AGAAAAAGAAAAAG
Found at i:685046 original size:83 final size:83
Alignment explanation
Indices: 684950--685411 Score: 809
Period size: 83 Copynumber: 5.5 Consensus size: 83
684940 AAATGCCAGG
684950 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
685015 GAAGTTGGAAAATGAATA
66 GAAGTTGGAAAATGAATA
685033 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
685098 GAAGTT-GAAAGATGAATA
66 GAAGTTGGAAA-ATGAATA
*
685116 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAGTTTGGTAAAACCAATCATT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
* *
685181 GAATTTGGAAAATTAATA
66 GAAGTTGGAAAATGAATA
*
685199 TGCTCATAGCATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
* * *
685264 GAATTTGGAAAGACGAATG
66 GAAGTTGGAAA-ATGAATA
*
685283 TGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCAT
1 TGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCAT
685348 TGAAGTTGGAAAATGAATA
65 TGAAGTTGGAAAATGAATA
*
685367 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTG
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
685412 ATTCAGTAGG
Statistics
Matches: 360, Mismatches: 15, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
82 4 0.01
83 266 0.74
84 21 0.06
85 69 0.19
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (83 bp):
TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
GAAGTTGGAAAATGAATA
Found at i:686343 original size:113 final size:113
Alignment explanation
Indices: 686140--686682 Score: 593
Period size: 113 Copynumber: 4.8 Consensus size: 113
686130 GCAAAGAATC
* * * * * * *
686140 AAATCCATCAT-TCGATGGATCAACTTTTCCAGGGAAAGTTTATAATAAGAAGAACACATCTGAA
1 AAATCCATCATAT-GATGGATCAACATTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAA
* * *
686204 GAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
65 GAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
* * * * *
686253 AAATTCATCATATGATGGATTAACATTGCCAG-GTCGAGTTCCTAATGAGAATAACTCATCTGAA
1 AAATCCATCATATGATGGATCAACATTGCCAGAG-AGAGTTCATAATGAGAAGAACTCATCTGAA
* * *
686317 GAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAATCTTTTGCTC
65 GAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
* * * * *
686366 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATATGATGGATCAACATTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAG
* * * *
686431 AAGGAAGAATAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTT
66 AAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
* * * *
686479 AAATTCATCATATGATGGATTAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCAT-C
1 AAATCCATCATATGATGGATCAACATTGCCAGAG-AGAGTTCATAATGAGAAGAACTCATC-TGA
* * *
686542 TG-AAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGATT
64 AGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
* ** * *
686591 AAATCCATCACT-TGATAGATCCGCTTTTCCAGAG-GAAGTTCATAATGAGAAGAACTCATCTGA
1 AAATCCATCA-TATGATGGATCAACATTGCCAGAGAG-AGTTCATAATGAGAAGAACTCATCTGA
*
686654 AG-AAG--GATGAAAGTTCATAATGAGAAGAA
64 AGAAAGAAGAAGAAA-TTCATAATGAGAAGAA
686683 CTCATCTGAA
Statistics
Matches: 359, Mismatches: 61, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
110 6 0.02
111 18 0.05
112 93 0.26
113 239 0.67
114 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (113 bp):
AAATCCATCATATGATGGATCAACATTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAG
AAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
Found at i:686677 original size:38 final size:40
Alignment explanation
Indices: 686626--686722 Score: 162
Period size: 38 Copynumber: 2.5 Consensus size: 40
686616 TTTCCAGAGG
*
686626 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATG-A-
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAT
686664 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAT
*
686704 AAATTCATAATGAGAAGAA
1 AAGTTCATAATGAGAAGAA
686723 TTTGTTCAAC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
38 36 0.65
39 1 0.02
40 18 0.33
ACGTcount: A:0.48, C:0.09, G:0.22, T:0.21
Consensus pattern (40 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAT
Found at i:686709 original size:225 final size:226
Alignment explanation
Indices: 686137--686711 Score: 667
Period size: 226 Copynumber: 2.5 Consensus size: 226
686127 TTAGCAAAGA
* * * * * *
686137 ATCAAATCCATCA-TTCGATGGATCAACTTTTCCAGGGAAAGTTTATAATAAGAAGAACACATCT
1 ATCAAATCCATCACTT-GATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
* * ** ****** **
686201 GAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATAT
65 GAAGAAGGAAGAATAAGTTCATAATAAGAAGAACTCATTCAAAAGGAAGAATAAATTCATCATAT
* * *
686266 GATGGATTAACATTGCCAGGTCGAGTTCCTAATGAGAATAACTCATCTGAAGAAAGAAGAAGAAA
130 GATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAA
686331 TTCATAATGAGAAGAATTTGTTCAATCTTTTG
195 TTCATAATGAGAAGAATTTGTTCAATCTTTTG
* * *
686363 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 ATCAAATCCATCACTTGATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* ** ****** **
686428 AAGAAGGAAGAATAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATATG
66 AAGAAGGAAGAATAAGTTCATAATAAGAAGAACTCATTCAAAAGGAAGAATAAATTCATCATATG
* **
686493 ATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCAT-CTG-AAGAAGAAGAAA
131 ATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATC-TGAAGAAAGAAGAAGAAA
686556 TTCATAATGAGAAGAATTTGTTCAA-CTTTTTG
195 TTCATAATGAGAAGAATTTGTTCAATC-TTTTG
* * *
686588 ATTAAATCCATCACTTGATAGATCCGCTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTG
1 ATCAAATCCATCACTTGATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* * *
686653 AAGAAGGATG-A-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAATTCAT
66 AAGAAGGAAGAATAAGTTCATAATAAGAAGAACTCAT-TCAA-AAGGAAGAATAAATTCAT
686712 AATGAGAAGA
Statistics
Matches: 311, Mismatches: 33, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
223 20 0.06
224 5 0.02
225 120 0.39
226 163 0.52
227 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (226 bp):
ATCAAATCCATCACTTGATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
AAGAAGGAAGAATAAGTTCATAATAAGAAGAACTCATTCAAAAGGAAGAATAAATTCATCATATG
ATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAAT
TCATAATGAGAAGAATTTGTTCAATCTTTTG
Found at i:686718 original size:151 final size:149
Alignment explanation
Indices: 686515--686841 Score: 577
Period size: 151 Copynumber: 2.2 Consensus size: 149
686505 TGCCAGGTAG
686515 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
686580 ACTTTTTGATTAAATCCATCACTTGATAGATCCGCTTTTCCAGAGGAAGTTCATAATGAGAAGAA
63 ACTTTTTGATTAAATCCATCACTTGATAGATCCGCTTTTCCAGAGGAAGTTCATAATGAGAAGAA
686645 CTCATCTGAAGAAGGATG-A-A
128 CTCATCTGAAGAAGGATGAAGA
686665 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAG---AAATTCATAATGAGAAGAATTTGTTC
686730 AACTTTTTGATTAAATCCATCACTTGATAGATCCGCTTTTCCAGAGGAAGTTCATAATGAGAAGA
62 AACTTTTTGATTAAATCCATCACTTGATAGATCCGCTTTTCCAGAGGAAGTTCATAATGAGAAGA
686795 ACTCATCTGAAGAAGGATGAAGA
127 ACTCATCTGAAGAAGGATGAAGA
686818 AGTTCATAATGAGAAGAACTCATC
1 AGTTCATAATGAGAAGAACTCATC
686842 AAGAGCTTAT
Statistics
Matches: 171, Mismatches: 0, Indels: 9
0.95 0.00 0.05
Matches are distributed among these distances:
147 12 0.07
148 5 0.03
150 18 0.11
151 110 0.64
152 1 0.01
153 25 0.15
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (149 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACT
TTTTGATTAAATCCATCACTTGATAGATCCGCTTTTCCAGAGGAAGTTCATAATGAGAAGAACTC
ATCTGAAGAAGGATGAAGA
Found at i:686795 original size:73 final size:73
Alignment explanation
Indices: 686556--686795 Score: 193
Period size: 73 Copynumber: 3.2 Consensus size: 73
686546 GAAGAAGAAA
686556 TTCATAATGAGAAGAATTTGTTCAACTTTTTGATTAAATCCATCACTTGATAGATCCGCTTTTCC
1 TTCATAATGAGAAGAATTTGTTCAACTTTTTGATTAAATCCATCACTTGATAGATCCGCTTTTCC
686621 AGAGGAAG
66 AGAGGAAG
* ** * **** * * * * * * * *
686629 TTCATAATGAGAAGAACTCATCTGAA--GAAGGATGAAAGTTCAT-A-ATGAGAAGA-ACTCATC
1 TTCATAATGAGAAGAATTTGT-TCAACTTTTTGATTAAA-TCCATCACTTGA-TAGATCCGCTTT
**
686689 TGAAGAAGGAAG
63 TCCAG-AGGAAG
686701 AATAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGATTAAATCCATCACTTGATAGATCCGC
1 ------TTCATAATGAGAAGAATTTGTTCAACTTTTTGATTAAATCCATCACTTGATAGATCCGC
686766 TTTTCCAGAGGAAG
60 TTTTCCAGAGGAAG
686780 TTCATAATGAGAAGAA
1 TTCATAATGAGAAGAA
686796 CTCATCTGAA
Statistics
Matches: 116, Mismatches: 36, Indels: 30
0.64 0.20 0.16
Matches are distributed among these distances:
71 9 0.08
72 16 0.14
73 38 0.33
74 3 0.03
77 3 0.03
78 22 0.19
79 16 0.14
80 9 0.08
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (73 bp):
TTCATAATGAGAAGAATTTGTTCAACTTTTTGATTAAATCCATCACTTGATAGATCCGCTTTTCC
AGAGGAAG
Found at i:687102 original size:3 final size:3
Alignment explanation
Indices: 687094--687164 Score: 88
Period size: 3 Copynumber: 22.7 Consensus size: 3
687084 ATTTTATTTA
* *
687094 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
687142 ATAT TATT TATT TAT TAA TAT TA
1 -TAT TA-T TA-T TAT TAT TAT TA
687165 CAAAACCCGG
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
3 50 0.83
4 10 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:687285 original size:16 final size:16
Alignment explanation
Indices: 687264--687295 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
687254 AACCCTAGCT
687264 TCCAGCCGCCTCTGCC
1 TCCAGCCGCCTCTGCC
687280 TCCAGCCGCCTCTGCC
1 TCCAGCCGCCTCTGCC
687296 AACGGTCCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.56, G:0.19, T:0.19
Consensus pattern (16 bp):
TCCAGCCGCCTCTGCC
Found at i:687317 original size:28 final size:28
Alignment explanation
Indices: 687277--687350 Score: 130
Period size: 28 Copynumber: 2.6 Consensus size: 28
687267 AGCCGCCTCT
687277 GCCTCCAGCCGCCTCTGCCAACGGTCCA
1 GCCTCCAGCCGCCTCTGCCAACGGTCCA
*
687305 GCCTCCAGCCGCCTCAGCCAACGGTCCA
1 GCCTCCAGCCGCCTCTGCCAACGGTCCA
*
687333 GCTTCCAGCCGCCTCTGC
1 GCCTCCAGCCGCCTCTGC
687351 TGCCAGTGCC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.14, C:0.50, G:0.22, T:0.15
Consensus pattern (28 bp):
GCCTCCAGCCGCCTCTGCCAACGGTCCA
Found at i:689347 original size:2 final size:2
Alignment explanation
Indices: 689336--689399 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
689326 AAATTGTATC
689336 AT AT -T 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
689377 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
689400 GTGGTGTTCT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:691724 original size:31 final size:31
Alignment explanation
Indices: 691682--691740 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
691672 AACTTAAAAG
* *
691682 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
691713 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
691741 CCATACAACT
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:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:691791 original size:22 final size:22
Alignment explanation
Indices: 691765--691807 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
691755 TAATAAATTA
691765 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
691787 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
691808 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:691816 original size:22 final size:22
Alignment explanation
Indices: 691767--691815 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
691757 ATAAATTATT
**
691767 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
691789 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
691812 TAAA
1 TAAA
691816 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:691819 original size:54 final size:54
Alignment explanation
Indices: 691755--692170 Score: 563
Period size: 54 Copynumber: 7.6 Consensus size: 54
691745 ACAACTACAA
691755 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * **
691809 TAATAAATTATTTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
* * * *
691867 TAATAAATTATTTAAAATAAATCAATTCATATTAATAAATTATTTAAAATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATATT-TTAAA--A--T-AAATCAATCCATAC
* * * *
691926 -CATACAACTA--CAATAATAAATCAATCTATATTTTAAAATAAATC-ATCCATAC
1 TAATA-AATTATTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
691978 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
692032 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
692086 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
692140 TAATAAATTATTTAAAATAAATCGATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
692171 AAACTACAAT
Statistics
Matches: 320, Mismatches: 25, Indels: 34
0.84 0.07 0.09
Matches are distributed among these distances:
51 5 0.02
52 9 0.03
53 33 0.10
54 175 0.55
55 4 0.01
56 3 0.01
57 11 0.03
58 64 0.20
59 6 0.02
60 10 0.03
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:691825 original size:32 final size:32
Alignment explanation
Indices: 691787--692333 Score: 284
Period size: 32 Copynumber: 18.5 Consensus size: 32
691777 CAATCCATAT
691787 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
691819 TTTAAAATAAATCAATCTATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
691849 --T--AATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
691877 TTTAAAATAAATCAATTCATATTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
691909 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* **
691939 --T--AATAAATCAATCTATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
691964 -------TAAATC-ATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
691988 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
692010 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
692042 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
692064 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
692096 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
692118 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
692150 TTTAAAATAAATCGATCC--A-T-A-AAACTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* ** *
692177 --CAATAATAAATCAATCTACATTTTAAAATAAATCAA
1 TTTAA-AATAAATCAATC--CATACT--AATAAAT-TA
* * * ** * * *
692213 TCCATACTAATAAAT-TATTTAAAATAAATCAATCCATA
1 T--TTA-AAATAAATCAATCCATACT-AATAAAT---TA
*
692251 TTTTAAAATAATTCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATACTAATAAATTA
692284 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
692316 TTTAAAAATAAATCAATC
1 TTT-AAAATAAATCAATC
692334 AATATTTTAT
Statistics
Matches: 397, Mismatches: 46, Indels: 143
0.68 0.08 0.24
Matches are distributed among these distances:
21 6 0.02
22 59 0.15
23 5 0.01
24 4 0.01
25 6 0.02
26 54 0.14
27 7 0.02
28 14 0.04
29 1 0.00
30 7 0.02
31 16 0.04
32 157 0.40
33 16 0.04
34 1 0.00
35 3 0.01
36 20 0.05
37 9 0.02
38 1 0.00
39 3 0.01
40 8 0.02
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:691887 original size:14 final size:14
Alignment explanation
Indices: 691868--691920 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
691858 AATCCATACT
691868 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
691882 AATAAATCAATTCATATT
1 AATAAAT-TATT--TA-A
691900 AATAAATTATTTAA
1 AATAAATTATTTAA
691914 AATAAAT
1 AATAAAT
691921 CAATCCATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 5 0.16
17 5 0.16
18 7 0.23
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:691984 original size:22 final size:23
Alignment explanation
Indices: 691911--691984 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 23
691901 ATAAATTATT
691911 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
* **
691933 CTACAATAATAAATCAATCTATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
691959 TAAAATAAATC-ATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
691981 TAAA
1 TAAA
691985 TTATTTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
21 6 0.15
22 13 0.32
23 3 0.08
25 3 0.08
26 15 0.38
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:692039 original size:22 final size:22
Alignment explanation
Indices: 691990--692038 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
691980 ATAAATTATT
**
691990 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
692012 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
692035 TAAA
1 TAAA
692039 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:692068 original size:22 final size:22
Alignment explanation
Indices: 692042--692084 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
692032 TAATAAATTA
692042 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
692064 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
692085 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:692093 original size:22 final size:22
Alignment explanation
Indices: 692044--692092 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
692034 ATAAATTATT
**
692044 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
692066 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
692089 TAAA
1 TAAA
692093 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:692122 original size:22 final size:22
Alignment explanation
Indices: 692096--692138 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
692086 TAATAAATTA
692096 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
692118 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
692139 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:692147 original size:22 final size:22
Alignment explanation
Indices: 692098--692146 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
692088 ATAAATTATT
**
692098 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
692120 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
692143 TAAA
1 TAAA
692147 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:692203 original size:134 final size:134
Alignment explanation
Indices: 691770--692304 Score: 495
Period size: 134 Copynumber: 3.9 Consensus size: 134
691760 AATTATTTAA
*
691770 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCACATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* * ** * *
691835 CTATACAACTACAATAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATATT
66 CCAT---ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-A
*
691900 AA-TAAATTATTT
126 AACTACA--A--T
** * * *
691912 AAAATAAATCAATCCATACA-ACTACAAT-AATAAATCAAT-CT-AT--A-T-TTTAAAATAAAT
1 --AATAAATCAATCC--ACATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
** * ** * ** ** *
691969 C-ATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAAAATAAATCAATCTAT
62 CAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAAAATAAATCAATCCAT
* *
692030 ACTAA-TAAATTATTT
124 A-AAACTACA--A--T
*
692045 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCACATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
*
692110 ATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCGATCCATAAAAC
64 ATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAAAAC
692175 TACAAT
129 TACAAT
*
692181 AATAAATCAATCTACATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCACATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
692246 CCATATTTTAAAATAATTCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA
66 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA
692305 CTAATAAATT
Statistics
Matches: 328, Mismatches: 45, Indels: 46
0.78 0.11 0.11
Matches are distributed among these distances:
131 2 0.01
132 7 0.02
133 60 0.18
134 128 0.39
135 10 0.03
136 1 0.00
137 6 0.02
138 20 0.06
139 25 0.08
140 34 0.10
141 2 0.01
142 2 0.01
143 2 0.01
144 22 0.07
145 5 0.02
146 2 0.01
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (134 bp):
AATAAATCAATCCACATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAAAACTA
CAAT
Found at i:692254 original size:54 final size:54
Alignment explanation
Indices: 692181--692304 Score: 221
Period size: 54 Copynumber: 2.3 Consensus size: 54
692171 AAACTACAAT
* *
692181 AATAAATCAATCTACATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
692235 AATAAATCAATCCATATTTTAAAATAATTCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
692289 AATAAATCAATCCATA
1 AATAAATCAATCCATA
692305 CTAATAAATT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:692256 original size:22 final size:22
Alignment explanation
Indices: 692230--692272 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
692220 TAATAAATTA
692230 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
692252 TTTAAAATAATTCAATCCATA
1 TTTAAAATAAATCAATCCATA
692273 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:692281 original size:22 final size:22
Alignment explanation
Indices: 692232--692280 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
692222 ATAAATTATT
**
692232 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
692254 TAAAATAATTCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
692277 TAAA
1 TAAA
692281 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:692286 original size:33 final size:33
Alignment explanation
Indices: 692249--692365 Score: 146
Period size: 32 Copynumber: 3.5 Consensus size: 33
692239 AATCAATCCA
*
692249 TATTTTAAAATAATTCAATCCATACTAATAAAT
1 TATTTTAAAATAAATCAATCCATACTAATAAAT
692282 TA-TTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTTAAAATAAATCAATCCATACTAATAAAT
* * * *
692314 TATTTAAAAATAAATCAATCAATATTTTATAATAATT
1 TATTTTAAAATAAATCAATCCATA----CTAATAAAT
692351 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
692366 TATTTTAATA
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
32 31 0.42
33 21 0.29
37 21 0.29
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (33 bp):
TATTTTAAAATAAATCAATCCATACTAATAAAT
Found at i:692356 original size:15 final size:15
Alignment explanation
Indices: 692336--692394 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
692326 AATCAATCAA
692336 TATTTTATAATAATT
1 TATTTTATAATAATT
* *
692351 TATTTTAAAATAAAT
1 TATTTTATAATAATT
*
692366 TATTTTAATAAATAATCA
1 TATTTT-AT-AATAAT-T
692384 TATTTTATAAT
1 TATTTTATAAT
692395 TGTTCTTGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
15 19 0.53
16 4 0.11
17 7 0.19
18 6 0.17
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTTTATAATAATT
Found at i:704807 original size:44 final size:43
Alignment explanation
Indices: 704744--705042 Score: 387
Period size: 44 Copynumber: 7.0 Consensus size: 43
704734 CCGTTACAGT
704744 AGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCC
1 AGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTT-CCCC
* *
704788 AGGTCCCCTTGCTGTGTGCAAGGGTAAGCCTTACAATTTTCCCC
1 AGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTAC-AGTTTCCCC
*
704832 AGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCCCCC
1 AGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTT-CCCC
* *
704876 AGGTCCATTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCCCC
1 AGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCC
*
704919 AGGTCCCTTTGTTGTGTGCAA-GG---G--TTACAGTTTTCCCC
1 AGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAG-TTTCCCC
* * * * *
704957 AGGTTCATTTGCTGTGTGCAAGGGTGAGCCTTACAGCTT-CAC
1 AGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCC
* * *
704999 AGGTTCCTTTGCTGTGTTCAAGGGTAAGCCTTACAGTTTACCC
1 AGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCC
705042 A
1 A
705043 TGCTTTTTTG
Statistics
Matches: 227, Mismatches: 18, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
37 6 0.03
38 25 0.11
39 3 0.01
42 40 0.18
43 32 0.14
44 117 0.52
45 4 0.02
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.31
Consensus pattern (43 bp):
AGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCC
Found at i:705060 original size:123 final size:124
Alignment explanation
Indices: 704744--705064 Score: 342
Period size: 123 Copynumber: 2.5 Consensus size: 124
704734 CCGTTACAGT
* * * * * * *
704744 AGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTCCCCTTGCTGTGTGCAA
1 AGGTCCATTTGCTGTGTGCAAAGGTAAGCCTTACAGTTT-ACCCAGCTCCCTTTGTTATGTGCAA
* *
704809 GGGTAAGCCTTACAATTTTCCCCAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCCC
65 -GG---G--TTACAATTTTCCCCAGGTCCATTTGCTGTGTGCAAAGGTAAGCCTTACAGCTT-CC
*
704874 CC
123 AC
* * *
704876 AGGTCCATTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCCCCAGGTCCCTTTGTTGTGTGCAAG
1 AGGTCCATTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTACCCAGCTCCCTTTGTTATGTGCAAG
* * * *
704941 GGTTACAGTTTTCCCCAGGTTCATTTGCTGTGTGCAAGGGTGAGCCTTACAGCTT-CAC
66 GGTTACAATTTTCCCCAGGTCCATTTGCTGTGTGCAAAGGTAAGCCTTACAGCTTCCAC
* * **
704999 AGGTTCC-TTTGCTGTGTTCAAGGGTAAGCCTTACAGTTTACCCATGCT-TTTTTGTTATGTGCA
1 AGG-TCCATTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTACCCA-GCTCCCTTTGTTATGTGCA
705062 AGG
64 AGG
705065 ATAAAACCTT
Statistics
Matches: 169, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
123 54 0.32
124 5 0.03
125 47 0.28
127 1 0.01
130 2 0.01
131 23 0.14
132 37 0.22
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.33
Consensus pattern (124 bp):
AGGTCCATTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTACCCAGCTCCCTTTGTTATGTGCAAG
GGTTACAATTTTCCCCAGGTCCATTTGCTGTGTGCAAAGGTAAGCCTTACAGCTTCCAC
Found at i:707415 original size:44 final size:43
Alignment explanation
Indices: 707352--707604 Score: 371
Period size: 44 Copynumber: 5.8 Consensus size: 43
707342 ACCGTTACAG
707352 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCC
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTT-CCC
* * *
707396 CAGGTCCCCTTGCTGTGTGCAAGGGTAAGCCTTACAATTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
* * *
707439 CAGGTCCCTTTGCTATGTGCAAAGGTAAGCCTTACAATTTCCC
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
* *
707482 TTAGGTCCCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCCC
1 -CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
707526 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCCC
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAG-TTTCCC
* * *
707570 CAGGTTCCTTTGTTGTGTGCAAGGATAAGACCTTA
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAG-CCTTA
707605 TCGTTTTTGC
Statistics
Matches: 191, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
43 76 0.40
44 110 0.58
45 5 0.03
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (43 bp):
CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
Found at i:707498 original size:87 final size:86
Alignment explanation
Indices: 707352--707604 Score: 362
Period size: 87 Copynumber: 2.9 Consensus size: 86
707342 ACCGTTACAG
* *
707352 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTCCCCTTGCTGTGTGCA
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAATTT-CCCCAGGTCCCTTTGCTGTGTGCA
*
707417 AGGGTAAGCCTTACAATTTTCC
65 AGGGTAAGCCTTACAATTTCCC
* * *
707439 CAGGTCCCTTTGCTATGTGCAAAGGTAAGCCTTACAATTTCCCTTAGGTCCCTTTGCTGTGTGCA
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAATTTCCC-CAGGTCCCTTTGCTGTGTGCA
* *
707504 AAGGTAAGCCTTACAGTTTCCC
65 AGGGTAAGCCTTACAATTTCCC
* * *
707526 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCCCCAGGTTCCTTTGTTGTGTGCA
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACA-ATTTCCCCAGGTCCCTTTGCTGTGTGCA
*
707591 AGGATAAGACCTTA
65 AGGGTAAG-CCTTA
707605 TCGTTTTTGC
Statistics
Matches: 147, Mismatches: 16, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
86 3 0.02
87 133 0.90
88 11 0.07
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (86 bp):
CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAATTTCCCCAGGTCCCTTTGCTGTGTGCAA
GGGTAAGCCTTACAATTTCCC
Found at i:709696 original size:21 final size:21
Alignment explanation
Indices: 709636--709681 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
709626 TAAAGAGATA
*
709636 TTTATAA-AATTA-ATAA-TG
1 TTTATAATAATTATATAATTT
709654 TTTATAATAATTATATAATTT
1 TTTATAATAATTATATAATTT
709675 TTTATAA
1 TTTATAA
709682 ATATTGTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 7 0.29
19 5 0.21
20 4 0.17
21 8 0.33
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTATAATAATTATATAATTT
Found at i:711651 original size:23 final size:23
Alignment explanation
Indices: 711625--711676 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
711615 CACCACAGCT
*
711625 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
*
711648 CGTAGAATTGCACCGAAGTG-CC
1 CGTAGAAATGCACCGAAGTGCCC
711670 CGTAGAA
1 CGTAGAA
711677 TTATGTCCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.31, C:0.27, G:0.25, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:711674 original size:22 final size:23
Alignment explanation
Indices: 711633--711678 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
711623 CTCGTATAAA
711633 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
711656 TGCACCGAAGTG-CCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
711678 T
1 T
711679 ATGTCCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCCCGTAGAAT
Found at i:711937 original size:30 final size:30
Alignment explanation
Indices: 711892--711950 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
711882 ATCGCGTAGT
* *
711892 CATATTATTTCCATACCTTTATCACATAGA
1 CATATCATTTACATACCTTTATCACATAGA
711922 CATATCATTTACATACCTTTATCACATAG
1 CATATCATTTACATACCTTTATCACATAG
711951 CTCATATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
CATATCATTTACATACCTTTATCACATAGA
Found at i:712464 original size:66 final size:67
Alignment explanation
Indices: 712317--712467 Score: 214
Period size: 67 Copynumber: 2.3 Consensus size: 67
712307 TTTTTCTCAT
* * * *
712317 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGA
1 GGGGGTATCGGTT-CCCCCCTGGGGATACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
712382 TGA
65 TGA
* * * *
712385 GGGGGTATCGGTTCCCCCCTGGGGATACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGATACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
712449 GA
66 GA
712451 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
712468 TTGAATGGGT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
66 23 0.31
67 40 0.53
68 12 0.16
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.27
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGATACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:712481 original size:67 final size:66
Alignment explanation
Indices: 712317--712489 Score: 206
Period size: 67 Copynumber: 2.6 Consensus size: 66
712307 TTTTTCTCAT
* * *
712317 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGA
1 GGGGGTATCGGTT-CCCCCCT-GGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
712382 TGA
64 TGA
* * * *
712385 GGGGGTATCGGTTCCCCCCTGGGGATACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGG-TACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
712449 GA
65 GA
*
712451 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG---GGGTACCGATTCCCCT
712490 AACCCAGAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
65 6 0.06
66 23 0.25
67 49 0.53
68 15 0.16
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.28
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCTGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGATG
A
Found at i:718573 original size:21 final size:22
Alignment explanation
Indices: 718519--718585 Score: 118
Period size: 21 Copynumber: 3.0 Consensus size: 22
718509 CTCGTATAAA
718519 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
718542 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
718564 TGCA-CGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
718585 T
1 T
718586 ATGTCCATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
21 18 0.41
22 14 0.32
23 12 0.27
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:718844 original size:30 final size:30
Alignment explanation
Indices: 718799--718857 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
718789 ATCGCGTAGT
* *
718799 CATATTATTTCCATACCTTTATCACATAGA
1 CATATCATTTACATACCTTTATCACATAGA
718829 CATATCATTTACATACCTTTATCACATAG
1 CATATCATTTACATACCTTTATCACATAG
718858 CTCATATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
CATATCATTTACATACCTTTATCACATAGA
Found at i:719372 original size:66 final size:67
Alignment explanation
Indices: 719224--719375 Score: 202
Period size: 67 Copynumber: 2.3 Consensus size: 67
719214 TTTTTCTCAT
* *
719224 GGGGGAATCGGTTCCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATATG
1 GGGGGTATCGGTT--CCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATATATG
719289 ATGA
64 ATGA
* *
719293 GGGGGTATCGGTTCCCCCCTGGGGGTA-CTGATTCCCCTCTAGCATTCTGGAAATTCAT-T-TCG
1 GGGGGTATCGGTTCCCCCCTGGGGGTATC-GATTCCCCTCAAGCAATCTGGAAATTCATATAT-G
*
719355 TTGA
64 ATGA
719359 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
719376 TTGAATGGGT
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
65 1 0.01
66 23 0.30
67 40 0.53
69 12 0.16
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATATATGAT
GA
Done.