Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009174.1 Hibiscus syriacus cultivar Beakdansim tig00112737_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: 1358226
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 7
Found at i:1070298 original size:65 final size:64
Alignment explanation
Indices: 1070180--1070389 Score: 221
Period size: 65 Copynumber: 3.2 Consensus size: 64
1070170 TATTCAAAGG
* ** *
1070180 CATGCACCGATGCATC-AGTCCATGCATCGATGCATCGATGAAT-TAATT-GAACATCGAATGCA
1 CATGCATCGATGCA-CAAG-CCATGCATCGATGCATC-A-GAATATTTTTCAAACATCGAATGCA
*
1070242 TTC
62 TTT
* *** *
1070245 CATGCAGCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCAAAACATCGAATGCATT
1 CATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGAATATTTTTC-AAACATCGAATGCATT
1070309 T
64 T
* **
1070310 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTCAAACATCGAATGCATTT
1 CATGCATCGATGCACAAGCCATGCATCGATGCATCAGAATATTTTTCAAACATCGAATGCATTT
1070374 CATGCATCGATGCACA
1 CATGCATCGATGCACA
1070390 CTTGGTGCAC
Statistics
Matches: 122, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
63 6 0.05
64 53 0.43
65 63 0.52
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (64 bp):
CATGCATCGATGCACAAGCCATGCATCGATGCATCAGAATATTTTTCAAACATCGAATGCATTT
Found at i:1070404 original size:64 final size:64
Alignment explanation
Indices: 1070180--1070409 Score: 225
Period size: 64 Copynumber: 3.6 Consensus size: 64
1070170 TATTCAAAGG
* * * *
1070180 CATGCACCGATGCATCAGTCCATGCATCGATGCATCGATGAAT-TAATT--GAACATCGAATGCA
1 CATGCATCGATGCA-CACTCCATGCATCGATGCATC-A-GAATAT-TTTCAAAACATCGAATGCA
*
1070242 TTC
62 TTT
* * *
1070245 CATGCAGCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAAAACATCGAATGCATTT
* ** **
1070310 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-AAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAAAACATCGAATGCATTT
*** *
1070374 CATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 CATGCATCGATGCACACTCCATGCATCGATGCATCA
1070410 AGTGTTCCAA
Statistics
Matches: 138, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
63 6 0.04
64 69 0.50
65 63 0.46
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (64 bp):
CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAAAACATCGAATGCATTT
Found at i:1074351 original size:46 final size:46
Alignment explanation
Indices: 1074298--1074390 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
1074288 CTACTTGAAT
** *
1074298 CAATTCCGTTGGTGAATTCCCCGCATCCTCAATTGTGTGTATAATG
1 CAATTCCGTTGGTGAATTCCCCAAATACTCAATTGTGTGTATAATG
*
1074344 CAATTCCGTTGGTGAATTCCCCAAATATTCAATTGTGTGTATAATG
1 CAATTCCGTTGGTGAATTCCCCAAATACTCAATTGTGTGTATAATG
1074390 C
1 C
1074391 TAAAAATAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (46 bp):
CAATTCCGTTGGTGAATTCCCCAAATACTCAATTGTGTGTATAATG
Found at i:1074944 original size:18 final size:16
Alignment explanation
Indices: 1074911--1074945 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
1074901 ACTTTTTTGA
1074911 AATTTAATTTTATATT
1 AATTTAATTTTATATT
1074927 AATTATAATTTGTATATT
1 AATT-TAATTT-TATATT
1074945 A
1 A
1074946 TAAATTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 6 0.35
18 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
AATTTAATTTTATATT
Found at i:1075577 original size:15 final size:15
Alignment explanation
Indices: 1075559--1075659 Score: 51
Period size: 15 Copynumber: 6.2 Consensus size: 15
1075549 TCTTATCCCT
1075559 ATAAAATTTATATTA
1 ATAAAATTTATATTA
1075574 ATAAATTATTTATAATTAA
1 ATAAA--ATTTAT-ATT-A
1075593 TATTAAAATAATTATA-TA
1 -A-TAAAAT--TTATATTA
* * *
1075611 TTATAATTAATATTA
1 ATAAAATTTATATTA
* *
1075626 ATATAATTAATATTA
1 ATAAAATTTATATTA
* *
1075641 ATATTAACTTATATTA
1 ATA-AAATTTATATTA
1075657 ATA
1 ATA
1075660 TAATATAATT
Statistics
Matches: 70, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
14 4 0.06
15 24 0.34
16 18 0.26
17 6 0.09
18 4 0.06
19 4 0.06
20 2 0.03
21 8 0.11
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (15 bp):
ATAAAATTTATATTA
Found at i:1075618 original size:28 final size:27
Alignment explanation
Indices: 1075563--1075640 Score: 99
Period size: 28 Copynumber: 3.0 Consensus size: 27
1075553 ATCCCTATAA
* *
1075563 AATTTATATTAATA-AATT-AT-TTAT
1 AATTAATATTAAAATAATTAATATTAT
1075587 AATTAATATTAAAATAATTATATATTAT
1 AATTAATATTAAAATAATTA-ATATTAT
*
1075615 AATTAATATTAATATAATTAATATTA
1 AATTAATATTAAAATAATTAATATTA
1075641 ATATTAACTT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
24 12 0.26
25 4 0.09
27 8 0.17
28 23 0.49
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
AATTAATATTAAAATAATTAATATTAT
Found at i:1075625 original size:6 final size:6
Alignment explanation
Indices: 1075588--1075694 Score: 54
Period size: 6 Copynumber: 18.3 Consensus size: 6
1075578 ATTATTTATA
1075588 ATTAAT ATTAAAAT AATTATAT ATT-AT AATTAAT ATTAAT A-T-A- ATTAAT
1 ATTAAT ATT--AAT -ATTA-AT ATTAAT -ATTAAT ATTAAT ATTAAT ATTAAT
* **
1075637 ATTAAT ATTAA- CTT-AT ATTAAT A-TAAT A-TAAT -TT-AT AATTTGT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT -ATTAAT
1075680 AATTAAT ATTAAT AT
1 -ATTAAT ATTAAT AT
1075695 AAAATATAGT
Statistics
Matches: 81, Mismatches: 5, Indels: 30
0.70 0.04 0.26
Matches are distributed among these distances:
3 1 0.01
4 5 0.06
5 18 0.22
6 37 0.46
7 12 0.15
8 5 0.06
9 3 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (6 bp):
ATTAAT
Found at i:1075658 original size:31 final size:31
Alignment explanation
Indices: 1075586--1075696 Score: 122
Period size: 28 Copynumber: 3.6 Consensus size: 31
1075576 AAATTATTTA
* *
1075586 TAATTAATATTAAAATAATT-ATA-TATTA-
1 TAATTAATATTAATATAATTAATATTAATAT
1075614 TAATTAATATTAATATAATTAATATTAATAT
1 TAATTAATATTAATATAATTAATATTAATAT
* *
1075645 TAACTT-ATATTAATATAATATAATTTATAATTT
1 TAA-TTAATATTAATATAAT-TAATAT-TAATAT
1075678 GTAATTAATATTAATATAA
1 -TAATTAATATTAATATAA
1075697 AATATAGTCT
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
28 19 0.27
29 3 0.04
30 4 0.06
31 16 0.23
32 7 0.10
33 7 0.10
34 15 0.21
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (31 bp):
TAATTAATATTAATATAATTAATATTAATAT
Found at i:1075720 original size:31 final size:31
Alignment explanation
Indices: 1075682--1075742 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
1075672 TAATTTGTAA
1075682 TTAATATTAATATAAAATATA-GTCTATAAAG
1 TTAATATTAATATAAAATATATGT-TATAAAG
*
1075713 TTAATATTAATATAAACTATATGTTATAAA
1 TTAATATTAATATAAAATATATGTTATAAA
1075743 TTGTATAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (31 bp):
TTAATATTAATATAAAATATATGTTATAAAG
Found at i:1075720 original size:65 final size:63
Alignment explanation
Indices: 1075583--1075728 Score: 154
Period size: 65 Copynumber: 2.2 Consensus size: 63
1075573 AATAAATTAT
*
1075583 TTATAATTAATATTAAAATAATTATATATTATAATTAATATTAATATAATTAATATTAATATTAA
1 TTAT-ATTAATA-TAAAATAATTATATATTATAATTAATATTAATATAA-TAATATTAATATAAA
1075648 C
63 C
* * *
1075649 TTATATTAATATAATATAATT-TATAATTTGTAATTAATATTAATATAA-AATA-TAGTCTATAA
1 TTATATTAATATAAAATAATTATAT-A-TTATAATTAATATTAATATAATAATATTA--ATATAA
*
1075711 AG
62 AC
1075713 TTAATATTAATATAAA
1 TT-ATATTAATATAAA
1075729 CTATATGTTA
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
62 2 0.03
63 7 0.10
64 17 0.25
65 39 0.57
66 4 0.06
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (63 bp):
TTATATTAATATAAAATAATTATATATTATAATTAATATTAATATAATAATATTAATATAAAC
Found at i:1075802 original size:15 final size:15
Alignment explanation
Indices: 1075587--1075822 Score: 89
Period size: 15 Copynumber: 15.5 Consensus size: 15
1075577 AATTATTTAT
*
1075587 AATTAATATTAAAAT-
1 AATT-ATATTAATATA
*
1075602 AATTATA-TATTAT-
1 AATTATATTAATATA
1075615 AATTAATATTAATAT-
1 AATT-ATATTAATATA
1075630 AATTAATATTAATATTA
1 AATT-ATATTAATA-TA
*
1075647 ACTTATATTAATATA
1 AATTATATTAATATA
* * * *
1075662 ATATAATTTATAATTTGT
1 A-ATTATAT-TAATAT-A
1075680 AATTAATATTAATATA
1 AATT-ATATTAATATA
* * *
1075696 AAATATAGT-CTATA
1 AATTATATTAATATA
1075710 AAGTTAATATTAATATA
1 AA-TT-ATATTAATATA
*
1075727 AACTATATGT--TATA
1 AATTATAT-TAATATA
* *
1075741 AATTGTA-TAGTAT-
1 AATTATATTAATATA
* * *
1075754 AGTT-TATAAACAATA
1 AATTATATTAA-TATA
* *
1075769 TACTATATTAATATA
1 AATTATATTAATATA
1075784 AATTATAGTTAATAT-
1 AATTATA-TTAATATA
*
1075799 AATTAACATTAATATA
1 AATT-ATATTAATATA
*
1075815 AACTATAT
1 AATTATAT
1075823 AGTACATTAA
Statistics
Matches: 164, Mismatches: 36, Indels: 42
0.68 0.15 0.17
Matches are distributed among these distances:
12 3 0.02
13 12 0.07
14 26 0.16
15 58 0.35
16 40 0.24
17 21 0.13
18 4 0.02
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (15 bp):
AATTATATTAATATA
Found at i:1075829 original size:22 final size:22
Alignment explanation
Indices: 1075804--1075906 Score: 88
Period size: 22 Copynumber: 4.8 Consensus size: 22
1075794 AATATAATTA
1075804 ACATTAATATAAACTATATAGT
1 ACATTAATATAAACTATATAGT
1075826 ACATTAATATAAAC--TATAGT
1 ACATTAATATAAACTATATAGT
** * * *
1075846 TTATAAATTATATACTATA-GGT
1 ACATTAA-TATAAACTATATAGT
* * *
1075868 -TATAAAGTATAAACTCTATAGT
1 ACATTAA-TATAAACTATATAGT
1075890 ACATTAATATAAACTAT
1 ACATTAATATAAACTAT
1075907 TGTTTATAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
20 10 0.16
21 21 0.33
22 27 0.42
23 6 0.09
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.38
Consensus pattern (22 bp):
ACATTAATATAAACTATATAGT
Found at i:1075872 original size:88 final size:85
Alignment explanation
Indices: 1075607--1075878 Score: 222
Period size: 88 Copynumber: 3.2 Consensus size: 85
1075597 AAAATAATTA
* * *
1075607 TATATTAT-AATTAATA-TTAATATAATTAATATTAATATTAACT-TATATTAATATAATATAAT
1 TATATTATAAATT-ATAGTTAATATAATTAATATTAATATAAACTATATAGTAAT-TAATATAAA
* * *
1075669 TTATAATTTGT-AATTA-ATA-
64 CTATAGTTTATAAATTATATAC
* * * * * *
1075688 T-TAATATAAAATATAGTCT-ATA-AAGTTAATATTAATATAAACTATAT-GTTATAAATTGTAT
1 TATATTATAAATTATAGT-TAATATAA-TTAATATTAATATAAACTATATAGTAATTAA-TATAA
* **
1075749 AGTATAGTTTATAAACAATATAC
63 ACTATAGTTTATAAATTATATAC
*
1075772 TATATTAATATAAATTATAGTTAATATAATTAACATTAATATAAACTATATAGTACATTAATATA
1 TATA-T--TATAAATTATAGTTAATATAATTAATATTAATATAAACTATATAGTA-ATTAATATA
1075837 AACTATAGTTTATAAATTATATAC
62 AACTATAGTTTATAAATTATATAC
*
1075861 TATAGGTTATAAAGTATA
1 TATA--TTATAAATTATA
1075879 AACTCTATAG
Statistics
Matches: 147, Mismatches: 26, Indels: 29
0.73 0.13 0.14
Matches are distributed among these distances:
80 12 0.08
81 39 0.27
82 7 0.05
83 3 0.02
84 1 0.01
85 2 0.01
87 1 0.01
88 46 0.31
89 31 0.21
90 5 0.03
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (85 bp):
TATATTATAAATTATAGTTAATATAATTAATATTAATATAAACTATATAGTAATTAATATAAACT
ATAGTTTATAAATTATATAC
Found at i:1075921 original size:21 final size:20
Alignment explanation
Indices: 1075831--1075921 Score: 83
Period size: 21 Copynumber: 4.3 Consensus size: 20
1075821 ATAGTACATT
1075831 AATATAAACTATAGTTTATA
1 AATATAAACTATAGTTTATA
* *
1075851 AATTATATACTATAGGTTATA
1 AA-TATAAACTATAGTTTATA
** *
1075872 AAGTATAAACTCTATAGTACATT
1 AA-TATAAA--CTATAGTTTATA
*
1075895 AATATAAACTATTGTTTATA
1 AATATAAACTATAGTTTATA
1075915 AACTATA
1 AA-TATA
1075922 GATTACATAT
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
20 12 0.22
21 27 0.49
22 6 0.11
23 10 0.18
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.40
Consensus pattern (20 bp):
AATATAAACTATAGTTTATA
Found at i:1076118 original size:7 final size:7
Alignment explanation
Indices: 1076088--1076148 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
1076078 AGGGTTTAGA
*
1076088 GTTTAGG
1 GTTTAAG
*
1076095 GTTTAAA
1 GTTTAAG
* *
1076102 GTGTATG
1 GTTTAAG
1076109 GTTTAAG
1 GTTTAAG
1076116 GTTTAAG
1 GTTTAAG
*
1076123 GTTTACG
1 GTTTAAG
* *
1076130 ATTTAAA
1 GTTTAAG
1076137 GTTTAAG
1 GTTTAAG
*
1076144 ATTTA
1 GTTTA
1076149 GTGTTTGCAG
Statistics
Matches: 40, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.44
Consensus pattern (7 bp):
GTTTAAG
Found at i:1076367 original size:81 final size:81
Alignment explanation
Indices: 1076262--1076443 Score: 260
Period size: 81 Copynumber: 2.2 Consensus size: 81
1076252 CTTATGTTAG
* *
1076262 TTATACATACATACATATACTATATTAATATAAATTATAATT-TATAAACTATATA-TTTTATAT
1 TTATATATATATACATATACTATATTAATATAAATTAT-ATTCTATAAACTATATACTTTT-TAT
1076325 AGTTTATACATAAATAAT
64 AGTTTATACATAAATAAT
*
1076343 TTATATATATATATATATACTATATTAATATAAATTATATTCTATAAACTATATACTTTTTATAG
1 TTATATATATATACATATACTATATTAATATAAATTATATTCTATAAACTATATACTTTTTATAG
* *
1076408 TTTATACATATATAGT
66 TTTATACATAAATAAT
* *
1076424 TTATCTATATAGTTCATATA
1 TTATATATATA-TACATATA
1076444 AACATAATAT
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
80 3 0.03
81 77 0.86
82 10 0.11
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.47
Consensus pattern (81 bp):
TTATATATATATACATATACTATATTAATATAAATTATATTCTATAAACTATATACTTTTTATAG
TTTATACATAAATAAT
Found at i:1076432 original size:13 final size:15
Alignment explanation
Indices: 1076403--1076492 Score: 57
Period size: 13 Copynumber: 6.1 Consensus size: 15
1076393 ATATACTTTT
1076403 TATAGTTTATACATA
1 TATAGTTTATACATA
1076418 TATAGTTTAT-C-TA
1 TATAGTTTATACATA
* * *
1076431 TATAGTTCATATAAA
1 TATAGTTTATACATA
* *
1076446 CATA--ATATACATA
1 TATAGTTTATACATA
1076459 TATAGCTTATAATA-ATTA
1 TATAG-TT-T-ATACA-TA
1076477 TATAGTTTATA-ATA
1 TATAGTTTATACATA
1076491 TA
1 TA
1076493 AATATAGTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 17
0.68 0.12 0.20
Matches are distributed among these distances:
13 19 0.33
14 5 0.09
15 18 0.32
16 1 0.02
17 4 0.07
18 10 0.18
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (15 bp):
TATAGTTTATACATA
Found at i:1076470 original size:20 final size:19
Alignment explanation
Indices: 1076447--1076499 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
1076437 TCATATAAAC
1076447 ATAATATACATATATAGCTT
1 ATAATATA-ATATATAGCTT
* *
1076467 ATAATA-ATTATATAGTTT
1 ATAATATAATATATAGCTT
1076485 ATAATATAA-ATATAG
1 ATAATATAATATATAG
1076500 TTTTTATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 21 0.72
19 2 0.07
20 6 0.21
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.42
Consensus pattern (19 bp):
ATAATATAATATATAGCTT
Found at i:1076470 original size:81 final size:80
Alignment explanation
Indices: 1076262--1076470 Score: 210
Period size: 81 Copynumber: 2.6 Consensus size: 80
1076252 CTTATGTTAG
* * * * * *
1076262 TTATACATACATACATATACTATATTAATATAAATTATAATTTATAAACTATATATTTTATATAG
1 TTATATATATATATATATACAACATTAATATAAATTAT-ACTTATAAACTATATATTTTATATAG
1076327 TTTATACATAAATAAT
65 TTTATACATAAATAAT
* * *
1076343 TTATATATATATATATATACTATATTAATATAAATTATATTCTATAAACTATATACTTTT-TATA
1 TTATATATATATATATATACAACATTAATATAAATTATACT-TATAAACTATATA-TTTTATATA
* *
1076407 GTTTATACATATATAGT
64 GTTTATACATAAATAAT
* *
1076424 TTATCTATATAGT-TCATATA-AACA-TAATATACATATATAGCTTATAA
1 TTATATATATA-TAT-ATATACAACATTAATATAAAT-TATA-CTTATAA
1076471 TAATTATATA
Statistics
Matches: 112, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
80 12 0.11
81 89 0.79
82 11 0.10
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.45
Consensus pattern (80 bp):
TTATATATATATATATATACAACATTAATATAAATTATACTTATAAACTATATATTTTATATAGT
TTATACATAAATAAT
Found at i:1076497 original size:18 final size:18
Alignment explanation
Indices: 1076447--1076524 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 18
1076437 TCATATAAAC
*
1076447 ATAATATACATATATAGCTT
1 ATAATATA-A-ATATAGTTT
*
1076467 ATAATA-ATTATATAGTTT
1 ATAATATA-AATATAGTTT
1076485 ATAATATAAATATAGTTT
1 ATAATATAAATATAGTTT
1076503 -T--TAT--ATATAGTTT
1 ATAATATAAATATAGTTT
1076516 AT-ATATAAA
1 ATAATATAAA
1076525 CTTATATTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
13 9 0.18
14 1 0.02
15 6 0.12
17 2 0.04
18 23 0.47
19 2 0.04
20 6 0.12
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (18 bp):
ATAATATAAATATAGTTT
Found at i:1076512 original size:13 final size:13
Alignment explanation
Indices: 1076489--1076522 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1076479 TAGTTTATAA
*
1076489 TATAAATATAGTT
1 TATATATATAGTT
*
1076502 TTTATATATAGTT
1 TATATATATAGTT
1076515 TATATATA
1 TATATATA
1076523 AACTTATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (13 bp):
TATATATATAGTT
Found at i:1076648 original size:49 final size:50
Alignment explanation
Indices: 1076595--1076699 Score: 112
Period size: 49 Copynumber: 2.1 Consensus size: 50
1076585 ACTTACATAC
* *
1076595 TTTATATACTTTATATT-TAAACTATATAATTTATACATAGT-A-TATATAA
1 TTTATATACTTTATATTATAAACAATATAATCTAT--ATAGTAACTATATAA
* *
1076644 -TT-TATAGTTTATATTAATAAACAATATAATCTATATATTAACTATATAA
1 TTTATATACTTTATATT-ATAAACAATATAATCTATATAGTAACTATATAA
1076693 TTTATAT
1 TTTATAT
1076700 TAATAAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
47 16 0.35
48 3 0.07
49 22 0.48
50 2 0.04
51 3 0.07
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.49
Consensus pattern (50 bp):
TTTATATACTTTATATTATAAACAATATAATCTATATAGTAACTATATAA
Found at i:1076671 original size:22 final size:22
Alignment explanation
Indices: 1076646--1076762 Score: 84
Period size: 22 Copynumber: 5.5 Consensus size: 22
1076636 ATATATAATT
* *
1076646 TATAGTTTATATTAATAAACAA
1 TATAATTTATATTAATAAACTA
* *
1076668 TATAATCTATA-T-ATTAACTA
1 TATAATTTATATTAATAAACTA
*
1076688 TATAATTTATATTAATAAATTA
1 TATAATTTATATTAATAAACTA
* * *
1076710 TATAGTTTATATATAGTATA-TA
1 TATAATTTATAT-TAATAAACTA
* *
1076732 -ATAATATA-AAT-ATAAACTA
1 TATAATTTATATTAATAAACTA
*
1076751 TATAGTTTATAT
1 TATAATTTATAT
1076763 ATATATATAT
Statistics
Matches: 71, Mismatches: 18, Indels: 13
0.70 0.18 0.13
Matches are distributed among these distances:
18 3 0.04
19 3 0.04
20 23 0.32
21 9 0.13
22 28 0.39
23 5 0.07
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (22 bp):
TATAATTTATATTAATAAACTA
Found at i:1076722 original size:2 final size:2
Alignment explanation
Indices: 1076717--1076780 Score: 53
Period size: 2 Copynumber: 32.0 Consensus size: 2
1076707 TTATATAGTT
* * *
1076717 TA TA TA TA GTA TA TA -A TA -A TA TA AA TA TA AA CTA TA TA GTT
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
1076758 TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
1076781 ATTGTTTCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
1 3 0.06
2 43 0.86
3 4 0.08
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1076724 original size:11 final size:11
Alignment explanation
Indices: 1076708--1076780 Score: 57
Period size: 11 Copynumber: 7.0 Consensus size: 11
1076698 ATTAATAAAT
*
1076708 TATATAGTTTA
1 TATATAGTATA
1076719 TATATAGTATA
1 TATATAGTATA
1076730 TA-ATA--ATA
1 TATATAGTATA
* *
1076738 TAAATA-TAAA
1 TATATAGTATA
*
1076748 CTATATAGTTTA
1 -TATATAGTATA
1076760 TATATA-TATA
1 TATATAGTATA
*
1076770 TATATATTATA
1 TATATAGTATA
1076781 ATTGTTTCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
8 5 0.10
9 3 0.06
10 14 0.27
11 27 0.53
12 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (11 bp):
TATATAGTATA
Found at i:1076756 original size:41 final size:41
Alignment explanation
Indices: 1076702--1076781 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
1076692 ATTTATATTA
*
1076702 ATAAATTATATAGTTTATATATAGTATATA-ATAATATAAAT
1 ATAAACTATATAGTTTATATATA-TATATATATAATATAAAT
*
1076743 ATAAACTATATAGTTTATATATATATATATATATTATAA
1 ATAAACTATATAGTTTATATATATATATATATAATATAA
1076782 TTGTTTCAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 6 0.17
41 30 0.83
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (41 bp):
ATAAACTATATAGTTTATATATATATATATATAATATAAAT
Found at i:1076780 original size:9 final size:9
Alignment explanation
Indices: 1076675--1076780 Score: 57
Period size: 9 Copynumber: 12.2 Consensus size: 9
1076665 CAATATAATC
1076675 TATATATTA
1 TATATATTA
*
1076684 -ACTATATAA
1 TA-TATATTA
*
1076693 TTTATATTA
1 TATATATTA
*
1076702 -ATAAATTA
1 TATATATTA
1076710 TATAGT-TTA
1 TATA-TATTA
*
1076719 TATATAGTA
1 TATATATTA
1076728 TATA-A-TA
1 TATATATTA
*
1076735 -ATATA-AA
1 TATATATTA
* *
1076742 TATAAACTA
1 TATATATTA
1076751 TATAGT-TTA
1 TATA-TATTA
1076760 TATATATATA
1 TATATAT-TA
1076770 TATATATTA
1 TATATATTA
1076779 TA
1 TA
1076781 ATTGTTTCAA
Statistics
Matches: 74, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
6 3 0.04
7 4 0.05
8 14 0.19
9 44 0.59
10 9 0.12
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (9 bp):
TATATATTA
Found at i:1086505 original size:7 final size:7
Alignment explanation
Indices: 1086493--1086521 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
1086483 CAAACGGACT
1086493 CCATGAA
1 CCATGAA
1086500 CCATGAA
1 CCATGAA
1086507 CCATGAA
1 CCATGAA
1086514 CCATGAA
1 CCATGAA
1086521 C
1 C
1086522 TCTTAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.31, G:0.14, T:0.14
Consensus pattern (7 bp):
CCATGAA
Found at i:1087032 original size:12 final size:12
Alignment explanation
Indices: 1087015--1087042 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1087005 TTAATTGCAA
1087015 AAATTGAAATTT
1 AAATTGAAATTT
1087027 AAATTGAAATTT
1 AAATTGAAATTT
1087039 AAAT
1 AAAT
1087043 ACCCGATTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (12 bp):
AAATTGAAATTT
Found at i:1087133 original size:10 final size:10
Alignment explanation
Indices: 1087114--1087185 Score: 51
Period size: 10 Copynumber: 7.3 Consensus size: 10
1087104 TCAAATTGTG
*
1087114 AAATATATAA
1 AAATAAATAA
1087124 AAATAAAT--
1 AAATAAATAA
1087132 AAATAAATAA
1 AAATAAATAA
*
1087142 AGATAAATAA
1 AAATAAATAA
* * *
1087152 AATTGAGTAAA
1 AAATAAAT-AA
1087163 AAATAAA-AA
1 AAATAAATAA
*
1087172 AAACGAAATAA
1 AAA-TAAATAA
1087183 AAA
1 AAA
1087186 GAAAAATGTT
Statistics
Matches: 47, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
8 8 0.17
9 5 0.11
10 23 0.49
11 11 0.23
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (10 bp):
AAATAAATAA
Found at i:1087135 original size:18 final size:18
Alignment explanation
Indices: 1087114--1087152 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1087104 TCAAATTGTG
*
1087114 AAATATATAAAAATAAAT
1 AAATAAATAAAAATAAAT
*
1087132 AAATAAATAAAGATAAAT
1 AAATAAATAAAAATAAAT
1087150 AAA
1 AAA
1087153 ATTGAGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AAATAAATAAAAATAAAT
Found at i:1089755 original size:12 final size:12
Alignment explanation
Indices: 1089717--1089766 Score: 68
Period size: 12 Copynumber: 4.2 Consensus size: 12
1089707 GACCTGAAAC
1089717 TAAAATAA-AATA
1 TAAAATAATAA-A
*
1089729 TAAAACAAT-AA
1 TAAAATAATAAA
1089740 TAAAATAATAAA
1 TAAAATAATAAA
1089752 TAAAATAATAAA
1 TAAAATAATAAA
1089764 TAA
1 TAA
1089767 TACAATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 9 0.26
12 25 0.74
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (12 bp):
TAAAATAATAAA
Found at i:1089780 original size:15 final size:14
Alignment explanation
Indices: 1089735--1089780 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
1089725 AATATAAAAC
1089735 AATAATAAAATAAT
1 AATAATAAAATAAT
1089749 -A-AATAAAATAAT
1 AATAATAAAATAAT
*
1089761 AAATAATACAATATAT
1 -AATAATAAAATA-AT
1089777 AATA
1 AATA
1089781 CAATATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
12 11 0.41
13 1 0.04
14 1 0.04
15 12 0.44
16 2 0.07
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (14 bp):
AATAATAAAATAAT
Found at i:1089786 original size:12 final size:12
Alignment explanation
Indices: 1089726--1089789 Score: 67
Period size: 12 Copynumber: 5.4 Consensus size: 12
1089716 CTAAAATAAA
1089726 ATATAAAACAAT
1 ATATAAAACAAT
*
1089738 A-ATAAAATAAT
1 ATATAAAACAAT
* *
1089749 AAATAAAATAAT
1 ATATAAAACAAT
* *
1089761 AAATAATACAAT
1 ATATAAAACAAT
*
1089773 ATATAATACAAT
1 ATATAAAACAAT
1089785 ATATA
1 ATATA
1089790 TTAAAAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
11 10 0.21
12 37 0.79
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (12 bp):
ATATAAAACAAT
Found at i:1089848 original size:38 final size:36
Alignment explanation
Indices: 1089783--1090204 Score: 313
Period size: 39 Copynumber: 11.1 Consensus size: 36
1089773 ATATAATACA
** * *
1089783 ATATATATTAAAAAAATATTTTTAAAACTATATATT
1 ATATATATTTTAAAAATGTTTTCAAAACTATATATT
* *
1089819 ATATATGCTTTTAAAAATTGTTTTCAAAACCATATA--
1 ATATAT-ATTTTAAAAA-TGTTTTCAAAACTATATATT
* **
1089855 ATATATATTTTCCAAAATTGTTTTTTAAACTATATA--
1 ATATATATTTT--AAAAATGTTTTCAAAACTATATATT
**
1089891 ATATATATTTTCCAAAAA--AATTCAAAACTATATATT
1 ATATATATTTT--AAAAATGTTTTCAAAACTATATATT
*
1089927 ATATATATTTTCAAAAATATTTTCAAAACTATATATT
1 ATATATATTTT-AAAAATGTTTTCAAAACTATATATT
*
1089964 ATATATATATATTCAAAATAT-TTTTAAAAACTATATTATAT
1 ATATATAT-T-TT-AAAA-ATGTTTTCAAAACTATA-TAT-T
1090005 ATATATATATATT-AAAATGTTTTCAAAAACTATATTATAT
1 ATATATAT-T-TTAAAAATGTTTTC-AAAACTATA-TAT-T
* * * *
1090045 ATATATATATTCAATATAT-TTTTAAAAACTATATTTT
1 ATATATAT-TTTAA-AAATGTTTTCAAAACTATATATT
*
1090082 ATATATATATATATATTTAAATGTTTTCAAAAACTATATATT
1 ATATATAT-T-T-TA--AAAATGTTTTC-AAAACTATATATT
* * *
1090124 ATATATATGTTTTCAAAATATTTTCAAAACTATATAAT
1 ATATATA--TTTTAAAAATGTTTTCAAAACTATATATT
1090162 ATATATATTTTTCAAAAATGTTTTCAAAAACTATATATT
1 ATATATA-TTTT-AAAAATGTTTTC-AAAACTATATATT
1090201 ATAT
1 ATAT
1090205 TTTCAAAAAC
Statistics
Matches: 322, Mismatches: 37, Indels: 51
0.79 0.09 0.12
Matches are distributed among these distances:
34 12 0.04
35 10 0.03
36 55 0.17
37 50 0.16
38 50 0.16
39 63 0.20
40 38 0.12
41 22 0.07
42 20 0.06
43 1 0.00
44 1 0.00
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (36 bp):
ATATATATTTTAAAAATGTTTTCAAAACTATATATT
Found at i:1089859 original size:36 final size:36
Alignment explanation
Indices: 1089783--1090213 Score: 140
Period size: 38 Copynumber: 11.4 Consensus size: 36
1089773 ATATAATACA
* * * * * * *
1089783 ATATATATTAAAAAAATATTTTTAAAACTATATATT
1 ATATATTTTCAAAAATTGTTTTCAAAACCATATAAT
*
1089819 ATATATGCTTTTAAAAATTGTTTTCAAAACCATATAAT
1 ATATAT--TTTCAAAAATTGTTTTCAAAACCATATAAT
* ** *
1089857 ATATATTTTCCAAAATTGTTTTTTAAACTATATAAT
1 ATATATTTTCAAAAATTGTTTTCAAAACCATATAAT
** *
1089893 ATATATTTTCCAAAAA---AATTCAAAACTATATATTAT
1 ATATATTTT-CAAAAATTGTTTTCAAAACCATATA--AT
* *
1089929 ATATATTTTCAAAAA-TATTTTCAAAACTATATATTAT
1 ATATATTTTCAAAAATTGTTTTCAAAACCATATA--AT
* *
1089966 ATATATATATTC-AAAATAT-TTTTAAAAACTATATTATAT
1 ATATAT-T-TTCAAAAAT-TGTTTTCAAAACCATA-TA-AT
* *
1090005 ATATATATATAT-TAAAA-TGTTTTCAAAAACTATATTATAT
1 ATATAT-T-T-TCAAAAATTGTTTTC-AAAACCATA-TA-AT
* * *
1090045 ATATATATATTC-AATATAT-TTTTAAAAACTATATTTTATAT
1 ATATAT-T-TTCAAAAAT-TGTTTTCAAAACCATA---TA-AT
** *
1090086 ATATATATATAT-TTAAA-TGTTTTCAAAAACTATATATTAT
1 ATATAT-T-T-TCAAAAATTGTTTTC-AAAACCATATA--AT
* *
1090126 ATATATGTTTTC-AAAA-TATTTTCAAAACTATATAATAT
1 ATATA--TTTTCAAAAATTGTTTTCAAAACCATAT-A-AT
*
1090164 ATATATTTTTCAAAAA-TGTTTTCAAAAAC-TAT-AT
1 ATATA-TTTTCAAAAATTGTTTTCAAAACCATATAAT
1090198 ATTATATTTTCAAAAA
1 A-TATATTTTCAAAAA
1090214 CTGATTTTTA
Statistics
Matches: 331, Mismatches: 32, Indels: 66
0.77 0.07 0.15
Matches are distributed among these distances:
34 25 0.08
35 10 0.03
36 51 0.15
37 37 0.11
38 67 0.20
39 59 0.18
40 47 0.14
41 22 0.07
42 13 0.04
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (36 bp):
ATATATTTTCAAAAATTGTTTTCAAAACCATATAAT
Found at i:1089860 original size:72 final size:69
Alignment explanation
Indices: 1089782--1089969 Score: 182
Period size: 71 Copynumber: 2.6 Consensus size: 69
1089772 TATATAATAC
* * **
1089782 AATATATA-TTAAAAAAATATTTTTAAAACTATATATTATATATGCTTT-TAAAAATTGTTTTCA
1 AATATATATTTACAAAAATATTTTTAAAACTATATATTATATAT--TTTCCAAAAA---AATTCA
1089845 AAACCATAT
61 AAACCATAT
* * * * *
1089854 AATATATATTTTCCAAAATTGTTTTTTAAACTATATAATATATATTTTCCAAAAAAATTCAAAAC
1 AATATATA-TTTACAAAAATATTTTTAAAACTATATATTATATATTTTCCAAAAAAATTCAAAAC
*
1089919 TATAT
65 CATAT
* *
1089924 ATTATATATATTTTCAAAAATATTTTCAAAACTATATATTATATAT
1 A--ATATATATTTACAAAAATATTTTTAAAACTATATATTATATAT
1089970 ATATATTCAA
Statistics
Matches: 95, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
70 13 0.14
71 30 0.32
72 18 0.19
73 5 0.05
74 29 0.31
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (69 bp):
AATATATATTTACAAAAATATTTTTAAAACTATATATTATATATTTTCCAAAAAAATTCAAAACC
ATAT
Found at i:1090046 original size:79 final size:80
Alignment explanation
Indices: 1089919--1090204 Score: 390
Period size: 81 Copynumber: 3.6 Consensus size: 80
1089909 AATTCAAAAC
* *
1089919 TATATATTATATATATTTTCAAAAATATTTTC-AAAACTATATATTATATATATATATTCAAAAT
1 TATATA-TATATATATATT-AAAAATGTTTTCAAAAACTATATATTATATATATATATTCAAAAT
1089983 ATTTTTAAAAACTATAT
64 ATTTTTAAAAACTATAT
*
1090000 TATATATATATATATATT-AAAATGTTTTCAAAAACTATAT-TATATATATATATATTCAATATA
1 TATATATATATATATATTAAAAATGTTTTCAAAAACTATATAT-TATATATATATATTCAAAATA
1090063 TTTTTAAAAACTATATTT
65 TTTTTAAAAACTATA--T
* * *
1090081 TATATATATATATATATT-TAAATGTTTTCAAAAACTATATATTATATATATGTTTTCAAAATA-
1 TATATATATATATATATTAAAAATGTTTTCAAAAACTATATATTATATATATATATTCAAAATAT
*
1090144 TTTTCAAAACTATA-
66 TTTTAAAAACTATAT
*
1090158 TA-ATATATATAT-TTTTCAAAAATGTTTTCAAAAACTATATATTATAT
1 TATATATATATATATATT-AAAAATGTTTTCAAAAACTATATATTATAT
1090205 TTTCAAAAAC
Statistics
Matches: 188, Mismatches: 10, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
75 3 0.02
76 10 0.05
77 30 0.16
78 11 0.06
79 45 0.24
80 24 0.13
81 64 0.34
82 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.47
Consensus pattern (80 bp):
TATATATATATATATATTAAAAATGTTTTCAAAAACTATATATTATATATATATATTCAAAATAT
TTTTAAAAACTATAT
Found at i:1090137 original size:28 final size:29
Alignment explanation
Indices: 1090087--1090141 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
1090077 ATTTTATATA
*
1090087 TATATATATATTTAAATGTTTTCAAAAAC
1 TATATATATATATAAATGTTTTCAAAAAC
*
1090116 TATATAT-TATATATATGTTTTCAAAA
1 TATATATATATATAAATGTTTTCAAAA
1090142 TATTTTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (29 bp):
TATATATATATATAAATGTTTTCAAAAAC
Found at i:1090234 original size:35 final size:36
Alignment explanation
Indices: 1090083--1090247 Score: 137
Period size: 38 Copynumber: 4.5 Consensus size: 36
1090073 CTATATTTTA
*
1090083 TATATATATATATATTT---AAATGTTTTCAAAAAC
1 TATATATATATATTTTTCAAAAATGTTTTCAAAAAC
*
1090116 TATATATTATATATATGTTTTC-AAAATATTTTC-AAAAC
1 --TATA-TATATATAT-TTTTCAAAAATGTTTTCAAAAAC
1090154 TATATAATATATATATTTTTCAAAAATGTTTTCAAAAAC
1 --TAT-ATATATATATTTTTCAAAAATGTTTTCAAAAAC
* *
1090193 TATATAT-TATA-TTTTCAAAAACTGATTTTTAAAAATG
1 TATATATATATATTTTTCAAAAA-TG-TTTTCAAAAA-C
*
1090230 TATATATTATATGTTTTT
1 TATATA-TATATATTTTT
1090248 TCTAAATAAG
Statistics
Matches: 111, Mismatches: 6, Indels: 21
0.80 0.04 0.15
Matches are distributed among these distances:
34 10 0.09
35 10 0.09
36 22 0.20
37 17 0.15
38 30 0.27
39 18 0.16
40 4 0.04
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (36 bp):
TATATATATATATTTTTCAAAAATGTTTTCAAAAAC
Found at i:1090234 original size:37 final size:34
Alignment explanation
Indices: 1090123--1090241 Score: 109
Period size: 37 Copynumber: 3.4 Consensus size: 34
1090113 AACTATATAT
* *
1090123 TATATA-TATGTTTTC-AAAATATTTTC-AAAAC
1 TATATATTATATTTTCAAAAATGTTTTCAAAAAC
1090154 TATATAATATATATATTTTTCAAAAATGTTTTCAAAAAC
1 --TAT-ATAT-TATA-TTTTCAAAAATGTTTTCAAAAAC
* *
1090193 TATATATTATATTTTCAAAAACTGATTTTTAAAAATG
1 TATATATTATATTTTCAAAAA-TG-TTTTCAAAAA-C
1090230 TATATATTATAT
1 TATATATTATAT
1090242 GTTTTTTCTA
Statistics
Matches: 73, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
33 3 0.04
34 13 0.18
35 6 0.08
36 16 0.22
37 20 0.27
38 10 0.14
39 5 0.07
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (34 bp):
TATATATTATATTTTCAAAAATGTTTTCAAAAAC
Found at i:1091143 original size:80 final size:81
Alignment explanation
Indices: 1091007--1091199 Score: 282
Period size: 80 Copynumber: 2.3 Consensus size: 81
1090997 TGCTGTCATC
* * *
1091007 GAGCTGAATGGAATCGAACTCAAAGGTTTTTGTTGACAGATAGCCCTTCTCACCTTGAGC-TGTA
1 GAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCACCTTGAGCATGTA
1091071 AATTTGATATGC-CTTT
66 AATTTGATATGCTC-TT
*
1091087 GAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGA
1 GAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCACCTTGAGC----A
*
1091152 TGTAGATTTGATATGCTCTT
62 TGTAAATTTGATATGCTCTT
1091172 GAGCTGAATGTAATCGAACTCGAAGGTT
1 GAGCTGAATGTAATCGAACTCGAAGGTT
1091200 CTCATTAGTG
Statistics
Matches: 102, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
80 56 0.55
85 45 0.44
86 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (81 bp):
GAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCACCTTGAGCATGTA
AATTTGATATGCTCTT
Found at i:1091229 original size:21 final size:20
Alignment explanation
Indices: 1091205--1091325 Score: 127
Period size: 21 Copynumber: 5.8 Consensus size: 20
1091195 AGGTTCTCAT
*
1091205 TAGTGCATCGATGCATCCCTG
1 TAGTGCATCCATGCA-CCCTG
1091226 TAGTGCATCCATGCACCCCTG
1 TAGTGCATCCATGCA-CCCTG
*
1091247 CAGTGCATCCATGCATCCCTG
1 TAGTGCATCCATGCA-CCCTG
*
1091268 TGGTGCATCCATGCA-CCTG
1 TAGTGCATCCATGCACCCTG
* *
1091287 CACTAGTGCATCGATGCACCATG
1 ---TAGTGCATCCATGCACCCTG
*
1091310 CAGTGCATCCATGCAC
1 TAGTGCATCCATGCAC
1091326 TCAAACACCG
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
19 4 0.05
20 14 0.16
21 51 0.60
22 13 0.15
23 3 0.04
ACGTcount: A:0.21, C:0.34, G:0.21, T:0.24
Consensus pattern (20 bp):
TAGTGCATCCATGCACCCTG
Found at i:1091265 original size:42 final size:43
Alignment explanation
Indices: 1091205--1091325 Score: 160
Period size: 42 Copynumber: 2.9 Consensus size: 43
1091195 AGGTTCTCAT
1091205 TAGTGCATCGATGCATCCCTGTAGTGCATCCATGCACCCCTG-C
1 TAGTGCATCGATGCATCCCTGTAGTGCATCCATGCA-CCCTGAC
* *
1091248 -AGTGCATCCATGCATCCCTGTGGTGCATCCATGCA-CCTGCAC
1 TAGTGCATCGATGCATCCCTGTAGTGCATCCATGCACCCTG-AC
* *
1091290 TAGTGCATCGATGCA-CCATGCAGTGCATCCATGCAC
1 TAGTGCATCGATGCATCCCTGTAGTGCATCCATGCAC
1091326 TCAAACACCG
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
40 4 0.06
42 51 0.75
43 13 0.19
ACGTcount: A:0.21, C:0.34, G:0.21, T:0.24
Consensus pattern (43 bp):
TAGTGCATCGATGCATCCCTGTAGTGCATCCATGCACCCTGAC
Found at i:1091371 original size:20 final size:20
Alignment explanation
Indices: 1091346--1091459 Score: 167
Period size: 20 Copynumber: 5.7 Consensus size: 20
1091336 AATGCAATTA
1091346 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTTCT
1091366 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTTCT
1091386 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTTCT
***
1091406 GTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATC-CTTCT
1091427 GTGCATCGATGCATCCTAT-T
1 GTGCATCGATGCATCCT-TCT
*
1091447 GTGCATCCATGCA
1 GTGCATCGATGCA
1091460 CGAAGGCTGC
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
20 68 0.80
21 17 0.20
ACGTcount: A:0.18, C:0.28, G:0.22, T:0.32
Consensus pattern (20 bp):
GTGCATCGATGCATCCTTCT
Found at i:1091439 original size:61 final size:60
Alignment explanation
Indices: 1091346--1091459 Score: 167
Period size: 61 Copynumber: 1.9 Consensus size: 60
1091336 AATGCAATTA
*** *
1091346 GTGCATCGATGCATCCTTCTGTGCATCGATGCATCCT-TCTGTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCAGGCTGTGCATCGATGCATCCTAT-TGTGCATCCATGCATCCTTCT
1091406 GTGCATCGATGCATCAAGGCTGTGCATCGATGCATCCTATTGTGCATCCATGCA
1 GTGCATCGATGCATC-AGGCTGTGCATCGATGCATCCTATTGTGCATCCATGCA
1091460 CGAAGGCTGC
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
60 15 0.31
61 32 0.67
62 1 0.02
ACGTcount: A:0.18, C:0.28, G:0.22, T:0.32
Consensus pattern (60 bp):
GTGCATCGATGCATCAGGCTGTGCATCGATGCATCCTATTGTGCATCCATGCATCCTTCT
Found at i:1091441 original size:41 final size:41
Alignment explanation
Indices: 1091346--1091468 Score: 171
Period size: 41 Copynumber: 3.0 Consensus size: 41
1091336 AATGCAATTA
***
1091346 GTGCATCGATGCATCCTTCTGTGCATCGATGCATC-CTTCT
1 GTGCATCGATGCATCCTTCTGTGCATCGATGCATCAAGGCT
1091386 GTGCATCGATGCATCCTTCTGTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATCCTTCTGTGCATCGATGCATCAAGGCT
*
1091427 GTGCATCGATGCATCCTAT-TGTGCATCCATGCA-CGAAGGCT
1 GTGCATCGATGCATCCT-TCTGTGCATCGATGCATC-AAGGCT
1091468 G
1 G
1091469 CAACGGCTAG
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
40 36 0.47
41 39 0.51
42 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.24, T:0.30
Consensus pattern (41 bp):
GTGCATCGATGCATCCTTCTGTGCATCGATGCATCAAGGCT
Found at i:1091609 original size:20 final size:22
Alignment explanation
Indices: 1091571--1091610 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
1091561 TTTGAGTAGA
1091571 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
1091593 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
1091611 ATATACAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:1092912 original size:77 final size:77
Alignment explanation
Indices: 1092831--1093498 Score: 657
Period size: 77 Copynumber: 8.7 Consensus size: 77
1092821 CAAAAATTTT
* * * *
1092831 ATGGTTCATTAAGGAATAGGTTGCGATATGAAATGTTAATATTTTTATTAATAAAATGGGTTGCG
1 ATGGTTCACTAAGAAATAAGTTGCGATATGGAATGTTAATATTTTTATTAATAAAATGGGTTGCG
1092896 TCCAAGAATGTC
66 TCCAAGAATGTC
* * * * * *
1092908 ATGGTTCACTAAGAAATATGTTGCGATCTGTAATGTTAATATTTATATTGATAAAATGAGTTGC-
1 ATGGTTCACTAAGAAATAAGTTGCGATATGGAATGTTAATATTTTTATTAATAAAATGGGTTGCG
1092972 TCTCAAGAATGTC
66 TC-CAAGAATGTC
* * * * * ** *
1092985 ATGGTTCACTAAAAAATAAGTTACGATCTTGAACGTTAATATTTTTACCAATAAAATGGGTTGTG
1 ATGGTTCACTAAGAAATAAGTTGCGATATGGAATGTTAATATTTTTATTAATAAAATGGGTTGCG
* *
1093050 -CAAAAAATGTC
66 TCCAAGAATGTC
* * * * *
1093061 ATGATTCACTAAGAAATAAGTTACAATATGGGATGTTAATATTTTTATTGATAAAAATGGGTTGC
1 ATGGTTCACTAAGAAATAAGTTGCGATATGGAATGTTAATATTTTTATTAAT-AAAATGGGTTGC
* *
1093126 GCCCAAGAATTTC
65 GTCCAAGAATGTC
* ***
1093139 ATGGTTCACTAATAAATAAGTTATAATCA-GGAATGTTAATATTTTTATTAATAAAATGGGTTGC
1 ATGGTTCACTAAGAAATAAGTTGCGAT-ATGGAATGTTAATATTTTTATTAATAAAATGGGTTGC
* *
1093203 GTCAAAAAATGTC
65 GTCCAAGAATGTC
* * * *
1093216 ATGATTCACTAAGAAATAAGTTGCGATATGAAATGCTAATATTTTTAATAATAAAATGGGTTGCG
1 ATGGTTCACTAAGAAATAAGTTGCGATATGGAATGTTAATATTTTTATTAATAAAATGGGTTGCG
* ** *
1093281 -CCAAAAAAATT
66 TCCAAGAATGTC
* * * * * * * *
1093292 ATGGTTCACTAAAAAATAGGTTGTGATACGTAATGTTAATATTTTTATTAAT-AAATGAGTTACC
1 ATGGTTCACTAAGAAATAAGTTGCGATATGGAATGTTAATATTTTTATTAATAAAATGGGTTGCG
*
1093356 TCCAAGATTGTC
66 TCCAAGAATGTC
* * * * * * * *
1093368 ATGATTTATTAAGAAATAGGTTGCGATATGGGATGCTAATATATTTATTAATAAAATGGGTTGTG
1 ATGGTTCACTAAGAAATAAGTTGCGATATGGAATGTTAATATTTTTATTAATAAAATGGGTTGCG
**
1093433 TGTAAGAATGTC
66 TCCAAGAATGTC
** * * * * *
1093445 ATGACTCACTAAGAAATAAATTGTGATTTTGATTGTTAATA-TTTTATT-ATAAAA
1 ATGGTTCACTAAGAAATAAGTTGCGATATGGAATGTTAATATTTTTATTAATAAAA
1093499 CTTCAAAAGT
Statistics
Matches: 481, Mismatches: 102, Indels: 18
0.80 0.17 0.03
Matches are distributed among these distances:
75 15 0.03
76 158 0.33
77 254 0.53
78 53 0.11
79 1 0.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.36
Consensus pattern (77 bp):
ATGGTTCACTAAGAAATAAGTTGCGATATGGAATGTTAATATTTTTATTAATAAAATGGGTTGCG
TCCAAGAATGTC
Found at i:1094797 original size:14 final size:14
Alignment explanation
Indices: 1094780--1094808 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1094770 AATACTTTTA
1094780 ACATTTTAGGTTGC
1 ACATTTTAGGTTGC
1094794 ACATTTTAGGTTGC
1 ACATTTTAGGTTGC
1094808 A
1 A
1094809 TGAAAATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (14 bp):
ACATTTTAGGTTGC
Found at i:1108643 original size:3 final size:3
Alignment explanation
Indices: 1108626--1108672 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
1108616 AAAAAATTTA
* *
1108626 TAT TA- TAT T-T TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1108672 T
1 T
1108673 TTTTATTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1108683 original size:9 final size:10
Alignment explanation
Indices: 1108626--1108695 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 10
1108616 AAAAAATTTA
*
1108626 TATTATATTT
1 TATTATTTTT
1108636 TATTATTATTGT
1 TATTATT-TT-T
*
1108648 TATTA-TTAT
1 TATTATTTTT
*
1108657 TATTA-TTAT
1 TATTATTTTT
*
1108666 TAATATTTTT
1 TATTATTTTT
1108676 TATT-TTTTT
1 TATTATTTTT
*
1108685 AATTATTTTT
1 TATTATTTTT
1108695 T
1 T
1108696 GCAGGTCCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 22 0.45
10 18 0.37
11 3 0.06
12 6 0.12
ACGTcount: A:0.27, C:0.00, G:0.01, T:0.71
Consensus pattern (10 bp):
TATTATTTTT
Found at i:1113955 original size:66 final size:66
Alignment explanation
Indices: 1113845--1113985 Score: 237
Period size: 66 Copynumber: 2.1 Consensus size: 66
1113835 CAACACAAGC
* * *
1113845 TCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAAAGCTTTTCAGTTTCATTCAGAGTCAAT
1 TCAACTTCACAGCAAAGGGGCGACTGACTATCAACAAAAACTTTTCAGTTTCATTCAGAGTCAAT
1113910 T
66 T
*
1113911 TCAACTTCACAGCAAAGGGGCGACTGACTATCAACAAAAACTTTTCAGTTTCATTCATAGTCAAT
1 TCAACTTCACAGCAAAGGGGCGACTGACTATCAACAAAAACTTTTCAGTTTCATTCAGAGTCAAT
1113976 T
66 T
*
1113977 TTAACTTCA
1 TCAACTTCA
1113986 AATCGAAAGA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 70 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (66 bp):
TCAACTTCACAGCAAAGGGGCGACTGACTATCAACAAAAACTTTTCAGTTTCATTCAGAGTCAAT
T
Found at i:1114007 original size:175 final size:178
Alignment explanation
Indices: 1113765--1114105 Score: 555
Period size: 175 Copynumber: 1.9 Consensus size: 178
1113755 GGAACGATTG
* * *
1113765 TCAACAAACAACTTTTTAGTTTTATTCAGAGTCAATTTCAACTTAACAACGAATGATATTGGACT
1 TCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTAACAACGAAAGATATTGGACT
*
1113830 CGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAAAG-C-TTTTCAG
66 CGAGACAACACAAGCTCAACTTCACAACGAAGGGGCGACTGACTGTCAACAAAAGACTTTTTCAG
1113893 TTTCATTCAGAGTCAATTTCAACTTCACAGCAAAGGGGCGACTGACTA
131 TTTCATTCAGAGTCAATTTCAACTTCACAGCAAAGGGGCGACTGACTA
* * * *
1113941 TCAACAAA-AACTTTTCAGTTTCATTCATAGTCAATTTTAACTTCAA-ATCGAAAGATATTTGAC
1 TCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTT-AACAACGAAAGATATTGGAC
*
1114004 TCGAGACAACACAAGCTCAACTTCACAACGAAGGGGCGACTGACTGTCAACAAACGACTTTTTCA
65 TCGAGACAACACAAGCTCAACTTCACAACGAAGGGGCGACTGACTGTCAACAAAAGACTTTTTCA
*
1114069 GTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGG
130 GTTTCATTCAGAGTCAATTTCAACTTCACAGCAAAGG
1114106 ATATTGGACT
Statistics
Matches: 152, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
175 99 0.65
176 11 0.07
177 42 0.28
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (178 bp):
TCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTAACAACGAAAGATATTGGACT
CGAGACAACACAAGCTCAACTTCACAACGAAGGGGCGACTGACTGTCAACAAAAGACTTTTTCAG
TTTCATTCAGAGTCAATTTCAACTTCACAGCAAAGGGGCGACTGACTA
Found at i:1114109 original size:111 final size:109
Alignment explanation
Indices: 1113911--1114234 Score: 440
Period size: 111 Copynumber: 3.0 Consensus size: 109
1113901 AGAGTCAATT
* *
1113911 TCAACTTCACAGCAAAGGGGCGACTGACTATCAACAAA-AACTTTTCAGTTTCATTCATAGTCAA
1 TCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCA-AGTCAA
* * * * * *
1113975 TTTTAACTTCAAATCGAAAGATATTTGACTCGAGACAACACAAGC
65 TTTCAACTTCACAGCGAAGGATATTGGACTCGAAACAACACAAGC
* *
1114020 TCAACTTCACAACGAAGGGGCGACTGACTGTCAACAAACGACTTTTTCAGTTTCATTCAGAGTCA
1 TCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAAC-TTTTCAGTTTCATTCA-AGTCA
1114085 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAAACAACACAAGC
64 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAAACAACACAAGC
* * * * *
1114131 TCAACTTCACTGCGAAGGAGCGCCTGGCTGTCAACAAACAACTTTCCAGTTTCA---AAGTCAAT
1 TCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAAGTCAAT
* *
1114193 TTCAACTTCACGGCGAAGGATATTGGCCTCGAAACAACACAA
66 TTCAACTTCACAGCGAAGGATATTGGACTCGAAACAACACAA
1114235 ATATTTGGAT
Statistics
Matches: 193, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
106 47 0.24
107 1 0.01
109 35 0.18
110 13 0.07
111 97 0.50
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (109 bp):
TCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAAGTCAAT
TTCAACTTCACAGCGAAGGATATTGGACTCGAAACAACACAAGC
Found at i:1114450 original size:85 final size:84
Alignment explanation
Indices: 1114341--1114800 Score: 421
Period size: 85 Copynumber: 5.5 Consensus size: 84
1114331 AATCGTGCCC
** * * * *
1114341 ACCAAAGGTCTTCAAGTTCAACTACGCTCAGCTCAAAGGCACATAATTTGCAGCATAACTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTTAAGT
1114406 CGAGAAGGGTTATCTTCCA
66 CGAGAAGGGTTATCTTCCA
* * * * * * * *
1114425 ACCAAAAAACCTTCAAGTTCGACTACGCTCAGCTCCAAGACATATCATTTGCAGTATAGCTTAAG
1 ACC-AAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTTAAG
*
1114490 TCGAGAAGGGTTAT-AT---
65 TCGAGAAGGGTTATCTTCCA
* * * * * * **
1114506 GCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAATATAACTTAAG
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGC-TCAAAGGCACATCATTTGCAGCATAACTTAAG
*
1114571 TCGAGAAGGGTTATCTGCCA
65 TCGAGAAGGGTTATCTTCCA
* * * * * *
1114591 ACCAGAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAA-TTCAA
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGC-TCAAAGGCACATCATTTGCAGCATAACTT-AA
* * *
1114655 GGCTATAAGGGTTATCTGT-C-
64 GTCGAGAAGGGTTATCT-TCCA
* * *
1114675 ACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAG
1 ACC-AAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTTAAG
* * * *
1114740 ACGAGAAGAGCTATCTGCCA
65 TCGAGAAGGGTTATCTTCCA
* * * *
1114760 ACCGAAGACCTTCGAGTTCGATTACACTTAGCTCAGAGGCA
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCA
1114801 AACCAATTTT
Statistics
Matches: 310, Mismatches: 54, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
80 24 0.08
81 41 0.13
84 77 0.25
85 168 0.54
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (84 bp):
ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTTAAGT
CGAGAAGGGTTATCTTCCA
Found at i:1114757 original size:169 final size:165
Alignment explanation
Indices: 1114350--1114792 Score: 478
Period size: 166 Copynumber: 2.7 Consensus size: 165
1114340 CACCAAAGGT
* * *
1114350 CTTCAAGTTCAACTACGCTCAGCTCAAAGGCACATAATTTGCAGCATAACTTAAGTCGAGAAGGG
1 CTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
* * * * * * * * *
1114415 TTATCTTCCAACCAAAAAACCTTCAAGTTCGACTACGCTCAGC-TCCAAGACATATCATTTGCAG
66 TTATCTGCCAACC-AGAGACCTTCGAGTTCGATTACACTCAGCTTCCAAGACACATCATTTACAA
* * *
1114479 TATAGCTTAAGTCGAGAAGGGTTATATGCCAAAGAC
130 CATAGATTAAGGCGAGAAGGGTTATATGCCAAAGAC
* * * * * * **
1114515 CCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAATATAACTTAAGTCGAGAAGG
1 CTTCGAGTTCGACTACGCTCAGC-TCAAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGG
* * *
1114580 GTTATCTGCCAACCAGAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAA
65 GTTATCTGCCAACCAGAGACCTTCGAGTTCGATTACACTCAGCTTCCAAGACACATCATTTACAA
* * *
1114645 CATA-ATTCAAGGCTATAAGGGTTATCTGTCACCAAAAGAC
130 CATAGATT-AAGGCGAGAAGGGTTATATG---CC-AAAGAC
* * * *
1114685 CTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGACGAGAAGAG
1 CTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
* *
1114750 CTATCTGCCAACC-GAAGACCTTCGAGTTCGATTACACTTAGCT
66 TTATCTGCCAACCAG-AGACCTTCGAGTTCGATTACACTCAGCT
1114793 CAGAGGCAAA
Statistics
Matches: 228, Mismatches: 42, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
165 44 0.19
166 82 0.36
168 1 0.00
169 75 0.33
170 26 0.11
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (165 bp):
CTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
TTATCTGCCAACCAGAGACCTTCGAGTTCGATTACACTCAGCTTCCAAGACACATCATTTACAAC
ATAGATTAAGGCGAGAAGGGTTATATGCCAAAGAC
Found at i:1115418 original size:15 final size:15
Alignment explanation
Indices: 1115395--1115428 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1115385 TATTATATTT
1115395 TATTATTATTATTAA
1 TATTATTATTATTAA
*
1115410 TATTGTTATTATTAA
1 TATTATTATTATTAA
1115425 TATT
1 TATT
1115429 TTTTATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTATTATTATTAA
Found at i:1117372 original size:60 final size:62
Alignment explanation
Indices: 1117308--1117485 Score: 213
Period size: 62 Copynumber: 2.9 Consensus size: 62
1117298 ATGTTAGGTC
* *
1117308 ACATCAAAGAAGAAAAATTGTTAATGACTATGTTGCTTTTTCTACA-ATATACTTT-AAGGG
1 ACATCGAAGAAGAAAAATTGTTAATGACTATGTTACTTTTTCTACATATATACTTTAAAGGG
* *
1117368 ACATCGAAGAAGAAAAATTGTTGATG-GTCATGTTACTCTTTT-TACATGATATACTTTAAAGGG
1 ACATCGAAGAAGAAAAATTGTTAATGACT-ATGTTACT-TTTTCTACAT-ATATACTTTAAAGGG
* * * *
1117431 -CATCGAAGAAGAAGATTTGCTAATGATTATGTTACTTTTTCTACATAGTATACTT
1 ACATCGAAGAAGAAAAATTGTTAATGACTATGTTACTTTTTCTACATA-TATACTT
1117486 ATGCATTTAA
Statistics
Matches: 101, Mismatches: 9, Indels: 14
0.81 0.07 0.11
Matches are distributed among these distances:
59 1 0.01
60 35 0.35
61 9 0.09
62 50 0.50
63 6 0.06
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (62 bp):
ACATCGAAGAAGAAAAATTGTTAATGACTATGTTACTTTTTCTACATATATACTTTAAAGGG
Found at i:1121521 original size:20 final size:20
Alignment explanation
Indices: 1121496--1121541 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
1121486 CTGTTTATTA
*
1121496 TTTTCTGTAAACTGTAGCAG
1 TTTTCTGTAAACTGTAACAG
1121516 TTTTCTGTAAACTGTAACAG
1 TTTTCTGTAAACTGTAACAG
1121536 TTTTCT
1 TTTTCT
1121542 ACTTCTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (20 bp):
TTTTCTGTAAACTGTAACAG
Found at i:1124114 original size:19 final size:17
Alignment explanation
Indices: 1124074--1124106 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1124064 CGTTGTAAGG
1124074 TAAT-TTTTTTAATATA
1 TAATATTTTTTAATATA
1124090 TAATATTTTTT-ATATA
1 TAATATTTTTTAATATA
1124106 T
1 T
1124107 GATTATATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TAATATTTTTTAATATA
Found at i:1127769 original size:3 final size:3
Alignment explanation
Indices: 1127761--1127853 Score: 60
Period size: 3 Copynumber: 31.0 Consensus size: 3
1127751 CTCCTCAATT
* * * * * * * *
1127761 TCA TCA TCA TCA TCA TCA TCA TCA CCA CCA CCA CCA CCA CCA CCA CCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
* * * * * *
1127809 CCA TCA TCA TCA CCA CCA CCA TCA TCA TCA TTA TCA TCG TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1127854 GGAGCATATA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.32, C:0.45, G:0.01, T:0.22
Consensus pattern (3 bp):
TCA
Found at i:1131613 original size:23 final size:22
Alignment explanation
Indices: 1131578--1131620 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
1131568 ATAATTATTT
1131578 AAAAATTTAAATAAAAAATACC
1 AAAAATTTAAATAAAAAATACC
*
1131600 AAAAATATTTAATAAAAAATA
1 AAAAAT-TTAAATAAAAAATA
1131621 ATTTTGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAATTTAAATAAAAAATACC
Found at i:1135040 original size:20 final size:19
Alignment explanation
Indices: 1135005--1135097 Score: 71
Period size: 19 Copynumber: 4.6 Consensus size: 19
1134995 AACTATAATA
*
1135005 TATATATATATTTCAAAAT
1 TATATATATATTTCAAAAC
*
1135024 TATATATTTACTTTCAAAAC
1 TATATATATA-TTTCAAAAC
**
1135044 TATACTATATATATTTTTTGAAAC
1 --TA-TATATATA--TTTCAAAAC
*
1135068 TATATTTAT-TTTCAAAAC
1 TATATATATATTTCAAAAC
1135086 TATACTATATAT
1 TATA-TATATAT
1135098 AACCAAAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 13
0.71 0.12 0.16
Matches are distributed among these distances:
18 11 0.19
19 13 0.23
20 9 0.16
21 6 0.11
22 4 0.07
23 7 0.12
24 7 0.12
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.48
Consensus pattern (19 bp):
TATATATATATTTCAAAAC
Found at i:1135040 original size:46 final size:42
Alignment explanation
Indices: 1134989--1135098 Score: 139
Period size: 42 Copynumber: 2.5 Consensus size: 42
1134979 GTATACATAT
*
1134989 TTTCAAAACTATAATATATATATATATTTCAAAATTATATATTTAC
1 TTTCAAAACTATACTATATATAT-T-TTTCAAAA--ATATATTTAC
** * *
1135035 TTTCAAAACTATACTATATATATTTTTTGAAACTATATTTAT
1 TTTCAAAACTATACTATATATATTTTTCAAAAATATATTTAC
1135077 TTTCAAAACTATACTATATATA
1 TTTCAAAACTATACTATATATA
1135099 ACCAAAATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
42 30 0.51
44 6 0.10
45 1 0.02
46 22 0.37
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.46
Consensus pattern (42 bp):
TTTCAAAACTATACTATATATATTTTTCAAAAATATATTTAC
Found at i:1135400 original size:21 final size:21
Alignment explanation
Indices: 1135379--1135471 Score: 91
Period size: 21 Copynumber: 4.5 Consensus size: 21
1135369 TTTTCCCAAT
*
1135379 TCGCAATGCGAATAA-GTAAA
1 TCGCAATGCGAATAAGGAAAA
* * **
1135399 TTGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGGAAAA
*
1135420 TCGCAATGCGAATAA-GTAAA
1 TCGCAATGCGAATAAGGAAAA
* **
1135440 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGGAAAA
1135461 TCGCAATGCGA
1 TCGCAATGCGA
1135472 TACTGACTAT
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 27 0.48
21 29 0.52
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (21 bp):
TCGCAATGCGAATAAGGAAAA
Found at i:1135409 original size:20 final size:20
Alignment explanation
Indices: 1135379--1135452 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
1135369 TTTTCCCAAT
*
1135379 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
* ** *
1135399 TTGCAACGCGAATTGGGAAAA
1 TCGCAACGCGAA-TAAGTAAA
*
1135420 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
1135440 TCGCAACGCGAAT
1 TCGCAACGCGAAT
1135453 TGGGAAAATC
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATAAGTAAA
Found at i:1135485 original size:20 final size:20
Alignment explanation
Indices: 1135460--1135574 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
1135450 AATTGGGAAA
*
1135460 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
1135480 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
1135501 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
1135521 TTCG-AACCGCGATACTGACT
1 ATCGCAA-CGCGATACTGACT
* *
1135541 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
1135561 TTCGCAACGCGATA
1 ATCGCAACGCGATA
1135575 ATACATAATC
Statistics
Matches: 77, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
19 2 0.03
20 59 0.77
21 16 0.21
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1135486 original size:41 final size:41
Alignment explanation
Indices: 1135379--1135471 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
1135369 TTTTCCCAAT
*
1135379 TCGCAATGCGAATAAGTAAATTGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1135420 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1135461 TCGCAATGCGA
1 TCGCAATGCGA
1135472 TACTGACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:1135502 original size:41 final size:41
Alignment explanation
Indices: 1135457--1135594 Score: 127
Period size: 41 Copynumber: 3.4 Consensus size: 41
1135447 GCGAATTGGG
* * *
1135457 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
* * * *
1135498 AAAATCGCAACGAGATACTTACTTTCG-AACCGCGATACT-G
1 AAAATCGCAACGCGATACTGACTTTCGCAA-CGCGATAATAA
*** * *
1135538 ACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
* *
1135579 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
1135595 TTTCAAAGCG
Statistics
Matches: 75, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
40 31 0.41
41 44 0.59
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
Found at i:1135790 original size:22 final size:22
Alignment explanation
Indices: 1135762--1135805 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1135752 CACTCTCTCA
1135762 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
1135784 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
1135806 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:1136105 original size:20 final size:20
Alignment explanation
Indices: 1136082--1136124 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
1136072 GATAGTCGAA
1136082 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
*
1136102 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
1136122 TTC
1 TTC
1136125 AGAAACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Found at i:1137478 original size:18 final size:18
Alignment explanation
Indices: 1137437--1137478 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1137427 ACTTCGGGAT
*
1137437 CCATCACCTCGCCCAAAG
1 CCATCACCTCACCCAAAG
* *
1137455 CTATCACCTCACCCAGAG
1 CCATCACCTCACCCAAAG
1137473 CCATCA
1 CCATCA
1137479 TCTGATCGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.48, G:0.10, T:0.14
Consensus pattern (18 bp):
CCATCACCTCACCCAAAG
Found at i:1138014 original size:19 final size:20
Alignment explanation
Indices: 1137960--1138026 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
1137950 TAGTTTACTT
* *
1137960 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
1137980 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
1138000 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
1138019 TCGCAACG
1 TCGCAACG
1138027 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:1138034 original size:14 final size:14
Alignment explanation
Indices: 1138015--1138072 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1138005 ATGCGAAATG
1138015 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1138029 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
1138045 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
1138061 AAAATCGCAACG
1 AAAATCGCAACG
1138073 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1138057 original size:32 final size:33
Alignment explanation
Indices: 1137999--1138077 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
1137989 GGAAATGGCT
*
1137999 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1138032 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1138064 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
1138078 CACAAATCGA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:1138123 original size:19 final size:19
Alignment explanation
Indices: 1138099--1138247 Score: 95
Period size: 19 Copynumber: 8.3 Consensus size: 19
1138089 TGTTTTGTTT
1138099 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
1138118 TTGCGA-TTT--TGT--CG
1 TTGCGATTTTCATTTCGCG
* *
1138132 TTGTGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCG
*
1138150 TTGCGA-TTT--TGT--CG
1 TTGCGATTTTCATTTCGCG
*
1138164 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCG
***
1138183 TTGCGATAGCCATTTCCGCG
1 TTGCGATTTTCATTT-CGCG
**
1138203 TTGCGATAGTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
* *
1138222 TTGCGATTTTAAGTTTCGTG
1 TTGCGATTTTCA-TTTCGCG
1138242 TTGCGA
1 TTGCGA
1138248 AAGTAAACTA
Statistics
Matches: 101, Mismatches: 18, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
14 17 0.17
15 3 0.03
16 6 0.06
17 2 0.02
18 12 0.12
19 32 0.32
20 29 0.29
ACGTcount: A:0.13, C:0.19, G:0.23, T:0.44
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:1138139 original size:14 final size:14
Alignment explanation
Indices: 1138116--1138173 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
1138106 TTTCATTTCG
1138116 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
* *
1138130 CGTTGTGATTTCATTT
1 CGTTGCGATTT--TGT
1138146 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
1138162 CGTTGCGATTTT
1 CGTTGCGATTTT
1138174 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 8 0.22
18 8 0.22
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1138147 original size:32 final size:33
Alignment explanation
Indices: 1138099--1138189 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
1138089 TGTTTTGTTT
*
1138099 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
1138132 TTGTGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1138164 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
1138190 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:1138208 original size:20 final size:19
Alignment explanation
Indices: 1138174--1138228 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
1138164 TTGCGATTTT
*
1138174 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1138193 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
1138213 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
1138229 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:1140290 original size:106 final size:106
Alignment explanation
Indices: 1139965--1141444 Score: 2183
Period size: 106 Copynumber: 14.0 Consensus size: 106
1139955 GCATTGTTCC
* * * *
1139965 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * * *
1140029 ACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1140071 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTCGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * *
1140130 TCAGCCG-CCCTTTCATCGTGAAGTT-AAGCTTGTGTTATCTTG
66 CCAGCGGTCCC-TTCGTCGTGAAGTTGAA-CTTGCGTTGTC-TG
* * * *
1140172 G-GTCAAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1140236 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
1140277 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1140342 CCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1140383 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
1140448 TCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1140489 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1140554 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1140595 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1140660 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1140701 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1140766 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1140807 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1140872 CCAGCGGTCTCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1140913 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1140978 CCAGCGGTCCCTTCATCATGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** *
1141019 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1141084 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1141125 GAGTACAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1141189 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
1141230 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1141295 CCAGCGGTCCCTTCGTCGTGAAGTTGAACCTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * ** *
1141336 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCCGAAATTGGAAAATTG-TTGTTTTCAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * *
1141400 CCAGCCGTCCCTTCGTTGTGAAGTTGAATTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1141441 GAGT
1 GAGT
1141445 GGAACGATAT
Statistics
Matches: 1256, Mismatches: 104, Indels: 29
0.90 0.07 0.02
Matches are distributed among these distances:
99 5 0.00
100 73 0.06
101 5 0.00
102 4 0.00
104 4 0.00
105 147 0.12
106 1012 0.81
107 6 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:1142552 original size:20 final size:20
Alignment explanation
Indices: 1142523--1142596 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
1142513 GCAGCCTTCG
*
1142523 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
* **
1142543 TGCATCGATGCACATCCTTGA
1 TGCATCGATGCACA-GCAGGA
*
1142564 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACAGCAGGA
1142584 TGCATCGATGCAC
1 TGCATCGATGCAC
1142597 TAACTGCATT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 28 0.62
21 17 0.38
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.20
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:1142686 original size:21 final size:20
Alignment explanation
Indices: 1142618--1142715 Score: 99
Period size: 21 Copynumber: 4.7 Consensus size: 20
1142608 GGTGTTTGAG
*
1142618 TGCATGGATGCACTGCATGA
1 TGCATGGATGCACTGCAGGA
**
1142638 TGCATCAATGCACTAGTGCAGG-
1 TGCATGGATGCAC---TGCAGGA
1142660 TGCATGGATGCACTGCAGGGA
1 TGCATGGATGCACTGCA-GGA
*
1142681 TGCATGGATGCACTGCAGGGG
1 TGCATGGATGCACTGCA-GGA
*
1142702 TTCATGGATGCACT
1 TGCATGGATGCACT
1142716 TTGACACCCT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
19 4 0.06
20 13 0.20
21 33 0.50
22 11 0.17
23 5 0.08
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.23
Consensus pattern (20 bp):
TGCATGGATGCACTGCAGGA
Found at i:1142708 original size:42 final size:41
Alignment explanation
Indices: 1142617--1142715 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
1142607 CGGTGTTTGA
*
1142617 GTGCATGGATGCACTGCATGATGCATCAATGCACTAGTGCAG
1 GTGCATGGATGCACTGCAGGATGCATCAATGCACTAGTG-AG
**
1142659 GTGCATGGATGCACTGCAGGGATGCATGGATGCACTGCAG-G-G
1 GTGCATGGATGCACTGCA-GGATGCATCAATGCACT--AGTGAG
*
1142701 GTTCATGGATGCACT
1 GTGCATGGATGCACT
1142716 TTGACACCCT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
42 33 0.66
43 14 0.28
44 1 0.02
45 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.23
Consensus pattern (41 bp):
GTGCATGGATGCACTGCAGGATGCATCAATGCACTAGTGAG
Found at i:1144715 original size:13 final size:13
Alignment explanation
Indices: 1144697--1144721 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1144687 ACCATGTCAC
1144697 ATTGATTATGAAT
1 ATTGATTATGAAT
1144710 ATTGATTATGAA
1 ATTGATTATGAA
1144722 ACTAATGGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTGATTATGAAT
Found at i:1145404 original size:65 final size:65
Alignment explanation
Indices: 1145301--1145460 Score: 191
Period size: 65 Copynumber: 2.5 Consensus size: 65
1145291 AATTAAATTG
* * * *
1145301 AACATCGAATGCATTTCATACATCGATGCA-CATACCATGCACCGATGCACTGAGGAT-TTTATG
1 AACATCGAATGCATTTGATACATCGATGCACCATACCATGCACCAATGAACTCAGGATATTT-TG
1145364 AA
65 -A
* * * *
1145366 AACATCGAATGCATTTGATACATCGATGCACCA-GCCATGCATCAATGAACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATACATCGATGCACCATACCATGCACCAATGAACTCAGGATATTTTGA
* *
1145430 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATACATCGATGCAC
1145461 TATTAGTGTA
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 30 0.36
65 48 0.58
66 5 0.06
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (65 bp):
AACATCGAATGCATTTGATACATCGATGCACCATACCATGCACCAATGAACTCAGGATATTTTGA
Found at i:1153258 original size:2 final size:2
Alignment explanation
Indices: 1153253--1153278 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1153243 TATTAATAAA
1153253 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
1153279 TAATAATTTA
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:1153483 original size:5 final size:5
Alignment explanation
Indices: 1153462--1153504 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
1153452 TTTATTTGCA
*
1153462 AAAAT AATAAA AAAAT AAAAT AAAAT AAAAT -AAAT AAAGAT AA
1 AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AA
1153505 TTCATTTCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
4 4 0.12
5 21 0.64
6 8 0.24
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:1154411 original size:26 final size:25
Alignment explanation
Indices: 1154375--1154429 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
1154365 GCGATCGTCT
1154375 ATTTAAAATTTTAAATTG-TCATATA
1 ATTTAAAATTTTAAATTGAT-ATATA
**
1154400 ATTTAAATATTTTTTATTGATATATA
1 ATTTAAA-ATTTTAAATTGATATATA
1154426 ATTT
1 ATTT
1154430 TTTCTCTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 7 0.27
26 18 0.69
27 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (25 bp):
ATTTAAAATTTTAAATTGATATATA
Found at i:1165826 original size:19 final size:20
Alignment explanation
Indices: 1165787--1165826 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1165777 TAAGTGTTAA
*
1165787 TGAATTTTAAGATTTTATAT
1 TGAATTTTAAGATTATATAT
1165807 TGAATTTTAA-ATTATATAT
1 TGAATTTTAAGATTATATAT
1165826 T
1 T
1165827 CGATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TGAATTTTAAGATTATATAT
Found at i:1166084 original size:35 final size:36
Alignment explanation
Indices: 1166020--1166090 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
1166010 ATTGCCCAGA
1166020 GGGAACAGATTCTCCCCCAGGGGGTACCGATTCCCC
1 GGGAACAGATTCTCCCCCAGGGGGTACCGATTCCCC
*
1166056 GGGAACAGATTC-CCCCTAGGGGGTACCGATTCCCC
1 GGGAACAGATTCTCCCCCAGGGGGTACCGATTCCCC
1166091 CCCAGGTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 22 0.65
36 12 0.35
ACGTcount: A:0.20, C:0.35, G:0.28, T:0.17
Consensus pattern (36 bp):
GGGAACAGATTCTCCCCCAGGGGGTACCGATTCCCC
Found at i:1166088 original size:20 final size:19
Alignment explanation
Indices: 1166032--1166091 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 19
1166022 GAACAGATTC
1166032 TCCCCCAGGGGGTACCGAT
1 TCCCCCAGGGGGTACCGAT
* *
1166051 T-CCCC---GGGAACAGAT
1 TCCCCCAGGGGGTACCGAT
1166066 TCCCCCTAGGGGGTACCGAT
1 TCCCCC-AGGGGGTACCGAT
1166086 TCCCCC
1 TCCCCC
1166092 CCAGGTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
15 9 0.28
16 4 0.12
18 4 0.12
19 1 0.03
20 14 0.44
ACGTcount: A:0.17, C:0.40, G:0.27, T:0.17
Consensus pattern (19 bp):
TCCCCCAGGGGGTACCGAT
Found at i:1167437 original size:19 final size:20
Alignment explanation
Indices: 1167413--1167460 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1167403 AACAATTTTC
*
1167413 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
1167432 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
1167452 TTTTGAAAA
1 TTTTGAAAA
1167461 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:1168684 original size:19 final size:20
Alignment explanation
Indices: 1168645--1168684 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1168635 TAAGTGTTAA
*
1168645 TGAATTTTAAGATTTTATAT
1 TGAATTTTAAGATTATATAT
1168665 TGAATTTTAA-ATTATATAT
1 TGAATTTTAAGATTATATAT
1168684 T
1 T
1168685 CGATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TGAATTTTAAGATTATATAT
Found at i:1168924 original size:35 final size:35
Alignment explanation
Indices: 1168878--1168947 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
1168868 ATTGCCGAGA
*
1168878 GGGAACAGATTCCCCCCAGGGGGTACCGATTCCCC
1 GGGAAAAGATTCCCCCCAGGGGGTACCGATTCCCC
* *
1168913 GGGAAAAGATTCCCCCTAGGGGGTATCGATTCCCC
1 GGGAAAAGATTCCCCCCAGGGGGTACCGATTCCCC
1168948 CCAGGTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.21, C:0.33, G:0.29, T:0.17
Consensus pattern (35 bp):
GGGAAAAGATTCCCCCCAGGGGGTACCGATTCCCC
Found at i:1171926 original size:30 final size:30
Alignment explanation
Indices: 1171892--1171951 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
1171882 ATCCTAGGAA
*
1171892 AAATTCCATAGCTGAACCAAAACACATCTT
1 AAATTCCATAGCCGAACCAAAACACATCTT
1171922 AAATTCCATAGCCGAACCAAAACACATCTT
1 AAATTCCATAGCCGAACCAAAACACATCTT
1171952 CAAGAGTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.43, C:0.28, G:0.07, T:0.22
Consensus pattern (30 bp):
AAATTCCATAGCCGAACCAAAACACATCTT
Found at i:1175163 original size:76 final size:74
Alignment explanation
Indices: 1175077--1175228 Score: 182
Period size: 76 Copynumber: 2.0 Consensus size: 74
1175067 GATTAAACTC
*
1175077 AAGTTTAGGATAATATTTTAAACATTATAT-TTTATCTTT-GTGTTTTAGTCTAAATAGGTTTTT
1 AAGTTTAGGATAATATTTT-AACATTATATCTTTAT-TTTAGTATTTTAGTCTAAATAGG-TTTT
1175140 AGTATTTTAATT
63 AGTATTTTAATT
* * * * * *
1175152 AAGTTCTAGGATATTATTTTTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTA
1 AAGTT-TAGGATAATATTTTAACATTATATCTTTATTTTA-GTATTTTAGTCTAAATAGGTTTTA
1175217 GTATTTTAATT
64 GTATTTTAATT
1175228 A
1 A
1175229 TGATTTATAA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
75 15 0.23
76 34 0.52
77 17 0.26
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.55
Consensus pattern (74 bp):
AAGTTTAGGATAATATTTTAACATTATATCTTTATTTTAGTATTTTAGTCTAAATAGGTTTTAGT
ATTTTAATT
Found at i:1179186 original size:21 final size:21
Alignment explanation
Indices: 1179135--1179242 Score: 112
Period size: 23 Copynumber: 4.9 Consensus size: 21
1179125 ACACCATCAG
* *
1179135 GGGGTATCGATACCCATTCAA
1 GGGGTATCGATACCTATTGAA
1179156 GGATGGTATCGATACCTATTGAA
1 GG--GGTATCGATACCTATTGAA
*
1179179 GGGGTATCGATACCTATTCAAA
1 GGGGTATCGATACCTATT-GAA
1179201 GGGGGTATCGATACC-AGTCT-AA
1 -GGGGTATCGATACCTA-T-TGAA
1179223 GGGGTATCGATACTCTATTG
1 GGGGTATCGATAC-CTATTG
1179243 CACAAAAATG
Statistics
Matches: 75, Mismatches: 3, Indels: 17
0.79 0.03 0.18
Matches are distributed among these distances:
21 32 0.43
22 7 0.09
23 35 0.47
24 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (21 bp):
GGGGTATCGATACCTATTGAA
Found at i:1179186 original size:44 final size:44
Alignment explanation
Indices: 1179117--1179235 Score: 140
Period size: 44 Copynumber: 2.8 Consensus size: 44
1179107 ACCCCGTGGA
* *
1179117 GGGTATCGACACCA-TC-AGGGGGTATCGATACCCATTC-AAGG
1 GGGTATCGATACCAGTCTAAGGGGTATCGATACCCATTCAAAGG
* *
1179158 ATGGTATCGATACCTA-T-TGAAGGGGTATCGATACCTATTCAAAGG
1 -GGGTATCGATACC-AGTCT-AAGGGGTATCGATACCCATTCAAAGG
1179203 GGGTATCGATACCAGTCTAAGGGGTATCGATAC
1 GGGTATCGATACCAGTCTAAGGGGTATCGATAC
1179236 TCTATTGCAC
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
42 11 0.17
43 3 0.05
44 47 0.71
45 5 0.08
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (44 bp):
GGGTATCGATACCAGTCTAAGGGGTATCGATACCCATTCAAAGG
Found at i:1187411 original size:40 final size:39
Alignment explanation
Indices: 1187343--1187431 Score: 108
Period size: 40 Copynumber: 2.3 Consensus size: 39
1187333 TATTTTAGGG
* * *
1187343 ACCAAAGATGAAATTCCCATGTGCACAAGTTGGCCACCT
1 ACCAAAGATGAAATTCCAATGTGCACAAGTTAGCCACCA
* *
1187382 ACCAAAGAT-AAATTTTCCAATGTGTACAAGTTAGCTACCA
1 ACCAAAGATGAAA--TTCCAATGTGCACAAGTTAGCCACCA
1187422 ACCAAAGATG
1 ACCAAAGATG
1187432 TCAGATTTGC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
38 3 0.07
39 9 0.21
40 30 0.71
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (39 bp):
ACCAAAGATGAAATTCCAATGTGCACAAGTTAGCCACCA
Found at i:1187462 original size:15 final size:16
Alignment explanation
Indices: 1187437--1187466 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1187427 AGATGTCAGA
1187437 TTTGCCAACTTTCAAC
1 TTTGCCAACTTTCAAC
1187453 TTTG-CAACTTTCAA
1 TTTGCCAACTTTCAA
1187467 GTCAAACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.40
Consensus pattern (16 bp):
TTTGCCAACTTTCAAC
Found at i:1192109 original size:39 final size:40
Alignment explanation
Indices: 1192053--1192141 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
1192043 TATTTTAGGG
* *
1192053 ACCAAAGATGAAATTTCC-ATGTGCACAAGTTGGCCACCT
1 ACCAAAGATGAAATTTCCAATGTGCACAAGTTAGCCACCA
* *
1192092 ACCAAAGATGAATTTTCCAATGTGTACAAGTTAGCCACCA
1 ACCAAAGATGAAATTTCCAATGTGCACAAGTTAGCCACCA
1192132 ACCAAAGATG
1 ACCAAAGATG
1192142 TCAACTTTGC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 17 0.38
40 28 0.62
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (40 bp):
ACCAAAGATGAAATTTCCAATGTGCACAAGTTAGCCACCA
Found at i:1199765 original size:60 final size:60
Alignment explanation
Indices: 1199628--1199766 Score: 158
Period size: 60 Copynumber: 2.3 Consensus size: 60
1199618 ATAAAATATA
* * * *
1199628 AAAATGATCTACC-GACTATATGACGTTGTTTTATTGAGTTCTTTGATTAGTAAAAGTTAC
1 AAAATGATC-ACCTGACTATATGACGTTGTTTTATTGAGTCCCTTGACTACTAAAAGTTAC
* * * *
1199688 AAAATGGTC-CTTCGACTATAGTG-TGTTGTTTTGTTGAGTCCCTTGACTACTAAAAGTTAC
1 AAAATGATCACCT-GACTATA-TGACGTTGTTTTATTGAGTCCCTTGACTACTAAAAGTTAC
1199748 AAAATGATCACCTGACTAT
1 AAAATGATCACCTGACTAT
1199767 TCGTGTATTC
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
58 1 0.02
60 60 0.92
61 4 0.06
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.37
Consensus pattern (60 bp):
AAAATGATCACCTGACTATATGACGTTGTTTTATTGAGTCCCTTGACTACTAAAAGTTAC
Found at i:1201355 original size:2 final size:2
Alignment explanation
Indices: 1201348--1201408 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
1201338 CACCATATGT
1201348 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
1201390 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
1201409 TTTTTTAAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1202340 original size:43 final size:43
Alignment explanation
Indices: 1202279--1202466 Score: 211
Period size: 43 Copynumber: 4.4 Consensus size: 43
1202269 CGGCGTTTGT
* *
1202279 TAGGTGTTGATATTTAGAGGCGTTTTTCCCACAAACGCCACAA
1 TAGGTGTTGAGATTTAGAGGCGTTTTTCCCACAAACGCCGCAA
*
1202322 TAGGTGTTGAGATTTAGA-GCGTTTTTCCCGA-AAATGCCGCAA
1 TAGGTGTTGAGATTTAGAGGCGTTTTTCCC-ACAAACGCCGCAA
* * * * *
1202364 TAGGTGTTGATATTTAGCGACGTTTTTCTCACAAACGACGCAA
1 TAGGTGTTGAGATTTAGAGGCGTTTTTCCCACAAACGCCGCAA
** ** * *
1202407 TAGGTGTTGAGATTTAGCTGCGTTTTTAACACAAATGCTGCAA
1 TAGGTGTTGAGATTTAGAGGCGTTTTTCCCACAAACGCCGCAA
1202450 TAGG-GTTTGAGATTTAG
1 TAGGTG-TTGAGATTTAG
1202467 GTGTTGATAT
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
42 38 0.31
43 86 0.69
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
TAGGTGTTGAGATTTAGAGGCGTTTTTCCCACAAACGCCGCAA
Found at i:1202509 original size:57 final size:56
Alignment explanation
Indices: 1202407--1202522 Score: 144
Period size: 57 Copynumber: 2.1 Consensus size: 56
1202397 AACGACGCAA
*
1202407 TAGGTGTTGAGATTTAGCTGCGTTTTTAACACAAATGCTGCAATAGGGTTTGAGATT
1 TAGGTGTTGAGATTTAGCTGCGTTTTTAACACAAACGCTGCAATAGGG-TTGAGATT
* *** * *
1202464 TAGGTGTTGATATTTAGCTGCGTTTTTGTTAGAAACG-TCGTAATAGGGTTGAGATT
1 TAGGTGTTGAGATTTAGCTGCGTTTTTAACACAAACGCT-GCAATAGGGTTGAGATT
1202520 TAG
1 TAG
1202523 CGTCGTTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 12 0.24
57 39 0.76
ACGTcount: A:0.25, C:0.09, G:0.28, T:0.39
Consensus pattern (56 bp):
TAGGTGTTGAGATTTAGCTGCGTTTTTAACACAAACGCTGCAATAGGGTTGAGATT
Found at i:1203051 original size:21 final size:21
Alignment explanation
Indices: 1202953--1203052 Score: 91
Period size: 21 Copynumber: 4.8 Consensus size: 21
1202943 GCTGATATGT
1202953 TGCTTCTCTCTGTG-TTGTCGC
1 TGCTTCTCTCTGTGCTT-TCGC
**
1202974 TGCTTCTCTCTGTGCTACCGC
1 TGCTTCTCTCTGTGCTTTCGC
* *
1202995 TACTTCTCTCTCTGCTTT-GC
1 TGCTTCTCTCTGTGCTTTCGC
*
1203015 TG-TTGCTCTC-GCTGCTTTCGT
1 TGCTT-CTCTCTG-TGCTTTCGC
*
1203036 TGCTGCTCTCTGTGCTT
1 TGCTTCTCTCTGTGCTT
1203053 CCCTTGCTTC
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
19 2 0.03
20 14 0.22
21 44 0.70
22 3 0.05
ACGTcount: A:0.02, C:0.32, G:0.20, T:0.46
Consensus pattern (21 bp):
TGCTTCTCTCTGTGCTTTCGC
Found at i:1203059 original size:21 final size:21
Alignment explanation
Indices: 1203018--1203060 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1203008 GCTTTGCTGT
* *
1203018 TGCTCTCGCTGCTTTCGTTGC
1 TGCTCTCGCTGCTTCCCTTGC
1203039 TGCTCTCTG-TGCTTCCCTTGC
1 TGCTCTC-GCTGCTTCCCTTGC
1203060 T
1 T
1203061 TCATTTTGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.00, C:0.35, G:0.21, T:0.44
Consensus pattern (21 bp):
TGCTCTCGCTGCTTCCCTTGC
Found at i:1205733 original size:3 final size:3
Alignment explanation
Indices: 1205727--1205791 Score: 60
Period size: 3 Copynumber: 21.0 Consensus size: 3
1205717 AATAATTATT
* *
1205727 TAA TAA TATA TATA TATA TAA T-A TAA TAA TAA TAT TTA TAA TAA TAA
1 TAA TAA TA-A TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
1205774 TAA TTT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
1205792 ATTAAGTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
2 2 0.04
3 39 0.75
4 11 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:1205761 original size:18 final size:18
Alignment explanation
Indices: 1205716--1205791 Score: 79
Period size: 18 Copynumber: 4.3 Consensus size: 18
1205706 TATGGGCTTG
*
1205716 TAATAATTAT-TTAATAA
1 TAATAATAATATTAATAA
1205733 T-AT-ATATATATATAAT-A
1 TAATAATA-ATAT-TAATAA
*
1205750 TAATAATAATATTTATAA
1 TAATAATAATATTAATAA
*
1205768 TAATAATAATTTTAATAA
1 TAATAATAATATTAATAA
1205786 TAATAA
1 TAATAA
1205792 ATTAAGTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
15 2 0.04
16 4 0.08
17 7 0.14
18 33 0.67
19 3 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAATAATAATATTAATAA
Found at i:1205791 original size:15 final size:16
Alignment explanation
Indices: 1205716--1205791 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 16
1205706 TATGGGCTTG
*
1205716 TAATAATTATTTAATAA
1 TAATAATAATTT-ATAA
*
1205733 TATATATATATATAATATAA
1 TA-ATA-ATA-AT-TTATAA
1205753 TAATAAT-ATTTATAA
1 TAATAATAATTTATAA
1205768 TAATAATAATTT-TAA
1 TAATAATAATTTATAA
1205783 TAATAATAA
1 TAATAATAA
1205792 ATTAAGTAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
15 24 0.47
16 6 0.12
17 2 0.04
18 5 0.10
19 5 0.10
20 8 0.16
21 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATAATAATTTATAA
Found at i:1205976 original size:29 final size:30
Alignment explanation
Indices: 1205942--1206010 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
1205932 AGAGGTCTTA
*
1205942 AAAACATCACAGATG-ACCCGAAGG-TTTTG
1 AAAACATCA-AGAAGCACCCGAAGGCTTTTG
* *
1205971 AAAACATCAATAAGCTCCCGAAGGCTTTTTG
1 AAAACATCAAGAAGCACCCGAAGGC-TTTTG
1206002 AAAACATCA
1 AAAACATCA
1206011 TGCACTGTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.09
29 17 0.50
31 14 0.41
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.22
Consensus pattern (30 bp):
AAAACATCAAGAAGCACCCGAAGGCTTTTG
Found at i:1206255 original size:151 final size:151
Alignment explanation
Indices: 1205950--1206739 Score: 855
Period size: 166 Copynumber: 5.0 Consensus size: 151
1205940 TAAAAACATC
1205950 ACAGATGACCCGAAGGTTTTGAAAACATCAATAAGCTCCCGAAGGCTTTTTGAAAACATCATGCA
1 ACAGATGACCCGAAGGTTTTGAAAACATCAATAAGCTCCCGAAGGCTTTTTGAAAACATCATGCA
* *
1206015 CTGTAGGACTTACATATGACCCTAAGGTTTTAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAA
66 CTGTAGGACTTACAGATGACCCTAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAA
1206080 ACATCATGCACTGTAGGACTT
131 ACATCATGCACTGTAGGACTT
* *
1206101 ACAGATGACCCTAAGGCTTTGAAAACATCAA-AAGCTCCCGAAGGCTTTTTGAAAACATCATGCA
1 ACAGATGACCCGAAGGTTTTGAAAACATCAATAAGCTCCCGAAGGCTTTTTGAAAACATCATGCA
* *
1206165 CTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAATATC-AAAATCTCCCGAAGGCTTTTTTGG
66 CTGTAGGACTTACAGATGACCCTAAGG-TTTGAAAACATCAAAAAGCTCCCGAAGGC-TTTTTGG
*
1206229 AAACATTATGCACTGTAGGACTT
129 AAACATCATGCACTGTAGGACTT
1206252 ACAGATGACCCGAAGGTTTTGAAAACATCAAGCATGAAGGGCTTACAGATGACCCGAAGG-TTTT
1 ACAGATGACCCGAAGGTTTTGAAAACATC-A--AT-AA--G----C---T--CCCGAAGGCTTTT
* * *
1206316 TGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCC
51 TGAAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGG-TTTGAAAACATCAAAAAGCTCC
*
1206381 CGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTT
115 CGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTT
* * * * *
1206418 ACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA-GCTTTTTTGGAAATATCATGC
1 ACAGATGACCCGAAGGTTTTGAAAACATCAATAAGCTCCCGAAGGC-TTTTTGAAAACATCATGC
* * * *
1206482 ACTGTAGGACTTACAGATGACCCGAAAGTTTTGAAAACATCAAGCACTGAAGGGCTTACAGATGA
65 ACTGTAGGACTTACAGATGACCC-TAAGGTTTGAAAACATCAA--A---AA--GC-TCCCGA--A
**** *** * *
1206547 CCCGAAGGTTTTTGAA-AACAT-CA-TGTACTGAAGGGCTT
119 ---GGCTTTTTGGAAACATCATGCACTG---T--AGGACTT
* * *
1206585 ACCGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCTCGAAGGCTTTTTGAAAACATCATGCA
1 ACAGATGACCCGAAGGTTTTGAAAACATCAATAAGCTCCCGAAGGCTTTTTGAAAACATCATGCA
*
1206649 CTGTAGGACTTACAGATG-CCCTAAGGCTTTGAAAACATC-AAAA-CTCCCGAAGGATTTTTGGA
66 CTGTAGGACTTACAGATGACCCTAAGG-TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGA
1206711 AACATCATGCACTGTAGGACTT
130 AACATCATGCACTGTAGGACTT
1206733 ACAGATG
1 ACAGATG
1206740 TGGAAATAGT
Statistics
Matches: 539, Mismatches: 55, Indels: 93
0.78 0.08 0.14
Matches are distributed among these distances:
148 12 0.02
150 83 0.15
151 105 0.19
152 54 0.10
153 7 0.01
154 2 0.00
155 4 0.01
156 4 0.01
157 2 0.00
158 1 0.00
159 4 0.01
160 5 0.01
162 7 0.01
163 3 0.01
164 8 0.01
165 24 0.04
166 169 0.31
167 45 0.08
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (151 bp):
ACAGATGACCCGAAGGTTTTGAAAACATCAATAAGCTCCCGAAGGCTTTTTGAAAACATCATGCA
CTGTAGGACTTACAGATGACCCTAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAA
ACATCATGCACTGTAGGACTT
Found at i:1206273 original size:76 final size:75
Alignment explanation
Indices: 1205950--1206282 Score: 542
Period size: 75 Copynumber: 4.4 Consensus size: 75
1205940 TAAAAACATC
*
1205950 ACAGATGACCCGAAGGTTTTGAAAACATCAATAAGCTCCCGAAGGCTTTTTGAAAACATCATGCA
1 ACAGATGACCCTAAGGTTTTGAAAACATCAA-AAGCTCCCGAAGGCTTTTTGAAAACATCATGCA
1206015 CTGTAGGACTT
65 CTGTAGGACTT
* *
1206026 ACATATGACCCTAAGGTTTT-AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCA
1 ACAGATGACCCTAAGGTTTTGAAAACATC-AAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCA
1206090 CTGTAGGACTT
65 CTGTAGGACTT
*
1206101 ACAGATGACCCTAAGGCTTTGAAAACATCAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCAC
1 ACAGATGACCCTAAGGTTTTGAAAACATCAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCAC
1206166 TGTAGGACTT
66 TGTAGGACTT
* * * * *
1206176 ACAGATGACCCTAAGGCTTTGAAAATATCAAAATCTCCCGAAGGCTTTTTTGGAAACATTATGCA
1 ACAGATGACCCTAAGGTTTTGAAAACATCAAAAGCTCCCGAAGGC-TTTTTGAAAACATCATGCA
1206241 CTGTAGGACTT
65 CTGTAGGACTT
*
1206252 ACAGATGACCCGAAGGTTTTGAAAACATCAA
1 ACAGATGACCCTAAGGTTTTGAAAACATCAA
1206283 GCATGAAGGG
Statistics
Matches: 241, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
75 157 0.65
76 84 0.35
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (75 bp):
ACAGATGACCCTAAGGTTTTGAAAACATCAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCAC
TGTAGGACTT
Found at i:1206353 original size:46 final size:45
Alignment explanation
Indices: 1206223--1206371 Score: 237
Period size: 45 Copynumber: 3.3 Consensus size: 45
1206213 CCGAAGGCTT
* * * *
1206223 TTTTGGAAACATTATGCACTGTAGGACTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
1206268 TTTTGAAAACATCAAGCA-TGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1206312 TTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 -TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1206358 TTTTGAAAACATCA
1 TTTTGAAAACATCA
1206372 AAAAGCTCCC
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
44 24 0.25
45 46 0.48
46 26 0.27
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
Found at i:1206393 original size:121 final size:118
Alignment explanation
Indices: 1206260--1206688 Score: 368
Period size: 121 Copynumber: 3.6 Consensus size: 118
1206250 TTACAGATGA
* *
1206260 CCCGAAGGTTTTGAAAACATCAAGCA-TGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACA
1 CCCGAAGGTTTTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAACA
1206324 TCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCT
65 TCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCT
* * *
1206379 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
* * * *** ** * * * *** ** * * * *
1206444 ATCAAAAAGCTCCCGAAGCTTTTTTGGAAAT-A-TC-ATGCACTGTAGGAC-TTACAGATG-A
64 ATC---ATGC-ACTGAAG--GGCTTACAGATGACCCGAAGGTTTG-AAAACATCA-AAAAGCT
* * *
1206502 CCCGAAAGTTTTGAAAACATCAAGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACA
1 CCCGAAGGTTTTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAACA
* *
1206567 TCATGTACTGAAGGGCTTACCGATGACCCGAAGGTTTGAAAACATCAAAAAGCT
65 TCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCT
* * * *
1206621 CTCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATG-CCCTAAGGCTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
1206685 ATCA
64 ATCA
1206689 AAACTCCCGA
Statistics
Matches: 231, Mismatches: 60, Indels: 38
0.70 0.18 0.12
Matches are distributed among these distances:
116 4 0.02
117 1 0.00
118 12 0.05
119 35 0.15
120 7 0.03
121 103 0.45
122 35 0.15
123 11 0.05
124 11 0.05
125 6 0.03
126 1 0.00
127 5 0.02
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (118 bp):
CCCGAAGGTTTTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACAT
CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCT
Found at i:1206401 original size:76 final size:76
Alignment explanation
Indices: 1206304--1206524 Score: 356
Period size: 76 Copynumber: 2.9 Consensus size: 76
1206294 TTACAGATGA
* *
1206304 CCCGAAGG-TTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
1206368 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
1206379 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
1206444 ATCAAAAAGCT
66 ATCAAAAAGCT
* * *
1206455 CCCGAA-GCTTTTTTGGAAATATCATGCACTGTAGGACTTACAGATGACCCGAAAGTTTTGAAAA
1 CCCGAAGGC-TTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGTTTTGAAAA
1206519 CATCAA
65 CATCAA
1206525 GCACTGAAGG
Statistics
Matches: 135, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
75 10 0.07
76 125 0.93
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.24
Consensus pattern (76 bp):
CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
ATCAAAAAGCT
Found at i:1206487 original size:242 final size:240
Alignment explanation
Indices: 1206062--1206739 Score: 1155
Period size: 242 Copynumber: 2.8 Consensus size: 240
1206052 TCAAAAAGCT
* * * *
1206062 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGG-TTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTGAAAAC
1206127 ATC-AAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCTAAG
64 ATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCTAAG
* *
1206191 GCTTTGAAAATATCAAAATCTCCCGAAGGCTTTTTTGGAAACATTATGCACTGTAGGACTTACAG
129 GCTTTGAAAACATCAAAA-CTCCCGAA-GCTTTTTTGGAAACATCATGCACTGTAGGACTTACAG
*
1206256 ATGACCCGAAGGTTTTGAAAACATCAAGCA-TGAAGGGCTTACAGATGA
192 ATGACCCGAAAGTTTTGAAAACATCAAGCACTGAAGGGCTTACAGATGA
1206304 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACA
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTGAAAACA
1206369 TCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGG
65 TCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGG
*
1206434 CTTTGAAAACATCAAAAAGCTCCCGAAGCTTTTTTGGAAATATCATGCACTGTAGGACTTACAGA
130 CTTTGAAAACATC-AAAA-CTCCCGAAGCTTTTTTGGAAACATCATGCACTGTAGGACTTACAGA
1206499 TGACCCGAAAGTTTTGAAAACATCAAGCACTGAAGGGCTTACAGATGA
193 TGACCCGAAAGTTTTGAAAACATCAAGCACTGAAGGGCTTACAGATGA
* *
1206547 CCCGAAGGTTTTTGAAAACATCATGTACTGAAGGGCTTACCGATGACCCGAAGGTTTGAAAACAT
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTGAAAACAT
*
1206612 CAAAAAGCTCTCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATG-CCCTAAGGC
66 CAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGC
**
1206676 TTTGAAAACATCAAAACTCCCGAAGGATTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
131 TTTGAAAACATCAAAACTCCCGAAGCTTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
1206740 TGGAAATAGT
Statistics
Matches: 417, Mismatches: 16, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
239 45 0.11
240 4 0.01
241 75 0.18
242 211 0.51
243 82 0.20
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (240 bp):
CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTGAAAACAT
CAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGC
TTTGAAAACATCAAAACTCCCGAAGCTTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGA
CCCGAAAGTTTTGAAAACATCAAGCACTGAAGGGCTTACAGATGA
Found at i:1206529 original size:45 final size:45
Alignment explanation
Indices: 1206465--1206614 Score: 194
Period size: 45 Copynumber: 3.3 Consensus size: 45
1206455 CCCGAAGCTT
* * * * *
1206465 TTTTGGAAATATCATGCACTGTAGGACTTACAGATGACCCGAAAG
1 TTTTGAAAACATCAAGCACTGAAGGGCTTACAGATGACCCGAAAG
*
1206510 TTTTGAAAACATCAAGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCAAGCACTGAAGGGCTTACAGATGACCCGAAAG
* * *
1206555 TTTTTGAAAACATCATGTACTGAAGGGCTTACCGATGACCCG-AAG
1 -TTTTGAAAACATCAAGCACTGAAGGGCTTACAGATGACCCGAAAG
*
1206600 GTTTGAAAACATCAA
1 TTTTGAAAACATCAA
1206615 AAAGCTCTCG
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
44 13 0.14
45 41 0.45
46 38 0.41
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.25
Consensus pattern (45 bp):
TTTTGAAAACATCAAGCACTGAAGGGCTTACAGATGACCCGAAAG
Found at i:1206577 original size:46 final size:45
Alignment explanation
Indices: 1206465--1206613 Score: 210
Period size: 46 Copynumber: 3.3 Consensus size: 45
1206455 CCCGAAGCTT
* * * * *
1206465 TTTTGGAAATATCATGCACTGTAGGACTTACAGATGACCCGAAAG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
1206510 TTTTGAAAACATCAAGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* *
1206555 TTTTTGAAAACATCATGTACTGAAGGGCTTACCGATGACCCGAAGG
1 -TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1206601 -TTTGAAAACATCA
1 TTTTGAAAACATCA
1206614 AAAAGCTCTC
Statistics
Matches: 94, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
44 13 0.14
45 39 0.41
46 42 0.45
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
Done.