Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold72
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: 5928628
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 261288 characters in sequence are not A, C, G, or T
File 5 of 39
Found at i:551519 original size:52 final size:52
Alignment explanation
Indices: 551370--551498 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
551360 CAAAATATGA
*
551370 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
551422 AAATTTTCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
551474 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
551499 GAGATTAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:551573 original size:19 final size:18
Alignment explanation
Indices: 551549--551611 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
551539 AGTGATACAT
551549 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
551568 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
551581 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
551600 TGTATCGATACA
1 TGTATCGATACA
551612 TTGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:551583 original size:32 final size:32
Alignment explanation
Indices: 551542--551622 Score: 153
Period size: 32 Copynumber: 2.5 Consensus size: 32
551532 GCTTCGTAGT
551542 GATACATTGTATCGATACAAAACTTATGTATC
1 GATACATTGTATCGATACAAAACTTATGTATC
*
551574 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAAAACTTATGTATC
551606 GATACATTGTATCGATA
1 GATACATTGTATCGATA
551623 TAAATCGTTG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.35
Consensus pattern (32 bp):
GATACATTGTATCGATACAAAACTTATGTATC
Found at i:551586 original size:13 final size:13
Alignment explanation
Indices: 551568--551622 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
551558 ACAAAACTTA
551568 TGTATCGATACAT
1 TGTATCGATACAT
551581 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
551599 ATGTATCGATACAT
1 -TGTATCGATACAT
551613 TGTATCGATA
1 TGTATCGATA
551623 TAAATCGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 19 0.53
14 1 0.03
16 6 0.17
18 1 0.03
19 9 0.25
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:554186 original size:15 final size:16
Alignment explanation
Indices: 554162--554203 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
554152 CCTTTTCTAG
554162 TTCAACAATTTTC-TT
1 TTCAACAATTTTCATT
*
554177 TTCAAGAA-TTTCATT
1 TTCAACAATTTTCATT
554192 TTCAACAATTTT
1 TTCAACAATTTT
554204 TGATTTATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 4 0.17
15 16 0.70
16 3 0.13
ACGTcount: A:0.31, C:0.17, G:0.02, T:0.50
Consensus pattern (16 bp):
TTCAACAATTTTCATT
Found at i:555989 original size:13 final size:13
Alignment explanation
Indices: 555971--555996 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
555961 TACACCAAGT
555971 ATGTATCGATACA
1 ATGTATCGATACA
555984 ATGTATCGATACA
1 ATGTATCGATACA
555997 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:555994 original size:32 final size:33
Alignment explanation
Indices: 555953--556016 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
555943 TAGCCAAACT
**
555953 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
555985 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
556017 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:557638 original size:21 final size:21
Alignment explanation
Indices: 557612--557653 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
557602 AATCAATCGT
* *
557612 TCAAGATGATGATGAAGATGA
1 TCAAGAGGATGATGAAAATGA
*
557633 TCAAGAGGTTGATGAAAATGA
1 TCAAGAGGATGATGAAAATGA
557654 AGAAATGGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.29, T:0.24
Consensus pattern (21 bp):
TCAAGAGGATGATGAAAATGA
Found at i:558199 original size:84 final size:84
Alignment explanation
Indices: 558039--558199 Score: 186
Period size: 84 Copynumber: 1.9 Consensus size: 84
558029 ACTCAAAGAA
* * * *
558039 GAAAATAAATCAATAAGTGTAGAGAATCATATTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAG
1 GAAAATAAATCAATAAGTGTAGAAAATCATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAG
* *
558104 TATGAAAGAGTTACAAAAT
66 AAAGAAAGAGTTACAAAAT
* *
558123 GAAAATAAATCAATGAGTTTAGAAAAT-A-ATTCTTTTAAAAAGAAAATAAATGAATT--AGAAG
1 GAAAATAAATCAATAAGTGTAGAAAATCATATTC--TTAAAAAGAAAATAAATGAATTAGAGAAG
558184 AGAAAAGAAATGAGTT
64 AG-AAAGAAA-GAGTT
558200 GCAAGTCGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
82 11 0.17
83 6 0.09
84 48 0.74
ACGTcount: A:0.53, C:0.04, G:0.17, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATCATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAG
AAAGAAAGAGTTACAAAAT
Found at i:559743 original size:13 final size:13
Alignment explanation
Indices: 559725--559749 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
559715 TTTTCCAGAT
559725 TGTATCGATACAA
1 TGTATCGATACAA
559738 TGTATCGATACA
1 TGTATCGATACA
559750 TTACTTCAGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:561557 original size:20 final size:20
Alignment explanation
Indices: 561512--561563 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
561502 GTAGCCAAAC
**
561512 TTGTATCGATACACCAAGTA
1 TTGTATCGATACACCAAAAA
561532 -TGTATCGATACACCAAAAA
1 TTGTATCGATACACCAAAAA
561551 TTGTATCGATACA
1 TTGTATCGATACA
561564 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACCAAAAA
Found at i:562064 original size:34 final size:35
Alignment explanation
Indices: 562001--562067 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
561991 CTAAGTGATT
562001 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
562037 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
562068 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:563010 original size:13 final size:13
Alignment explanation
Indices: 562992--563021 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
562982 ACTTTTCATC
562992 ATGTATCGATACA
1 ATGTATCGATACA
563005 ATGTATCGATACA
1 ATGTATCGATACA
563018 ATGT
1 ATGT
563022 CCCATGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:563028 original size:33 final size:33
Alignment explanation
Indices: 562969--563036 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
562959 GCAATTGGGC
* * *
562969 ACAATGTATCGATACTTTTCATCATGTATCGAT
1 ACAATGTATCGATACATGTCACCATGTATCGAT
563002 ACAATGTATCGATACAATGTC-CCATGTATCGAT
1 ACAATGTATCGATAC-ATGTCACCATGTATCGAT
563035 AC
1 AC
563037 TTTTTACTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 28 0.90
34 3 0.10
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (33 bp):
ACAATGTATCGATACATGTCACCATGTATCGAT
Found at i:566261 original size:12 final size:12
Alignment explanation
Indices: 566237--566288 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
566227 TTTAAAAATA
566237 ATAA-AATATTTT
1 ATAATAATA-TTT
566249 ATAATAATATTT
1 ATAATAATATTT
566261 AT-ATAAT-TTT
1 ATAATAATATTT
566271 ATAATTAA-ATTT
1 ATAA-TAATATTT
566283 A-AATAA
1 ATAATAA
566289 AAATAATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
10 8 0.22
11 8 0.22
12 16 0.44
13 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATAATAATATTT
Found at i:566269 original size:22 final size:22
Alignment explanation
Indices: 566240--566288 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
566230 AAAAATAATA
566240 AAAT-ATTTTATAA-TAATATTT
1 AAATAATTTTATAATTAA-ATTT
*
566261 ATATAATTTTATAATTAAATTT
1 AAATAATTTTATAATTAAATTT
566283 AAATAA
1 AAATAA
566289 AAATAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.12
22 18 0.75
23 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATAATTTTATAATTAAATTT
Found at i:566420 original size:20 final size:19
Alignment explanation
Indices: 566395--566517 Score: 71
Period size: 20 Copynumber: 6.5 Consensus size: 19
566385 ACACTTAAAC
*
566395 TATATATCTATAATTGAATA
1 TATATAT-TATAACTGAATA
566415 TATATAATTATAACTGAATA
1 TATAT-ATTATAACTGAATA
566435 TATATATATATATA-T-AAT-
1 TATATAT-TATA-ACTGAATA
* *
566453 TATA-A--ATAAATGTATA
1 TATATATTATAACTGAATA
*
566469 TATA-ATTATAACTAAATA
1 TATATATTATAACTGAATA
* * *
566487 TACATATGATTTTAATTAAATA
1 T--ATAT-ATTATAACTGAATA
566509 TATATATTA
1 TATATATTA
566518 CTTGGGAGTC
Statistics
Matches: 83, Mismatches: 8, Indels: 25
0.72 0.07 0.22
Matches are distributed among these distances:
13 1 0.01
14 4 0.05
15 2 0.02
16 5 0.06
17 1 0.01
18 13 0.16
19 8 0.10
20 33 0.40
21 3 0.04
22 13 0.16
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (19 bp):
TATATATTATAACTGAATA
Found at i:566448 original size:30 final size:30
Alignment explanation
Indices: 566412--566479 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
566402 CTATAATTGA
* *
566412 ATATATATAATTATAACTGAATATATATAT
1 ATATATATAATTATAAATAAATATATATAT
*
566442 ATATATATAATTATAAATAAATGTATATAT
1 ATATATATAATTATAAATAAATATATATAT
566472 A-AT-TATAA
1 ATATATATAA
566480 CTAAATATAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 5 0.14
29 2 0.06
30 28 0.80
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (30 bp):
ATATATATAATTATAAATAAATATATATAT
Found at i:566468 original size:22 final size:22
Alignment explanation
Indices: 566440--566515 Score: 98
Period size: 22 Copynumber: 3.5 Consensus size: 22
566430 GAATATATAT
566440 ATATATATATAATTATAAATAA
1 ATATATATATAATTATAAATAA
* *
566462 ATGTATATATAATTATAACTAA
1 ATATATATATAATTATAAATAA
* * * *
566484 ATATACATATGATTTTAATTAA
1 ATATATATATAATTATAAATAA
566506 ATATATATAT
1 ATATATATAT
566516 TACTTGGGAG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (22 bp):
ATATATATATAATTATAAATAA
Found at i:566785 original size:105 final size:104
Alignment explanation
Indices: 566660--566981 Score: 395
Period size: 105 Copynumber: 3.1 Consensus size: 104
566650 CACAATACAT
* * * *
566660 ATATAAAATAT-TTTTTATTTTTTATTATTTTTAAATAGTAATTAGGGATTTACTATGAAATATT
1 ATATAAAATATGTTTTTAATTTTTATTATTTTTAAATAGTAATTAGAGATTTAATATAAAATATT
566724 TTTTATTTTTAATT-TTTTTAAATAGTAATTTAAGATTTA
66 TTTTATTTTT-ATTATTTTTAAATAGTAATTTAAGATTTA
* * *
566763 ATATAAAATATGTTTTTAATTTTTATTATTTTTTAATAGTAATTTGAGATTTAATATCAAAAT-C
1 ATATAAAATATGTTTTTAATTTTTATTATTTTTAAATAGTAATTAGAGATTTAATAT-AAAATAT
* * * *
566827 TTTTAATTTTTTATTATTTTTATATAGTAA-TTAGGGATCTA
65 TTTTTA-TTTTTATTATTTTTAAATAGTAATTTA-AGATTTA
* * *
566868 GTATAAAATATG-CTTTAATTTTTACTATTTTTAAAATAGTAATTTA-AGATTTAATATAAAATA
1 ATATAAAATATGTTTTTAATTTTTATTATTTTT-AAATAGTAA-TTAGAGATTTAATATAAAATA
* *
566931 TTTTTTAATTTTTATTATTTTTAAATAGCAATTTCAGATTTA
64 TTTTTT-ATTTTTATTATTTTTAAATAGTAATTTAAGATTTA
566973 ATATAAAAT
1 ATATAAAAT
566982 TTTTATTTTT
Statistics
Matches: 185, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
103 11 0.06
104 74 0.40
105 95 0.51
106 5 0.03
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (104 bp):
ATATAAAATATGTTTTTAATTTTTATTATTTTTAAATAGTAATTAGAGATTTAATATAAAATATT
TTTTATTTTTATTATTTTTAAATAGTAATTTAAGATTTA
Found at i:566802 original size:53 final size:52
Alignment explanation
Indices: 566660--567011 Score: 407
Period size: 52 Copynumber: 6.8 Consensus size: 52
566650 CACAATACAT
* *
566660 ATATAAAATATTTTTTATTTTTTATTATTTTTAAATAGTAA-TTAGGGATTTA
1 ATATAAAATATTTTTTAATTTTTATTATTTTTAAATAGTAATTTA-AGATTTA
* *
566712 CTATGAAATATTTTTT-ATTTTTAATT-TTTTTAAATAGTAATTTAAGATTTA
1 ATATAAAATATTTTTTAATTTTT-ATTATTTTTAAATAGTAATTTAAGATTTA
* *
566763 ATATAAAATATGTTTTTAATTTTTATTATTTTTTAATAGTAATTTGAGATTTA
1 ATATAAAATAT-TTTTTAATTTTTATTATTTTTAAATAGTAATTTAAGATTTA
* * * * *
566816 ATATCAAA-ATCTTTTAATTTTTTATTATTTTTATATAGTAA-TTAGGGATCTA
1 ATATAAAATATTTTTTAA-TTTTTATTATTTTTAAATAGTAATTTA-AGATTTA
* ** *
566868 GTATAAAATATGCTTTAATTTTTACTATTTTTAAAATAGTAATTTAAGATTTA
1 ATATAAAATATTTTTTAATTTTTATTATTTTT-AAATAGTAATTTAAGATTTA
* *
566921 ATATAAAATATTTTTTAATTTTTATTATTTTTAAATAGCAATTTCAGATTTA
1 ATATAAAATATTTTTTAATTTTTATTATTTTTAAATAGTAATTTAAGATTTA
* * *
566973 ATAT-AAA-A-TTTTT-ATTTTTATTATTATTATATAATAATT
1 ATATAAAATATTTTTTAATTTTTATTATTTTTAAATAGTAATT
567012 CGAGAGGTGT
Statistics
Matches: 257, Mismatches: 33, Indels: 24
0.82 0.11 0.08
Matches are distributed among these distances:
48 22 0.09
49 5 0.02
50 1 0.00
51 45 0.18
52 97 0.38
53 84 0.33
54 3 0.01
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (52 bp):
ATATAAAATATTTTTTAATTTTTATTATTTTTAAATAGTAATTTAAGATTTA
Found at i:568588 original size:42 final size:45
Alignment explanation
Indices: 568508--568599 Score: 145
Period size: 42 Copynumber: 2.1 Consensus size: 45
568498 AGTAATGTAA
568508 AATATTTTTAATTTTTTATTATTTTTAAATAATAATTCAAGATTT
1 AATATTTTTAATTTTTTATTATTTTTAAATAATAATTCAAGATTT
* *
568553 AATATTTTTAA-TTTTTATT-TTTTT-GATAGTAATTCAAGATTT
1 AATATTTTTAATTTTTTATTATTTTTAAATAATAATTCAAGATTT
568595 AATAT
1 AATAT
568600 AAAATATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 21 0.47
43 5 0.11
44 8 0.18
45 11 0.24
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (45 bp):
AATATTTTTAATTTTTTATTATTTTTAAATAATAATTCAAGATTT
Found at i:568609 original size:42 final size:42
Alignment explanation
Indices: 568520--568619 Score: 112
Period size: 42 Copynumber: 2.3 Consensus size: 42
568510 TATTTTTAAT
* ***
568520 TTTTTATTATTTTTAAATAATAATTCAAGATTTAATATTTTTAA
1 TTTTTATT-TTTTT-GATAATAATTCAAGATTTAATATAAATAA
*
568564 TTTTTATTTTTTTGATAGTAATTCAAGATTTAATATAAA-ATA
1 TTTTTATTTTTTTGATAATAATTCAAGATTTAATATAAATA-A
*
568606 TTTTTAATTTTTTG
1 TTTTTATTTTTTTG
568620 TTATTTTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.02
42 35 0.71
43 5 0.10
44 8 0.16
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (42 bp):
TTTTTATTTTTTTGATAATAATTCAAGATTTAATATAAATAA
Found at i:568686 original size:54 final size:52
Alignment explanation
Indices: 568593--568767 Score: 180
Period size: 54 Copynumber: 3.3 Consensus size: 52
568583 AATTCAAGAT
* *
568593 TTAATATAAAATA-TTTTTAATTTTTTGTTATTTTTTAAATACTAATTT-GGGA
1 TTAATATAAAATATTTTTTAATATTTT-TTA-TTTTTAAATAATAATTTAGGGA
* * * *
568645 TTAATGTAAAATCTTTTTTTAATATTTTATTATCTTTTAAATAGTAATTTAGGGT
1 TTAATATAAAAT-ATTTTTTAATATTTT-TTAT-TTTTAAATAATAATTTAGGGA
* **
568700 TTAATATAAAATATTTTTT-A-ATTTTTTATTTTTAAATAATAATTCA-AAA
1 TTAATATAAAATATTTTTTAATATTTTTTATTTTTAAATAATAATTTAGGGA
568749 TTTAATATAAAATATTTTT
1 -TTAATATAAAATATTTTT
568768 AAATGTTAAT
Statistics
Matches: 105, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
50 33 0.31
51 4 0.04
52 16 0.15
53 2 0.02
54 36 0.34
55 14 0.13
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (52 bp):
TTAATATAAAATATTTTTTAATATTTTTTATTTTTAAATAATAATTTAGGGA
Found at i:568765 original size:35 final size:35
Alignment explanation
Indices: 568726--568835 Score: 157
Period size: 35 Copynumber: 3.1 Consensus size: 35
568716 TTTAATTTTT
*
568726 TATTTTTAAATAATAATTCAAAATTTAATATAAAA
1 TATTTTTAAATAATAATTCAAGATTTAATATAAAA
** * *
568761 TATTTTTAAATGTTAATTTAAGATTTAATATAGAA
1 TATTTTTAAATAATAATTCAAGATTTAATATAAAA
* *
568796 TATTTTTAAATAGTAATTCGAGATTTAATATAAAA
1 TATTTTTAAATAATAATTCAAGATTTAATATAAAA
568831 TATTT
1 TATTT
568836 ATTTAATTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 65 1.00
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (35 bp):
TATTTTTAAATAATAATTCAAGATTTAATATAAAA
Found at i:569238 original size:23 final size:23
Alignment explanation
Indices: 569212--569260 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
569202 TTTATAGTAA
569212 AAATATATTAAA-ATTTATATTTT
1 AAATATATTAAATA-TTATATTTT
* * *
569235 AAATTTATTTAATATTATTTTTT
1 AAATATATTAAATATTATATTTT
569258 AAA
1 AAA
569261 AATAAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AAATATATTAAATATTATATTTT
Found at i:570308 original size:2 final size:2
Alignment explanation
Indices: 570301--570331 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
570291 TATGGCCATA
570301 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
570332 AGTAGGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:573573 original size:2 final size:2
Alignment explanation
Indices: 573566--573592 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
573556 TAAATATAGC
573566 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
573593 AAAATAAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:573844 original size:12 final size:12
Alignment explanation
Indices: 573827--573856 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
573817 TTTTTTGTAA
573827 AAAAAAAAAAAG
1 AAAAAAAAAAAG
*
573839 AAAAAAAAAAGG
1 AAAAAAAAAAAG
573851 AAAAAA
1 AAAAAA
573857 CAAATGTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:573958 original size:12 final size:12
Alignment explanation
Indices: 573928--573961 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
573918 CTCATTAACA
*
573928 ATATATATATAT
1 ATATATGTATAT
573940 ATATATGTATAT
1 ATATATGTATAT
*
573952 GTATATGTAT
1 ATATATGTAT
573962 GTATTGGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (12 bp):
ATATATGTATAT
Found at i:574474 original size:24 final size:24
Alignment explanation
Indices: 574447--574495 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
574437 ATTAAAAAGA
574447 ATTAATATAATTA-TTTAATATAAT
1 ATTAATATAATTATTTTAA-ATAAT
* *
574471 ATTATTATTATTATTTTAAATAAT
1 ATTAATATAATTATTTTAAATAAT
574495 A
1 A
574496 CATAGTATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTAATATAATTATTTTAAATAAT
Found at i:574582 original size:2 final size:2
Alignment explanation
Indices: 574570--574623 Score: 53
Period size: 2 Copynumber: 29.0 Consensus size: 2
574560 TTTAATTACA
* * *
574570 AT AT AT CT AT AT A- AT CT AT AT CT AT AT -T A- AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
574608 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
574624 TAATATAATC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
1 4 0.10
2 38 0.90
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:574595 original size:21 final size:20
Alignment explanation
Indices: 574570--574630 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
574560 TTTAATTACA
*
574570 ATATATCTATATAATCTATAT
1 ATATAT-TATATAATATATAT
*
574591 CTATATTAATATAATATATAT
1 ATATATT-ATATAATATATAT
574612 ATATATATATATTAATATA
1 ATATAT-TATA-TAATATA
574631 ATCTCGTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 1 0.03
21 25 0.74
22 8 0.24
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (20 bp):
ATATATTATATAATATATAT
Found at i:574630 original size:27 final size:28
Alignment explanation
Indices: 574577--574632 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
574567 ACAATATATC
* *
574577 TATATAATCTATATCTATATTAATATAA
1 TATATAATATATATATATATTAATATAA
574605 TATAT-ATATATATATATATTAATATAA
1 TATATAATATATATATATATTAATATAA
574632 T
1 T
574633 CTCGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (28 bp):
TATATAATATATATATATATTAATATAA
Found at i:574836 original size:43 final size:42
Alignment explanation
Indices: 574789--574874 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 42
574779 ATTAATTTTA
* *
574789 TCTCATTCATTATATTTAATATATTATATTAATTTTATCTCAT
1 TCTCATTCATTAAATTTAATATAATATATTAATTTTAT-TCAT
** *
574832 TCTCATTTGTTAAATTTAATATAATATATTTATTTTATTCAT
1 TCTCATTCATTAAATTTAATATAATATATTAATTTTATTCAT
574874 T
1 T
574875 AATGTTTGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
42 5 0.13
43 33 0.87
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (42 bp):
TCTCATTCATTAAATTTAATATAATATATTAATTTTATTCAT
Found at i:575280 original size:36 final size:37
Alignment explanation
Indices: 575240--575324 Score: 138
Period size: 36 Copynumber: 2.3 Consensus size: 37
575230 TACCAATAAA
575240 TTTATCTTATTCATTGTATTTTA-ATAATATGA-TATT
1 TTTATCTTATTCATTGTATTTTATATAATAT-ATTATT
575276 TTTATCTTATTCATTGTATTTTATATAATATATTATT
1 TTTATCTTATTCATTGTATTTTATATAATATATTATT
*
575313 TTTATCTCATTC
1 TTTATCTTATTC
575325 TAATTTATTG
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 24 0.52
37 22 0.48
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.60
Consensus pattern (37 bp):
TTTATCTTATTCATTGTATTTTATATAATATATTATT
Found at i:575364 original size:24 final size:25
Alignment explanation
Indices: 575298--575364 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 25
575288 ATTGTATTTT
* *
575298 ATATAATATATT-ATTTTTATCTCA
1 ATATAATATATTAATTTTAATATCA
* * *
575322 TTCTAATTTATTGAA-TTTAATAT-A
1 ATATAATATATT-AATTTTAATATCA
575346 ATATAATATATTAATTTTA
1 ATATAATATATTAATTTTA
575365 TTCATTATTT
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
23 2 0.06
24 23 0.72
25 6 0.19
26 1 0.03
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.54
Consensus pattern (25 bp):
ATATAATATATTAATTTTAATATCA
Found at i:581574 original size:13 final size:13
Alignment explanation
Indices: 581533--581585 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
581523 GCCGTTTGAA
581533 ACAATGTATCGAT
1 ACAATGTATCGAT
581546 ACAA--T-TC-AT
1 ACAATGTATCGAT
581555 -C-ATGTATCGAT
1 ACAATGTATCGAT
581566 ACAATGTATCGAT
1 ACAATGTATCGAT
581579 ACAATGT
1 ACAATGT
581586 GCCATGTATC
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 21 0.62
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:581575 original size:33 final size:33
Alignment explanation
Indices: 581533--581602 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 33
581523 GCCGTTTGAA
581533 ACAATGTATCGATACAAT-T-CATCATGTATCGAT
1 ACAATGTATCGATACAATGTGC--CATGTATCGAT
581566 ACAATGTATCGATACAATGTGCCATGTATCGAT
1 ACAATGTATCGATACAATGTGCCATGTATCGAT
581599 ACAA
1 ACAA
581603 ACAGTGATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
33 33 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (33 bp):
ACAATGTATCGATACAATGTGCCATGTATCGAT
Found at i:581664 original size:20 final size:20
Alignment explanation
Indices: 581635--581685 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
581625 CAGTTTCATA
**
581635 TATCGATACAATTGTCCATG
1 TATCGATACAATTGAACATG
*
581655 TATTGATACAA-TGAACATG
1 TATCGATACAATTGAACATG
581674 TATCGATACAAT
1 TATCGATACAAT
581686 GTATCGATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (20 bp):
TATCGATACAATTGAACATG
Found at i:581689 original size:13 final size:13
Alignment explanation
Indices: 581671--581697 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
581661 TACAATGAAC
581671 ATGTATCGATACA
1 ATGTATCGATACA
581684 ATGTATCGATACA
1 ATGTATCGATACA
581697 A
1 A
581698 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:584081 original size:21 final size:22
Alignment explanation
Indices: 584042--584084 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
584032 ATGATATTGA
* *
584042 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
584064 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
584085 AAGATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:584215 original size:13 final size:13
Alignment explanation
Indices: 584193--584231 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
584183 TAGTAACCCT
584193 TGTATCGATACAA
1 TGTATCGATACAA
* *
584206 TGTATTGATATAA
1 TGTATCGATACAA
584219 TGTATCGATACAA
1 TGTATCGATACAA
584232 AGAATATTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:590493 original size:19 final size:19
Alignment explanation
Indices: 590445--590500 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
590435 CTGCCAGTTT
**
590445 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
590465 CATATATCGATACAATGAA
1 CATGTATCGATACAATGAA
590484 CATGTATCGATACAATG
1 CATGTATCGATACAATG
590501 TATCAATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:594766 original size:15 final size:15
Alignment explanation
Indices: 594733--594767 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
594723 CGAATCAACT
*
594733 TCATCATTATCATCG
1 TCATCATTATCATCA
*
594748 TCATCATTATCTTCA
1 TCATCATTATCATCA
594763 TCATC
1 TCATC
594768 TTTGATGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.03, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:596546 original size:13 final size:13
Alignment explanation
Indices: 596528--596554 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
596518 TACAATGAAC
596528 ATGTATCGATACA
1 ATGTATCGATACA
596541 ATGTATCGATACA
1 ATGTATCGATACA
596554 A
1 A
596555 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:608732 original size:52 final size:52
Alignment explanation
Indices: 608649--608908 Score: 272
Period size: 52 Copynumber: 5.0 Consensus size: 52
608639 AGATGATAAG
* * * *
608649 GATGGGAAGAGTGCCAATGAGCTAATTCAAGGCCAACGACATTGGACTTGAA
1 GATGAGAAGAGTGCCAATGTGCTAATTCAAGGCCAACGACATTAGACTTAAA
* * *
608701 GATGAGAAGAATGTCAATGTGCTAATTCAAGGCCAATGACATTAGACTTAAA
1 GATGAGAAGAGTGCCAATGTGCTAATTCAAGGCCAACGACATTAGACTTAAA
* * * * * * * *
608753 AATGATAAGGGTGCCAATGTGCTGATTCAAAGCTAGCGATATT-GTACTTAAA
1 GATGAGAAGAGTGCCAATGTGCTAATTCAAGGCCAACGACATTAG-ACTTAAA
* * ** * *
608805 GATGACAA-ATGTGCTAATGTGCCGATTCAAGGCTAACGACATTAGATTTAAA
1 GATGAGAAGA-GTGCCAATGTGCTAATTCAAGGCCAACGACATTAGACTTAAA
* * *
608857 TATGAAAAGAGTGCCAATGTGCTAATTCAAGGCCAGCGACATTAGACTTAAA
1 GATGAGAAGAGTGCCAATGTGCTAATTCAAGGCCAACGACATTAGACTTAAA
608909 AAAATATGGT
Statistics
Matches: 169, Mismatches: 35, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
51 1 0.01
52 166 0.98
53 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (52 bp):
GATGAGAAGAGTGCCAATGTGCTAATTCAAGGCCAACGACATTAGACTTAAA
Found at i:608846 original size:104 final size:103
Alignment explanation
Indices: 608655--608908 Score: 305
Period size: 104 Copynumber: 2.4 Consensus size: 103
608645 TAAGGATGGG
* * *
608655 AAGAGTGCCAATGAGCTAATTCAAGGCCAACGACATTGGACTTGAAGATGAGAAGAATGTCAATG
1 AAGAGTGCCAATGTGCTAATTCAAGGCCAGCGACATT-GACTTAAAGATGAGAAGAATGTCAATG
* * *
608720 TGCTAATTCAAGGCCAATGACATTAGACTTAAAAATGAT
65 TGCCAATTCAAGGCCAACGACATTAGACTTAAAAATGAA
* * * * * *
608759 AAGGGTGCCAATGTGCTGATTCAAAGCTAGCGATATTGTACTTAAAGATGA-CA-AATGTGCTAA
1 AAGAGTGCCAATGTGCTAATTCAAGGCCAGCGACATTG-ACTTAAAGATGAGAAGAATGT-C-AA
* * * *
608822 TGTGCCGATTCAAGGCTAACGACATTAGATTTAAATATGAA
63 TGTGCCAATTCAAGGCCAACGACATTAGACTTAAAAATGAA
608863 AAGAGTGCCAATGTGCTAATTCAAGGCCAGCGACATTAGACTTAAA
1 AAGAGTGCCAATGTGCTAATTCAAGGCCAGCGACATT-GACTTAAA
608909 AAAATATGGT
Statistics
Matches: 125, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
102 5 0.04
103 3 0.02
104 116 0.93
105 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (103 bp):
AAGAGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGACTTAAAGATGAGAAGAATGTCAATGT
GCCAATTCAAGGCCAACGACATTAGACTTAAAAATGAA
Found at i:609053 original size:31 final size:31
Alignment explanation
Indices: 608987--609421 Score: 282
Period size: 31 Copynumber: 13.7 Consensus size: 31
608977 CATGGATTTG
* * * **
608987 TGTGGGCTTTTAAGAGGG-TGTCACTGGCTGG
1 TGTGGGCTTTGAA-AGGGTTGCCACTGACTTA
* *
609018 TGTGGGCTTTGAAAGGGTTGCCATTAACTTA
1 TGTGGGCTTTGAAAGGGTTGCCACTGACTTA
* **
609049 TGTGGGTTTTGAAAGGGTTGCCACCAACTTA
1 TGTGGGCTTTGAAAGGGTTGCCACTGACTTA
* * *
609080 TGTGAGCTTTAGAGAAAGGTTGTCACT-ACCTTA
1 TGTGGGCTTT-GA-AAGGGTTGCCACTGA-CTTA
* * *
609113 TGTGGGCTTTTAAAAAGGATGCCACTGACTTA
1 TGTGGGC-TTTGAAAGGGTTGCCACTGACTTA
* * * * *
609145 TGTGGGCTTTAAAAGGTTTGTCA-TCGATTTG
1 TGTGGGCTTTGAAAGGGTTGCCACT-GACTTA
* * * *
609176 TGTGGGCTTTAAAAAGGTTGCCACCGACTTG
1 TGTGGGCTTTGAAAGGGTTGCCACTGACTTA
* *
609207 TGTGGGCTTTGAAAGGGTTGCCATTGACTTG
1 TGTGGGCTTTGAAAGGGTTGCCACTGACTTA
* *
609238 TGTGGGCTTTGAAAGGGTTGCTACTGACTTG
1 TGTGGGCTTTGAAAGGGTTGCCACTGACTTA
* * * *
609269 TGTGGGTTTTAGGAAAAGGTTACCACTGACTTG
1 TGTGGGCTTT--GAAAGGGTTGCCACTGACTTA
** *
609302 TGTGGGCTATAAAAAGGGGTTGCCATTGACTTA
1 TGTGGGCT-TTGAAA-GGGTTGCCACTGACTTA
*** * * *
609335 TGCAAGCTTTGAAAGGATTGCCACCGACTTG
1 TGTGGGCTTTGAAAGGGTTGCCACTGACTTA
* **** ** *
609366 TGTGAGCTTTTGAAAAAAAATGCCACCAACTTG
1 TGTGGGC-TTTG-AAAGGGTTGCCACTGACTTA
*
609399 TGTGGGCTTTGAAAGGGGTGCCA
1 TGTGGGCTTTGAAAGGGTTGCCA
609422 TGGAGTTGTA
Statistics
Matches: 323, Mismatches: 67, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
30 5 0.02
31 187 0.58
32 40 0.12
33 87 0.27
34 4 0.01
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (31 bp):
TGTGGGCTTTGAAAGGGTTGCCACTGACTTA
Found at i:609089 original size:62 final size:62
Alignment explanation
Indices: 609018--609422 Score: 279
Period size: 64 Copynumber: 6.4 Consensus size: 62
609008 CACTGGCTGG
* * * *
609018 TGTGGGCTTTGAAAGGGTTGCCATTAACTTATGTGGGTTTTGAAAGGGTTGCCACCAACTTA
1 TGTGGGCTTTGAAAGGGTTGCCATTAACTTATGTGGGCTTTAAAAAGGTTGCCACCGACTTA
* * * * * * *
609080 TGTGAGCTTTAGAGAAAGGTTGTCACTACCTTATGTGGGCTTTTAAAAAGGATGCCACTGACTTA
1 TGTGGGCTTT-GA-AAGGGTTGCCATTAACTTATGTGGGC-TTTAAAAAGGTTGCCACCGACTTA
* * * ** * * *
609145 TGTGGGCTTTAAAAGGTTTGTCATCGATTTGTGTGGGCTTTAAAAAGGTTGCCACCGACTTG
1 TGTGGGCTTTGAAAGGGTTGCCATTAACTTATGTGGGCTTTAAAAAGGTTGCCACCGACTTA
* * * * * * *
609207 TGTGGGCTTTGAAAGGGTTGCCATTGACTTGTGTGGGCTTTGAAAGGGTTGCTACTGACTTG
1 TGTGGGCTTTGAAAGGGTTGCCATTAACTTATGTGGGCTTTAAAAAGGTTGCCACCGACTTA
* * * * * * * **
609269 TGTGGGTTTTAGGAAAAGGTTACCACTGACTTGTGTGGGCTATAAAAAGGGGTTGCCATTGACTT
1 TGTGGGCTTT--GAAAGGGTTGCCATTAACTTATGTGGGCTTTAAAAA--GGTTGCCACCGACTT
609334 A
62 A
*** * *** * * *** * *
609335 TGCAAGCTTTGAAAGGATTGCCACCGACTTGTGTGAGCTTTTGAAAAAAAATGCCACCAACTTG
1 TGTGGGCTTTGAAAGGGTTGCCATTAACTTATGTGGGC-TTT-AAAAAGGTTGCCACCGACTTA
*
609399 TGTGGGCTTTGAAAGGGGTGCCAT
1 TGTGGGCTTTGAAAGGGTTGCCAT
609423 GGAGTTGTAG
Statistics
Matches: 268, Mismatches: 66, Indels: 16
0.77 0.19 0.05
Matches are distributed among these distances:
62 92 0.34
63 20 0.07
64 102 0.38
65 30 0.11
66 24 0.09
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (62 bp):
TGTGGGCTTTGAAAGGGTTGCCATTAACTTATGTGGGCTTTAAAAAGGTTGCCACCGACTTA
Found at i:609195 original size:127 final size:126
Alignment explanation
Indices: 608987--609216 Score: 280
Period size: 127 Copynumber: 1.8 Consensus size: 126
608977 CATGGATTTG
* * * * * * *
608987 TGTGGGCTTTTAAGAGGGTGTCACTGGCTGGTGTGGGCTTTGAAAGGGTTGCCATTAACTTATGT
1 TGTGGGCTTTTAAAAGGATGCCACTGACTGATGTGGGCTTTAAAAGGGTTGCCATCAACTTATGT
* * *
609052 GGGTTTTGAAAGGGTTGCCACCAACTTATGTGAGCTTTAGAGAAAGGTTGTCACTACCTTA
66 GGGCTTTAAAAAGGTTGCCACCAACTTATGTGAGCTTTAGAGAAAGGTTGTCACTACCTTA
* * * * * *
609113 TGTGGGCTTTTAAAAAGGATGCCACTGACTTATGTGGGCTTTAAAAGGTTTGTCATCGATTTGTG
1 TGTGGGCTTTT-AAAAGGATGCCACTGACTGATGTGGGCTTTAAAAGGGTTGCCATCAACTTATG
* * *
609178 TGGGCTTTAAAAAGGTTGCCACCGACTTGTGTGGGCTTT
65 TGGGCTTTAAAAAGGTTGCCACCAACTTATGTGAGCTTT
609217 GAAAGGGTTG
Statistics
Matches: 84, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
126 11 0.13
127 73 0.87
ACGTcount: A:0.21, C:0.14, G:0.30, T:0.34
Consensus pattern (126 bp):
TGTGGGCTTTTAAAAGGATGCCACTGACTGATGTGGGCTTTAAAAGGGTTGCCATCAACTTATGT
GGGCTTTAAAAAGGTTGCCACCAACTTATGTGAGCTTTAGAGAAAGGTTGTCACTACCTTA
Found at i:609308 original size:189 final size:189
Alignment explanation
Indices: 608981--609422 Score: 485
Period size: 189 Copynumber: 2.3 Consensus size: 189
608971 AGATGCCATG
* * * * * * *
608981 GATTTGTGTGGGCTTTTAAGAGGGTGTCACTGGCTGGTGTGGGCTTTGAAAGGGTTGCCATTAAC
1 GATTTGTGTGGGCTTTAAAAAGGATGCCACCGACTTGTGTGGGCTTTGAAAGGGTTGCCATTAAC
* **
609046 TTATGTGGGTTTTGAAAGGGTTGCCACCAACTTATGTGAGCTTTAGAGAAAGGTTGTCACTACCT
66 TTATGTGGGCTTTGAAAGGGTTGCCACCAACTTATGTGAGCTTTAGAGAAAGGTTACCACTACCT
* *** * * *
609111 TATGTGGGCTTTTAAAAA-GGATGCCACTGACTTATGTGGGCTTTAAAAGGTTTGTCATC
131 TATGTGGGC-TATAAAAAGGGATGCCACTGACTTATGCAAGCTTTAAAAGGATTGCCACC
* *
609170 GATTTGTGTGGGCTTTAAAAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAGGGTTGCCATTGAC
1 GATTTGTGTGGGCTTTAAAAAGGATGCCACCGACTTGTGTGGGCTTTGAAAGGGTTGCCATTAAC
* * ** * * *
609235 TTGTGTGGGCTTTGAAAGGGTTGCTACTGACTTGTGTGGGTTTTAG-GAAAAGGTTACCACTGA-
66 TTATGTGGGCTTTGAAAGGGTTGCCACCAACTTATGTGAGCTTTAGAG-AAAGGTTACCACT-AC
* * * *
609298 CTTGTGTGGGCTATAAAAAGGGGTTGCCATTGACTTATGCAAGCTTTGAAAGGATTGCCACC
129 CTTATGTGGGCTATAAAAA-GGGATGCCACTGACTTATGCAAGCTTTAAAAGGATTGCCACC
* * ** * *
609360 GACTTGTGTGAGCTTTTGAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGGGTGCCAT
1 GATTTGTGTGGGC-TTT-AAAAAGGATGCCACCGACTTGTGTGGGCTTTGAAAGGGTTGCCAT
609423 GGAGTTGTAG
Statistics
Matches: 211, Mismatches: 36, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
188 8 0.04
189 116 0.55
190 44 0.21
191 3 0.01
192 40 0.19
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.33
Consensus pattern (189 bp):
GATTTGTGTGGGCTTTAAAAAGGATGCCACCGACTTGTGTGGGCTTTGAAAGGGTTGCCATTAAC
TTATGTGGGCTTTGAAAGGGTTGCCACCAACTTATGTGAGCTTTAGAGAAAGGTTACCACTACCT
TATGTGGGCTATAAAAAGGGATGCCACTGACTTATGCAAGCTTTAAAAGGATTGCCACC
Found at i:609345 original size:97 final size:93
Alignment explanation
Indices: 609017--609422 Score: 285
Period size: 97 Copynumber: 4.3 Consensus size: 93
609007 TCACTGGCTG
** * *** * * * *
609017 GTGTGGGCTTTGAAAGGGTTGCCATTAACTTATGTGGGTTTTGAAAGGGTTGCCACCAACTTATG
1 GTGTGGGCTTAAAAAGGGTTGCCATTGACTTATGCAAGCTTTGAAAGGATTGCCACCGACTTGTG
* ** *
609082 TGAGCTTTAGAGAAAGGTTGTCA-CTACCTT
66 TGGGCTTTA-A-AAAGGTTACCACCGA-CTT
* * * *** * * * * *
609112 ATGTGGGCTTTTAAAAA-GGATGCCACTGACTTATGTGGGCTTTAAAAGGTTTGTCATCGATTTG
1 GTGTGGGC--TTAAAAAGGGTTGCCATTGACTTATGCAAGCTTTGAAAGGATTGCCACCGACTTG
*
609176 TGTGGGCTTTAAAAAGGTTGCCACCGACTT
64 TGTGGGCTTTAAAAAGGTTACCACCGACTT
** * *** * * *
609206 GTGTGGGCTTTGAAAGGGTTGCCATTGACTTGTGTGGGCTTTGAAAGGGTTGCTACTGACTTGTG
1 GTGTGGGCTTAAAAAGGGTTGCCATTGACTTATGCAAGCTTTGAAAGGATTGCCACCGACTTGTG
* *
609271 TGGGTTTTAGGAAAAGGTTACCACTGACTT
66 TGGGCTTTA--AAAAGGTTACCACCGACTT
609301 GTGTGGGCTATAAAAAGGGGTTGCCATTGACTTATGCAAGCTTTGAAAGGATTGCCACCGACTTG
1 GTGTGGGCT-TAAAAA-GGGTTGCCATTGACTTATGCAAGCTTTGAAAGGATTGCCACCGACTTG
* *** * *
609366 TGTGAGCTTTTGAAAAAAAATGCCACCAACTT
64 TGTGGGC-TTT-AAAAAGGTTACCACCGACTT
** *
609398 GTGTGGGCTTTGAAAGGGGTGCCAT
1 GTGTGGGCTTAAAAAGGGTTGCCAT
609423 GGAGTTGTAG
Statistics
Matches: 248, Mismatches: 53, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
92 5 0.02
93 47 0.19
94 20 0.08
95 45 0.18
96 54 0.22
97 73 0.29
98 3 0.01
99 1 0.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (93 bp):
GTGTGGGCTTAAAAAGGGTTGCCATTGACTTATGCAAGCTTTGAAAGGATTGCCACCGACTTGTG
TGGGCTTTAAAAAGGTTACCACCGACTT
Found at i:609508 original size:30 final size:30
Alignment explanation
Indices: 609474--609530 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
609464 TTTGAAAAAA
609474 AAAGGGTGCTACGGAGTTGTGAACTTTGAG
1 AAAGGGTGCTACGGAGTTGTGAACTTTGAG
* *
609504 AAAGGGTGCTATGGAGTTGTGGACTTT
1 AAAGGGTGCTACGGAGTTGTGAACTTT
609531 TTCTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.25, C:0.09, G:0.37, T:0.30
Consensus pattern (30 bp):
AAAGGGTGCTACGGAGTTGTGAACTTTGAG
Found at i:609571 original size:31 final size:31
Alignment explanation
Indices: 609533--609738 Score: 177
Period size: 31 Copynumber: 6.5 Consensus size: 31
609523 TGGACTTTTT
*
609533 CTTTAAAAAAAAGGTATCACGAAGTTGTGGA
1 CTTTAAAAAAAAGGTACCACGAAGTTGTGGA
* *
609564 CTTTAAAAAAAGGGTGCCACCG-AGTTGTGGA
1 CTTTAAAAAAAAGGTACCA-CGAAGTTGTGGA
*
609595 C-TTAAAAAAAAGGGTGCCACGAAGTTGTGGA
1 CTTTAAAAAAAA-GGTACCACGAAGTTGTGGA
* * *
609626 CTTTAAGCAAAAAGGGTGCCA-TAGAGTTGTGGA
1 CTTTAA--AAAAAAGGTACCACGA-AGTTGTGGA
** * * *
609659 CTTTGAAAAAAAATATTGCCACGGATTTGTGGA
1 CTTT-AAAAAAAA-GGTACCACGAAGTTGTGGA
*
609692 CTTTTAAAAAGAAGGTACCAC-AGAGTTGTGGA
1 C-TTTAAAAAAAAGGTACCACGA-AGTTGTGGA
609724 CTTTGAAAAAAAAGG
1 CTTT-AAAAAAAAGG
609739 GTGTCACGGA
Statistics
Matches: 143, Mismatches: 19, Indels: 25
0.76 0.10 0.13
Matches are distributed among these distances:
30 11 0.08
31 46 0.32
32 35 0.24
33 41 0.29
34 10 0.07
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (31 bp):
CTTTAAAAAAAAGGTACCACGAAGTTGTGGA
Found at i:609605 original size:33 final size:32
Alignment explanation
Indices: 609533--609750 Score: 214
Period size: 33 Copynumber: 6.8 Consensus size: 32
609523 TGGACTTTTT
**
609533 CTTTAAAAAAAA-GGTATCAC-GAAGTTGTGGA
1 CTTTAAAAAAAAGGGTGCCACAG-AGTTGTGGA
*
609564 CTTT-AAAAAAAGGGTGCCACCGAGTTGTGGA
1 CTTTAAAAAAAAGGGTGCCACAGAGTTGTGGA
609595 C-TTAAAAAAAAGGGTGCCAC-GAAGTTGTGGA
1 CTTTAAAAAAAAGGGTGCCACAG-AGTTGTGGA
* *
609626 CTTTAAGCAAAAAGGGTGCCATAGAGTTGTGGA
1 CTTTAA-AAAAAAGGGTGCCACAGAGTTGTGGA
*** * *
609659 CTTTGAAAAAAAATATTGCCACGGATTTGTGGA
1 CTTT-AAAAAAAAGGGTGCCACAGAGTTGTGGA
* *
609692 CTTTTAAAAAGAA-GGTACCACAGAGTTGTGGA
1 C-TTTAAAAAAAAGGGTGCCACAGAGTTGTGGA
* *
609724 CTTTGAAAAAAAAGGGTGTCACGGAGT
1 CTTT-AAAAAAAAGGGTGCCACAGAGT
609751 CATGAACTTT
Statistics
Matches: 155, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
30 10 0.06
31 49 0.32
32 27 0.17
33 63 0.41
34 6 0.04
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (32 bp):
CTTTAAAAAAAAGGGTGCCACAGAGTTGTGGA
Found at i:609727 original size:65 final size:64
Alignment explanation
Indices: 609416--609746 Score: 262
Period size: 64 Copynumber: 5.1 Consensus size: 64
609406 TTTGAAAGGG
* * * * * * * *
609416 GTGCCATGGAGTTGTAGACTTT--AAAAAGAGTACCACAGAGTTATAGACTTTGAAAAAAAAAGG
1 GTGCCACGAAGTTGTGGACTTTAAAAAAAGGGTGCCACAGAGTTGTGGACTTTG-AAAAAAAAGA
* * * * * * ** *
609479 GTGCTACGGAGTTGTGAACTTT-GAGAAAGGGTGCTATGGAGTTGTGGACTTTTTCTTTAAAAAA
1 GTGCCACGAAGTTGTGGACTTTAAAAAAAGGGTGCCACAGAGTTGTGGAC----T-TTGAAAAAA
609543 AAG-
61 AAGA
** * *
609546 GTATCACGAAGTTGTGGACTTTAAAAAAAGGGTGCCACCGAGTTGTGGAC-TT-AAAAAAAAGG
1 GTGCCACGAAGTTGTGGACTTTAAAAAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAAAAAGA
* *
609608 GTGCCACGAAGTTGTGGACTTTAAGCAAAAAGGGTGCCATAGAGTTGTGGACTTTGAAAAAAAAT
1 GTGCCACGAAGTTGTGGACTTTAA--AAAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAAAAAG
609673 A
64 A
* * * *
609674 TTGCCACGGATTTGTGGACTTTTAAAAAGAA-GGTACCACAGAGTTGTGGACTTTGAAAAAAAAG
1 GTGCCACGAAGTTGTGGAC-TTTAAAAA-AAGGGTGCCACAGAGTTGTGGACTTTGAAAAAAAAG
*
609738 G
64 A
*
609739 GTGTCACG
1 GTGCCACG
609747 GAGTCATGAA
Statistics
Matches: 216, Mismatches: 38, Indels: 26
0.77 0.14 0.09
Matches are distributed among these distances:
61 9 0.04
62 24 0.11
63 18 0.08
64 42 0.19
65 41 0.19
66 26 0.12
67 22 0.10
68 32 0.15
69 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (64 bp):
GTGCCACGAAGTTGTGGACTTTAAAAAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAAAAAGA
Found at i:609760 original size:98 final size:97
Alignment explanation
Indices: 609578--609762 Score: 214
Period size: 98 Copynumber: 1.9 Consensus size: 97
609568 AAAAAAAGGG
* *
609578 TGCCACCGAGTTGTGGACTTAAAAAAAAGGGTGCCACGAAGTTGTGGACTTTAAGCAAAAAGGGT
1 TGCCACCGAGTTGTGGACTTAAAAAAAAGGGTACCACGAAGTTGTGGACTTTAAGAAAAAAGGGT
* ** *
609643 GCCATAGAGTTGTGGACTTTGAAAAAAAATAT
66 GCCACAGAGTCATGAACTTTGAAAAAAAATAT
* * *
609675 TGCCACGGATTTGTGGACTTTTAAAAAGAA-GGTACCAC-AGAGTTGTGGACTTTGAA-AAAAAA
1 TGCCACCGAGTTGTGGAC--TTAAAAAAAAGGGTACCACGA-AGTTGTGGACTTT-AAGAAAAAA
* *
609737 GGGTGTCACGGAGTCATGAACTTTGA
62 GGGTGCCACAGAGTCATGAACTTTGA
609763 GAAGGGGTGC
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
97 17 0.23
98 45 0.62
99 11 0.15
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.25
Consensus pattern (97 bp):
TGCCACCGAGTTGTGGACTTAAAAAAAAGGGTACCACGAAGTTGTGGACTTTAAGAAAAAAGGGT
GCCACAGAGTCATGAACTTTGAAAAAAAATAT
Found at i:609781 original size:30 final size:30
Alignment explanation
Indices: 609747--609844 Score: 92
Period size: 30 Copynumber: 3.3 Consensus size: 30
609737 GGGTGTCACG
*
609747 GAGTCATGAACTTTGAGAAGGGGTGCCACT
1 GAGTCATGAACTTTGAGAAGGGATGCCACT
* * *
609777 GAGTCGTGGACTTAT-AGAAGGGATGCCATT
1 GAGTCATGAACTT-TGAGAAGGGATGCCACT
* * *
609807 GAGTCGT-AGACTTTGAAAAGTGATGCCACT
1 GAGTCATGA-ACTTTGAGAAGGGATGCCACT
*
609837 AAGTCATG
1 GAGTCATG
609845 GAGTTTTAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
29 1 0.02
30 52 0.96
31 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.26
Consensus pattern (30 bp):
GAGTCATGAACTTTGAGAAGGGATGCCACT
Found at i:612072 original size:164 final size:165
Alignment explanation
Indices: 611896--612201 Score: 440
Period size: 165 Copynumber: 1.9 Consensus size: 165
611886 AATCCAAAAC
* * *
611896 TCATGAAAATGAATTAATTTTTTG-AAATTGAATTAATAT-GAATCAAATAATAA-AATTGATGA
1 TCATGAAAATGAATGAA-TTTTTGAAAACTGAATTAATATAAAAT-AAATAATAATAATTGATGA
* *
611958 ATTTTAAAAATTGAA-ATCCGAGAAAAATCCCTTCGAAAAGATTTACAGAGTAGAAAACATCGTA
64 ATTTTAAAAATTGAACA-CCGAGAAAAATCCCTTCGAAAAAATTTACAGAGTAGAAAACACCGTA
612022 TTTAAAAAAAATGAAGTTTCAAGGAAAAAATAAAAATT
128 TTTAAAAAAAATGAAGTTTCAAGGAAAAAATAAAAATT
* * *
612060 TCATGAAAATGAATGAATTTTTGAAAACTGAATTAATGTAAAATAAATATTAATATTTGATGAAT
1 TCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATAAAATAAATAATAATAATTGATGAAT
* * *
612125 TTTAAAAATTGAACACTGAGAAAAATCCCTTCGAAAAAATTTACGGAGTAGAAAATACCGTATTT
66 TTTAAAAATTGAACACCGAGAAAAATCCCTTCGAAAAAATTTACAGAGTAGAAAACACCGTATTT
* *
612190 TAGAAAAATGAA
131 AAAAAAAATGAA
612202 TGAATTTTTG
Statistics
Matches: 125, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
163 6 0.05
164 37 0.30
165 81 0.65
166 1 0.01
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.30
Consensus pattern (165 bp):
TCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATAAAATAAATAATAATAATTGATGAAT
TTTAAAAATTGAACACCGAGAAAAATCCCTTCGAAAAAATTTACAGAGTAGAAAACACCGTATTT
AAAAAAAATGAAGTTTCAAGGAAAAAATAAAAATT
Found at i:612212 original size:129 final size:130
Alignment explanation
Indices: 612065--612309 Score: 352
Period size: 129 Copynumber: 1.9 Consensus size: 130
612055 AAATTTCATG
** *
612065 AAAATGAATGAATTTTTGAAAACTGAATTAATGTAAAATAAATATTAATATTTGAT-GAATTTTA
1 AAAATGAATGAATTTTTGAAAACTGAATTAATACAAAATAAATAATAATATTTGATAG-ATTTTA
* * * * *
612129 AAAATTGAACACT-GAGAAAAATCC-CTTCGAAAAAATTTACGGAGTAGAAAATACCGTATTTTA
65 AAAATTAAAAACTAAAAAAAAATCCTC-TCGAAAAAATTTACGGAGAAGAAAATACCGTATTTTA
612192 GA
129 GA
* *
612194 AAAATGAATGAATTTTTGAAAACTGAATTACTACAAAATAAATAATAATATTTTATAGATTTTAA
1 AAAATGAATGAATTTTTGAAAACTGAATTAATACAAAATAAATAATAATATTTGATAGATTTTAA
*
612259 AAATTAAAAATTAAAAAAAAATCCTCTCGAAAAAATTTACGGAGAAGAAAA
66 AAATTAAAAACTAAAAAAAAATCCTCTCGAAAAAATTTACGGAGAAGAAAA
612310 CCCCGTAATA
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
129 67 0.66
130 34 0.33
131 1 0.01
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (130 bp):
AAAATGAATGAATTTTTGAAAACTGAATTAATACAAAATAAATAATAATATTTGATAGATTTTAA
AAATTAAAAACTAAAAAAAAATCCTCTCGAAAAAATTTACGGAGAAGAAAATACCGTATTTTAGA
Found at i:612336 original size:129 final size:129
Alignment explanation
Indices: 612065--612337 Score: 329
Period size: 129 Copynumber: 2.1 Consensus size: 129
612055 AAATTTCATG
* ** *
612065 AAAATGAATGAATTTTTGAAAACTGAATTAATGTAAAATAAATATTAATATTTGATGAATTTTAA
1 AAAATGAAGGAATTTTTGAAAACTGAATTAATACAAAATAAATAATAATATTTGATGAATTTTAA
* * * * * * * *
612130 AAATTGAACACTGAGAAAAATCCCTTCGAAAAAATTTACGGAGTAGAAAATACCGTATTTTAGA
66 AAATTAAAAACTAAAAAAAATCCCTTCGAAAAAATTTACGGAGAAGAAAACACCGTAATATAGA
* * *
612194 AAAATGAATGAATTTTTGAAAACTGAATTACTACAAAATAAATAATAATATTTTAT-AGATTTTA
1 AAAATGAAGGAATTTTTGAAAACTGAATTAATACAAAATAAATAATAATATTTGATGA-ATTTTA
* *
612258 AAAATTAAAAATTAAAAAAAAAT-CCTCTCGAAAAAATTTACGGAGAAGAAAACCCCGTAATAT-
65 AAAATTAAAAACT-AAAAAAAATCCCT-TCGAAAAAATTTACGGAGAAGAAAACACCGTAATATA
612321 GA
128 GA
612323 AAATATG-AGGAATTT
1 AAA-ATGAAGGAATTT
612338 GGAAAGAAAA
Statistics
Matches: 124, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
128 1 0.01
129 82 0.66
130 41 0.33
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (129 bp):
AAAATGAAGGAATTTTTGAAAACTGAATTAATACAAAATAAATAATAATATTTGATGAATTTTAA
AAATTAAAAACTAAAAAAAATCCCTTCGAAAAAATTTACGGAGAAGAAAACACCGTAATATAGA
Found at i:613073 original size:487 final size:487
Alignment explanation
Indices: 612159--613629 Score: 2798
Period size: 487 Copynumber: 3.0 Consensus size: 487
612149 ATCCCTTCGA
* * * *
612159 AAAAATTTACGGAGTAGAAAATACCGTATTTTAGAAAAATGAATGAATTTTTGAAAACTGAATTA
1 AAAAATTCACGGAGTAGAAAATATCGTATTTCAGAAAAATGAATGAATTTTTGAAAACTGAACTA
** *
612224 CTACAAAATAAATAATAATATTTTATAGATTTTAAAAATTAAAAATTAAAAAAAAATCCTCTCGA
66 CTATGAAATAAATAATAATATTTTATAGATTTTAAAAATTAAAAATT-AAAAAAAATCCTCCCGA
612289 AAAAATTTACGGAGAAGAAAACCCCGTAATATGAAAATATGAGGAATTTGGAAAGAAAATCAATA
130 AAAAATTTACGGAGAAGAAAACCCCGTAATATGAAAATATGAGGAATTTGGAAAGAAAATCAATA
*
612354 ATTCCAAAAATAAAGGGATTTTTCCAAAACTGGATGGGAATTAAATGATAATATTTGAGAAATTT
195 ATTCCAAAAATAAAGGGATTTTCCCAAAACTGGATGGGAATTAAATGATAATATTTGAGAAATTT
612419 TGATGTATGAAACTCAAAAAAATTCCACCAAATATTTTACGAGCAAAGAAAAGGTCGTGTTTTGG
260 TGATGTATGAAACTCAAAAAAATTCCACCAAATATTTTACGAGCAAAGAAAAGGTCGTGTTTTGG
612484 TACCGAGATAAATTCAAGAATCTCATTCAAAGTTATGCAAAATGGATTCAAAATCACATTTTGAG
325 TACCGAGATAAATTCAAGAATCTCATTCAAAGTTATGCAAAATGGATTCAAAATCACATTTTGAG
612549 CAAAATATTTGACTTCTAAAATAAAGAAAATAAATTTATACAATTTTTGACAAATTAAACAGAAC
390 CAAAATATTTGACTTCTAAAATAAAGAAAATAAATTTATACAATTTTTGACAAATTAAACAGAAC
612614 AAAATAAAAAAATATGGTATTTGCCGTACCGTG
455 AAAATAAAAAAATATGGTATTTGCCGTACCGTG
612647 AAAAATTCACGGAGTAGAAAATATCGTATTTCAGAAAAATGAATGAATTTTTGAAAACTGAACTA
1 AAAAATTCACGGAGTAGAAAATATCGTATTTCAGAAAAATGAATGAATTTTTGAAAACTGAACTA
* *
612712 CTATGAAATAAATAATAACATTTTATAGATTTTAAAAATTAAAAATTAAGAAAAATCCTCCCGAA
66 CTATGAAATAAATAATAATATTTTATAGATTTTAAAAATTAAAAATTAAAAAAAATCCTCCCGAA
612777 AAAATTTACGGAGAAGAAAACCCCGTAATATGAAAATATGAGGAATTTGGAAAGAAAATCAATAA
131 AAAATTTACGGAGAAGAAAACCCCGTAATATGAAAATATGAGGAATTTGGAAAGAAAATCAATAA
612842 TTCCAAAAATAAAGGGATTTTCCCAAAACTGGATGGGAATTAAATGATAATATTTGAGAAATTTT
196 TTCCAAAAATAAAGGGATTTTCCCAAAACTGGATGGGAATTAAATGATAATATTTGAGAAATTTT
*
612907 GATGTATGAAACTCAAAAAAATTCCACCAAATATTTTATGAGCAAAGAAAAGGTCGTGTTTTGGT
261 GATGTATGAAACTCAAAAAAATTCCACCAAATATTTTACGAGCAAAGAAAAGGTCGTGTTTTGGT
612972 ACCGAGATAAATTCAAGAATCTCATTCAAAGTTATGCAAAATGGATTCAAAATCACATTTTGAGC
326 ACCGAGATAAATTCAAGAATCTCATTCAAAGTTATGCAAAATGGATTCAAAATCACATTTTGAGC
613037 AAAATATTTGACTTCTAAAATAAAGAAAATAAATTTATACAATTTTTGACAAATTAAACAGAACA
391 AAAATATTTGACTTCTAAAATAAAGAAAATAAATTTATACAATTTTTGACAAATTAAACAGAACA
613102 AAATAAAAAAATATGGTATTTGCCGTACCGTG
456 AAATAAAAAAATATGGTATTTGCCGTACCGTG
613134 AAAAATTCACGGAGTAGAAAATATCGTATTTCAGAAAAATGAATGAATTTTTGAAAACTGAACTA
1 AAAAATTCACGGAGTAGAAAATATCGTATTTCAGAAAAATGAATGAATTTTTGAAAACTGAACTA
*
613199 CTATGAAATAAATAATAATATTTTATAGATTTTAAAAATTAAAAATTAAAAAAAATCCTCCTGAA
66 CTATGAAATAAATAATAATATTTTATAGATTTTAAAAATTAAAAATTAAAAAAAATCCTCCCGAA
613264 AAAATTTACGGAGAAGAAAACCCCGTAATATGAAAATATGAGGAATTTGGAAAGAAAATCAATAA
131 AAAATTTACGGAGAAGAAAACCCCGTAATATGAAAATATGAGGAATTTGGAAAGAAAATCAATAA
*
613329 TTCCAAAAATAAAGGGATTTTCCCAAAACTGGATGGGAATTTAATGATAATATTTGAGAAATTTT
196 TTCCAAAAATAAAGGGATTTTCCCAAAACTGGATGGGAATTAAATGATAATATTTGAGAAATTTT
613394 GATGTATGAAACTCAAAAAAATTCCACCAAATATTTTACGAGCAAAGAAAAGGTCGTGTTTTGGT
261 GATGTATGAAACTCAAAAAAATTCCACCAAATATTTTACGAGCAAAGAAAAGGTCGTGTTTTGGT
* *
613459 ACCGGGATAAATTCAAGAATCTCATTCAAAGTTTTGCAAAATGGATTCAAAATCACATTTTGAGC
326 ACCGAGATAAATTCAAGAATCTCATTCAAAGTTATGCAAAATGGATTCAAAATCACATTTTGAGC
613524 AAAATATTTGACTTCTAAAATAAAGAAAATAAATTTATACAATTTTTGACAAATTAAACAGAACA
391 AAAATATTTGACTTCTAAAATAAAGAAAATAAATTTATACAATTTTTGACAAATTAAACAGAACA
613589 AAATAAAAAAATATGGTATTTGCCGTACCGTG
456 AAATAAAAAAATATGGTATTTGCCGTACCGTG
613621 AAAAATTCA
1 AAAAATTCA
613630 AAATTGATAA
Statistics
Matches: 965, Mismatches: 18, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
487 860 0.89
488 105 0.11
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.29
Consensus pattern (487 bp):
AAAAATTCACGGAGTAGAAAATATCGTATTTCAGAAAAATGAATGAATTTTTGAAAACTGAACTA
CTATGAAATAAATAATAATATTTTATAGATTTTAAAAATTAAAAATTAAAAAAAATCCTCCCGAA
AAAATTTACGGAGAAGAAAACCCCGTAATATGAAAATATGAGGAATTTGGAAAGAAAATCAATAA
TTCCAAAAATAAAGGGATTTTCCCAAAACTGGATGGGAATTAAATGATAATATTTGAGAAATTTT
GATGTATGAAACTCAAAAAAATTCCACCAAATATTTTACGAGCAAAGAAAAGGTCGTGTTTTGGT
ACCGAGATAAATTCAAGAATCTCATTCAAAGTTATGCAAAATGGATTCAAAATCACATTTTGAGC
AAAATATTTGACTTCTAAAATAAAGAAAATAAATTTATACAATTTTTGACAAATTAAACAGAACA
AAATAAAAAAATATGGTATTTGCCGTACCGTG
Found at i:616065 original size:33 final size:33
Alignment explanation
Indices: 616027--616092 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
616017 TAAAGACTAA
616027 GGCCACTTGATTACTTGACATAAATAAGAAGCT
1 GGCCACTTGATTACTTGACATAAATAAGAAGCT
*
616060 GGCCACTTGATTACTTGATATAAATAAGAAGCT
1 GGCCACTTGATTACTTGACATAAATAAGAAGCT
616093 ATAGCTTAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (33 bp):
GGCCACTTGATTACTTGACATAAATAAGAAGCT
Found at i:617544 original size:20 final size:19
Alignment explanation
Indices: 617500--617552 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
617490 CACACCCAGA
*
617500 TGTATCGATACATATTGCT
1 TGTATCGATACATATTGAT
617519 TAGTATCGATACAT-TGTGAAT
1 T-GTATCGATACATAT-TG-AT
617540 TGTATCGATACAT
1 TGTATCGATACAT
617553 GAAACTGGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATATTGAT
Found at i:618682 original size:19 final size:20
Alignment explanation
Indices: 618658--618710 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
618648 ATCGATATAA
**
618658 TGTATCAATACATGTTC-AT
1 TGTATCAATACATGCACAAT
* *
618677 TGTATCGATGCATGCACAAT
1 TGTATCAATACATGCACAAT
618697 TGTATCAATACATG
1 TGTATCAATACATG
618711 AAACTGGTAG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCAATACATGCACAAT
Found at i:618778 original size:13 final size:13
Alignment explanation
Indices: 618760--618784 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
618750 CATGGCACAT
618760 TGTATCGATACAA
1 TGTATCGATACAA
618773 TGTATCGATACA
1 TGTATCGATACA
618785 TAATGAATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:620400 original size:15 final size:15
Alignment explanation
Indices: 620380--620414 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
620370 AACCATCAAA
620380 GATGATGAAGATAAT
1 GATGATGAAGATAAT
*
620395 GATGATGATGATAAT
1 GATGATGAAGATAAT
620410 GATGA
1 GATGA
620415 AGTTGACTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:621700 original size:14 final size:14
Alignment explanation
Indices: 621681--621718 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
621671 ATGTCTATGG
621681 TCTTAAGCATAACC
1 TCTTAAGCATAACC
621695 TCTTAAGCATAACC
1 TCTTAAGCATAACC
621709 TCTTAAGCAT
1 TCTTAAGCAT
621719 TAGCCAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (14 bp):
TCTTAAGCATAACC
Found at i:627428 original size:13 final size:13
Alignment explanation
Indices: 627410--627436 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
627400 ACATTATGCT
627410 TTGTATTGATACA
1 TTGTATTGATACA
627423 TTGTATTGATACA
1 TTGTATTGATACA
627436 T
1 T
627437 GCATAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TTGTATTGATACA
Found at i:635614 original size:20 final size:20
Alignment explanation
Indices: 635589--635639 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
635579 AACTCACTCA
*
635589 GTATCGATACACAGTGAATT
1 GTATCGATACACAATGAATT
635609 GTATCGATACACAATGAATT
1 GTATCGATACACAATGAATT
635629 GTATCGATACA
1 GTATCGATACA
635640 TTGAGCCCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (20 bp):
GTATCGATACACAATGAATT
Found at i:640375 original size:157 final size:157
Alignment explanation
Indices: 640116--641189 Score: 863
Period size: 156 Copynumber: 6.9 Consensus size: 157
640106 GGGTATCGAG
* * * * **
640116 TACTTTTACATCGAAGGTAT-CTCTTAAGGGTATTTTGGTAATTTTTTAAAATCGAGTCCTAAGT
1 TACTTTTACTTCGAAGGTATACCCATAAGGGCATTTTCATAATTTTTTAAAATCGAGTCCTAAGT
* * * *
640180 CATCACCGGGTCCACTTTTATGCCGAAGGTTGATATTTAGGGTAGGTTCATCCTAGTTAAAATTC
66 CATCACCAGGTTCGCTTTTATGCCGAAGGTTGATATTTAGGGTAGGTTCATCCCAGTTAAAATTC
*
640245 TTTTTAAGTCTTTTAGGGTTGCTGGGA
131 TTTTTAAGTCCTTTAGGGTTGCTGGGA
* * * *
640272 TACTTTTACTTCGAAGGTATACCCATACGGGCATTTTCATAATTTTCTAGAATTGAGTCCTAAGT
1 TACTTTTACTTCGAAGGTATACCCATAAGGGCATTTTCATAATTTTTTAAAATCGAGTCCTAAGT
* ** *
640337 CATCACCAGGTTCACTTTTATTTCGAAGGTTGATATTTAGGGTAGCTTCATCCCAGTTAAAA---
66 CATCACCAGGTTCGCTTTTATGCCGAAGGTTGATATTTAGGGTAGGTTCATCCCAGTTAAAATTC
*
640399 --TTTAAGTCCTTTAAGGTTG-TCGGGA
131 TTTTTAAGTCCTTTAGGGTTGCT-GGGA
* * * * * * * ** *
640424 TACTTTTACGTCGAAGGTATACCCAAAAAGGCCTTTTCGTTAGTTCCTAAAATCGAGTCCTAGGT
1 TACTTTTACTTCGAAGGTATACCCATAAGGGCATTTTCATAATTTTTTAAAATCGAGTCCTAAGT
* * ** * * *
640489 TATCACCAGGTCCGCTTTTATGCAAAAAGTTGATATTTATGGTAGGTTCATCCTAGTTAAAATTC
66 CATCACCAGGTTCGCTTTTATGCCGAAGGTTGATATTTAGGGTAGGTTCATCCCAGTTAAAATTC
* * * *
640554 ATTTTATGTCCTTTAGGGTTACCGGGA
131 TTTTTAAGTCCTTTAGGGTTGCTGGGA
* * * * * * * *
640581 TACTTTTACGTCTAA-GTATAACTAGAGGGGTATTTTCATAATTTTTTAGAACTC-AGTCCTAAG
1 TACTTTTACTTCGAAGGTATACCCATAAGGGCATTTTCATAATTTTTTA-AAATCGAGTCCTAAG
* * * *
640644 TCATCACCAAGTTTGCTTTTATGCCGAAGGTTGATATTTAGGGTAGGCTCATCCCACTTAAAATT
65 TCATCACCAGGTTCGCTTTTATGCCGAAGGTTGATATTTAGGGTAGGTTCATCCCAGTTAAAATT
*
640709 CTTTTTAAGTCCTTTAAGGTTG-TCGGGA
130 CTTTTTAAGTCCTTTAGGGTTGCT-GGGA
* * * ** *
640737 TACTTTTACGTT-AAAGGTATACCCCATAGGGGTATTTTTGTAATTTTTTAAAATCGAGTCCTAT
1 TACTTTTAC-TTCGAAGGTATA-CCCATAAGGGCATTTTCATAATTTTTTAAAATCGAGTCCTAA
* * * * * * *
640801 GTCTTCACC-GAGTTTGCTTTTATGTCAAAGGTTGATATTTAAGGTAGGTTCATCCAAGTCAAAA
64 GTCATCACCAG-GTTCGCTTTTATGCCGAAGGTTGATATTTAGGGTAGGTTCATCCCAGTTAAAA
* *
640865 TTCTTTTTAAGTACTTTAGGGTTGCCGGGA
128 TTCTTTTTAAGTCCTTTAGGGTTGCTGGGA
* ** * * * *
640895 TATTTTTACGTT-GAA-GTATACTTATAAGGGCATTTTCATAATTTTATACAATCGAGTCATAGG
1 TACTTTTAC-TTCGAAGGTATACCCATAAGGGCATTTTCATAATTTTTTAAAATCGAGTCCTAAG
** * * * * * * * * *** *
640958 TTGTCATC-GGGTCTGCTTTTATGCTGAAAGTGGACATTTAGGATAGGTTCATCCTA-TTTCTAG
65 TCATCACCAGGTTC-GCTTTTATGCCGAAGGTTGATATTTAGGGTAGGTTCATCCCAGTTAAAAT
* * *
641021 TCTTTTTAAGTCCTTTAGGGATGTTGCGA
129 TCTTTTTAAGTCCTTTAGGGTTGCTGGGA
* * * * *
641050 TACTTTCA-TGCCGAAGGTAT-CTCC-TAGGGGTATTTTC-TTA-TTTTT----TC-AGTCCTAA
1 TACTTTTACT-TCGAAGGTATAC-CCATAAGGGCATTTTCATAATTTTTTAAAATCGAGTCCTAA
* * * * * * * ** *
641105 GTTATAACC-GAGTCCGTTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTTGTCCCA-TCTATA
64 GTCATCACCAG-GTTCGCTTTTATGCCGAAGGTTGATATTTAGGGTAGGTTCATCCCAGT-TAAA
*
641168 ATCCTTTTTAAGTCCTTTAGGG
127 ATTCTTTTTAAGTCCTTTAGGG
641190 GTATCAGGTA
Statistics
Matches: 733, Mismatches: 162, Indels: 53
0.77 0.17 0.06
Matches are distributed among these distances:
148 48 0.07
149 25 0.03
151 1 0.00
152 125 0.17
153 5 0.01
154 2 0.00
155 49 0.07
156 211 0.29
157 144 0.20
158 123 0.17
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (157 bp):
TACTTTTACTTCGAAGGTATACCCATAAGGGCATTTTCATAATTTTTTAAAATCGAGTCCTAAGT
CATCACCAGGTTCGCTTTTATGCCGAAGGTTGATATTTAGGGTAGGTTCATCCCAGTTAAAATTC
TTTTTAAGTCCTTTAGGGTTGCTGGGA
Found at i:640977 original size:314 final size:307
Alignment explanation
Indices: 640141--641055 Score: 968
Period size: 314 Copynumber: 2.9 Consensus size: 307
640131 GGTATCTCTT
* * * * *
640141 AAGGGTATTTTGGTAATTTTTTAAAATCGAGTCCTAAGTCATCACCGGGTCCACTTTTATGCCGA
1 AAGGGTATTTTCGTAATTTTTTAAAATCGAGTCCTAAGTCTTCACCGAGTCCGCTTTTATG-CAA
* *
640206 AGGTTGATATTTAGGGTAGGTTCATCCTAGTTAAAATTCTTTTTAAGTCTTTTAGGGTTGCTGGG
65 AGGTTGATATTTAAGGTAGGTTCATCCTAGTTAAAATTCTTTTTAAGTC-TTTAGGGTTGCCGGG
* * * *
640271 ATACTTTTAC-TTCGAAGGTATACCCATACGGGCATTTTCATAATTTTCTAGAATTGAGTCCTAA
129 ATACTTTTACGTT-GAA-GTATA-CTATAAGGGCATTTTCATAATTTTATAGAATCGAGTCCTAA
* **
640335 GTCATCACCAGGTTCACTTTTATTTCGAAGGTTGATATTTAGGGTA-GCTTCATCCCAGTTAAAA
191 GTCATCACCAGGTT-GCTTTTATGCCGAAGGTTGATATTTAGGGTAGGC-TCATCCCA-TTAAAA
*
640399 ----TTTAAGTCCTTTAAGGTTGTCGGGATACTTTTACGTCGAAGGTATACCCAA
253 TCTTTTTAAGTCCTTTAAGGTTGTCGGGATACTTTTACGTCAAAGGTATACCCAA
* ** * * ** *
640450 AAAGGCCTTTTCGTTAGTTCCTAAAATCGAGTCCTAGGT-TATCACC-AGGTCCGCTTTTATGCA
1 AAGGGTATTTTCGTAATTTTTTAAAATCGAGTCCTAAGTCT-TCACCGA-GTCCGCTTTTATGC-
* * * * *
640513 AAAAGTTGATATTTATGGTAGGTTCATCCTAGTTAAAATTCATTTTATGTCCTTTAGGGTTACCG
63 AAAGGTTGATATTTAAGGTAGGTTCATCCTAGTTAAAATTCTTTTTAAGT-CTTTAGGGTTGCCG
* * * *
640578 GGATACTTTTACGTCT-AAGTATAACTAGAGGGGTATTTTCATAATTTTTTAGAACTC-AGTCCT
127 GGATACTTTTACGT-TGAAGTAT-ACTATAAGGGCATTTTCATAATTTTATAGAA-TCGAGTCCT
*
640641 AAGTCATCACCAAGTTTGCTTTTATGCCGAAGGTTGATATTTAGGGTAGGCTCATCCCACTTAAA
189 AAGTCATCACC-AGGTTGCTTTTATGCCGAAGGTTGATATTTAGGGTAGGCTCATCCCA-TTAAA
* *
640706 ATTCTTTTTAAGTCCTTTAAGGTTGTCGGGATACTTTTACGTTAAAGGTATACCCCAT
252 A-TCTTTTTAAGTCCTTTAAGGTTGTCGGGATACTTTTACGTCAAAGGTATA-CCCAA
* * * **
640764 AGGGGTATTTTTGTAATTTTTTAAAATCGAGTCCTATGTCTTCACCGAGTTTGCTTTTATGTCAA
1 AAGGGTATTTTCGTAATTTTTTAAAATCGAGTCCTAAGTCTTCACCGAGTCCGCTTTTATG-CAA
* *
640829 AGGTTGATATTTAAGGTAGGTTCATCCAAGTCAAAATTCTTTTTAAGTACTTTAGGGTTGCCGGG
65 AGGTTGATATTTAAGGTAGGTTCATCCTAGTTAAAATTCTTTTTAAGT-CTTTAGGGTTGCCGGG
* * * *
640894 ATATTTTTACGTTGAAGTATACTTATAAGGGCATTTTCATAATTTTATACAATCGAGTCATAGGT
129 ATACTTTTACGTTGAAGTATAC-TATAAGGGCATTTTCATAATTTTATAGAATCGAGTCCTAAGT
** * * * * * * * * * ** *
640959 TGTCATCGGGTCTGCTTTTATGCTGAAAGTGGACATTTAGGATAGGTTCATCCTATTTCTAGTCT
193 CATCACCAGGT-TGCTTTTATGCCGAAGGTTGATATTTAGGGTAGGCTCATCCCA-TTAAAATCT
* * * *
641024 TTTTAAGTCCTTTAGGGATGTTGCGATACTTT
256 TTTTAAGTCCTTTAAGGTTGTCGGGATACTTT
641056 CATGCCGAAG
Statistics
Matches: 502, Mismatches: 81, Indels: 42
0.80 0.13 0.07
Matches are distributed among these distances:
308 89 0.18
309 125 0.25
310 2 0.00
311 1 0.00
313 82 0.16
314 200 0.40
315 3 0.01
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.39
Consensus pattern (307 bp):
AAGGGTATTTTCGTAATTTTTTAAAATCGAGTCCTAAGTCTTCACCGAGTCCGCTTTTATGCAAA
GGTTGATATTTAAGGTAGGTTCATCCTAGTTAAAATTCTTTTTAAGTCTTTAGGGTTGCCGGGAT
ACTTTTACGTTGAAGTATACTATAAGGGCATTTTCATAATTTTATAGAATCGAGTCCTAAGTCAT
CACCAGGTTGCTTTTATGCCGAAGGTTGATATTTAGGGTAGGCTCATCCCATTAAAATCTTTTTA
AGTCCTTTAAGGTTGTCGGGATACTTTTACGTCAAAGGTATACCCAA
Found at i:644813 original size:6 final size:6
Alignment explanation
Indices: 644804--644908 Score: 83
Period size: 6 Copynumber: 17.5 Consensus size: 6
644794 AAAAAAAAAC
*
644804 AAAAGA AAAAGA AAAAGA AAAA-A AGAAA-A AAAAGG AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA A-AAAGA AAAAGA AAAAGA AAAAGA
* ** * *
644851 AAAAGA AAAA-A TCAAATGA AAAAGA AAGTGC AAAA-A AAGAGA AAAATGA
1 AAAAGA AAAAGA --AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAA-GA
*
644900 AAGAGA AAA
1 AAAAGA AAA
644909 GATGAGGAAG
Statistics
Matches: 78, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
5 9 0.12
6 60 0.77
7 8 0.10
8 1 0.01
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (6 bp):
AAAAGA
Found at i:644833 original size:35 final size:35
Alignment explanation
Indices: 644794--644861 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
644784 AACGAACAAC
644794 AAAAAAAAACAAAAGAAAAAGAAAAAGAAAAAAAG
1 AAAAAAAAACAAAAGAAAAAGAAAAAGAAAAAAAG
**
644829 AAAAAAAAGGAAAAGAAAAAGAAAAAGAAAAAA
1 AAAAAAAAACAAAAGAAAAAGAAAAAGAAAAAA
644862 TCAAATGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.85, C:0.01, G:0.13, T:0.00
Consensus pattern (35 bp):
AAAAAAAAACAAAAGAAAAAGAAAAAGAAAAAAAG
Found at i:644902 original size:13 final size:12
Alignment explanation
Indices: 644798--644908 Score: 65
Period size: 11 Copynumber: 9.3 Consensus size: 12
644788 AACAACAAAA
*
644798 AAAAACAAA-AG
1 AAAAAGAAAGAG
*
644809 AAAAAGAAAAAGAA
1 AAAAAG--AAAGAG
644823 AAAAAGAAA-A-
1 AAAAAGAAAGAG
*
644833 AAAAGGAAA-AG
1 AAAAAGAAAGAG
*
644844 AAAAAGAAAAAG
1 AAAAAGAAAGAG
644856 AAAAA-ATCAA-ATG
1 AAAAAGA--AAGA-G
*
644869 AAAAAGAAAGTG
1 AAAAAGAAAGAG
*
644881 CAAAA-AAAGAG
1 AAAAAGAAAGAG
644892 AAAAATGAAAGAG
1 AAAAA-GAAAGAG
644905 AAAA
1 AAAA
644909 GATGAGGAAG
Statistics
Matches: 80, Mismatches: 8, Indels: 22
0.73 0.07 0.20
Matches are distributed among these distances:
10 9 0.11
11 24 0.30
12 18 0.22
13 21 0.26
14 8 0.10
ACGTcount: A:0.77, C:0.03, G:0.16, T:0.04
Consensus pattern (12 bp):
AAAAAGAAAGAG
Found at i:645176 original size:10 final size:10
Alignment explanation
Indices: 645146--645170 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
645136 GAAAGAGAAG
645146 AAAAAATGAA
1 AAAAAATGAA
645156 AAAAAATGAA
1 AAAAAATGAA
645166 AAAAA
1 AAAAA
645171 GAGAAATGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:645572 original size:53 final size:53
Alignment explanation
Indices: 645488--645588 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 53
645478 AAATTCATGT
* *
645488 TTTATACATCTGGATCCATTCTTGCCAAGGAAA-ATGGGCACGTATCTTGTCAC
1 TTTATACATCTCGATCCATTCTTGCCAAGGAAATA-GAGCACGTATCTTGTCAC
* *
645541 TTTATACATTTCGATCCATT-TGTGCCTAGGAAATAGAGCACGTATCTT
1 TTTATACATCTCGATCCATTCT-TGCCAAGGAAATAGAGCACGTATCTT
645589 ATCAGTTATG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
52 1 0.02
53 40 0.95
54 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (53 bp):
TTTATACATCTCGATCCATTCTTGCCAAGGAAATAGAGCACGTATCTTGTCAC
Found at i:648620 original size:13 final size:13
Alignment explanation
Indices: 648602--648626 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
648592 CATAAAGTGT
648602 TGTATCGATACAA
1 TGTATCGATACAA
648615 TGTATCGATACA
1 TGTATCGATACA
648627 TTTTTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:648706 original size:13 final size:13
Alignment explanation
Indices: 648688--648712 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
648678 ATCACTTAAA
648688 TGTATCGATACAT
1 TGTATCGATACAT
648701 TGTATCGATACA
1 TGTATCGATACA
648713 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:648764 original size:52 final size:51
Alignment explanation
Indices: 648701--648849 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 51
648691 ATCGATACAT
** *
648701 TGTATCGATACACTGATCTTTGTATCGGTACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
648753 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT-CAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
648805 TGTATTGATACACTATTCAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTA-TCAATGTATCGATACATGCAGGCAAATTT
648850 TCATATTTCG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.97
53 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (51 bp):
TGTATCGATACACTATCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:653935 original size:13 final size:13
Alignment explanation
Indices: 653916--653954 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
653906 ACTATTTATG
653916 ATGTATCGATACA
1 ATGTATCGATACA
*
653929 CTGTATCGATACA
1 ATGTATCGATACA
653942 ATGTATCGATACA
1 ATGTATCGATACA
653955 TGAATAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:654046 original size:22 final size:22
Alignment explanation
Indices: 653990--654046 Score: 89
Period size: 21 Copynumber: 2.6 Consensus size: 22
653980 AACGATACAG
*
653990 TATGAACAGTGATTTATCGATA
1 TATGAACAGTGATGTATCGATA
*
654012 CATGAA-AGTGATGTATCGATA
1 TATGAACAGTGATGTATCGATA
654033 TATGAACAGTGATG
1 TATGAACAGTGATG
654047 AATAGTGATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.32
Consensus pattern (22 bp):
TATGAACAGTGATGTATCGATA
Found at i:654152 original size:53 final size:53
Alignment explanation
Indices: 654088--654275 Score: 351
Period size: 53 Copynumber: 3.6 Consensus size: 53
654078 CTACTACCAA
*
654088 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
654141 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
654194 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
654247 TGTATCGATACATATT-TGTGTATCGATAC
1 TGTATCGATACATATTGTGTGTATCGATAC
654276 TATGCAATTT
Statistics
Matches: 133, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
52 13 0.10
53 120 0.90
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (53 bp):
TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:654308 original size:20 final size:20
Alignment explanation
Indices: 654247--654315 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
654237 GCCAATGTCC
654247 TGTATCGATACATATT--TG
1 TGTATCGATACATATTAATG
* *
654265 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
654285 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
654305 TGTATCGATAC
1 TGTATCGATAC
654316 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.07
18 11 0.26
20 27 0.64
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:654381 original size:21 final size:21
Alignment explanation
Indices: 654355--654395 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
654345 GTCAACCTTG
654355 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
654376 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
654396 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:658003 original size:13 final size:13
Alignment explanation
Indices: 657985--658012 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
657975 ATACAAAGAT
657985 CAATGTATCGATA
1 CAATGTATCGATA
657998 CAATGTATCGATA
1 CAATGTATCGATA
658011 CA
1 CA
658013 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:658023 original size:33 final size:33
Alignment explanation
Indices: 657967--658032 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
657957 AAATTCCCAG
*
657967 ATGTATCGATACAAAGATCAATGTATCGATACA
1 ATGTATCGATACAAAGATCAATGTATCAATACA
**
658000 ATGTATCGATACATTGAAT-AATGTATCAATACA
1 ATGTATCGATACAAAG-ATCAATGTATCAATACA
658033 TTTCCTTGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCAATGTATCAATACA
Found at i:658566 original size:90 final size:90
Alignment explanation
Indices: 658413--658579 Score: 262
Period size: 90 Copynumber: 1.9 Consensus size: 90
658403 AATGGAAATC
* * *
658413 GTGCAACCCACATATTCCTAATCATATCCCCTTCATCTAACCACTAGATGGTATTGATCCATCAC
1 GTGCAACCCACACATTCCCAATCATATCCCCTTCATCCAACCACTAGATGGTATTGATCCATCAC
* *
658478 TAAGCTTGATTTCCTTTGGGTCAAG
66 AAAGCCTGATTTCCTTTGGGTCAAG
* * *
658503 GTGCAAGCCACACATTCCCAATCATATCCCTTTCATCCAACCACTAGATGGTATTGATGCATCAC
1 GTGCAACCCACACATTCCCAATCATATCCCCTTCATCCAACCACTAGATGGTATTGATCCATCAC
658568 AAAGCCTGATTT
66 AAAGCCTGATTT
658580 TACCGAGGCA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 69 1.00
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (90 bp):
GTGCAACCCACACATTCCCAATCATATCCCCTTCATCCAACCACTAGATGGTATTGATCCATCAC
AAAGCCTGATTTCCTTTGGGTCAAG
Found at i:658906 original size:48 final size:48
Alignment explanation
Indices: 658825--659264 Score: 542
Period size: 48 Copynumber: 9.1 Consensus size: 48
658815 TACCTGGCCC
** *
658825 AACTCTTTTCTT-CCTTATTTGACTGTATTGGTGTTAGGGCTTAGTCA
1 AACTCTTTTCTTCCCTCGTTTGACTGTATTGGTGTTAGGGCCTAGTCA
* * * *
658872 AACTCTTTTCTTCCTTTGTTTGACTATATTGGTGTTAGGGCCTAATCA
1 AACTCTTTTCTTCCCTCGTTTGACTGTATTGGTGTTAGGGCCTAGTCA
* **
658920 AACCCATTTT-TTACCCTCACTTGACTGTATTGGTGTTAGGGCCTAGTCA
1 AACTC-TTTTCTT-CCCTCGTTTGACTGTATTGGTGTTAGGGCCTAGTCA
* * *
658969 AATTCTTTTCTTCCCTCGTTTGATTGTATTGGTGTTAGGGCCTAATCA
1 AACTCTTTTCTTCCCTCGTTTGACTGTATTGGTGTTAGGGCCTAGTCA
* *
659017 AACTCTTTTCTTCCCTCATTTGACTGTATTGGTGTTAGGGCCTAATCA
1 AACTCTTTTCTTCCCTCGTTTGACTGTATTGGTGTTAGGGCCTAGTCA
* * *
659065 AACTCTTTTTTTTCCCTCGTTTGACTGTATTGGTGTTAGGGCTTGGTCA
1 AACTC-TTTTCTTCCCTCGTTTGACTGTATTGGTGTTAGGGCCTAGTCA
* * * * * * *
659114 ATCTTTTTTCATCCCTCATTTGACTGTATTAGTGTTAGTGCCTGGTCA
1 AACTCTTTTCTTCCCTCGTTTGACTGTATTGGTGTTAGGGCCTAGTCA
* * *
659162 AACTATTTTCTTCCCTCGTTTGATTATATTGGTGTTAGGGCCTAGTCA
1 AACTCTTTTCTTCCCTCGTTTGACTGTATTGGTGTTAGGGCCTAGTCA
* * * * *
659210 AACTCTTTTCATCCCTCGTTTGACTATATTAGTGTTAGGACCTAGTTA
1 AACTCTTTTCTTCCCTCGTTTGACTGTATTGGTGTTAGGGCCTAGTCA
659258 AACTCTT
1 AACTCTT
659265 CCCATTTTGG
Statistics
Matches: 339, Mismatches: 49, Indels: 9
0.85 0.12 0.02
Matches are distributed among these distances:
47 12 0.04
48 247 0.73
49 80 0.24
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (48 bp):
AACTCTTTTCTTCCCTCGTTTGACTGTATTGGTGTTAGGGCCTAGTCA
Found at i:659009 original size:97 final size:97
Alignment explanation
Indices: 658825--659264 Score: 543
Period size: 97 Copynumber: 4.6 Consensus size: 97
658815 TACCTGGCCC
* * * *
658825 AACTCTTTTCT-T-CCTTATTTGACTGTATTGGTGTTAGGGCTTAGTCAAACTCTTTTCTTCCTT
1 AACTCTTTTTTATCCCTCATTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTCTTTTCTTCCCT
*
658888 TGTTTGACTATATTGGTGTTAGGGCCTAATCA
66 CGTTTGACTATATTGGTGTTAGGGCCTAATCA
* * *
658920 AACCCATTTTTTA-CCCTCACTTGACTGTATTGGTGTTAGGGCCTAGTCAAATTCTTTTCTTCCC
1 AACTC-TTTTTTATCCCTCATTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTCTTTTCTTCCC
* *
658984 TCGTTTGATTGTATTGGTGTTAGGGCCTAATCA
65 TCGTTTGACTATATTGGTGTTAGGGCCTAATCA
* * *
659017 AACTCTTTTCT-TCCCTCATTTGACTGTATTGGTGTTAGGGCCTAATCAAACTCTTTTTTTTCCC
1 AACTCTTTTTTATCCCTCATTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTC-TTTTCTTCCC
* * **
659081 TCGTTTGACTGTATTGGTGTTAGGGCTTGGTC-
65 TCGTTTGACTATATTGGTGTTAGGGCCTAATCA
* * * *
659113 AA-TCTTTTTTCATCCCTCATTTGACTGTATTAGTGTTAGTGCCTGGTCAAACTATTTTCTTCCC
1 AACTCTTTTTT-ATCCCTCATTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTCTTTTCTTCCC
* *
659177 TCGTTTGATTATATTGGTGTTAGGGCCTAGTCA
65 TCGTTTGACTATATTGGTGTTAGGGCCTAATCA
* * * * * *
659210 AACTC-TTTTCATCCCTCGTTTGACTATATTAGTGTTAGGACCTAGTTAAACTCTT
1 AACTCTTTTTTATCCCTCATTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTCTT
659265 CCCATTTTGG
Statistics
Matches: 297, Mismatches: 39, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
95 11 0.04
96 125 0.42
97 159 0.54
98 2 0.01
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (97 bp):
AACTCTTTTTTATCCCTCATTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTCTTTTCTTCCCT
CGTTTGACTATATTGGTGTTAGGGCCTAATCA
Found at i:659105 original size:145 final size:144
Alignment explanation
Indices: 658828--659264 Score: 563
Period size: 145 Copynumber: 3.0 Consensus size: 144
658818 CTGGCCCAAC
* * * *
658828 TCTTTTCTT-CCTTATTTGACTGTATTGGTGTTAGGGCTTAGTCAAACTCTTTTCTTCCTTTGTT
1 TCTTTTCTTCCCTCATTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTCTTTTCTTCCCTCGTT
* * **
658892 TGACTATATTGGTGTTAGGGCCTAATCAAACCCATTTTTTACCCTCACTTGACTGTATTGGTGTT
66 TGACTATATTGGTGTTAGGGCCTAATCAAACTC-TTTTTTTCCCTCGTTTGACTGTATTGGTGTT
658957 AGGGCCTAGTCAAAT
130 AGGGCCTAGTCAAAT
* * * *
658972 TCTTTTCTTCCCTCGTTTGATTGTATTGGTGTTAGGGCCTAATCAAACTCTTTTCTTCCCTCATT
1 TCTTTTCTTCCCTCATTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTCTTTTCTTCCCTCGTT
*
659037 TGACTGTATTGGTGTTAGGGCCTAATCAAACTCTTTTTTTTCCCTCGTTTGACTGTATTGGTGTT
66 TGACTATATTGGTGTTAGGGCCTAATCAAACTC-TTTTTTTCCCTCGTTTGACTGTATTGGTGTT
* *
659102 AGGGCTTGGTC-AAT
130 AGGGCCTAGTCAAAT
* * * * * *
659116 CTTTTTTCATCCCTCATTTGACTGTATTAGTGTTAGTGCCTGGTCAAACTATTTTCTTCCCTCGT
1 -TCTTTTCTTCCCTCATTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTCTTTTCTTCCCTCGT
* * ** * *
659181 TTGATTATATTGGTGTTAGGGCCTAGTCAAACTCTTTTCATCCCTCGTTTGACTATATTAGTGTT
65 TTGACTATATTGGTGTTAGGGCCTAATCAAACTCTTTTTTTCCCTCGTTTGACTGTATTGGTGTT
* * *
659246 AGGACCTAGTTAAAC
130 AGGGCCTAGTCAAAT
659261 TCTT
1 TCTT
659265 CCCATTTTGG
Statistics
Matches: 251, Mismatches: 39, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
144 49 0.20
145 202 0.80
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (144 bp):
TCTTTTCTTCCCTCATTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTCTTTTCTTCCCTCGTT
TGACTATATTGGTGTTAGGGCCTAATCAAACTCTTTTTTTCCCTCGTTTGACTGTATTGGTGTTA
GGGCCTAGTCAAAT
Found at i:659565 original size:42 final size:41
Alignment explanation
Indices: 659522--660001 Score: 223
Period size: 42 Copynumber: 11.4 Consensus size: 41
659512 GACTTAAACT
* *
659522 TGGGAGACTTCTTCATCTTTCATCTACTCGTCAGCTCAGACT
1 TGGGAGACTTCTTCATCTTTCGTCTAC-CGTCAGCTCAGACC
* * * *
659564 TGGGAGATTTTTTCATCTTTCGCCTGCCTGTC-GACTCAGACC
1 TGGGAGACTTCTTCATCTTTCGTCTACC-GTCAG-CTCAGACC
*
659606 TGGGAGACTTCTTCATCTTTCGTCTACCCATCAGCTCAGACC
1 TGGGAGACTTCTTCATCTTTCGTCTA-CCGTCAGCTCAGACC
** * * * ** *
659648 AAGGAGGCTTCTTCATCTTTCGTCTGCCCATTGGCTTAGACC
1 TGGGAGACTTCTTCATCTTTCGTCT-ACCGTCAGCTCAGACC
* * * * *
659690 TAGGAGACTTCTTTAT-TAATCGTCTACCCGTCGGCTTAGACC
1 TGGGAGACTTCTTCATCT-TTCGTCTA-CCGTCAGCTCAGACC
* * * *
659732 CGGGAGACTTCTTCATCCATT-GTCTGCCTGTCGGCTCAGACC
1 TGGGAGACTTCTTCAT-CTTTCGTCTACC-GTCAGCTCAGACC
* * * * * * *
659774 CGGGAGACTTCTTCATCTTTTGTCTGCCCGTCGGCTTAGTCT
1 TGGGAGACTTCTTCATCTTTCGTCT-ACCGTCAGCTCAGACC
** * * * * *
659816 TGAAAGACTTCCTTTATCAATT-GTCTACCTGTCAACTAAAACC
1 TGGGAGACTT-CTTCATC-TTTCGTCTACC-GTCAGCTCAGACC
*** * * * * * *
659859 CAAGAGACTTCTTCACCTTTTGTTTGCCTGTCAGCTTAAACC
1 TGGGAGACTTCTTCATCTTTCGTCTACC-GTCAGCTCAGACC
* * * * * * * *
659901 CGGGAGACTTCTTCATCTATCATTTGCC-TAACGACTTAGTCC
1 TGGGAGACTTCTTCATCTTTCGTCTACCGTCA-G-CTCAGACC
* * * *
659943 CGAGAGACTTCCTTTATCTTTCGTCTACTCGTCGGCTCAGACC
1 TGGGAGACTT-CTTCATCTTTCGTCTAC-CGTCAGCTCAGACC
*
659986 TAGGAGACTTCTTCAT
1 TGGGAGACTTCTTCAT
660002 TTCATTATTT
Statistics
Matches: 335, Mismatches: 82, Indels: 42
0.73 0.18 0.09
Matches are distributed among these distances:
40 2 0.01
41 11 0.03
42 262 0.78
43 55 0.16
44 4 0.01
45 1 0.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (41 bp):
TGGGAGACTTCTTCATCTTTCGTCTACCGTCAGCTCAGACC
Found at i:659614 original size:84 final size:84
Alignment explanation
Indices: 659522--660001 Score: 311
Period size: 84 Copynumber: 5.7 Consensus size: 84
659512 GACTTAAACT
* * ** * * *
659522 TGGGAGACTTCTTCATCTTTCATCTACTCGTCAGCTCAGACTTGGGAGATTTTTTCATCTTTCGC
1 TGGGAGACTTCTTCATCTTTCGTCTACCCGTCAGCTCAGACCAGGGAGACTTCTTCATCTTTCGT
*
659587 CTGCCTGTCGACTCAGACC
66 CTGCCTGTCGGCTCAGACC
* * *
659606 TGGGAGACTTCTTCATCTTTCGTCTACCCATCAGCTCAGACCAAGGAGGCTTCTTCATCTTTCGT
1 TGGGAGACTTCTTCATCTTTCGTCTACCCGTCAGCTCAGACCAGGGAGACTTCTTCATCTTTCGT
** * *
659671 CTGCCCATTGGCTTAGACC
66 CTGCCTGTCGGCTCAGACC
* * * * * * *
659690 TAGGAGACTTCTTTAT-TAATCGTCTACCCGTCGGCTTAGACCCGGGAGACTTCTTCATCCATT-
1 TGGGAGACTTCTTCATCT-TTCGTCTACCCGTCAGCTCAGACCAGGGAGACTTCTTCAT-CTTTC
659753 GTCTGCCTGTCGGCTCAGACC
64 GTCTGCCTGTCGGCTCAGACC
* * * * * * ** ** * *
659774 CGGGAGACTTCTTCATCTTTTGTCTGCCCGTCGGCTTAGTCTTGAAAGACTTCCTTTATCAATT-
1 TGGGAGACTTCTTCATCTTTCGTCTACCCGTCAGCTCAGACCAGGGAGACTT-CTTCATC-TTTC
* ** * *
659838 GTCTACCTGTCAACTAAAACC
64 GTCTGCCTGTCGGCTCAGACC
*** * * * * * * * * * *
659859 CAAGAGACTTCTTCACCTTTTGTTTGCCTGTCAGCTTAAACCCGGGAGACTTCTTCATCTATCAT
1 TGGGAGACTTCTTCATCTTTCGTCTACCCGTCAGCTCAGACCAGGGAGACTTCTTCATCTTTCGT
* ** * * *
659924 TTGCCTAACGACTTAGTCC
66 CTGCCTGTCGGCTCAGACC
* * * * *
659943 CGAGAGACTTCCTTTATCTTTCGTCTACTCGTCGGCTCAGACCTA-GGAGACTTCTTCAT
1 TGGGAGACTT-CTTCATCTTTCGTCTACCCGTCAGCTCAGACC-AGGGAGACTTCTTCAT
660002 TTCATTATTT
Statistics
Matches: 306, Mismatches: 82, Indels: 15
0.76 0.20 0.04
Matches are distributed among these distances:
83 2 0.01
84 200 0.65
85 104 0.34
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (84 bp):
TGGGAGACTTCTTCATCTTTCGTCTACCCGTCAGCTCAGACCAGGGAGACTTCTTCATCTTTCGT
CTGCCTGTCGGCTCAGACC
Found at i:659826 original size:126 final size:127
Alignment explanation
Indices: 659601--660001 Score: 344
Period size: 127 Copynumber: 3.2 Consensus size: 127
659591 CTGTCGACTC
* * ** ** *
659601 AGACCTGGGAGACTTCTTCAT-CTTTCGTCTACCCATCAGCTCAGACCAAGGAGGCTTCTTCATC
1 AGACCCGGGAGACTTCTTCATCCTTT-GTCTGCCTGTCAGCTCAGACCCGGGAGACTTCTTCATC
* * * ** *
659665 TTTCGTCTGCCCATTGGCTTAGACCTAGGAGACTT-CTTTATTAATCGTCTACCCGTCGGCTT
65 TTTCGTCTGCCCATCGGCTTAGACCTAGAAGACTTCCTTTATCAATCGTCTACCCGTCAACTA
* *
659727 AGACCCGGGAGACTTCTTCATCCATTGTCTGCCTGTCGGCTCAGACCCGGGAGACTTCTTCATCT
1 AGACCCGGGAGACTTCTTCATCCTTTGTCTGCCTGTCAGCTCAGACCCGGGAGACTTCTTCATCT
* * * * * *
659792 TTTGTCTGCCCGTCGGCTTAG-TCTTGAAAGACTTCCTTTATCAATTGTCTACCTGTCAACTA
66 TTCGTCTGCCCATCGGCTTAGACCTAG-AAGACTTCCTTTATCAATCGTCTACCCGTCAACTA
* ** * * *
659854 AAACCCAAGAGACTTCTTCA-CCTTTTGTTTGCCTGTCAGCTTAAACCCGGGAGACTTCTTCATC
1 AGACCCGGGAGACTTCTTCATCC-TTTGTCTGCCTGTCAGCTCAGACCCGGGAGACTTCTTCATC
* * * * * * * * ** * ** *
659918 TATCATTTGCCTAACGACTTAGTCC-CGAGAGACTTCCTTTATCTTTCGTCTACTCGTCGGCTC
65 TTTCGTCTGCCCATCGGCTTAGACCTAGA-AGACTTCCTTTATCAATCGTCTACCCGTCAACTA
**
659981 AGACCTAGGAGACTTCTTCAT
1 AGACCCGGGAGACTTCTTCAT
660002 TTCATTATTT
Statistics
Matches: 218, Mismatches: 50, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
125 3 0.01
126 79 0.36
127 135 0.62
128 1 0.00
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.33
Consensus pattern (127 bp):
AGACCCGGGAGACTTCTTCATCCTTTGTCTGCCTGTCAGCTCAGACCCGGGAGACTTCTTCATCT
TTCGTCTGCCCATCGGCTTAGACCTAGAAGACTTCCTTTATCAATCGTCTACCCGTCAACTA
Found at i:659909 original size:85 final size:85
Alignment explanation
Indices: 659711--659917 Score: 211
Period size: 85 Copynumber: 2.5 Consensus size: 85
659701 TTTATTAATC
* * * * ** * *
659711 GTCTACCCGTCGGCTTAGACCCGGGAGACTT-CTTCATCCATTGTCTGCCTGTCGGCTCAGACCC
1 GTCTGCCCGTCAGCTTAGACCCGGGAGACTTCCTTCATCAATTGTCTACCTGTCAACTAAAACCC
** *
659775 GGGAGACTTCTTCATCTTTT
66 AAGAGACTTCTTCACCTTTT
* * ** ** *
659795 GTCTGCCCGTCGGCTTAGTCTTGAAAGACTTCCTTTATCAATTGTCTACCTGTCAACTAAAACCC
1 GTCTGCCCGTCAGCTTAGACCCGGGAGACTTCCTTCATCAATTGTCTACCTGTCAACTAAAACCC
659860 AAGAGACTTCTTCACCTTTT
66 AAGAGACTTCTTCACCTTTT
* * *
659880 GTTTGCCTGTCAGCTTAAACCCGGGAGACTT-CTTCATC
1 GTCTGCCCGTCAGCTTAGACCCGGGAGACTTCCTTCATC
659918 TATCATTTGC
Statistics
Matches: 96, Mismatches: 26, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
84 31 0.32
85 65 0.68
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.32
Consensus pattern (85 bp):
GTCTGCCCGTCAGCTTAGACCCGGGAGACTTCCTTCATCAATTGTCTACCTGTCAACTAAAACCC
AAGAGACTTCTTCACCTTTT
Found at i:661287 original size:16 final size:16
Alignment explanation
Indices: 661235--661286 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 16
661225 ACTGATCACA
661235 TAAATTTTATCTTAATTTT
1 TAAATTTTAT-TT--TTTT
661254 TAAATTTTATTTTTTT
1 TAAATTTTATTTTTTT
661270 TACAATTTTATTTTTTT
1 TA-AATTTTATTTTTTT
661287 ATTAATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.19
17 14 0.44
18 2 0.06
19 10 0.31
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (16 bp):
TAAATTTTATTTTTTT
Found at i:661296 original size:18 final size:17
Alignment explanation
Indices: 661235--661298 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 17
661225 ACTGATCACA
*
661235 TAAATTTTATCTTAATTTT
1 TAAATTTTAT-TT-TTTTT
661254 TAAATTTTA-TTTTTTT
1 TAAATTTTATTTTTTTT
661270 TACAATTTTATTTTTTTAT
1 TA-AATTTTATTTTTTT-T
*
661289 TAATTTTTAT
1 TAAATTTTAT
661299 GATATAACTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
16 6 0.15
17 9 0.22
18 13 0.32
19 12 0.30
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
TAAATTTTATTTTTTTT
Found at i:664186 original size:309 final size:310
Alignment explanation
Indices: 663514--664195 Score: 759
Period size: 309 Copynumber: 2.2 Consensus size: 310
663504 CTAGTGGTAT
* * * * * *
663514 TTTCATAATTTTCTAAAACCGAGTCCTAGGTCATCATCGGGTCTGCTTTTATGCTGAAGTTTGAT
1 TTTCGTAATTTTTTAGAACCGAGTCCTAAGTCATAATCGGGTC-GCTTTTATGCTGAAGGTTGAT
* *
663579 ATTTAGGGTAGGTTCATCCTGGTTAAAATTCTTTTGAAGTCGTTTAGGGTTGCCGAGATACTTTT
65 ATTTAGGGTAGGTTCATCC--GATAAAATTCTTTTGAAGTCCTTTAGGGTTGCCGAGATACTTTT
* *
663644 ACGCTGAAGGTATACCCATAAGGGCATTTTCATAATTTTTTAGAACCGAGTCTTAAGTCATCACC
128 ACGCTGAAGGTATACCCATAAGGGCATTTTCATAATTTTCTAGAACCGAGTCCTAAGTCATCACC
* * * * * * * *
663709 ATGTTCGCTTTTATGTTGAAGGTTGATACTTTGGGTAGGTTTATCCCAGTTAAAATTCTTTTTAA
193 AGGTCCGCTTTTATGCTGAAGGTGGACACTTTGGATAGGTTCATCCCAGTTAAAAGTCTTTTTAA
* * * * * *
663774 GTCCTTTAGGGTTACCGAGATACTTTTACGTTGAAGTATACCTATAGAGGTAA
258 GTCCTTTAGGATTACCGAGATACTTTCACGTCGAAGTATACCCATAAAGGCAA
* *** *
663827 TTTCGTAATTTTTTAGAACCGAGTCCTAAGTCATCA-CCAATCCACTTTTATGCTGAAGGTTGAT
1 TTTCGTAATTTTTTAGAACCGAGTCCTAAGTCATAATCGGGT-CGCTTTTATGCTGAAGGTTGAT
*** *
663891 ATTTAGGGTAGGTTCATCC-ATAAAATTCTTTTTTTGTCCTTTATGGTTGCCGAGATACTTTTAC
65 ATTTAGGGTAGGTTCATCCGATAAAATTCTTTTGAAGTCCTTTAGGGTTGCCGAGATACTTTTAC
* * ** * ** *
663955 G-TCGAAGGTATACCTATAGGGGCATTTTCATAATTTTCTAGAATTGAGTCCTAGGTTGTCACCG
130 GCT-GAAGGTATACCCATAAGGGCATTTTCATAATTTTCTAGAACCGAGTCCTAAGTCATCACCA
* * * **
664019 GGTCCGTTTTTATGCTGAAGGTGGGCA-TTTATGATAGGTTCATCCCA-TCT-CTAGTCTTTTTA
194 GGTCCGCTTTTATGCTGAAGGTGGACACTTT-GGATAGGTTCATCCCAGT-TAAAAGTCTTTTTA
* *
664081 AGTCTTTTAGGATTACCGAGATACTTTCACGTCGAAGGTAT-CCCATAAAGGCAT
257 AGTCCTTTAGGATTACCGAGATACTTTCACGTCGAA-GTATACCCATAAAGGCAA
* * *
664135 TTTCGT-ATTTTTTCAGAACTGAGTCTTAAGTTATAATCGGGTGCGCTTTTATGCTGAAGGT
1 TTTCGTAATTTTTT-AGAACCGAGTCCTAAGTCATAATCGGGT-CGCTTTTATGCTGAAGGT
664196 GGGTGTTTAG
Statistics
Matches: 307, Mismatches: 55, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
307 7 0.02
308 79 0.26
309 148 0.48
312 40 0.13
313 33 0.11
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (310 bp):
TTTCGTAATTTTTTAGAACCGAGTCCTAAGTCATAATCGGGTCGCTTTTATGCTGAAGGTTGATA
TTTAGGGTAGGTTCATCCGATAAAATTCTTTTGAAGTCCTTTAGGGTTGCCGAGATACTTTTACG
CTGAAGGTATACCCATAAGGGCATTTTCATAATTTTCTAGAACCGAGTCCTAAGTCATCACCAGG
TCCGCTTTTATGCTGAAGGTGGACACTTTGGATAGGTTCATCCCAGTTAAAAGTCTTTTTAAGTC
CTTTAGGATTACCGAGATACTTTCACGTCGAAGTATACCCATAAAGGCAA
Found at i:664194 original size:155 final size:155
Alignment explanation
Indices: 663479--664275 Score: 723
Period size: 155 Copynumber: 5.1 Consensus size: 155
663469 AGGAGTATCG
* * ** * * * *
663479 GATACTTTTACGTCAAAGGTAT-CCCCTAGTGGTATTTTCATAATTTTCTAAAACCGAGTCCTAG
1 GATACTTTTACGTCGAAGGTATACCCATAAAGGCATTTTCATAATTTTTTAGAACCGAGTCCTAA
* * * * * **
663543 GTCATCATCGGGTCTGCTTTTATGCTGAAGTTTGATATTTAGGGTAGGTTCATCCTGGTTAAAAT
66 GTCATCACCGGGTCCGCTTTTATGCTGAAGGTGGATATTTAGGATAGGTTCATCC-CATT-AAAT
* * *
663608 TCTTTTGAAGTCGTTTAGGGTTGCCGA
129 TCTTTTTAAGTCCTTTAGGGTTACCGA
* *
663635 GATACTTTTACG-CTGAAGGTATACCCATAAGGGCATTTTCATAATTTTTTAGAACCGAGTCTTA
1 GATACTTTTACGTC-GAAGGTATACCCATAAAGGCATTTTCATAATTTTTTAGAACCGAGTCCTA
** * * * * *
663699 AGTCATCACCATGTTCGCTTTTATGTTGAAGGTTGATACTTT-GGGTAGGTTTATCCCAGTTAAA
65 AGTCATCACCGGGTCCGCTTTTATGCTGAAGGTGGATA-TTTAGGATAGGTTCATCCCA-TT-AA
663763 ATTCTTTTTAAGTCCTTTAGGGTTACCGA
127 ATTCTTTTTAAGTCCTTTAGGGTTACCGA
* * * * * *
663792 GATACTTTTACGTTGAA-GTATACCTATAGAGGTAATTTCGTAATTTTTTAGAACCGAGTCCTAA
1 GATACTTTTACGTCGAAGGTATACCCATAAAGGCATTTTCATAATTTTTTAGAACCGAGTCCTAA
** * * * *
663856 GTCATCACC-AATCCACTTTTATGCTGAAGGTTGATATTTAGGGTAGGTTCAT-CCATAAAATTC
66 GTCATCACCGGGTCCGCTTTTATGCTGAAGGTGGATATTTAGGATAGGTTCATCCCATTAAATTC
** * *
663919 TTTTTTTGTCCTTTATGGTTGCCGA
131 TTTTTAAGTCCTTTAGGGTTACCGA
* ** * ** *
663944 GATACTTTTACGTCGAAGGTATACCTATAGGGGCATTTTCATAATTTTCTAGAATTGAGTCCTAG
1 GATACTTTTACGTCGAAGGTATACCCATAAAGGCATTTTCATAATTTTTTAGAACCGAGTCCTAA
** * ** * ** *
664009 GTTGTCACCGGGTCCGTTTTTATGCTGAAGGTGGGCATTTATGATAGGTTCATCCCATCTCTAGT
66 GTCATCACCGGGTCCGCTTTTATGCTGAAGGTGGATATTTAGGATAGGTTCATCCCAT-TAAATT
* *
664074 CTTTTTAAGTCTTTTAGGATTACCGA
130 CTTTTTAAGTCCTTTAGGGTTACCGA
* * * *
664100 GATACTTTCACGTCGAAGGTAT-CCCATAAAGGCATTTTCGT-ATTTTTTCAGAACTGAGTCTTA
1 GATACTTTTACGTCGAAGGTATACCCATAAAGGCATTTTCATAATTTTTT-AGAACCGAGTCCTA
* * * * * * *
664163 AGTTATAATCGGGTGCGCTTTTATGCTGAAGGTGGGTGTTTAGGATA-GTTCGTCCCATCTATAA
65 AGTCATCACCGGGTCCGCTTTTATGCTGAAGGTGGATATTTAGGATAGGTTCATCCCAT-TA-AA
** * * *
664227 CCCTTTTTAAATCCTTTAGGGGTATC-A
128 TTCTTTTTAAGTCCTTTAGGGTTACCGA
* *
664254 GGTACTTCTACGTCGAAGGTAT
1 GATACTTTTACGTCGAAGGTAT
664276 TCCTTAGAAT
Statistics
Matches: 528, Mismatches: 101, Indels: 26
0.81 0.15 0.04
Matches are distributed among these distances:
152 43 0.08
153 47 0.09
154 78 0.15
155 123 0.23
156 111 0.21
157 123 0.23
158 3 0.01
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (155 bp):
GATACTTTTACGTCGAAGGTATACCCATAAAGGCATTTTCATAATTTTTTAGAACCGAGTCCTAA
GTCATCACCGGGTCCGCTTTTATGCTGAAGGTGGATATTTAGGATAGGTTCATCCCATTAAATTC
TTTTTAAGTCCTTTAGGGTTACCGA
Found at i:665079 original size:15 final size:15
Alignment explanation
Indices: 665059--665088 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
665049 GTCATTTCGT
665059 AATGACTATTTAGGG
1 AATGACTATTTAGGG
665074 AATGACTATTTAGGG
1 AATGACTATTTAGGG
665089 TTAAGTCGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (15 bp):
AATGACTATTTAGGG
Found at i:667075 original size:21 final size:20
Alignment explanation
Indices: 667046--667088 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
667036 GACTAGTGTG
* *
667046 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
667067 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
667087 GG
1 GG
667089 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:667537 original size:13 final size:13
Alignment explanation
Indices: 667519--667557 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
667509 ATAATCCCCT
* *
667519 TGTATCGATATAG
1 TGTATCGATACAA
667532 TGTATCGATACAA
1 TGTATCGATACAA
667545 TGTATCGATACAA
1 TGTATCGATACAA
667558 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:669768 original size:13 final size:13
Alignment explanation
Indices: 669750--669775 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
669740 CAATTTTTTG
669750 TGTATCGATACAT
1 TGTATCGATACAT
669763 TGTATCGATACAT
1 TGTATCGATACAT
669776 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:669787 original size:32 final size:33
Alignment explanation
Indices: 669730--669793 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
669720 TACAAGCCAA
**
669730 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
669763 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
669794 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:672756 original size:20 final size:20
Alignment explanation
Indices: 672712--672765 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
672702 GATTTAATAA
*
672712 ATGAATGTCTCGATACATAG
1 ATGAATGTATCGATACATAG
*
672732 GTGAATGTATCGATACAT-G
1 ATGAATGTATCGATACATAG
672751 TATGAAATGTATCGA
1 -ATG-AATGTATCGA
672766 CATAAGACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 1 0.03
20 18 0.62
21 10 0.34
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.31
Consensus pattern (20 bp):
ATGAATGTATCGATACATAG
Found at i:672923 original size:51 final size:53
Alignment explanation
Indices: 672806--672923 Score: 150
Period size: 52 Copynumber: 2.3 Consensus size: 53
672796 TTTGGAAAGA
* * * *
672806 AAATGTATCGATACATTTTTTAATTGCATCAATGCATTCTGGGTTTTTTACCT
1 AAATGTATCGATACATTTATTAATTGCATCAATACATTCTGGGTTTTTGACCC
* * * *
672859 AAATGTATTGATACA-TTATTCATTGTATCGATACATTCTGGG-TTTTGACCC
1 AAATGTATCGATACATTTATTAATTGCATCAATACATTCTGGGTTTTTGACCC
672910 AAATGTATCGATAC
1 AAATGTATCGATAC
672924 GTTCTTCAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 20 0.36
52 22 0.39
53 14 0.25
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (53 bp):
AAATGTATCGATACATTTATTAATTGCATCAATACATTCTGGGTTTTTGACCC
Found at i:683289 original size:25 final size:26
Alignment explanation
Indices: 683259--683314 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
683249 TATATAATTA
683259 AATAATTAA-ATAA-AATAA-TATATAT
1 AATAATTAATA-AAGAATAAGTATA-AT
683284 AATAA-TAATAAAGAATAAGTATAAT
1 AATAATTAATAAAGAATAAGTATAAT
683309 AATAAT
1 AATAAT
683315 AACACAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
24 5 0.19
25 18 0.67
26 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (26 bp):
AATAATTAATAAAGAATAAGTATAAT
Found at i:683831 original size:72 final size:72
Alignment explanation
Indices: 683738--683906 Score: 243
Period size: 72 Copynumber: 2.3 Consensus size: 72
683728 AAGAAACAAT
* *
683738 AACAGCAAGCATACAAAGAAAAGGAGAGAGCAATTCTGTTTCAGCT-GATGGCTGGCAGCAAAGC
1 AACAACAAGCATACAAAGAAAAGGAGAGAGCAATTCTGTTTCAGCTAG-TGGCTAGCAGCAAAGC
683802 TCAAAGGA
65 TCAAAGGA
* * * *
683810 AACAACAAGTATACAAGGAAAAGGAGAGAGCAATTTTGTTTTAGCTAGTGGCTAGCAGCAAAGCT
1 AACAACAAGCATACAAAGAAAAGGAGAGAGCAATTCTGTTTCAGCTAGTGGCTAGCAGCAAAGCT
*
683875 TAAAGGA
66 CAAAGGA
683882 AACAACAAGCATACGAAA-AAAAGGA
1 AACAACAAGCATAC-AAAGAAAAGGA
683907 AATCAAAAAC
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
72 83 0.97
73 3 0.03
ACGTcount: A:0.44, C:0.15, G:0.24, T:0.16
Consensus pattern (72 bp):
AACAACAAGCATACAAAGAAAAGGAGAGAGCAATTCTGTTTCAGCTAGTGGCTAGCAGCAAAGCT
CAAAGGA
Found at i:684077 original size:83 final size:83
Alignment explanation
Indices: 683937--684129 Score: 248
Period size: 83 Copynumber: 2.4 Consensus size: 83
683927 AGAAGTCAAA
* *
683937 AACATACGAATAAGAAGAAAGGAAAGAAATCAATTCTATTACACCAAAGGTACTTGGCAGTAAAG
1 AACATACGAACAAGAAGAAAGGAAAGAAATCAATTCTATTACACCAAAGGTACTTGGCAGCAAAG
684002 CAATTTTGTTTTAGCAAG
66 CAATTTTGTTTTAGCAAG
* ** * * ** * * *
684020 AACATACGAACAAGATGAGGGGAAGGAAATCAATTCTGTTGTAGCTAAGGTAGTTGGCAGCAAAG
1 AACATACGAACAAGAAGAAAGGAAAGAAATCAATTCTATTACACCAAAGGTACTTGGCAGCAAAG
684085 CAATTTTGTTTTAGCAAG
66 CAATTTTGTTTTAGCAAG
*
684103 AACATGCGAACAAG-AG-AAGG-AAGAAAT
1 AACATACGAACAAGAAGAAAGGAAAGAAAT
684130 GACAATAGCA
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
80 6 0.06
81 2 0.02
82 1 0.01
83 84 0.90
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.22
Consensus pattern (83 bp):
AACATACGAACAAGAAGAAAGGAAAGAAATCAATTCTATTACACCAAAGGTACTTGGCAGCAAAG
CAATTTTGTTTTAGCAAG
Found at i:684446 original size:23 final size:23
Alignment explanation
Indices: 684411--684476 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
684401 AAATAGCTAT
684411 TAAAC-AGCAACAAAACAACAAG
1 TAAACAAGCAACAAAACAACAAG
*
684433 TAAACAAGCAACAAAGCAACAAG
1 TAAACAAGCAACAAAACAACAAG
*
684456 TAAACAAAC-ACAAAACAACAA
1 TAAACAAGCAACAAAACAACAA
684477 AAGGAAGGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 16 0.40
23 24 0.60
ACGTcount: A:0.65, C:0.23, G:0.08, T:0.05
Consensus pattern (23 bp):
TAAACAAGCAACAAAACAACAAG
Found at i:686167 original size:153 final size:152
Alignment explanation
Indices: 685859--686795 Score: 1027
Period size: 153 Copynumber: 6.1 Consensus size: 152
685849 AATAAAATTA
* * * * *
685859 AGTCCTAGGTTATCATCAGATATGCTTCTATGCTGAGGGTGTACGTTTAGGATAGGTTCATCCTT
1 AGTCCTAGGTTATCACCAGGTATGCTTCTCTGCCGAAGGTGTACGTTTAGGATAGGTTCATCC-T
* * * * *
685924 TTTCCTTTTTTAAGT-CTTTTAGAGTTATTAGGATACTTTCACGTCGAAGGTATACCCATAGGGG
65 TTT-CATTTTTAAGTCCTTTAAG-GTTATCAGGATACTTTCACGTCGAAAGTATACCCATAAGGG
685988 CATTTTC-ATAA-TTTTCTTAGAACCG
128 CA-TTTCAATAATTTTTC-TAGAACCG
*
686013 AGTCCTAGGTTATCACCAGGTATGCTTCTCTGCCGAAGGTGTACATTTAGGATAGGTTCATCTCT
1 AGTCCTAGGTTATCACCAGGTATGCTTCTCTGCCGAAGGTGTACGTTTAGGATAGGTTCATC-CT
* * * *
686078 TTTCATTTTTAAGTCCTTTAAGGTTACCGGGATACTTTCACATCGAAAGTATACCTC-TAAGGAC
65 TTTCATTTTTAAGTCCTTTAAGGTTATCAGGATACTTTCACGTCGAAAGTATACC-CATAAGGGC
*
686142 ATTTCAATAATTTTCCTAGAACCG
129 ATTTCAATAATTTTTCTAGAACCG
* * * *
686166 AGTCCTAAGTTATCACCAGGTATGTTTCTATGCCGAAGGTGTACATTTAGGATAGGTTCATCCCT
1 AGTCCTAGGTTATCACCAGGTATGCTTCTCTGCCGAAGGTGTACGTTTAGGATAGGTTCAT-CCT
* * * * *
686231 TTTCATTTTTAAGTTCTTTAGGGTTATCGGGATATTTTCACGTCGAAAGTATACCCATAAGGGTA
65 TTTCATTTTTAAGTCCTTTAAGGTTATCAGGATACTTTCACGTCGAAAGTATACCCATAAGGGCA
*** * *
686296 TTTTTGTAATTTTT-TAAAATCG
130 TTTCAATAATTTTTCTAGAACCG
* * * * * *
686318 AGTCTTAGGTTATCATCGGGTATGCTTTTTCTAGCCAAAGGTGTATGTTTAGGATAGGTTCATCC
1 AGTCCTAGGTTATCACCAGGTATGC-TTCTCT-GCCGAAGGTGTACGTTTAGGATAGGTTCATCC
* *
686383 ATTTTCATTTTTAAGTCCTTT-AGGTT-TACTAGGATACTTTCACATCG-AAGATATACCCACAA
64 -TTTTCATTTTTAAGTCCTTTAAGGTTAT-C-AGGATACTTTCACGTCGAAAG-TATACCCATAA
* * * *
686445 GGGCATTTTAGTCATTTTTCTAGAACCA
125 GGGCATTTCAATAATTTTTCTAGAACCG
* * *
686473 AATCCTAGGTTATCACTAGGTATGCTTCTCTGCCGAAGGTGTACGTTTAGAATAGGTTCATTCCT
1 AGTCCTAGGTTATCACCAGGTATGCTTCTCTGCCGAAGGTGTACGTTTAGGATAGGTTCA-TCCT
* * * * *
686538 TTTCATTTTTAAGTCTTTTAGGGTTATCGGGATACTTTCACGTC-AAAGGTATATCCATAGGGGC
65 TTTCATTTTTAAGTCCTTTAAGGTTATCAGGATACTTTCACGTCGAAA-GTATACCCATAAGGGC
* *
686602 ATTTTC-ATAATTTTTCAAGAATCG
129 A-TTTCAATAATTTTTCTAGAACCG
*** **
686626 AGTCCTAGGTTATCATGGGGTATGCTTC-CTTGCCGAAGGTGTTTGTTTAGGATAGGTTCATCCC
1 AGTCCTAGGTTATCACCAGGTATGCTTCTC-TGCCGAAGGTGTACGTTTAGGATAGGTTCAT-CC
* *
686690 TTTTCATTTTTAAGTCCTTTAAGGTTA-CAAGATACTTTCACGTCG-AAGATATACCCCTAAGGG
64 TTTTCATTTTTAAGTCCTTTAAGGTTATCAGGATACTTTCACGTCGAAAG-TATACCCATAAGGG
* * *
686753 CATTTTAGTAATTTTTCTAGAATCG
128 CATTTCAATAATTTTTCTAGAACCG
* *
686778 AGTCTTAGATTATCACCA
1 AGTCCTAGGTTATCACCA
686796 AGTCCGTTTT
Statistics
Matches: 660, Mismatches: 98, Indels: 52
0.81 0.12 0.06
Matches are distributed among these distances:
151 4 0.01
152 93 0.14
153 361 0.55
154 175 0.27
155 27 0.04
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (152 bp):
AGTCCTAGGTTATCACCAGGTATGCTTCTCTGCCGAAGGTGTACGTTTAGGATAGGTTCATCCTT
TTCATTTTTAAGTCCTTTAAGGTTATCAGGATACTTTCACGTCGAAAGTATACCCATAAGGGCAT
TTCAATAATTTTTCTAGAACCG
Found at i:686361 original size:307 final size:303
Alignment explanation
Indices: 685859--686795 Score: 1213
Period size: 307 Copynumber: 3.1 Consensus size: 303
685849 AATAAAATTA
* * * * * *
685859 AGTCCTAGGTTATCATCAGATATGCTTCTATGCTGAGGGTGTACGTTTAGGATAGGTTCATCCTT
1 AGTCCTAAGTTATCACCAGGTATGCTTCTATGCCGAAGGTGTACGTTTAGGATAGGTTCATCCCT
* * ** *
685924 TTTCCTTTTTTAAGTCTTTTAGAGTTATTAGGATACTTTCACGTCGAAGGTATACCCATAGGGGC
66 TTT-CATTTTTAAGTCTTTTAGGGTTATCGGGATACTTTCACGTCGAAAGTATACCCATAGGGGC
* * * * *
685989 ATTTTCATAATTTTCTTAGAACCGAGTCCTAGGTTATCACCAGGTATGCTTCTCTGCCGAAGGTG
130 ATTTTCATAATTTT-TTAAAATCGAGTCCTAGGTTATCATCGGGTATGCTTTTCTGCCGAAGGTG
** *
686054 TACATTTAGGATAGGTTCATCTCTTTTCATTTTTAAGTCCTTTAAGGTTACCGGGATACTTTCAC
194 TATGTTTAGGATAGGTTCATC-CTTTTCATTTTTAAGTCCTTTAAGGTTACCAGGATACTTTCAC
* * * *
686119 ATCGAA-AGTATACCTCTAAGGACATTTCAATAATTTTCCTAGAACCG
258 ATCGAAGA-TATACC-CTAAGGGCATTTTAGTAATTTTTCTAGAACCG
* *
686166 AGTCCTAAGTTATCACCAGGTATGTTTCTATGCCGAAGGTGTACATTTAGGATAGGTTCATCCCT
1 AGTCCTAAGTTATCACCAGGTATGCTTCTATGCCGAAGGTGTACGTTTAGGATAGGTTCATCCCT
* * *
686231 TTTCATTTTTAAGT-TCTTTAGGGTTATCGGGATATTTTCACGTCGAAAGTATACCCATAAGGGT
66 TTTCATTTTTAAGTCT-TTTAGGGTTATCGGGATACTTTCACGTCGAAAGTATACCCATAGGGGC
** * *
686295 ATTTTTGTAATTTTTTAAAATCGAGTCTTAGGTTATCATCGGGTATGCTTTTTCTAGCCAAAGGT
130 ATTTTCATAATTTTTTAAAATCGAGTCCTAGGTTATCATCGGGTATGC-TTTTCT-GCCGAAGGT
*
686360 GTATGTTTAGGATAGGTTCATCCATTTTCATTTTTAAGTCCTTT-AGGTTTACTAGGATACTTTC
193 GTATGTTTAGGATAGGTTCATCC-TTTTCATTTTTAAGTCCTTTAAGG-TTACCAGGATACTTTC
* * *
686424 ACATCGAAGATATACCCACAAGGGCATTTTAGTCATTTTTCTAGAACCA
256 ACATCGAAGATATACCC-TAAGGGCATTTTAGTAATTTTTCTAGAACCG
* * * * * *
686473 AATCCTAGGTTATCACTAGGTATGCTTCTCTGCCGAAGGTGTACGTTTAGAATAGGTTCATTCCT
1 AGTCCTAAGTTATCACCAGGTATGCTTCTATGCCGAAGGTGTACGTTTAGGATAGGTTCATCCCT
*
686538 TTTCATTTTTAAGTCTTTTAGGGTTATCGGGATACTTTCACGTC-AAAGGTATATCCATAGGGGC
66 TTTCATTTTTAAGTCTTTTAGGGTTATCGGGATACTTTCACGTCGAAA-GTATACCCATAGGGGC
* * *
686602 ATTTTCATAATTTTTCAAGAATCGAGTCCTAGGTTATCATGGGGTATGC-TTCCTTGCCGAAGGT
130 ATTTTCATAATTTTTTAA-AATCGAGTCCTAGGTTATCATCGGGTATGCTTTTC-TGCCGAAGGT
* *
686666 GTTTGTTTAGGATAGGTTCATCCCTTTTCATTTTTAAGTCCTTTAAGGTTA-CAAGATACTTTCA
193 GTATGTTTAGGATAGGTTCAT-CCTTTTCATTTTTAAGTCCTTTAAGGTTACCAGGATACTTTCA
* *
686730 CGTCGAAGATATACCCCTAAGGGCATTTTAGTAATTTTTCTAGAATCG
257 CATCGAAGATATA-CCCTAAGGGCATTTTAGTAATTTTTCTAGAACCG
*
686778 AGT-CTTAGATTATCACCA
1 AGTCCTAAG-TTATCACCA
686796 AGTCCGTTTT
Statistics
Matches: 548, Mismatches: 67, Indels: 32
0.85 0.10 0.05
Matches are distributed among these distances:
304 3 0.01
305 90 0.16
306 133 0.24
307 292 0.53
308 30 0.05
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (303 bp):
AGTCCTAAGTTATCACCAGGTATGCTTCTATGCCGAAGGTGTACGTTTAGGATAGGTTCATCCCT
TTTCATTTTTAAGTCTTTTAGGGTTATCGGGATACTTTCACGTCGAAAGTATACCCATAGGGGCA
TTTTCATAATTTTTTAAAATCGAGTCCTAGGTTATCATCGGGTATGCTTTTCTGCCGAAGGTGTA
TGTTTAGGATAGGTTCATCCTTTTCATTTTTAAGTCCTTTAAGGTTACCAGGATACTTTCACATC
GAAGATATACCCTAAGGGCATTTTAGTAATTTTTCTAGAACCG
Found at i:686640 original size:460 final size:459
Alignment explanation
Indices: 685763--686792 Score: 1269
Period size: 460 Copynumber: 2.2 Consensus size: 459
685753 TAGGGTAAAA
* * * ***
685763 TCAT-CCTTTTCCATTTTTAAGTGCTTTAGGGTTATCGAGATACTTTCACATCGAAGGTATAGTT
1 TCATCCCTTTT-CATTTTTAAGTCCTTTAGGGTTATCGAGATACTTTCACGTCGAAAGTATACCC
* * * * ** *
685827 GT-GGGGATATTTTGGTAATTTTAATAAAATTAAGTCCTAGGTTATCATCAGATATGCTTCTATG
65 ATAAGGG-TATTTTAGTAATTTT-TTAAAATCGAGTCTTAGGTTATCATCAGATATGCTTCTATG
** * * * * *
685891 CTGAGGGTGTACGTTTAGGATAGGTTCATCCTTTTTCCTTTTTTAAGTCTTTTAGAGTTATTAGG
128 CCAAAGGTGTACGTTTAGGATAGGTTCATCCATTTTCCATTTTTAAGTCCTTTAGAGTTACTAGG
* * * * * *
685956 ATACTTTCACGTCGAAGGTATACCCATAGGGGCATTTTCATAATTTTCTTAGAACCGAGTCCTAG
193 ATACTTTCACATCGAAGATATACCCACAAGGGCATTTTCATAATTTTCTTAGAACCAAATCCTAG
*
686021 GTTATCACCAGGTATGCTTCTCTGCCGAAGGTGTACATTTAGGATAGGTTCATCTCTTTTCATTT
258 GTTATCACCAGGTATGCTTCTCTGCCGAAGGTGTACATTTAGAATAGGTTCATCTCTTTTCATTT
*
686086 TTAAGTCCTTTAAGGTTACCGGGATACTTTCACATCGAAAGTATACCTCTAAGGACATTTCAATA
323 TTAAGTCCTTTAAGGTTACCGGGATACTTTCACATCGAAAGTATACCTATAAGGACATTTCAATA
* *
686151 ATTTTCCTAGAACCGAGTCCTAAGTTATCACCAGGTATG-TTTCTATGCCGAAGGTGTACATTTA
388 ATTTTCCAAGAACCGAGTCCTAAGTTATCACCAGGTATGCTTCCT-TGCCGAAGGTGTACATTTA
686215 GGATAGGT
452 GGATAGGT
* * *
686223 TCATCCCTTTTCATTTTTAAGTTCTTTAGGGTTATCGGGATATTTTCACGTCGAAAGTATACCCA
1 TCATCCCTTTTCATTTTTAAGTCCTTTAGGGTTATCGAGATACTTTCACGTCGAAAGTATACCCA
* * *
686288 TAAGGGTATTTTTGTAATTTTTTAAAATCGAGTCTTAGGTTATCATCGGGTATGCTTTTTCTA-G
66 TAAGGGTATTTTAGTAATTTTTTAAAATCGAGTCTTAGGTTATCATCAGATATGC---TTCTATG
*
686352 CCAAAGGTGTATGTTTAGGATAGGTTCATCCATTTT-CATTTTTAAGTCCTTTAG-GTTTACTAG
128 CCAAAGGTGTACGTTTAGGATAGGTTCATCCATTTTCCATTTTTAAGTCCTTTAGAG-TTACTAG
*
686415 GATACTTTCACATCGAAGATATACCCACAAGGGCATTTT-AGTCATTTT-TCTAGAACCAAATCC
192 GATACTTTCACATCGAAGATATACCCACAAGGGCATTTTCA-TAATTTTCT-TAGAACCAAATCC
* *
686478 TAGGTTATCACTAGGTATGCTTCTCTGCCGAAGGTGTACGTTTAGAATAGGTTCAT-TCCTTTTC
255 TAGGTTATCACCAGGTATGCTTCTCTGCCGAAGGTGTACATTTAGAATAGGTTCATCT-CTTTTC
* * * * * *
686542 ATTTTTAAGTCTTTTAGGGTTATCGGGATACTTTCACGTC-AAAGGTATATCC-ATAGGGGCATT
319 ATTTTTAAGTCCTTTAAGGTTACCGGGATACTTTCACATCGAAA-GTATA-CCTATAAGGACA-T
* * * *** *
686605 TTC-ATAATTTTTCAAGAATCGAGTCCTAGGTTATCATGGGGTATGCTTCCTTGCCGAAGGTGTT
381 TTCAATAATTTTCCAAGAACCGAGTCCTAAGTTATCACCAGGTATGCTTCCTTGCCGAAGGTGTA
**
686669 TGTTTAGGATAGGT
446 CATTTAGGATAGGT
* *
686683 TCATCCCTTTTCATTTTTAAGTCCTTTAAGGTTA-CAAGATACTTTCACGTCG-AAGATATACCC
1 TCATCCCTTTTCATTTTTAAGTCCTTTAGGGTTATCGAGATACTTTCACGTCGAAAG-TATACCC
* * * *
686746 CTAAGGGCATTTTAGTAATTTTTCTAGAATCGAGTCTTAGATTATCA
65 ATAAGGGTATTTTAGTAATTTTT-TAAAATCGAGTCTTAGGTTATCA
686793 CCAAGTCCGT
Statistics
Matches: 492, Mismatches: 63, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
458 3 0.01
459 77 0.16
460 356 0.72
461 51 0.10
462 5 0.01
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (459 bp):
TCATCCCTTTTCATTTTTAAGTCCTTTAGGGTTATCGAGATACTTTCACGTCGAAAGTATACCCA
TAAGGGTATTTTAGTAATTTTTTAAAATCGAGTCTTAGGTTATCATCAGATATGCTTCTATGCCA
AAGGTGTACGTTTAGGATAGGTTCATCCATTTTCCATTTTTAAGTCCTTTAGAGTTACTAGGATA
CTTTCACATCGAAGATATACCCACAAGGGCATTTTCATAATTTTCTTAGAACCAAATCCTAGGTT
ATCACCAGGTATGCTTCTCTGCCGAAGGTGTACATTTAGAATAGGTTCATCTCTTTTCATTTTTA
AGTCCTTTAAGGTTACCGGGATACTTTCACATCGAAAGTATACCTATAAGGACATTTCAATAATT
TTCCAAGAACCGAGTCCTAAGTTATCACCAGGTATGCTTCCTTGCCGAAGGTGTACATTTAGGAT
AGGT
Found at i:687531 original size:48 final size:48
Alignment explanation
Indices: 687464--687555 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
687454 TTTGGGTAGG
*
687464 TTCAAGTTCGGGCTCGTTCGGGTTCAGGCTCATTC-AGGTTTGGGCTCA
1 TTCAAGTTCAGGCTCGTTCGGGTTCAGGCTCATTCGA-GTTTGGGCTCA
* * * *
687512 TTCAAGTTTAGGCTTGTTCGGGTTCGGGCTTATTCGAGTTTGGG
1 TTCAAGTTCAGGCTCGTTCGGGTTCAGGCTCATTCGAGTTTGGG
687556 TTTATTTGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
48 37 0.97
49 1 0.03
ACGTcount: A:0.12, C:0.18, G:0.33, T:0.37
Consensus pattern (48 bp):
TTCAAGTTCAGGCTCGTTCGGGTTCAGGCTCATTCGAGTTTGGGCTCA
Found at i:687567 original size:32 final size:31
Alignment explanation
Indices: 687522--687649 Score: 130
Period size: 32 Copynumber: 4.0 Consensus size: 31
687512 TTCAAGTTTA
* * *
687522 GGCTTGTTCGGGTTCGGGCTTATTCGAGTTTG
1 GGCTTATT-GGGTTCGGGCTTTTTCGAGTTCG
* * *
687554 GGTTTATTTGGGTTCGAGCTTTTTCGGGTTCG
1 GGCTTA-TTGGGTTCGGGCTTTTTCGAGTTCG
*
687586 GGCTTATTGAGGTTCGGGCTTTTTCGAGTTCA
1 GGCTTATTG-GGTTCGGGCTTTTTCGAGTTCG
* * *
687618 GGCTTTTTCAGGTTTGGGCTTTTTCGAGTTCG
1 GGCTTATT-GGGTTCGGGCTTTTTCGAGTTCG
687650 AGTTCGAGTC
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
31 3 0.04
32 74 0.94
33 2 0.03
ACGTcount: A:0.08, C:0.15, G:0.34, T:0.44
Consensus pattern (31 bp):
GGCTTATTGGGTTCGGGCTTTTTCGAGTTCG
Found at i:687580 original size:48 final size:48
Alignment explanation
Indices: 687480--687649 Score: 150
Period size: 48 Copynumber: 3.5 Consensus size: 48
687470 TTCGGGCTCG
* * * ** * * *
687480 TTCGGGTTCAGGCTCATTC-AGGTTTGGGCTCATTCAAGTTTAGGCTTG
1 TTCGGGTTCGGGCTTATTCGA-GTTCGGGCTTTTTCGAGTTCAGGCTTT
* * *
687528 TTCGGGTTCGGGCTTATTCGAGTTTGGG-TTTATTTGGGTTC-GAGCTTT
1 TTCGGGTTCGGGCTTATTCGAGTTCGGGCTTT-TTCGAGTTCAG-GCTTT
687576 TTCGGGTTCGGGCTTATT-GAGGTTCGGGCTTTTTCGAGTTCAGGCTTT
1 TTCGGGTTCGGGCTTATTCGA-GTTCGGGCTTTTTCGAGTTCAGGCTTT
* * *
687624 TTCAGGTTTGGGCTTTTTCGAGTTCG
1 TTCGGGTTCGGGCTTATTCGAGTTCG
687650 AGTTCGAGTC
Statistics
Matches: 100, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
47 4 0.04
48 89 0.89
49 7 0.07
ACGTcount: A:0.10, C:0.16, G:0.32, T:0.42
Consensus pattern (48 bp):
TTCGGGTTCGGGCTTATTCGAGTTCGGGCTTTTTCGAGTTCAGGCTTT
Found at i:687606 original size:16 final size:17
Alignment explanation
Indices: 687469--687649 Score: 105
Period size: 16 Copynumber: 11.3 Consensus size: 17
687459 GTAGGTTCAA
**
687469 GTTCGGGCTCGTTCG-G
1 GTTCGGGCTTATTCGAG
* *
687485 GTTCAGGCTCATTC-AG
1 GTTCGGGCTTATTCGAG
* * *
687501 GTTTGGGCTCATTC-AA
1 GTTCGGGCTTATTCGAG
** *
687517 GTTTAGGCTTGTTCG-G
1 GTTCGGGCTTATTCGAG
687533 GTTCGGGCTTATTCGA-
1 GTTCGGGCTTATTCGAG
* * *
687549 GTTTGGGTTTATTTG-G
1 GTTCGGGCTTATTCGAG
* *
687565 GTTCGAGCTTTTTCG-G
1 GTTCGGGCTTATTCGAG
687581 GTTCGGGCTTATT-GAG
1 GTTCGGGCTTATTCGAG
*
687597 GTTCGGGCTTTTTCGA-
1 GTTCGGGCTTATTCGAG
* *
687613 GTTCAGGCTTTTTC-AG
1 GTTCGGGCTTATTCGAG
* *
687629 GTTTGGGCTTTTTCGA-
1 GTTCGGGCTTATTCGAG
687645 GTTCG
1 GTTCG
687650 AGTTCGAGTC
Statistics
Matches: 130, Mismatches: 27, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
15 2 0.02
16 125 0.96
17 3 0.02
ACGTcount: A:0.09, C:0.17, G:0.33, T:0.41
Consensus pattern (17 bp):
GTTCGGGCTTATTCGAG
Found at i:687816 original size:29 final size:29
Alignment explanation
Indices: 687761--687816 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
687751 ATGATTAAAT
**
687761 TATTAATTTTTAAGTAAATTTTTTTATAC
1 TATTAATTTTTAAGTAAATTTAATTATAC
*
687790 TATTATATTTTTAA-TATATTTAATTAT
1 TATTA-ATTTTTAAGTAAATTTAATTAT
687817 TTATTTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 15 0.65
30 8 0.35
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (29 bp):
TATTAATTTTTAAGTAAATTTAATTATAC
Found at i:687882 original size:18 final size:18
Alignment explanation
Indices: 687843--687882 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
687833 ATATTTATAT
*
687843 ATAAAATTAATTTGTTAT
1 ATAAAATTAATTTGTTAA
687861 ATAAAATTAATTT-TTCAA
1 ATAAAATTAATTTGTT-AA
687879 ATAA
1 ATAA
687883 TTTATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (18 bp):
ATAAAATTAATTTGTTAA
Done.