Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008319.1 Hibiscus syriacus cultivar Beakdansim tig00111022_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4819703
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 21
Found at i:529655 original size:112 final size:112
Alignment explanation
Indices: 529381--529954 Score: 880
Period size: 112 Copynumber: 5.1 Consensus size: 112
529371 TCGGTTTGTA
* * * *
529381 TCGATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAACCAGT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGT
* *
529446 TTATAAATGACAAAACAGGTTAAA-CGCTATCGGATATATTGAAAGTG
66 CTATAAATGACAAAACAGG-TAAAGCGCTACCGGATATATTGAAAGTG
* * * * * * * *
529493 TTGATACTTTATTAAAATATATTGATCCATAACAATATAACAAGTAAAAAAAATAAAAAAATCGG
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAACCGG
* *
529558 TCTATAAATGACAAAACAGGTAAAACGCTATCGGATATATTGAAAGTG
65 TCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
*
529606 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGAT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGT
*
529671 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTA
66 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
*
529718 TCGATACTTTATAAAAATGTATCGATCCATAACAATACAACAGGTAAAAAAAATGACAAAACCGG
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAACCGG
*
529783 TCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTA
65 TCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
* *
529831 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATAACAAAACCGAT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGT
* * * *
529896 TTATAAATGACAAAACAGGTAAAGCGATACCGAATATATTGATAGTG
66 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
529943 TCGATACTTTAT
1 TCGATACTTTAT
529955 TATAAGTATC
Statistics
Matches: 430, Mismatches: 29, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
112 223 0.52
113 207 0.48
ACGTcount: A:0.48, C:0.14, G:0.13, T:0.25
Consensus pattern (112 bp):
TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGT
CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
Found at i:529786 original size:225 final size:225
Alignment explanation
Indices: 529378--529954 Score: 924
Period size: 225 Copynumber: 2.6 Consensus size: 225
529368 TTGTCGGTTT
* * *
529378 GTATCGATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
1 GTATCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * *
529443 -AGTTTATAAATGACAAAACAGGTTAAA-CGCTATCGGATATATTGAAAGTGTTGATACTTTATT
66 GA-TTTATAAATGACAAAACAGG-TAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATA
* * *
529506 AAAATATATTGATCCATAACAATATAACAAGTAAAAAAAATAAAAAAATCGGTCTATAAATGACA
129 AAAATATATCGATCCATAACAATACAACAAGTAAAAAAAATAAAAAAACCGGTCTATAAATGACA
*
529571 AAACAGGTAAAACGCTATCGGATATATTGAAA
194 AAACAGGTAAAACGCTACCGGATATATTGAAA
*
529603 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTATCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
529668 GATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTATCGATACTTTATAAA
66 GATTTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAA
* * * *
529733 AATGTATCGATCCATAACAATACAACAGGTAAAAAAAATGACAAAACCGGTCTATAAATGACAAA
131 AATATATCGATCCATAACAATACAACAAGTAAAAAAAATAAAAAAACCGGTCTATAAATGACAAA
*
529798 ACAGGTAAAGCGCTACCGGATATATTGAAA
196 ACAGGTAAAACGCTACCGGATATATTGAAA
*
529828 GTATCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATAACAAAACC
1 GTATCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * *
529893 GATTTATAAATGACAAAACAGGTAAAGCGATACCGAATATATTGATAGTGTCGATACTTTAT
66 GATTTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAT
529955 TATAAGTATC
Statistics
Matches: 325, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
224 4 0.01
225 320 0.98
226 1 0.00
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (225 bp):
GTATCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GATTTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAA
AATATATCGATCCATAACAATACAACAAGTAAAAAAAATAAAAAAACCGGTCTATAAATGACAAA
ACAGGTAAAACGCTACCGGATATATTGAAA
Found at i:530138 original size:182 final size:182
Alignment explanation
Indices: 529825--530280 Score: 716
Period size: 182 Copynumber: 2.5 Consensus size: 182
529815 GGATATATTG
* * *
529825 AAAGTATCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATAACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* * ** * * *
529890 ACCGATTTATAAATGACAAAACAGGTAAAGCGATACCGAATATATTGATAGTGTCGATACTTTAT
66 ACTGGTTTCGAAATGACAAAACCGGTAAAGAGATACCGAATATATTGAAAGTGTCGATACTTTAT
* *
529955 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAATTATAGCGCTAAT
131 TATAAGTATCAACACTTTTGGAATTTAAAAGAAAAGAAATTATAGCGCTAAT
* *
530007 AAAGTGTCGATACTTTATAAAAATATATCGATCTATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* * * * *
530072 ACTGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATATTTTAT
66 ACTGGTTTCGAAATGACAAAACCGGTAAAGAGATACCGAATATATTGAAAGTGTCGATACTTTAT
*
530137 TATAAGTATCAACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAAT
131 TATAAGTATCAACACTTTTGGAATTTAAAAGAAAAGAAATTATAGCGCTAAT
530189 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
530254 A-TCGGTTTCGAAATGACAAAACCGGTA
66 ACT-GGTTTCGAAATGACAAAACCGGTA
530281 GTAAAAAAGT
Statistics
Matches: 250, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
181 1 0.00
182 249 1.00
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
ACTGGTTTCGAAATGACAAAACCGGTAAAGAGATACCGAATATATTGAAAGTGTCGATACTTTAT
TATAAGTATCAACACTTTTGGAATTTAAAAGAAAAGAAATTATAGCGCTAAT
Found at i:531189 original size:21 final size:21
Alignment explanation
Indices: 531163--531205 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
531153 CCCAGAATGG
*
531163 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
531184 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
531205 A
1 A
531206 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:531394 original size:35 final size:34
Alignment explanation
Indices: 531322--531402 Score: 144
Period size: 34 Copynumber: 2.4 Consensus size: 34
531312 CATGCAGGAA
*
531322 GAATCTGTACCCGGGGAATCGATACCCCTGGGGG
1 GAATCTGTTCCCGGGGAATCGATACCCCTGGGGG
531356 GAATCTGTTCCCGGGGAATCGATACCACCTGGGGG
1 GAATCTGTTCCCGGGGAATCGATACC-CCTGGGGG
531391 GAATCTGTTCCC
1 GAATCTGTTCCC
531403 CCTGGGGGGA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
34 25 0.56
35 20 0.44
ACGTcount: A:0.20, C:0.27, G:0.32, T:0.21
Consensus pattern (34 bp):
GAATCTGTTCCCGGGGAATCGATACCCCTGGGGG
Found at i:531424 original size:20 final size:20
Alignment explanation
Indices: 531334--531427 Score: 87
Period size: 20 Copynumber: 5.0 Consensus size: 20
531324 ATCTGTACCC
531334 GGGGAATC-GATA-CCCCTGG
1 GGGGAATCTG-TACCCCCTGG
*
531353 GGGGAATCTGT--TCCC---
1 GGGGAATCTGTACCCCCTGG
*
531368 GGGGAATC-GATACCACCTGG
1 GGGGAATCTG-TACCCCCTGG
*
531388 GGGGAATCTGTTCCCCCTGG
1 GGGGAATCTGTACCCCCTGG
531408 GGGGAATCTGTACCCCCTGG
1 GGGGAATCTGTACCCCCTGG
531428 ACAATCTGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
14 1 0.02
15 9 0.15
17 2 0.03
18 3 0.05
19 9 0.15
20 36 0.59
21 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.35, T:0.20
Consensus pattern (20 bp):
GGGGAATCTGTACCCCCTGG
Found at i:531800 original size:14 final size:14
Alignment explanation
Indices: 531768--531800 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
531758 AATTACTCCC
531768 CCTT-ACTTTAACA
1 CCTTCACTTTAACA
531781 -CTTCACTTTAACA
1 CCTTCACTTTAACA
531794 CCTTCAC
1 CCTTCAC
531801 ACTTCTCCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.17
13 9 0.50
14 6 0.33
ACGTcount: A:0.27, C:0.36, G:0.00, T:0.36
Consensus pattern (14 bp):
CCTTCACTTTAACA
Found at i:532906 original size:19 final size:20
Alignment explanation
Indices: 532863--532910 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
532853 TCTAAATCCT
*
532863 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
532883 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
532902 TTTTCAAAA
1 TTTTCAAAA
532911 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:534350 original size:19 final size:20
Alignment explanation
Indices: 534326--534372 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
534316 ATCTATTCTC
534326 GGGGAATCAATACCCCCT-G
1 GGGGAATCAATACCCCCTGG
** *
534345 GGGGAATCTGTTCCCCCTGG
1 GGGGAATCAATACCCCCTGG
534365 GGGGAATC
1 GGGGAATC
534373 TGTACCTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.19, C:0.28, G:0.34, T:0.19
Consensus pattern (20 bp):
GGGGAATCAATACCCCCTGG
Found at i:534383 original size:20 final size:20
Alignment explanation
Indices: 534326--534384 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
534316 ATCTATTCTC
**
534326 GGGGAATCAATACCCCCT-G
1 GGGGAATCTGTACCCCCTGG
*
534345 GGGGAATCTGTTCCCCCTGG
1 GGGGAATCTGTACCCCCTGG
*
534365 GGGGAATCTGTACCTCCTGG
1 GGGGAATCTGTACCCCCTGG
534385 ACAATCTGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.17, C:0.29, G:0.32, T:0.22
Consensus pattern (20 bp):
GGGGAATCTGTACCCCCTGG
Found at i:535012 original size:23 final size:23
Alignment explanation
Indices: 534977--535024 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
534967 AAATATGTCA
* * *
534977 ATATAAGCGCTACCTATTACATT
1 ATATAAACACTACCTAATACATT
*
535000 ATATAAACACTACCTAATATATT
1 ATATAAACACTACCTAATACATT
535023 AT
1 AT
535025 TGTACTTGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (23 bp):
ATATAAACACTACCTAATACATT
Found at i:536413 original size:20 final size:20
Alignment explanation
Indices: 536365--536426 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 20
536355 AACTTAAATC
*
536365 AAAATAATTAAAATAA-ATAT
1 AAAATAATT-TAATAATATAT
536385 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAATATAT
536403 AAAATAATTT-AT-ATGATAT
1 AAAATAATTTAATAAT-ATAT
536422 AAAAT
1 AAAAT
536427 TAAATATCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 5 0.14
18 13 0.35
19 11 0.30
20 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATAATTTAATAATATAT
Found at i:536460 original size:64 final size:59
Alignment explanation
Indices: 536391--536556 Score: 163
Period size: 63 Copynumber: 2.6 Consensus size: 59
536381 ATATAAAATT
536391 TTAATAA-TATATAAAATAATTTATATGATATAAAATTAAATATCTATAATATAATATTAAAAAA
1 TTAATAATTATATAAAA-AA-TTA-AT-AT-TAAAATT-AATATCTATAATATAATATTAAAAAA
*
536455 TTAATATTTAATTTATTTAAAAAATTAATATTAAAATTAATATCTATAATATAATATTAAAAAA
1 TT-A-A--TAA-TTATATAAAAAATTAATATTAAAATTAATATCTATAATATAATATTAAAAAA
* *
536519 TAATATTTAATTTATTTAAAAAATTAATATTAAAATTA
1 T--TA-ATAA-TTATATAAAAAATTAATATTAAAATTA
536557 TTTAAAAAAT
Statistics
Matches: 92, Mismatches: 2, Indels: 17
0.83 0.02 0.15
Matches are distributed among these distances:
63 31 0.34
64 29 0.32
65 10 0.11
66 4 0.04
67 2 0.02
68 6 0.07
69 2 0.02
70 8 0.09
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (59 bp):
TTAATAATTATATAAAAAATTAATATTAAAATTAATATCTATAATATAATATTAAAAAA
Found at i:536497 original size:36 final size:40
Alignment explanation
Indices: 536441--536525 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 40
536431 TATCTATAAT
*
536441 ATAATATTAAAAAATTAATAT-T-TAAT-TTAT-TTAAAAA
1 ATAATATT-AAAAATTAATATCTATAATATAATATTAAAAA
536478 ATTAATATT-AAAATTAATATCTATAATATAATATTAAAAA
1 A-TAATATTAAAAATTAATATCTATAATATAATATTAAAAA
536518 ATAATATT
1 ATAATATT
536526 TAATTTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
36 11 0.26
37 2 0.05
38 11 0.26
39 10 0.24
40 8 0.19
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (40 bp):
ATAATATTAAAAATTAATATCTATAATATAATATTAAAAA
Found at i:536540 original size:63 final size:64
Alignment explanation
Indices: 536421--536556 Score: 256
Period size: 63 Copynumber: 2.1 Consensus size: 64
536411 TTATATGATA
536421 TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATT-AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
536486 TAAAATTAATATCTATAATATAATATTAAAAAA-TAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
536549 TAAAATTA
1 TAAAATTA
536557 TTTAAAAAAT
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
63 38 0.54
64 26 0.37
65 7 0.10
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (64 bp):
TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
Found at i:536541 original size:23 final size:24
Alignment explanation
Indices: 536487--536580 Score: 118
Period size: 24 Copynumber: 3.8 Consensus size: 24
536477 AATTAATATT
*
536487 AAAATTAATATCTATAATATAATATTAA
1 AAAATTAATAT-TA-AA-ATTAT-TTAA
* *
536515 AAAA-TAATATTTAATTTATTTAA
1 AAAATTAATATTAAAATTATTTAA
536538 AAAATTAATATTAAAATTATTTAA
1 AAAATTAATATTAAAATTATTTAA
536562 AAAATTAATATTAAAATTA
1 AAAATTAATATTAAAATTA
536581 AAATCAAATA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
23 8 0.13
24 39 0.65
25 2 0.03
26 1 0.02
27 6 0.10
28 4 0.07
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (24 bp):
AAAATTAATATTAAAATTATTTAA
Found at i:536563 original size:10 final size:12
Alignment explanation
Indices: 536421--536604 Score: 96
Period size: 12 Copynumber: 14.8 Consensus size: 12
536411 TTATATGATA
536421 TAAAATTAAATAT
1 TAAAATT-AATAT
*
536434 CTATAATATAATAT
1 -TAAAAT-TAATAT
536448 TAAAAAATTAATAT
1 T--AAAATTAATAT
* *
536462 T-TAATTTAT-T
1 TAAAATTAATAT
536472 TAAAAAATTAATAT
1 T--AAAATTAATAT
536486 TAAAATTAATAT
1 TAAAATTAATAT
*
536498 CTATAATATAATAT
1 -TAAAAT-TAATAT
*
536512 TAAAAAATAATAT
1 T-AAAATTAATAT
* *
536525 T-TAATTTAT-T
1 TAAAATTAATAT
536535 TAAAAAATTAATAT
1 T--AAAATTAATAT
536549 TAAAATT-AT-T
1 TAAAATTAATAT
536559 TAAAAAATTAATAT
1 T--AAAATTAATAT
*
536573 TAAAATTAA-AA
1 TAAAATTAATAT
*
536584 TCAAATATAATA-
1 TAAAAT-TAATAT
536596 TAAAATTAA
1 TAAAATTAA
536605 ATATAAAACC
Statistics
Matches: 133, Mismatches: 17, Indels: 43
0.69 0.09 0.22
Matches are distributed among these distances:
10 6 0.05
11 22 0.17
12 39 0.29
13 29 0.22
14 32 0.24
15 5 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATTAATAT
Found at i:536607 original size:12 final size:12
Alignment explanation
Indices: 536538--536612 Score: 59
Period size: 12 Copynumber: 6.3 Consensus size: 12
536528 ATTTATTTAA
536538 AAAATT-AATATT
1 AAAATTAAATA-T
** *
536550 AAAATTATTTAA
1 AAAATTAAATAT
536562 AAAATT-AATATT
1 AAAATTAAATA-T
536574 AAAATTAAA-AT
1 AAAATTAAATAT
*
536585 CAAA-TATAATAT
1 AAAATTA-AATAT
536597 AAAATTAAATAT
1 AAAATTAAATAT
536609 AAAA
1 AAAA
536613 CCTCTTTGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
10 2 0.04
11 8 0.16
12 33 0.67
13 6 0.12
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:536607 original size:87 final size:91
Alignment explanation
Indices: 536413--536607 Score: 269
Period size: 87 Copynumber: 2.2 Consensus size: 91
536403 AAAATAATTT
* * * *
536413 ATATGATATAAAATTAAAT-ATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAA
1 ATATAATATAAAATTAAATAATATATAATATAATATTAAAAAATTAATATTAAAATTATTTAAAA
*
536477 AATTAATATTAAAATTAATATCTATA
66 AATTAATATTAAAATTAAAATCTATA
* * *
536503 ATATAATATTAAA--AAATAATATTTAAT-TTAT-TTAAAAAATTAATATTAAAATTATTTAAAA
1 ATATAATATAAAATTAAATAATATATAATATAATATTAAAAAATTAATATTAAAATTATTTAAAA
536564 AATTAATATTAAAATTAAAATC-A-A
66 AATTAATATTAAAATTAAAATCTATA
536588 ATATAATATAAAATTAAATA
1 ATATAATATAAAATTAAATA
536608 TAAAACCTCT
Statistics
Matches: 93, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
85 13 0.14
86 1 0.01
87 54 0.58
88 7 0.08
89 7 0.08
90 11 0.12
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.41
Consensus pattern (91 bp):
ATATAATATAAAATTAAATAATATATAATATAATATTAAAAAATTAATATTAAAATTATTTAAAA
AATTAATATTAAAATTAAAATCTATA
Found at i:540505 original size:32 final size:36
Alignment explanation
Indices: 540469--540540 Score: 89
Period size: 37 Copynumber: 2.1 Consensus size: 36
540459 AAAATAATTT
*
540469 TAAATAATT-T-AATA-AGGTT-ATTTATTTTAAAA
1 TAAATAATTATAAATATAGATTGATTTATTTTAAAA
*
540501 TAAATTATTATAAAATATAGATTGATTTATTTTAAAA
1 TAAATAATTAT-AAATATAGATTGATTTATTTTAAAA
540538 TAA
1 TAA
540541 TTTATTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
32 8 0.24
33 1 0.03
35 4 0.12
36 4 0.12
37 16 0.48
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (36 bp):
TAAATAATTATAAATATAGATTGATTTATTTTAAAA
Found at i:540554 original size:14 final size:15
Alignment explanation
Indices: 540525--540560 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
540515 ATATAGATTG
540525 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
540540 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
540554 ATTTATT
1 ATTTATT
540561 AGTATGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:540576 original size:32 final size:31
Alignment explanation
Indices: 540538--540637 Score: 101
Period size: 32 Copynumber: 3.5 Consensus size: 31
540528 TATTTTAAAA
540538 TAATTTATTTTAAATAATTTATTAGTATGTAT
1 TAATTTATTTTAAATAATTTATTAGTATG-AT
540570 TAATTTATTTT-AA-AA--TA-T-G---GAT
1 TAATTTATTTTAAATAATTTATTAGTATGAT
*
540592 TGATTTATTTTAAATAATTTATTAGTATGGAT
1 TAATTTATTTTAAATAATTTATTAGTAT-GAT
*
540624 TGATTTATTTTAAA
1 TAATTTATTTTAAA
540638 ATATGGATTG
Statistics
Matches: 57, Mismatches: 1, Indels: 20
0.73 0.01 0.26
Matches are distributed among these distances:
22 12 0.21
23 3 0.05
24 2 0.04
26 3 0.05
27 2 0.04
28 3 0.05
30 2 0.04
31 2 0.04
32 28 0.49
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (31 bp):
TAATTTATTTTAAATAATTTATTAGTATGAT
Found at i:540588 original size:22 final size:22
Alignment explanation
Indices: 540563--540605 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
540553 AATTTATTAG
*
540563 TATGTATTAATTTATTTTAAAA
1 TATGGATTAATTTATTTTAAAA
*
540585 TATGGATTGATTTATTTTAAA
1 TATGGATTAATTTATTTTAAA
540606 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (22 bp):
TATGGATTAATTTATTTTAAAA
Found at i:540605 original size:54 final size:54
Alignment explanation
Indices: 540540--540941 Score: 389
Period size: 54 Copynumber: 7.4 Consensus size: 54
540530 TTTTAAAATA
*
540540 ATTTATTTTAAATAATTTATTAGTATGTATTAATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTG
*
540594 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTG
* * *
540648 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTA-TTAGTATGTATTGATTTATTTTAAAATATGGATTG
* * * * * * ***
540692 A-TTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 ATTTA-TTTTAAATAATTTA--TT--AGTATGTATTGATTTA-T-TT-TA-AAATATGGATTG
* *
540754 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTA
1 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTG
* ***
540808 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATAATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTAT--TT-TA-AAATATGGATTG
*
540866 ATTTATTTTAAATAATTTATTAGTATAG-ATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GTATTGATTTATTTTAAAATATGGATTG
540920 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
540942 TTGTAGTTGT
Statistics
Matches: 291, Mismatches: 31, Indels: 52
0.78 0.08 0.14
Matches are distributed among these distances:
43 3 0.01
44 4 0.01
46 1 0.00
47 5 0.02
48 23 0.08
49 2 0.01
50 5 0.02
51 2 0.01
52 2 0.01
54 146 0.50
55 5 0.02
56 8 0.03
57 4 0.01
58 59 0.20
59 3 0.01
60 2 0.01
62 14 0.05
63 3 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTG
Found at i:540631 original size:18 final size:18
Alignment explanation
Indices: 540608--540655 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
540598 ATTTTAAATA
*
540608 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
540626 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
540648 ATTTATTA
1 ATTTATTA
540656 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:540676 original size:80 final size:80
Alignment explanation
Indices: 540585--540814 Score: 442
Period size: 80 Copynumber: 2.9 Consensus size: 80
540575 TATTTTAAAA
540585 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
540650 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
540665 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
540730 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
540745 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
540810 TTATT
66 TTATT
540815 TTAAATAATT
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 147 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.53
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:540785 original size:32 final size:32
Alignment explanation
Indices: 540744--540909 Score: 168
Period size: 32 Copynumber: 5.7 Consensus size: 32
540734 TATTGTAGTT
540744 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
540776 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
540799 -TATGGATTAATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
540830 GTATGAATTGATTTA---T-AAT--TGTAGTT-
1 GTATGGATTGATTTATTTTAAATAATTTA-TTA
540856 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
540888 GTATAGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
540910 ATATGAATTG
Statistics
Matches: 109, Mismatches: 7, Indels: 36
0.72 0.05 0.24
Matches are distributed among these distances:
22 13 0.12
23 4 0.04
25 1 0.01
26 20 0.18
27 2 0.02
28 6 0.06
29 3 0.03
30 3 0.03
31 6 0.06
32 51 0.47
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:540829 original size:22 final size:22
Alignment explanation
Indices: 540777--540819 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
540767 AATTTATTAG
*
540777 TATGGATTGATTTATTTTAAAA
1 TATGGATTAATTTATTTTAAAA
540799 TATGGATTAATTTATTTTAAA
1 TATGGATTAATTTATTTTAAA
540820 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGGATTAATTTATTTTAAAA
Found at i:540868 original size:160 final size:159
Alignment explanation
Indices: 540585--540877 Score: 418
Period size: 160 Copynumber: 1.8 Consensus size: 159
540575 TATTTTAAAA
*
540585 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAAT
* * *
540650 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
66 TTATTATTATAATTGTATGGATTGATTGATTTT-AATAATTTATTAGTATGAATTGATTTATTTT
540715 AAAATATGGATTGATTTATTATTGTAGTTG
130 AAAATATGGATTGATTTATTATTGTAGTTG
540745 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAAT
* *
540810 TTATT-TTAAATAATT-TAT-TAGTATGAATTGA-TTT-ATAATTGTAGTT-GTATGGATTGATT
66 TTATTATT--ATAATTGTATGGA-T-TG-ATTGATTTTAATAATT-TA-TTAGTATGAATTGATT
540869 TATTTTAAA
124 TATTTTAAA
540878 TAATTTATTA
Statistics
Matches: 120, Mismatches: 6, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
159 9 0.08
160 96 0.80
161 11 0.09
162 4 0.03
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (159 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAAT
TTATTATTATAATTGTATGGATTGATTGATTTTAATAATTTATTAGTATGAATTGATTTATTTTA
AAATATGGATTGATTTATTATTGTAGTTG
Found at i:540940 original size:112 final size:111
Alignment explanation
Indices: 540540--540941 Score: 474
Period size: 112 Copynumber: 3.7 Consensus size: 111
540530 TTTTAAAATA
* * *
540540 ATTTATTTTAAATAATTTATTAGTATGTATTAATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTTTAA
***
540605 ATAATTTATTAGTATGGATTGATTTAT-TT-TA-AAATATGGATTG
66 ATAATTTATTAGTATGGATTGATTTATATTGTAGTTGTATGGATTG
* * * *
540648 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT--AA-AT-AATTTA-TTAGTATG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTA-TTTT
* * *
540701 AATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
64 AAATAATTTA--TT--AGTATGGATTGATTTA-TATTGTAGTTGTATGGATTG
* *
540754 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTTTAA
*
540819 ATAATTTATTAGTATGAATTGATTTATAATTGTAGTTGTATGGATTG
66 ATAATTTATTAGTATGGATTGATTTAT-ATTGTAGTTGTATGGATTG
*
540866 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGAATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTTTAA
540931 ATAATTTATTA
66 ATAATTTATTA
540942 TTGTAGTTGT
Statistics
Matches: 246, Mismatches: 25, Indels: 42
0.79 0.08 0.13
Matches are distributed among these distances:
97 3 0.01
98 14 0.06
99 2 0.01
100 4 0.02
102 35 0.14
103 3 0.01
104 4 0.02
105 2 0.01
106 16 0.07
108 7 0.03
110 2 0.01
111 3 0.01
112 128 0.52
114 4 0.02
115 2 0.01
116 14 0.06
117 3 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (111 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTTTAA
ATAATTTATTAGTATGGATTGATTTATATTGTAGTTGTATGGATTG
Found at i:540991 original size:31 final size:31
Alignment explanation
Indices: 540956--541014 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
540946 AGTTGTATGG
*
540956 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGTAAAACTAAA
540987 ATTATTTAAATCTCAGTATTGTAAAACT
1 ATTATTTAAATCTCAGTATTGTAAAACT
541015 TTTTTAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGTAAAACTAAA
Found at i:541021 original size:26 final size:28
Alignment explanation
Indices: 540956--541021 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 28
540946 AGTTGTATGG
*
540956 ATTATTTAAATTTCAGTATTGTAAAACT
1 ATTATTTAAATCTCAGTATTGTAAAACT
540984 AAAATTATTTAAATCTCAGTATTGTAAAACT
1 ---ATTATTTAAATCTCAGTATTGTAAAACT
541015 -TT-TTTAA
1 ATTATTTAA
541022 GTTTAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
26 5 0.15
27 2 0.06
31 27 0.79
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (28 bp):
ATTATTTAAATCTCAGTATTGTAAAACT
Found at i:542558 original size:21 final size:22
Alignment explanation
Indices: 542519--542559 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
542509 TTTTATTTTA
*
542519 TTTATTTAACTTGAGAATTAAG
1 TTTATTTAACTTGACAATTAAG
*
542541 TTTATTT-ATTTGACAATTA
1 TTTATTTAACTTGACAATTA
542560 CAACATTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (22 bp):
TTTATTTAACTTGACAATTAAG
Found at i:553504 original size:15 final size:16
Alignment explanation
Indices: 553466--553505 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
553456 TATGTTATTG
*
553466 ATTCATATTAGTTATAT
1 ATTCAT-TTAGATATAT
553483 ATTCATTTAGATATAT
1 ATTCATTTAGATATAT
553499 -TTCATTT
1 ATTCATTT
553506 CATTCATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.32
16 9 0.41
17 6 0.27
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (16 bp):
ATTCATTTAGATATAT
Found at i:554685 original size:32 final size:32
Alignment explanation
Indices: 554644--554707 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
554634 ATCCTACATC
554644 AAACGTCAAAAAGGCAAAACAAGCATGATCAT
1 AAACGTCAAAAAGGCAAAACAAGCATGATCAT
*
554676 AAACGTCAAAAAGGCAAATCAAGCATGATCAT
1 AAACGTCAAAAAGGCAAAACAAGCATGATCAT
554708 GCACTTGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.52, C:0.19, G:0.16, T:0.14
Consensus pattern (32 bp):
AAACGTCAAAAAGGCAAAACAAGCATGATCAT
Found at i:557848 original size:19 final size:20
Alignment explanation
Indices: 557826--557867 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
557816 AAACAATTAC
* *
557826 AAATATGCCA-AAAGACAAA
1 AAATATACCATAAAAACAAA
*
557845 AAATTTACCATAAAAACAAA
1 AAATATACCATAAAAACAAA
557865 AAA
1 AAA
557868 AAATGTGTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.67, C:0.14, G:0.05, T:0.14
Consensus pattern (20 bp):
AAATATACCATAAAAACAAA
Found at i:560047 original size:20 final size:20
Alignment explanation
Indices: 559999--560048 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
559989 ATTTATATAA
*
559999 AAATTAAATATTTTATAATT
1 AAATTAAATAGTTTATAATT
**
560019 AAAAAAAATAGTTTATAATT
1 AAATTAAATAGTTTATAATT
*
560039 AATTTAAATA
1 AAATTAAATA
560049 ACATATAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
AAATTAAATAGTTTATAATT
Found at i:560319 original size:186 final size:186
Alignment explanation
Indices: 559992--560383 Score: 633
Period size: 186 Copynumber: 2.1 Consensus size: 186
559982 TTTTCTAATT
* * * * *
559992 TATATAA-AAATTAAATATTTTATAATTAAAAAAAATAGTTTATAATTAATTTAAATAACATATA
1 TATATAATATATTTAATATTTTATAATTAAAAAAAATAATTTACAATTAATTCAAATAACATATA
**
560056 ATTATAAAATAAAAATTTTATATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
66 ATTATAAAATAAAAATTTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
* *
560121 TTGGATCTTAAATTATTAATTGGGTTTTAAATAGTTTGGGCTAAGCCCATATGTTA
131 TTGGATCTTAAATTATTAATTAGATTTTAAATAGTTTGGGCTAAGCCCATATGTTA
* * * *
560177 TATATAATATATTTAATATTTTTTAATTCATAAAAATAATTTACAATTAATTCAAATAATATATA
1 TATATAATATATTTAATATTTTATAATTAAAAAAAATAATTTACAATTAATTCAAATAACATATA
560242 ATTATAAAATAAAAATTTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
66 ATTATAAAATAAAAATTTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
* *
560307 TTGGATCTTAAATTATTAATTAGATTTTAAATGGTTTGGGCTGAGCCCATATGTTA
131 TTGGATCTTAAATTATTAATTAGATTTTAAATAGTTTGGGCTAAGCCCATATGTTA
*
560363 TATATAATATATTTAAAATTT
1 TATATAATATATTTAATATTT
560384 AAAATTTTAT
Statistics
Matches: 190, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
185 7 0.04
186 183 0.96
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (186 bp):
TATATAATATATTTAATATTTTATAATTAAAAAAAATAATTTACAATTAATTCAAATAACATATA
ATTATAAAATAAAAATTTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
TTGGATCTTAAATTATTAATTAGATTTTAAATAGTTTGGGCTAAGCCCATATGTTA
Found at i:562350 original size:21 final size:21
Alignment explanation
Indices: 562324--562374 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
562314 CCCATAACAT
562324 GGTGCATCGGTGCACTATCAA
1 GGTGCATCGGTGCACTATCAA
562345 GGTGCATCGGTGCACTATCAA
1 GGTGCATCGGTGCACTATCAA
562366 GGTGCATCG
1 GGTGCATCG
562375 ATACCCCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.24
Consensus pattern (21 bp):
GGTGCATCGGTGCACTATCAA
Found at i:563521 original size:24 final size:20
Alignment explanation
Indices: 563488--563547 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 20
563478 GAATGCAATT
563488 AATGCATCGATGCACATGTTAAGG
1 AATGCATCGATGCAC-TG-T-A-G
* *
563512 GATGCATCGATACACTGTAG
1 AATGCATCGATGCACTGTAG
563532 AATGCATCGATGCACT
1 AATGCATCGATGCACT
563548 TCAAGGGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 15 0.47
21 1 0.03
22 1 0.03
23 2 0.06
24 13 0.41
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (20 bp):
AATGCATCGATGCACTGTAG
Found at i:564559 original size:23 final size:23
Alignment explanation
Indices: 564528--564593 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
564518 TCTTATATGA
*
564528 CACTTCGGTGTATTTCTACGCT-G
1 CACTTCGGTGCATTTCTACG-TGG
* *
564551 CACTACGGTGCAATTCTACGTGG
1 CACTTCGGTGCATTTCTACGTGG
*
564574 CACTTCGGTGCATTTATACG
1 CACTTCGGTGCATTTCTACG
564594 AGCTGTGGTG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
22 1 0.03
23 35 0.97
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (23 bp):
CACTTCGGTGCATTTCTACGTGG
Found at i:568945 original size:23 final size:23
Alignment explanation
Indices: 568919--568981 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
568909 AATCTTATAT
*
568919 GGCACTTCAGTGCATTTCTATGC
1 GGCACTTCGGTGCATTTCTATGC
* * * *
568942 GGCACTACGGTACAATTCTATGT
1 GGCACTTCGGTGCATTTCTATGC
568965 GGCACTTCGGTGCATTT
1 GGCACTTCGGTGCATTT
568982 ATACGAGCTG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTATGC
Found at i:569860 original size:21 final size:21
Alignment explanation
Indices: 569836--569875 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
569826 ATGTTTAATG
569836 AAAAAAATATCAATTGTTAAC
1 AAAAAAATATCAATTGTTAAC
***
569857 AAAATGTTATCAATTGTTA
1 AAAAAAATATCAATTGTTA
569876 CCAATTGTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (21 bp):
AAAAAAATATCAATTGTTAAC
Found at i:571037 original size:19 final size:19
Alignment explanation
Indices: 571013--571062 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
571003 TCATTTTGAT
571013 TTTCAAAATCAACTTTTGC
1 TTTCAAAATCAACTTTTGC
*
571032 TTTCAAAATCAACTTTTTC
1 TTTCAAAATCAACTTTTGC
571051 TTTCAAAATCAA
1 TTTCAAAATCAA
571063 ATTATCTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.42
Consensus pattern (19 bp):
TTTCAAAATCAACTTTTGC
Found at i:572189 original size:23 final size:23
Alignment explanation
Indices: 572158--572223 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
572148 CACCACAGCT
* *
572158 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTACACCGAAGTGCCA
* *
572181 CTTAGAATTACACCGAAGTGCCG
1 CGTAGAATTACACCGAAGTGCCA
*
572204 CGTAGAATTACACCGTAGTG
1 CGTAGAATTACACCGAAGTG
572224 ACATATAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (23 bp):
CGTAGAATTACACCGAAGTGCCA
Found at i:573846 original size:21 final size:21
Alignment explanation
Indices: 573822--573864 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
573812 TCTGGTTCGT
*
573822 TTGAGGGGGTATC-AGTTCCCC
1 TTGAAGGGGTATCGA-TTCCCC
*
573843 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
573864 T
1 T
573865 AGCCCAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.16, C:0.23, G:0.28, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:577454 original size:23 final size:23
Alignment explanation
Indices: 577428--577496 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
577418 CACCACAGCT
*
577428 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* * *
577451 CGTAGAATTACACC-AGAGTACCG
1 CGTAGAATTGCACCGA-AGTGCCA
577474 CGTAGAATTGCACCGTAA-TGCCA
1 CGTAGAATTGCACCG-AAGTGCCA
577497 TATAATAATG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
22 1 0.03
23 33 0.92
24 1 0.03
25 1 0.03
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:581466 original size:22 final size:23
Alignment explanation
Indices: 581418--581478 Score: 106
Period size: 22 Copynumber: 2.7 Consensus size: 23
581408 TGCACTACAT
*
581418 GGTGCATCGATGCACTAGTGGCA
1 GGTGCATGGATGCACTAGTGGCA
581441 GGTGCATGGATGCACTAGT-GCA
1 GGTGCATGGATGCACTAGTGGCA
581463 GGTGCATGGATGCACT
1 GGTGCATGGATGCACT
581479 TTGACACCCT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 19 0.51
23 18 0.49
ACGTcount: A:0.21, C:0.20, G:0.36, T:0.23
Consensus pattern (23 bp):
GGTGCATGGATGCACTAGTGGCA
Found at i:586132 original size:17 final size:19
Alignment explanation
Indices: 586103--586147 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
586093 TTCACGAAAT
* *
586103 ATAAGATTATTAATAG-GA
1 ATAAGAATATTAACAGAGA
586121 ATAA-AATATTAACAGAGA
1 ATAAGAATATTAACAGAGA
586139 ATAAGAATA
1 ATAAGAATA
586148 ATCTGAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 9 0.39
18 10 0.43
19 4 0.17
ACGTcount: A:0.58, C:0.02, G:0.13, T:0.27
Consensus pattern (19 bp):
ATAAGAATATTAACAGAGA
Found at i:586808 original size:3 final size:3
Alignment explanation
Indices: 586802--586844 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
586792 CTCCATCATC
586802 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
586845 CAAGGAAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:593123 original size:18 final size:18
Alignment explanation
Indices: 593077--593125 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
593067 TTTGACATCG
* *
593077 ATTCGAAATAATATATTT
1 ATTCAAAATATTATATTT
* *
593095 ATTAAAAAATATTATTTTT
1 ATT-CAAAATATTATATTT
593114 ATTCAAAATATT
1 ATTCAAAATATT
593126 TAATTGAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (18 bp):
ATTCAAAATATTATATTT
Found at i:595295 original size:23 final size:22
Alignment explanation
Indices: 595269--595328 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
595259 ATCAAGTAAA
595269 ATAACAAATTAGGTAGCGCTTAT
1 ATAACAAA-TAGGTAGCGCTTAT
** *
595292 ATAATGTAATATGTAGCGCTTAT
1 ATAA-CAAATAGGTAGCGCTTAT
*
595315 ATAATAAAATAGGT
1 ATAA-CAAATAGGT
595329 TAATACTGGA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 28 0.93
24 2 0.07
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (22 bp):
ATAACAAATAGGTAGCGCTTAT
Found at i:595381 original size:23 final size:23
Alignment explanation
Indices: 595355--595414 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
595345 ATCAAGCACA
* * *
595355 ATAACATATTAGGTAGCGTTTAT
1 ATAACATAATAGATAGCGCTTAT
**
595378 ATAATGTAATAGATAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
* *
595401 ATAATAAAATAGAT
1 ATAACATAATAGAT
595415 TAATTACTAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGATAGCGCTTAT
Found at i:595401 original size:86 final size:87
Alignment explanation
Indices: 595250--595485 Score: 368
Period size: 86 Copynumber: 2.7 Consensus size: 87
595240 TTATTTAATC
* * * *
595250 AGAAATATTATCAAGTAAAATAACAAATTAGGTAGCGCTTATATAATGTAATATG-TAGCGCTTA
1 AGAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATA-GATAGCGCTTA
*
595314 TATAATAAAATAGGTTAA-TACT
65 TATAATAAAATAGATTAATTACT
* *
595336 GGAAACATTATCAAGCACAATAACATATTAGGTAGCGTTTATATAATGTAATAGATAGCGCTTAT
1 AGAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGATAGCGCTTAT
595401 ATAATAAAATAGATTAATTACT
66 ATAATAAAATAGATTAATTACT
* *
595423 AGAAACATTATCAAGCACAATAACATATTAGGTAGTGCTTATATAATGTAATAGATAACGCTT
1 AGAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGATAGCGCTT
595486 TTATTGACAT
Statistics
Matches: 137, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
85 1 0.01
86 73 0.53
87 63 0.46
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (87 bp):
AGAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGATAGCGCTTAT
ATAATAAAATAGATTAATTACT
Found at i:595610 original size:14 final size:14
Alignment explanation
Indices: 595542--595614 Score: 51
Period size: 14 Copynumber: 5.3 Consensus size: 14
595532 ATTGTAAATT
595542 TATTTTAATAA-AA
1 TATTTTAATAATAA
** *
595555 TATAATAATCATAA
1 TATTTTAATAATAA
* * *
595569 TTTTTTATTTATAA
1 TATTTTAATAATAA
* *
595583 AATTATAGAT-ATAA
1 TATTTTA-ATAATAA
595597 TATTTTAATAATAA
1 TATTTTAATAATAA
595611 TATT
1 TATT
595615 GACATAGATA
Statistics
Matches: 43, Mismatches: 14, Indels: 5
0.69 0.23 0.08
Matches are distributed among these distances:
13 10 0.23
14 32 0.74
15 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (14 bp):
TATTTTAATAATAA
Found at i:595610 original size:28 final size:28
Alignment explanation
Indices: 595542--595610 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
595532 ATTGTAAATT
*
595542 TATTTTAATAA-AATATAATAATCATAA
1 TATTTTAATAATAAAATAATAATCATAA
* * * *
595569 TTTTTTATTTATAAAATTATAGAT-ATAA
1 TATTTTAATAATAAAATAATA-ATCATAA
595597 TATTTTAATAATAA
1 TATTTTAATAATAA
595611 TATTGACATA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 8 0.25
28 22 0.69
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTTTAATAATAAAATAATAATCATAA
Found at i:595697 original size:24 final size:25
Alignment explanation
Indices: 595629--595697 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 25
595619 TAGATAATAT
*
595629 TAAATAA-ATTATTCTAATATT-TTAA
1 TAAATAATATTA-T-TATTATTGTTAA
*
595654 -AAATAATAATATTATT-TTGTTAA
1 TAAATAATATTATTATTATTGTTAA
595677 TAAATAATATTATT-TTATTGT
1 TAAATAATATTATTATTATTGT
595698 ATTTGATGCT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
22 2 0.05
23 9 0.24
24 23 0.62
25 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (25 bp):
TAAATAATATTATTATTATTGTTAA
Found at i:596076 original size:20 final size:20
Alignment explanation
Indices: 596051--596118 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
596041 CATTTTCGGT
596051 AAAACCGGGAAAAAAATAAC
1 AAAACCGGGAAAAAAATAAC
596071 AAAACCGGGAAAAAAATAAC
1 AAAACCGGGAAAAAAATAAC
**
596091 AAAACCGATAAAAAAATAAC
1 AAAACCGGGAAAAAAATAAC
596111 AAAACCGG
1 AAAACCGG
596119 TAGCGCTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.65, C:0.16, G:0.13, T:0.06
Consensus pattern (20 bp):
AAAACCGGGAAAAAAATAAC
Found at i:596199 original size:92 final size:92
Alignment explanation
Indices: 596093--596304 Score: 352
Period size: 92 Copynumber: 2.3 Consensus size: 92
596083 AAAATAACAA
* *
596093 AACCGATAAAAAAATAACAAAACCGGTAGCGCTTTACTTAATATATTGAAAGTATCGATCCTTTT
1 AACCGGTAAAAAAATAACAAAACCGGTAGCGCTTTACCTAATATATTGAAAGTATCGATCCTTTT
*
596158 ATAAAAAGGATCGATATTTTACAATAT
66 ATAAAAAGGATCGATACTTTACAATAT
* * *
596185 AACCGGTAAAAAAATAACAAAACTGGTAGCGTTTTACCTGATATATTGAAAGTATCGATCCTTTT
1 AACCGGTAAAAAAATAACAAAACCGGTAGCGCTTTACCTAATATATTGAAAGTATCGATCCTTTT
596250 ATAAAAAGGATCGATACTTTACAATAT
66 ATAAAAAGGATCGATACTTTACAATAT
**
596277 AACATGTAAAAAAATAACAAAACCGGTA
1 AACCGGTAAAAAAATAACAAAACCGGTA
596305 AAAAAATAAC
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
92 111 1.00
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.28
Consensus pattern (92 bp):
AACCGGTAAAAAAATAACAAAACCGGTAGCGCTTTACCTAATATATTGAAAGTATCGATCCTTTT
ATAAAAAGGATCGATACTTTACAATAT
Found at i:596307 original size:20 final size:20
Alignment explanation
Indices: 596282--596324 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
596272 AATATAACAT
596282 GTAAAAAAATAACAAAACCG
1 GTAAAAAAATAACAAAACCG
*
596302 GTAAAAAAATAACAAAAGCG
1 GTAAAAAAATAACAAAACCG
596322 GTA
1 GTA
596325 GCGCTTTACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.63, C:0.12, G:0.14, T:0.12
Consensus pattern (20 bp):
GTAAAAAAATAACAAAACCG
Found at i:596418 original size:20 final size:20
Alignment explanation
Indices: 596393--596437 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
596383 CAATATAACA
596393 GGTAAAAAAATAACAAAACC
1 GGTAAAAAAATAACAAAACC
596413 GGTAAAAAAATAACAAAACC
1 GGTAAAAAAATAACAAAACC
596433 GGTAA
1 GGTAA
596438 CGATATACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.62, C:0.13, G:0.13, T:0.11
Consensus pattern (20 bp):
GGTAAAAAAATAACAAAACC
Found at i:596541 original size:112 final size:112
Alignment explanation
Indices: 596185--596605 Score: 565
Period size: 112 Copynumber: 3.8 Consensus size: 112
596175 TTTACAATAT
* * *
596185 AACCGGTAAAAAAATAACAAAACTGGTAGCGTTTTACCTGATATATTGAAAGTATCGATCCTTTT
1 AACCGGTAAAAAAATAACAAAACCGGTAACGATTTACCTGATATATTGAAAGTATCGATCCTTTT
*
596250 ATAAAAAGGATCGATACTTTACAATATAACATGTAAAAAAATAACAA
66 ATAAAAAGGATCGATACTTTACAATATAACAAGTAAAAAAATAACAA
* * * * *
596297 AACCGGTAAAAAAATAACAAAAGCGGTAGCGCTTTACCTGATCTATTGAAAGTATCGATCATTTT
1 AACCGGTAAAAAAATAACAAAACCGGTAACGATTTACCTGATATATTGAAAGTATCGATCCTTTT
* *
596362 ATAAAAATGATCGATACTTTACAATATAACAGGTAAAAAAATAACAA
66 ATAAAAAGGATCGATACTTTACAATATAACAAGTAAAAAAATAACAA
*
596409 AACCGGTAAAAAAATAACAAAACCGGTAACGATATACCTGATATATTGAAAGTATCGATCCTTTT
1 AACCGGTAAAAAAATAACAAAACCGGTAACGATTTACCTGATATATTGAAAGTATCGATCCTTTT
* *
596474 ATAAAAAGGATAGATACTTTACAATATAACAAGTAAAAAAATGACAA
66 ATAAAAAGGATCGATACTTTACAATATAACAAGTAAAAAAATAACAA
* *** ** * * * * * * *
596521 AACCAGTTTTATTATGACAAAACCGATAA-AATTTACCTGATATGTTAAAAGTATAGATACTTTT
1 AACCGGTAAAAAAATAACAAAACCGGTAACGATTTACCTGATATATTGAAAGTATCGAT-CCTTT
* *
596585 TGTAAAAAGAATCGATACTTT
65 TATAAAAAGGATCGATACTTT
596606 TTTGAAAGTT
Statistics
Matches: 274, Mismatches: 34, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
111 24 0.09
112 250 0.91
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (112 bp):
AACCGGTAAAAAAATAACAAAACCGGTAACGATTTACCTGATATATTGAAAGTATCGATCCTTTT
ATAAAAAGGATCGATACTTTACAATATAACAAGTAAAAAAATAACAA
Found at i:599501 original size:199 final size:200
Alignment explanation
Indices: 599161--599901 Score: 1235
Period size: 199 Copynumber: 3.7 Consensus size: 200
599151 ATATTTAAAT
* *
599161 TAGTATCTACACAAAATTAAAAAGTGTCGATACATATTATACACCTATTATCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATACACCTAATATCTCATAAAACCGGT
599226 ATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
66 ATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
*
599291 GGATCGACACTTTTTATATATGGGA-AG-CAGC-TTATGGTTGCACCCTGTTTGCCATTCATTCT
131 GGATCGACACTTTTTATATAT-GGATCGACA-CTTTATGGTTGCACCCTGTTTGCCATTCATTCT
599353 GGACCAA
194 GGACCAA
* * *
599360 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATACACCTATTATGTCATAAAATCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATACACCTAATATCTCATAAAACCGGT
599425 ATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
66 ATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
* *
599490 GGATCGACACTTTTTATATATGGGA-AG-CAGC-TTATGGTTGCACCATGTTTGCCATTCATTCT
131 GGATCGACACTTTTTATATAT-GGATCGACA-CTTTATGGTTGCACCCTGTTTGCCATTCATTCT
599552 GGACCAA
194 GGACCAA
* *
599559 TAGTATCGACACAAAATTAAAAAGTGTCGATACATA-TATTACACCTATTATCTCATAAAACAGG
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTA-TACACCTAATATCTCATAAAACCGG
599623 TATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT
65 TATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT
*
599688 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTATG
130 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTG
599753 GACCAA
195 GACCAA
* * * *
599759 TAGTATCGACACAAAATTAAAAAGTGTTGATACATATTATATACCTAATCTCTCATAAAACCAGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATACACCTAATATCTCATAAAACCGGT
* *
599824 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTA
66 ATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
599889 GGATCGACACTTT
131 GGATCGACACTTT
599902 ATGGTTGCAC
Statistics
Matches: 519, Mismatches: 18, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
198 5 0.01
199 342 0.66
200 170 0.33
201 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (200 bp):
TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATACACCTAATATCTCATAAAACCGGT
ATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
ACCAA
Found at i:599829 original size:200 final size:199
Alignment explanation
Indices: 599161--600323 Score: 1727
Period size: 200 Copynumber: 5.9 Consensus size: 199
599151 ATATTTAAAT
* *
599161 TAGTATCTACACAAAATTAAAAAGTGTCGATACATATTATACACCTATTATCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATACACCTATTATCTCATAAAACCAGT
599226 ATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
66 ATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
599291 GGATCGACACTTTTTATATATGGGAAGCAGCTTATGGTTGCACCCTGTTTGCCATTCATTCTGGA
131 GGATCGACACTTTTTATATATGGGAAGCAGCTTATGGTTGCACCCTGTTTGCCATTCATTCTGGA
599356 CCAA
196 CCAA
* * *
599360 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATACACCTATTATGTCATAAAATCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATACACCTATTATCTCATAAAACCAGT
599425 ATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
66 ATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
*
599490 GGATCGACACTTTTTATATATGGGAAGCAGCTTATGGTTGCACCATGTTTGCCATTCATTCTGGA
131 GGATCGACACTTTTTATATATGGGAAGCAGCTTATGGTTGCACCCTGTTTGCCATTCATTCTGGA
599555 CCAA
196 CCAA
599559 TAGTATCGACACAAAATTAAAAAGTGTCGATACATA-TATTACACCTATTATCTCATAAAA-CAG
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTA-TACACCTATTATCTCATAAAACCA-
599622 GTATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
64 GTATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
*
599687 TGGGATCGACACTTTTTATATAT-GGATCGACA-CTTTATGGTTGCACCCTGTTTGCCATTCATT
129 TGGGATCGACACTTTTTATATATGGGA-AG-CAGC-TTATGGTTGCACCCTGTTTGCCATTCATT
*
599750 ATGGACCAA
191 CTGGACCAA
* * * *
599759 TAGTATCGACACAAAATTAAAAAGTGTTGATACATATTATATACCTAATCTCTCATAAAACCAGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATACACCTATTATCTCATAAAACCAGT
* *
599824 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTA
66 ATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
599889 GGATCGACAC----------T----------TTATGGTTGCACCCTGTTTGCCATTCATTCTGGA
131 GGATCGACACTTTTTATATATGGGAAGCAGCTTATGGTTGCACCCTGTTTGCCATTCATTCTGGA
599934 CCAA
196 CCAA
* * * *
599938 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATATACCTAATCTCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATACACCTATTATCTCATAAAACCAGT
** * *
600003 ATACTTATACC-GATTAGATTGAAACCTTACATATTACATTATACTTATGGGTTTTGATGTTTCT
66 ATACTTATACCAG-TTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT
* * *
600067 GGGATCGAAACCTTTTATATAT-GGATCGACA-CTTTATGGTTGCACCCTGTTTGCCATTCATTC
130 GGGATCGACACTTTTTATATATGGGA-AG-CAGC-TTATGGTTGCACCCTGTTTGCCATTCATTC
600130 TGGACCAA
192 TGGACCAA
* * * *
600138 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATATACCTAATCTCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATACACCTATTATCTCATAAAACCAGT
*
600203 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
66 ATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
* *
600268 GGATCAACACTTTTTATATAT-GGATCGACA-CTTTATGGTTGCACCCTGTTTGCCAT
131 GGATCGACACTTTTTATATATGGGA-AG-CAGC-TTATGGTTGCACCCTGTTTGCCAT
600324 ATTGTAAATT
Statistics
Matches: 903, Mismatches: 31, Indels: 59
0.91 0.03 0.06
Matches are distributed among these distances:
178 1 0.00
179 167 0.18
189 1 0.00
190 1 0.00
198 6 0.01
199 341 0.38
200 381 0.42
201 5 0.01
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (199 bp):
TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATACACCTATTATCTCATAAAACCAGT
ATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
GGATCGACACTTTTTATATATGGGAAGCAGCTTATGGTTGCACCCTGTTTGCCATTCATTCTGGA
CCAA
Found at i:600010 original size:179 final size:179
Alignment explanation
Indices: 599710--600074 Score: 649
Period size: 179 Copynumber: 2.0 Consensus size: 179
599700 TTTTATATAT
599710 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTATGGACCAATAGTATCGACACAAAA
1 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTATGGACCAATAGTATCGACACAAAA
* *
599775 TTAAAAAGTGTTGATACATATTATATACCTAATCTCTCATAAAACCAGTATACTTATACCGGTTA
66 TTAAAAAGTGTCGATACATATTATATACCTAATCTCTCATAAAACCAGTATACTTATACCGATTA
*
599840 GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTA
131 GATTGAAAAATTACATATTACATTATACTTATGGGTTTCGATGTTTCTA
*
599889 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAATAGTATCGACACAAAA
1 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTATGGACCAATAGTATCGACACAAAA
*
599954 TTAAAAAGTGTCGATACATATTATATACCTAATCTCTCATAAAACCGGTATACTTATACCGATTA
66 TTAAAAAGTGTCGATACATATTATATACCTAATCTCTCATAAAACCAGTATACTTATACCGATTA
** * *
600019 GATTGAAACCTTACATATTACATTATACTTATGGGTTTTGATGTTTCTG
131 GATTGAAAAATTACATATTACATTATACTTATGGGTTTCGATGTTTCTA
600068 GGATCGA
1 GGATCGA
600075 AACCTTTTAT
Statistics
Matches: 177, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
179 177 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (179 bp):
GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTATGGACCAATAGTATCGACACAAAA
TTAAAAAGTGTCGATACATATTATATACCTAATCTCTCATAAAACCAGTATACTTATACCGATTA
GATTGAAAAATTACATATTACATTATACTTATGGGTTTCGATGTTTCTA
Found at i:600220 original size:379 final size:379
Alignment explanation
Indices: 599161--600280 Score: 1773
Period size: 379 Copynumber: 2.9 Consensus size: 379
599151 ATATTTAAAT
*
599161 TAGTATCTACACAAAATTAAAAAGTGTCGATACATATTATACACCTATTATCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATACACCTATTATCTCATAAAACCGGT
599226 ATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
66 ATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
*
599291 GGATCGACACTTTTTATATATGGGA-AG-CAGC-TTATGGTTGCACCCTGTTTGCCATTCATTCT
131 GGATCGACACTTTTTATATAT-GGATCGACA-CTTTATGGTTGCACCCTGTTTGCCATTCATTCT
* * * *
599353 GGACCAATAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATACACCTATTATGTCATAA
194 GGACCAATAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATATACCTAATCTCTCATAA
* *
599418 AATCGGTATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGAT
259 AACCGGTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGAT
599483 GTTTCTGGGATCGACACTTTTTATATATGGGAAGCAGCTTATGGTTGCACCATGTTTGCCATTCA
324 GTTTCTGGGATCGACAC----------T----------TTATGGTTGCACCATGTTTGCCATTCA
599548 TTCTGGACCAA
369 TTCTGGACCAA
*
599559 TAGTATCGACACAAAATTAAAAAGTGTCGATACATA-TATTACACCTATTATCTCATAAAACAGG
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTA-TACACCTATTATCTCATAAAACCGG
599623 TATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT
65 TATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT
*
599688 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTATG
130 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTG
*
599753 GACCAATAGTATCGACACAAAATTAAAAAGTGTTGATACATATTATATACCTAATCTCTCATAAA
195 GACCAATAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATATACCTAATCTCTCATAAA
*
599818 ACCAGTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATG
260 ACCGGTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATG
* *
599883 TTTCTAGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAA
325 TTTCTGGGATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGACCAA
* * *
599938 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATATACCTAATCTCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATACACCTATTATCTCATAAAACCGGT
** * *
600003 ATACTTATACC-GATTAGATTGAAACCTTACATATTACATTATACTTATGGGTTTTGATGTTTCT
66 ATACTTATACCAG-TTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT
* *
600067 GGGATCGAAACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTG
130 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTG
600132 GACCAATAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATATACCTAATCTCTCATAAA
195 GACCAATAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATATACCTAATCTCTCATAAA
600197 ACCGGTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATG
260 ACCGGTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATG
*
600262 TTTCTGGGATCAACACTTT
325 TTTCTGGGATCGACACTTT
600281 TTATATATGG
Statistics
Matches: 687, Mismatches: 29, Indels: 31
0.92 0.04 0.04
Matches are distributed among these distances:
378 1 0.00
379 360 0.52
380 2 0.00
389 1 0.00
397 5 0.01
398 148 0.22
399 170 0.25
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (379 bp):
TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATACACCTATTATCTCATAAAACCGGT
ATACTTATACCAGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
ACCAATAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATATACCTAATCTCTCATAAAA
CCGGTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGT
TTCTGGGATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGACCAA
Found at i:600577 original size:19 final size:19
Alignment explanation
Indices: 600553--600601 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
600543 TTACATTCAC
*
600553 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAAACGT
*
600572 ATACAAAATTATAAAACTT
1 ATACAAAATTATAAAACGT
600591 ATACAAAATTA
1 ATACAAAATTA
600602 ACCCTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAAACGT
Found at i:601188 original size:4 final size:4
Alignment explanation
Indices: 601179--601203 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
601169 AATGTCCTTT
601179 CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA C
601204 CAATCTCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:602436 original size:33 final size:33
Alignment explanation
Indices: 602399--602464 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
602389 CATCTTAAGA
*
602399 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
* *
602432 TCACCCCTCAACACCTCTACTTCTTTCATCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
602465 CCATTTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.32
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:602523 original size:21 final size:21
Alignment explanation
Indices: 602498--602562 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
602488 CCCCTTATGC
* *
602498 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
602519 CTCTCAAGTTTCTCTTCGATT
1 CTCTCAAGTTTCTCTTCGACT
*
602540 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
602561 CT
1 CT
602563 TGATTATCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.17, C:0.29, G:0.11, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:604866 original size:20 final size:20
Alignment explanation
Indices: 604824--604866 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
604814 CGTTTTACCG
*
604824 GTTTTATCATTTTGATACCT
1 GTTTTATCATTTTGATACAT
*
604844 GTTTTATCATATTT-TTACAT
1 GTTTTATCAT-TTTGATACAT
604864 GTT
1 GTT
604867 CTATTGTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (20 bp):
GTTTTATCATTTTGATACAT
Found at i:605091 original size:181 final size:181
Alignment explanation
Indices: 604783--605436 Score: 1029
Period size: 181 Copynumber: 3.6 Consensus size: 181
604773 CGTACTTACG
* *
604783 AAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGATACCTGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCGGTTT
* * **
604848 TATCATATTTTTACATGTTCTATTGTTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCATTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTAT
604913 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
131 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* * *
604964 AAAATATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGGTATCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCGGTTT
* *
605029 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTTAAAGTATTGACACTTTAT
66 TATCATATTTTTACCTGTTATATCATTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTAT
605094 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
131 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
*
605145 AAAGTATCTACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCGGTTT
605210 TATCATATTTTTACCTGTTATATCATTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCATTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTAT
* * * *
605275 AGGCGCTAAAACTGCTTATCTTTTAAATTAACGAAGTGTCAATCCTTATATT
131 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * * * * * **
605327 AAAGTACCGACACTTTAAATATATCTGATACCGCTTTACCAGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCGGTTT
* * * *
605392 TGTTATAGTTTTATCTGTTATATCATTGTGGATCGATACATTTTT
66 TATCATATTTTTACCTGTTATATCATTGTGGATCGATACATTTTT
605437 AATTTGGATC
Statistics
Matches: 438, Mismatches: 34, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
181 342 0.78
182 96 0.22
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (181 bp):
AAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCATTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTAT
AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:605224 original size:20 final size:19
Alignment explanation
Indices: 605178--605236 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
605168 TCCGGTAGCG
*
605178 TTTTACCGGTTTCATCATT
1 TTTTACCGGTTTTATCATT
*
605197 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
* *
605218 TTTTACCTGTTATATCATT
1 TTTTACCGGTTTTATCATT
605237 GTGGATCGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:609208 original size:22 final size:23
Alignment explanation
Indices: 609172--609215 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
609162 ATAATTGAGA
609172 CCCTTAACTTTTTTCAATCTCAG
1 CCCTTAACTTTTTTCAATCTCAG
609195 CCCTTAA-TTTTTTCAATCTCA
1 CCCTTAACTTTTTTCAATCTCA
609216 TAACATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.23, C:0.30, G:0.02, T:0.45
Consensus pattern (23 bp):
CCCTTAACTTTTTTCAATCTCAG
Found at i:610315 original size:64 final size:64
Alignment explanation
Indices: 610180--610318 Score: 153
Period size: 64 Copynumber: 2.2 Consensus size: 64
610170 GCTTTAGTGT
* *
610180 ATCGATGCACATACAATGCATCGATGCACTCCATGTATTATTAAAACATCGAATTGATTTTATGC
1 ATCGATGCACAGACAATGCATCGATGCACTCCAGGTATTATTAAAACATCGAA-TGATTTTATGC
* *
610245 ACCGATGCACAAGAC-ATGCATCGATGCAC-CTAGGCT-TT-TTCAAAACATCGAA-GCATATTT
1 ATCGATGCAC-AGACAATGCATCGATGCACTCCAGG-TATTATT-AAAACATCGAATG-AT-TTT
610305 ATGC
61 ATGC
610309 ATCGATGCAC
1 ATCGATGCAC
610319 TCTTAGTGTA
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
62 1 0.02
63 4 0.06
64 32 0.50
65 24 0.38
66 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (64 bp):
ATCGATGCACAGACAATGCATCGATGCACTCCAGGTATTATTAAAACATCGAATGATTTTATGC
Found at i:611631 original size:24 final size:24
Alignment explanation
Indices: 611603--611666 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
611593 CATCGATGCA
* *
611603 TAAGGAGTGCATCGATGCATACGT
1 TAAGGAGTGCATCGATGCACACGG
611627 TAAGG-GATGCATCGAT--ACACGG
1 TAAGGAG-TGCATCGATGCACACGG
611649 TAA-GA-TGCATCGATGCAC
1 TAAGGAGTGCATCGATGCAC
611667 TTCAAGGGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
20 9 0.26
21 1 0.03
22 9 0.26
23 1 0.03
24 14 0.41
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (24 bp):
TAAGGAGTGCATCGATGCACACGG
Found at i:621065 original size:103 final size:103
Alignment explanation
Indices: 620933--621142 Score: 366
Period size: 103 Copynumber: 2.0 Consensus size: 103
620923 ACATAAAGGA
* *
620933 ATTGGAAGACTGATAAGAAATTATTTCAAGTACAATTATTAATCTGAAGAACAAATAACCTCAGA
1 ATTGGAAGACTGATAAGAAATGATTTCAAGTAAAATTATTAATCTGAAGAACAAATAACCTCAGA
* * *
620998 ATCTCTAAATTATATTTATTATCGCTAAAAGCTTTAAT
66 ATCTCTAAATTATATTTATCATCACTAAAAGCTATAAT
*
621036 ATTGGAAGACTGATAAGAAATGATTTCAAGTAAAATTATTAGTCTGAAGAACAAATAACCTCAGA
1 ATTGGAAGACTGATAAGAAATGATTTCAAGTAAAATTATTAATCTGAAGAACAAATAACCTCAGA
621101 ATCTCTAAATTATATTTATCATCACTAAAAGCTATAAT
66 ATCTCTAAATTATATTTATCATCACTAAAAGCTATAAT
621139 ATTG
1 ATTG
621143 AAATTACCTG
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.33
Consensus pattern (103 bp):
ATTGGAAGACTGATAAGAAATGATTTCAAGTAAAATTATTAATCTGAAGAACAAATAACCTCAGA
ATCTCTAAATTATATTTATCATCACTAAAAGCTATAAT
Found at i:621848 original size:13 final size:13
Alignment explanation
Indices: 621830--621854 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
621820 AATGAATTTT
621830 AAGATTTTCTAAA
1 AAGATTTTCTAAA
621843 AAGATTTTCTAA
1 AAGATTTTCTAA
621855 GTATATTCGA
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:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
AAGATTTTCTAAA
Found at i:623363 original size:64 final size:64
Alignment explanation
Indices: 623294--623518 Score: 226
Period size: 64 Copynumber: 3.5 Consensus size: 64
623284 TTGTATGAAT
* ** *
623294 GTGCATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGTAATT
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATC-CCGTTAATAAT-AAAACATCGAATGCAATT
623357 C
64 C
* * *
623358 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCGTTAATAATGAAACATCGAATGCAATTG
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCGTTAATAATAAAACATCGAATGCAATTC
*** ** * * *
623422 GTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAACAATAATACTACATCGAATAC-CTTT
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCGTTAATAATAAAACATCGAATGCAATTC
*
623485 GATGCACCGATGCATCA-GTAGTGCATCGATGCAT
1 G-TGCATCGATGCAT-AGGTAGTGCATCGATGCAT
623519 ACCTTCATTA
Statistics
Matches: 137, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
63 4 0.03
64 127 0.93
65 6 0.04
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (64 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCGTTAATAATAAAACATCGAATGCAATTC
Found at i:623844 original size:12 final size:12
Alignment explanation
Indices: 623814--623863 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
623804 ACATGCATAA
623814 GACATGT-ATAT
1 GACATGTGATAT
*
623825 GTTCATGTGATAT
1 G-ACATGTGATAT
*
623838 GATATGTGATAT
1 GACATGTGATAT
623850 GACATGTGATAT
1 GACATGTGATAT
623862 GA
1 GA
623864 GAACACGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
11 1 0.03
12 27 0.82
13 5 0.15
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (12 bp):
GACATGTGATAT
Found at i:624026 original size:15 final size:15
Alignment explanation
Indices: 624008--624054 Score: 94
Period size: 15 Copynumber: 3.1 Consensus size: 15
623998 GAGGGTATAA
624008 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
624023 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
624038 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
624053 TA
1 TA
624055 ATGGTCCTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.15, C:0.19, G:0.32, T:0.34
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:630324 original size:64 final size:64
Alignment explanation
Indices: 630255--630476 Score: 211
Period size: 64 Copynumber: 3.5 Consensus size: 64
630245 TTGTATGAAT
* ** * *
630255 GTGCATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAATATCGAATGTAATT
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATC-CCGTTAATAAT-AAAACATCGAATGCAATT
630318 C
64 C
* * *
630319 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCGTTAATAATGAAACATCGAATGCAATTG
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCGTTAATAATAAAACATCGAATGCAATTC
*** ** * * *
630383 GTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAACAATAATACTACATCGAATAC-CTTT
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCGTTAATAATAAAACATCGAATGCAATTC
*
630446 GATGCACCGATGCATCA-GTAGTGCATCGATG
1 G-TGCATCGATGCAT-AGGTAGTGCATCGATG
630477 TATACCTTCA
Statistics
Matches: 133, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
63 4 0.03
64 123 0.92
65 6 0.05
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (64 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCGTTAATAATAAAACATCGAATGCAATTC
Found at i:630805 original size:12 final size:12
Alignment explanation
Indices: 630775--630824 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
630765 ACATGCATAA
630775 GACATGT-ATAT
1 GACATGTGATAT
*
630786 GTTCATGTGATAT
1 G-ACATGTGATAT
*
630799 GATATGTGATAT
1 GACATGTGATAT
630811 GACATGTGATAT
1 GACATGTGATAT
630823 GA
1 GA
630825 GAACACGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
11 1 0.03
12 27 0.82
13 5 0.15
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (12 bp):
GACATGTGATAT
Found at i:630987 original size:15 final size:15
Alignment explanation
Indices: 630969--631000 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
630959 GAGGGTATAA
630969 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
630984 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
630999 TA
1 TA
631001 ATGGTCCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.16, C:0.19, G:0.31, T:0.34
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:633455 original size:23 final size:24
Alignment explanation
Indices: 633411--633456 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
633401 AAATTTTGAC
633411 CATACATTTTTCTTAATGTTTATG
1 CATACATTTTTCTTAATGTTTATG
* *
633435 CATAGATTTTTTTTAAT-TTTAT
1 CATACATTTTTCTTAATGTTTAT
633457 ACAGTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.26, C:0.09, G:0.07, T:0.59
Consensus pattern (24 bp):
CATACATTTTTCTTAATGTTTATG
Found at i:636706 original size:22 final size:21
Alignment explanation
Indices: 636679--636761 Score: 78
Period size: 23 Copynumber: 3.8 Consensus size: 21
636669 TTTAGTGCAG
*
636679 AGGGAATCGATACCCCCTTGA
1 AGGGAACCGATACCCCCTTGA
*
636700 AGGGGAACCGATTCCCCCTTTGA
1 A-GGGAACCGATACCCCC-TTGA
*
636723 ATGGGAACCGATTCCCTCCTTG-
1 A-GGGAACCGATACCC-CCTTGA
**
636745 AGGGAATTGATACCCCC
1 AGGGAACCGATACCCCC
636762 CACGGATTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
20 2 0.04
21 12 0.23
22 15 0.28
23 22 0.42
24 2 0.04
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (21 bp):
AGGGAACCGATACCCCCTTGA
Found at i:636745 original size:23 final size:22
Alignment explanation
Indices: 636680--636745 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 22
636670 TTAGTGCAGA
* *
636680 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATTCCCCCTTGAAG
*
636702 GGGAACCGATTCCCCCTTTGAAT
1 GGGAACCGATTCCCCC-TTGAAG
636725 GGGAACCGATTCCCTCCTTGA
1 GGGAACCGATTCCC-CCTTGA
636746 GGGAATTGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
22 14 0.36
23 23 0.59
24 2 0.05
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.23
Consensus pattern (22 bp):
GGGAACCGATTCCCCCTTGAAG
Found at i:643764 original size:28 final size:27
Alignment explanation
Indices: 643713--643765 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
643703 CTTATAATAA
* *
643713 TAATAATTTTTATTTTAATAAATGATT
1 TAATAATTTTTATCTAAATAAATGATT
*
643740 TAATAATTTTTTATCTAAATTAATGA
1 TAATAA-TTTTTATCTAAATAAATGA
643766 CTAGTTAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (27 bp):
TAATAATTTTTATCTAAATAAATGATT
Found at i:643812 original size:11 final size:11
Alignment explanation
Indices: 643788--643834 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
643778 TGATATCAAA
*
643788 TTTAATTAACAT
1 TTTAA-TAATAT
643800 TTTAATAATATT
1 TTTAATAATA-T
*
643812 TTTAGT-ATAT
1 TTTAATAATAT
643822 TTTAATAATAT
1 TTTAATAATAT
643833 TT
1 TT
643835 CGGTTATAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 6 0.20
11 13 0.43
12 11 0.37
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
TTTAATAATAT
Found at i:644178 original size:2 final size:2
Alignment explanation
Indices: 644171--644198 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
644161 AACAAAATTA
644171 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
644199 CATTTTTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:663454 original size:11 final size:11
Alignment explanation
Indices: 663440--663487 Score: 55
Period size: 10 Copynumber: 4.5 Consensus size: 11
663430 AAATTTTGGC
*
663440 TTTTTTGTTTT
1 TTTTTTGTCTT
*
663451 TTTTTTG-CAT
1 TTTTTTGTCTT
*
663461 TTTTTTGCCTT
1 TTTTTTGTCTT
663472 TTTTTTGT-TT
1 TTTTTTGTCTT
663482 TTTTTT
1 TTTTTT
663488 AAAATAACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
10 16 0.50
11 16 0.50
ACGTcount: A:0.02, C:0.06, G:0.08, T:0.83
Consensus pattern (11 bp):
TTTTTTGTCTT
Found at i:665406 original size:2 final size:2
Alignment explanation
Indices: 665399--665443 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
665389 TTTACATTCT
665399 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
665441 TA T
1 TA T
665444 TAATGACCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:669930 original size:60 final size:60
Alignment explanation
Indices: 669823--669959 Score: 145
Period size: 60 Copynumber: 2.3 Consensus size: 60
669813 ATATATGTAT
* *
669823 AGTTTGGGATGAAATTGGAATGCTTAAAAAGTTTGGAAACTAGTTTAGAATGA-AGGTCAC
1 AGTTTGGGATGAAATTGAAATGCTTAAAAAGTTTGGAAACTAATTTAGAATGATA-GTCAC
* * * * * *
669883 AGTTTGGGGATAAAATTGAAATG-TTCAGAAGTTTGAGGAA-TAATTTAGAATTATAGTCAT
1 AGTTT-GGGATGAAATTGAAATGCTTAAAAAGTTTG-GAAACTAATTTAGAATGATAGTCAC
669943 AGTTTAGGGATGAAATT
1 AGTTT-GGGATGAAATT
669960 AGAACAGTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
60 45 0.70
61 19 0.30
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (60 bp):
AGTTTGGGATGAAATTGAAATGCTTAAAAAGTTTGGAAACTAATTTAGAATGATAGTCAC
Found at i:669975 original size:60 final size:58
Alignment explanation
Indices: 669821--670008 Score: 139
Period size: 60 Copynumber: 3.1 Consensus size: 58
669811 GTATATATGT
* *
669821 ATAGTTTGGGATGAAATTGGAATGCTTAAAAAGTTTGGAAACTAGTTTAGAATGAAGGTC
1 ATAGTTTGGGATGAAATT-GAAAG-TTAAAAAGTTTGGAAACTAATTTAGAATGAAGGTC
* * * * * *
669881 ACAGTTTGGGGATAAAATTGAAATGTTCAGAAGTTTGAGGAA-TAATTTAGAATTATA-GTC
1 ATAGTTT-GGGATGAAATTGAAA-GTTAAAAAGTTTG-GAAACTAATTTAGAATGA-AGGTC
** * * * *
669941 ATAGTTTAGGGATGAAATTAGAACAGTT-AAAAGTTCAGAGACCAATTTAAAATGAGGGTC
1 ATAGTTT-GGGATGAAATT-GAA-AGTTAAAAAGTTTGGAAACTAATTTAGAATGAAGGTC
*
670001 ATACTTTG
1 ATAGTTTG
670009 AGAACATGTT
Statistics
Matches: 99, Mismatches: 21, Indels: 17
0.72 0.15 0.12
Matches are distributed among these distances:
59 3 0.03
60 74 0.75
61 21 0.21
62 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.31
Consensus pattern (58 bp):
ATAGTTTGGGATGAAATTGAAAGTTAAAAAGTTTGGAAACTAATTTAGAATGAAGGTC
Found at i:670076 original size:31 final size:32
Alignment explanation
Indices: 670033--670092 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
670023 AATTAACTAC
*
670033 TATTCATATTATAAATTTTAATAATATATAGT
1 TATTCATATTATAAATTTTAATAAAATATAGT
* *
670065 TATTCA-ATTATAATTTTTTATAAAATAT
1 TATTCATATTATAAATTTTAATAAAATAT
670093 TTTTATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (32 bp):
TATTCATATTATAAATTTTAATAAAATATAGT
Found at i:670097 original size:13 final size:13
Alignment explanation
Indices: 670079--670138 Score: 102
Period size: 13 Copynumber: 4.6 Consensus size: 13
670069 CAATTATAAT
670079 TTTTTATAAAATA
1 TTTTTATAAAATA
670092 TTTTTATAAAATA
1 TTTTTATAAAATA
670105 TTTTTATAAAATA
1 TTTTTATAAAATA
*
670118 TTTTTATAATATA
1 TTTTTATAAAATA
*
670131 TATTTATA
1 TTTTTATA
670139 TATTTAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTTTATAAAATA
Found at i:676623 original size:33 final size:33
Alignment explanation
Indices: 676581--676666 Score: 154
Period size: 33 Copynumber: 2.6 Consensus size: 33
676571 ACTTCCAAAA
*
676581 AGAAGCATTAGCAGAAGTCCCATAAGATCTAGG
1 AGAAGCATTAGCAGAAGCCCCATAAGATCTAGG
*
676614 AGAAGCATTAGCAGAAGCCCCGTAAGATCTAGG
1 AGAAGCATTAGCAGAAGCCCCATAAGATCTAGG
676647 AGAAGCATTAGCAGAAGCCC
1 AGAAGCATTAGCAGAAGCCC
676667 GAGAAGCATA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.15
Consensus pattern (33 bp):
AGAAGCATTAGCAGAAGCCCCATAAGATCTAGG
Found at i:678441 original size:2 final size:2
Alignment explanation
Indices: 678434--678458 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
678424 TACTAACATC
678434 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
678459 AAATAGAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:678500 original size:14 final size:14
Alignment explanation
Indices: 678481--678510 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
678471 GTTACACAAT
*
678481 GTAAAACTCTTTTA
1 GTAAAACTATTTTA
678495 GTAAAACTATTTTA
1 GTAAAACTATTTTA
678509 GT
1 GT
678511 TTTATACAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (14 bp):
GTAAAACTATTTTA
Found at i:678702 original size:2 final size:2
Alignment explanation
Indices: 678695--678756 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
678685 ATTCTAACCT
678695 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
678737 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
678757 GAGAGAGAGA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:678761 original size:2 final size:2
Alignment explanation
Indices: 678756--678785 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
678746 ATATATATAT
678756 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
678786 GAGCTGTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:681734 original size:27 final size:27
Alignment explanation
Indices: 681704--681771 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
681694 AATATGAGTA
*
681704 TTTCCCTTCCTTCCATAAAATCTCCTT
1 TTTCCCTCCCTTCCATAAAATCTCCTT
* *
681731 TTTCTCTCCCTTCCATAAAATCTCTTT
1 TTTCCCTCCCTTCCATAAAATCTCCTT
*
681758 TTTCTC-CCCTTCCA
1 TTTCCCTCCCTTCCA
681772 AGTAAGATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 8 0.21
27 30 0.79
ACGTcount: A:0.16, C:0.38, G:0.00, T:0.46
Consensus pattern (27 bp):
TTTCCCTCCCTTCCATAAAATCTCCTT
Found at i:681767 original size:26 final size:27
Alignment explanation
Indices: 681712--681771 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
681702 TATTTCCCTT
681712 CCTTCCATAAAATCTCCTTTTTCTCTC
1 CCTTCCATAAAATCTCCTTTTTCTCTC
*
681739 CCTTCCATAAAATCTCTTTTTTCTC-C
1 CCTTCCATAAAATCTCCTTTTTCTCTC
681765 CCTTCCA
1 CCTTCCA
681772 AGTAAGATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 8 0.25
27 24 0.75
ACGTcount: A:0.18, C:0.38, G:0.00, T:0.43
Consensus pattern (27 bp):
CCTTCCATAAAATCTCCTTTTTCTCTC
Found at i:682016 original size:26 final size:25
Alignment explanation
Indices: 681986--682037 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
681976 TGACAAGAAT
681986 TATAATATTAATTTAATACATTTTAA
1 TATAATATTAA-TTAATACATTTTAA
* *
682012 TATAATATTAATTATTATATTTTAA
1 TATAATATTAATTAATACATTTTAA
682037 T
1 T
682038 CAGAACAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (25 bp):
TATAATATTAATTAATACATTTTAA
Found at i:684218 original size:21 final size:20
Alignment explanation
Indices: 684202--684320 Score: 103
Period size: 21 Copynumber: 5.8 Consensus size: 20
684192 GCGTTGCATT
684202 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-GTTGAAAA
* ** **
684223 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATGTTGAAAA
* *
684243 TCGTGTTGCGGTAGTTGAAAA
1 TCGCGTTGCGAT-GTTGAAAA
684264 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-GTTGAAAA
* ** **
684285 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATGTTGAAAA
684305 TCGCGTTGCGATGTTG
1 TCGCGTTGCGATGTTG
684321 TTGCGATAGT
Statistics
Matches: 76, Mismatches: 21, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
20 30 0.39
21 46 0.61
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
TCGCGTTGCGATGTTGAAAA
Found at i:684243 original size:41 final size:41
Alignment explanation
Indices: 684198--684275 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
684188 ATTCGCGTTG
684198 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
684239 CATTTCGTGTTGCGGTAGTTGAAAATCGCGTTGCGAT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
684276 AGTTGAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:684403 original size:6 final size:6
Alignment explanation
Indices: 684392--684423 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
684382 GATTTTGTTT
*
684392 GACCAC GACCAC GACCAC GACCAC GACGAC GA
1 GACCAC GACCAC GACCAC GACCAC GACCAC GA
684424 GACGAGACGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.34, C:0.44, G:0.22, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:684429 original size:5 final size:5
Alignment explanation
Indices: 684414--684446 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
684404 GACCACGACC
684414 ACGACG ACGAG ACGAG ACGAG ACGAG ACG-G ACG
1 ACGA-G ACGAG ACGAG ACGAG ACGAG ACGAG ACG
684447 GCGGCGGCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 19 0.70
6 4 0.15
ACGTcount: A:0.36, C:0.24, G:0.39, T:0.00
Consensus pattern (5 bp):
ACGAG
Found at i:684941 original size:6 final size:6
Alignment explanation
Indices: 684930--685004 Score: 150
Period size: 6 Copynumber: 12.5 Consensus size: 6
684920 CTCGTCTCGG
684930 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
684978 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
685005 AATACGTGTC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:685139 original size:41 final size:40
Alignment explanation
Indices: 685082--685174 Score: 132
Period size: 41 Copynumber: 2.3 Consensus size: 40
685072 TTTTTTTTTA
* *
685082 ACTATCGCAATGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTAGAAAATCGCAACGAC-ACTGTAG
*
685123 ACTATCGCAACGAATTTAGAAAATCGCAACGACATTGTAG
1 ACTATCGCAACGAATTTAGAAAATCGCAACGACACTGTAG
**
685163 AAAATCGCAACG
1 ACTATCGCAACG
685175 CGAAATGGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 16 0.34
41 31 0.66
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.20
Consensus pattern (40 bp):
ACTATCGCAACGAATTTAGAAAATCGCAACGACACTGTAG
Found at i:685148 original size:19 final size:19
Alignment explanation
Indices: 685085--685174 Score: 90
Period size: 19 Copynumber: 4.5 Consensus size: 19
685075 TTTTTTAACT
* *
685085 ATCGCAATGAATTTGGAAA
1 ATCGCAACGAATTTAGAAA
* **
685104 ATCGCAACGACAACTGTAGACT
1 ATCGCAACG--AA-TTTAGAAA
685126 ATCGCAACGAATTTAGAAA
1 ATCGCAACGAATTTAGAAA
685145 ATCGCAACGACATTGTAGAAA
1 ATCGCAACGA-ATT-TAGAAA
685166 ATCGCAACG
1 ATCGCAACG
685175 CGAAATGGAA
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
19 23 0.40
20 5 0.09
21 17 0.29
22 13 0.22
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (19 bp):
ATCGCAACGAATTTAGAAA
Found at i:685186 original size:41 final size:41
Alignment explanation
Indices: 685098--685279 Score: 185
Period size: 41 Copynumber: 4.4 Consensus size: 41
685088 GCAATGAATT
* * *
685098 TGGAAAATCGCAACGACAACTGT-AGACTATCGCAA--CGAATT
1 TGGAAAATCGCAACG-CGATTGTCA-ACTATCGCAACGCGAA-A
* **
685139 TAGAAAATCGCAACGAC-ATTGT-AGAAAATCGCAACGCGAAA
1 TGGAAAATCGCAACG-CGATTGTCA-ACTATCGCAACGCGAAA
* *
685180 TGGAAAATAGCAACGCGATTTTCAACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGATTGTCAACTATCGCAACGCGAAA
* *
685221 TGGAAAATCGTAACGCGATTTTCAACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGATTGTCAACTATCGCAACGCGAAA
*
685262 TGAAAAATCGCAACGCGA
1 TGGAAAATCGCAACGCGA
685280 AATGCAACGC
Statistics
Matches: 123, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
40 15 0.12
41 103 0.84
42 5 0.04
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (41 bp):
TGGAAAATCGCAACGCGATTGTCAACTATCGCAACGCGAAA
Found at i:685187 original size:20 final size:20
Alignment explanation
Indices: 685162--685283 Score: 109
Period size: 20 Copynumber: 6.0 Consensus size: 20
685152 CGACATTGTA
685162 GAAAATCGCAACGCGAAATG
1 GAAAATCGCAACGCGAAATG
* ** *
685182 GAAAATAGCAACGCGATTTT
1 GAAAATCGCAACGCGAAATG
* *
685202 CAACTATCGCAACGCGAAATG
1 GAA-AATCGCAACGCGAAATG
* ** *
685223 GAAAATCGTAACGCGATTTT
1 GAAAATCGCAACGCGAAATG
* *
685243 CAACTATCGCAACGCGAAATG
1 GAA-AATCGCAACGCGAAATG
*
685264 AAAAATCGCAACGCGAAATG
1 GAAAATCGCAACGCGAAATG
685284 CAACGCGAAT
Statistics
Matches: 76, Mismatches: 24, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
20 48 0.63
21 28 0.37
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.17
Consensus pattern (20 bp):
GAAAATCGCAACGCGAAATG
Found at i:685215 original size:21 final size:21
Alignment explanation
Indices: 685189--685259 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
685179 ATGGAAAATA
685189 GCAACGCGATTTTCAACTATC
1 GCAACGCGATTTTCAACTATC
** ** *
685210 GCAACGCGAAATGGAA-AATC
1 GCAACGCGATTTTCAACTATC
*
685230 GTAACGCGATTTTCAACTATC
1 GCAACGCGATTTTCAACTATC
685251 GCAACGCGA
1 GCAACGCGA
685260 AATGAAAAAT
Statistics
Matches: 37, Mismatches: 12, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
20 14 0.38
21 23 0.62
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (21 bp):
GCAACGCGATTTTCAACTATC
Found at i:687884 original size:182 final size:182
Alignment explanation
Indices: 687571--689563 Score: 2695
Period size: 182 Copynumber: 10.9 Consensus size: 182
687561 ATGTTGAAAT
* * **
687571 ATTTTCTCATATTTTTAGTTGTTATATTGTTATCAATCGATACATTTTTATAAAGTGTCGACACT
1 ATTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTGTCGACACT
* * *
687636 TTTTAGGCGCTATAACTTATTCTCTTTTAAATT-CAGAACGTGTCGATACTTATATTAAATTATC
66 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAGAAAGTGTCGATACTTATATTAAAGTATC
* * * *
687700 GACACTTTCAACATATCCGGTAGCATTTTACCGGTTTTGTTATTTTGAGATCG
131 GACACTTTCAACATATCCGGTAG-GTTTTACCTGTTTTGTCATTTTGAGACCG
* ** * * *
687753 ATTTTGTCATATTTTTACCTGTTATATTGTTATGGATTAATACATTTTTTTAAAGTATCGACAAT
1 ATTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTGTCGACACT
* * *
687818 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AACGTTTCGATACTTATATTAAAGTATC
66 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAGAAAGTGTCGATACTTATATTAAAGTATC
* * * *
687882 GACACTTTCAACATATCCGGTAGTTATTTATCTCTTTTGTCATTTTGAGATCG
131 GACACTTTCAACATATCCGGTAGGT-TTTACCTGTTTTGTCATTTTGAGACCG
* * * *
687935 GTTTTGTCATATTTTTAGCTGTTATATT-TTATAGATCGATACATTTTCATAAAATGTCGACACT
1 ATTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTGTCGACACT
*
687999 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTATATTAAATTATC
66 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAGAAAGTGTCGATACTTATATTAAAGTATC
* *
688063 GACACTTTCAACATATTCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCG
131 GACACTTTCAACATATCCGGTAG-GTTTTACCTGTTTTGTCATTTTGAGACCG
* * * *
688116 ATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTTGAAGTATCGACAC
1 ATTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACA-TTTTTATAAAGTGTCGACAC
* * *
688181 TTTATAGGCGCTATAACTTCTTATCTTTTAAATTCCA-AAAGTATCGATACTTATATTAAAGTAT
65 TTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAGAAAGTGTCGATACTTATATTAAAGTAT
* *
688245 CGACGCTTTCAACATATCCGGTA-GTTATTCACCTGTTTTGTCATTTTGAGACTG
130 CGACACTTTCAACATATCCGGTAGGTT-TT-ACCTGTTTTGTCATTTTGAGACCG
* * *
688299 GTTTTGTCATATTTTTAGCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACT
1 ATTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTGTCGACACT
* * *
688364 TTTTAGGCGCTATAATTTCTTCTCTTTTAAATT-CAGAAAGTGTTGATACTTATATTAAATTATC
66 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAGAAAGTGTCGATACTTATATTAAAGTATC
* *
688428 GACACTTTCAACATATCCGGTAGCGTTTTACCAGTTTTGTCATTTTGAGACTG
131 GACACTTTCAACATATCCGGTAG-GTTTTACCTGTTTTGTCATTTTGAGACCG
* * * * *
688481 ATTTTTTCATATTTTTACCTGTAATATTGTTATGAATCGATACATTTTT-TAAAGTATCGACACT
1 ATTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTGTCGACACT
* * *
688545 TTATAGGCGCTATAACTTCTTCTATTTTAAATTCCA-AAAGTGTCGATACTTATATGAAAGTATC
66 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAGAAAGTGTCGATACTTATATTAAAGTATC
* * * * * *
688609 GATAATTTCAACACATCCGGTAGTTATTTATCTGTTTTGTCATTTTGAAACCG
131 GACACTTTCAACATATCCGGTAGGT-TTTACCTGTTTTGTCATTTTGAGACCG
* * *
688662 ATTTTGTCATCTTTTTAGCTGTTATATTGTTATGAATCGATACATTTTCATAAAGTGTCGACACT
1 ATTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTGTCGACACT
** *
688727 TTTTAGGCGCTATAACTTAATCTCTTTTAAATT-CAGAAAGTGTCGATACTTCTATTAAAGTATC
66 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAGAAAGTGTCGATACTTATATTAAAGTATC
* * *
688791 GACAATTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGATCG
131 GACACTTTCAACATATCCGGTAG-GTTTTACCTGTTTTGTCATTTTGAGACCG
* * * * *
688844 GTTTTGTCAT-TTTTTATCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCCACACT
1 ATTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTGTCGACACT
* *
688908 TTATAGGCGCTATAACTTATTCTCTTTTAAATTCC--AAAGTGTCGATACTTATATTAAAGTATC
66 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAGAAAGTGTCGATACTTATATTAAAGTATC
* * * *
688971 AACACTTTCAACATATCTGGTAGTTATTTACTTGTTTTGTCATTTTGAGACCG
131 GACACTTTCAACATATCCGGTAGGT-TTTACCTGTTTTGTCATTTTGAGACCG
* * * * *
689024 GTTTTGTCATATTATTATCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACT
1 ATTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTGTCGACACT
* * * * *
689089 TTTTAGGTGCTATAACTTCTTCTCTTTTAAATT-CAGAAATTGTTGATACTTATTTTAAATTATC
66 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAGAAAGTGTCGATACTTATATTAAAGTATC
*
689153 GACACTTTCAACATATCCGGTAGCGTTTTACCAGTTTTGTCATTTTGAGACCG
131 GACACTTTCAACATATCCGGTAG-GTTTTACCTGTTTTGTCATTTTGAGACCG
* * ** *
689206 ATTTTGTCATATTTTTATCTGTAATATTGTTATGGATTAATACATTTTT-TAAAGTATCGACACT
1 ATTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTGTCGACACT
* **
689270 TTATAGATGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAAGTATC
66 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAGAAAGTGTCGATACTTATATTAAAGTATC
* * *
689334 GACATTTTCAACATATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACTG
131 GACACTTTCAACATATCCGGTAGGT-TTTACCTGTTTTGTCATTTTGAGACCG
* * * * * *
689387 GTTTTGTCATTTTTTTAGCTGTTATATTGTTATAGATCAATACAATTTCATAAAGTGTCGACACT
1 ATTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTGTCGACACT
* *
689452 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGGAAAGTGTCGATACTTATATTAAAT
66 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTC---CA-GAAAGTGTCGATACTTATATTAAAG
* *
689517 TATCGACACTTTCAATATATCCGGTAGAGTTTTACCGGTTTTGTCAT
127 TATCGACACTTTCAACATATCCGGTAG-GTTTTACCTGTTTTGTCAT
689564 ATTTTTACCT
Statistics
Matches: 1597, Mismatches: 182, Indels: 59
0.87 0.10 0.03
Matches are distributed among these distances:
179 1 0.00
180 86 0.05
181 634 0.40
182 643 0.40
183 162 0.10
184 5 0.00
185 1 0.00
187 64 0.04
188 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.44
Consensus pattern (182 bp):
ATTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTGTCGACACT
TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAGAAAGTGTCGATACTTATATTAAAGTATC
GACACTTTCAACATATCCGGTAGGTTTTACCTGTTTTGTCATTTTGAGACCG
Found at i:688717 original size:363 final size:364
Alignment explanation
Indices: 687572--689563 Score: 3183
Period size: 363 Copynumber: 5.5 Consensus size: 364
687562 TGTTGAAATA
* * *
687572 TTTTCTCATATTTTTAGTTGTTATATTGTTATCA-ATCGATACATTTTTATAAAGTGTCGACACT
1 TTTTGTCATATTTTTAGCTGTTATATTGTTAT-AGATCGATACATTTTCATAAAGTGTCGACACT
* *
687636 TTTTAGGCGCTATAACTTATTCTCTTTTAAATTCAGAACGTGTCGATACTTATATTAAATTATCG
65 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCG
* *
687701 ACACTTTCAACATATCCGGTAGCATTTTACCGGTTTTGTTATTTTGAGA-TCGATTTTGTCATAT
130 ACACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACT-GATTTTGTCATAT
** *
687765 TTTTACCTGTTATATTGTTATGGATTAATACATTTTTTTAAAGTATCGACAATTTATAGGCGCTA
194 TTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTA
* *
687830 TAACTTCTTCTCTTTTAAATTCCAAACGTTTCGATACTTATATTAAAGTATCGACACTTTCAACA
259 TAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACA
* * *
687895 TATCCGGTAGTTATTTATCTCTTTTGTCATTTTGAGATCGG
324 TATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGG
*
687936 TTTTGTCATATTTTTAGCTGTTATATT-TTATAGATCGATACATTTTCATAAAATGTCGACACTT
1 TTTTGTCATATTTTTAGCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACTT
688000 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
* *
688065 CACTTTCAACATATTCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCGATTTTGTCATATTT
131 CACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACTGATTTTGTCATATTT
*
688130 TTACCTGTTATATTGTTATGGATCGATACATTTTTTTTGAAGTATCGACACTTTATAGGCGCTAT
196 TTACCTGTTATATTGTTATGGATCGATACA-TTTTTTTAAAGTATCGACACTTTATAGGCGCTAT
* * *
688195 AACTTCTTATCTTTTAAATTCCAAAAGTATCGATACTTATATTAAAGTATCGACGCTTTCAACAT
260 AACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACAT
* *
688260 ATCCGGTAGTTATTCACCTGTTTTGTCATTTTGAGACTGG
325 ATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGG
688300 TTTTGTCATATTTTTAGCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACTT
1 TTTTGTCATATTTTTAGCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACTT
* *
688365 TTTAGGCGCTATAATTTCTTCTCTTTTAAATTCAGAAAGTGTTGATACTTATATTAAATTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
* *
688430 CACTTTCAACATATCCGGTAGCGTTTTACCAGTTTTGTCATTTTGAGACTGATTTTTTCATATTT
131 CACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACTGATTTTGTCATATTT
* *
688495 TTACCTGTAATATTGTTATGAATCGATACA-TTTTTTAAAGTATCGACACTTTATAGGCGCTATA
196 TTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATA
* * * * *
688559 ACTTCTTCTATTTTAAATTCCAAAAGTGTCGATACTTATATGAAAGTATCGATAATTTCAACACA
261 ACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACATA
* * *
688624 TCCGGTAGTTATTTATCTGTTTTGTCATTTTGAAACCGA
326 TCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGG
*
688663 TTTTGTCATCTTTTTAGCTGTTATATTGTTAT-GAATCGATACATTTTCATAAAGTGTCGACACT
1 TTTTGTCATATTTTTAGCTGTTATATTGTTATAG-ATCGATACATTTTCATAAAGTGTCGACACT
** * *
688727 TTTTAGGCGCTATAACTTAATCTCTTTTAAATTCAGAAAGTGTCGATACTTCTATTAAAGTATCG
65 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCG
* *
688792 ACAATTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGA-TCGGTTTTGTCAT-T
130 ACACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACT-GATTTTGTCATAT
* *
688855 TTTTATCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCCACACTTTATAGGCGCTA
194 TTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTA
* *
688920 TAACTTATTCTCTTTTAAATTCC-AAAGTGTCGATACTTATATTAAAGTATCAACACTTTCAACA
259 TAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACA
* *
688984 TATCTGGTAGTTATTTACTTGTTTTGTCATTTTGAGACCGG
324 TATCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGG
* *
689025 TTTTGTCATATTATTATCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACTT
1 TTTTGTCATATTTTTAGCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACTT
* * * *
689090 TTTAGGTGCTATAACTTCTTCTCTTTTAAATTCAGAAATTGTTGATACTTATTTTAAATTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
* *
689155 CACTTTCAACATATCCGGTAGCGTTTTACCAGTTTTGTCATTTTGAGACCGATTTTGTCATATTT
131 CACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACTGATTTTGTCATATTT
* * ** **
689220 TTATCTGTAATATTGTTATGGATTAATACA-TTTTTTAAAGTATCGACACTTTATAGATGCTATA
196 TTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATA
*
689284 ACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGACATTTTCAACATA
261 ACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACATA
*
689349 TCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACTGG
326 TCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGG
* * *
689388 TTTTGTCATTTTTTTAGCTGTTATATTGTTATAGATCAATACAATTTCATAAAGTGTCGACACTT
1 TTTTGTCATATTTTTAGCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACTT
689453 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGGAAAGTGTCGATACTTATATTAAATT
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTC----A-GAAAGTGTCGATACTTATATTAAATT
* *
689518 ATCGACACTTTCAATATATCCGGTAGAGTTTTACCGGTTTTGTCAT
126 ATCGACACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCAT
689564 ATTTTTACCT
Statistics
Matches: 1500, Mismatches: 112, Indels: 28
0.91 0.07 0.02
Matches are distributed among these distances:
362 329 0.22
363 736 0.49
364 180 0.12
365 188 0.13
367 1 0.00
368 66 0.04
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (364 bp):
TTTTGTCATATTTTTAGCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACTT
TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
CACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACTGATTTTGTCATATTT
TTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATA
ACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACATA
TCCGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGG
Found at i:692499 original size:60 final size:59
Alignment explanation
Indices: 692401--692513 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 59
692391 GCATATACAG
*
692401 ATAGTTTGAGATAAAATTGAAATGTTCAAAAGTATGAGGATAAATATAGAATGAGGGTC
1 ATAGTTTGAGATAAAATTAAAATGTTCAAAAGTATGAGGATAAATATAGAATGAGGGTC
* * * *
692460 ATAGTTTGGGAATGAAATTAAAATGTTCAAAAG-ATTGAGGATTAATTTAGAATG
1 ATAGTTTGAG-ATAAAATTAAAATGTTCAAAAGTA-TGAGGATAAATATAGAATG
692514 GGAGCCATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
59 10 0.21
60 37 0.79
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.31
Consensus pattern (59 bp):
ATAGTTTGAGATAAAATTAAAATGTTCAAAAGTATGAGGATAAATATAGAATGAGGGTC
Found at i:693240 original size:21 final size:20
Alignment explanation
Indices: 693214--693252 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
693204 GTTATTAAAC
*
693214 TGTTATGAAATAGTTGATATA
1 TGTTATAAAATAG-TGATATA
693235 TGTTATAAAATAGTGATA
1 TGTTATAAAATAGTGATA
693253 AGTTTTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (20 bp):
TGTTATAAAATAGTGATATA
Found at i:696987 original size:17 final size:17
Alignment explanation
Indices: 696965--697004 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
696955 ACTTTGACCA
696965 AAAAGTTAAATTTT-TCG
1 AAAAGTTAAATTTTCT-G
696982 AAAAGTTAAATTTTCTG
1 AAAAGTTAAATTTTCTG
696999 AAAAGT
1 AAAAGT
697005 CATATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (17 bp):
AAAAGTTAAATTTTCTG
Found at i:697011 original size:17 final size:16
Alignment explanation
Indices: 696965--697012 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
696955 ACTTTGACCA
*
696965 AAAAGTTAAATTTTTCG
1 AAAAGTCAAA-TTTTCG
*
696982 AAAAGTTAAATTTTCTG
1 AAAAGTCAAATTTTC-G
*
696999 AAAAGTCATATTTT
1 AAAAGTCAAATTTT
697013 ATTTTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.18
17 23 0.82
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (16 bp):
AAAAGTCAAATTTTCG
Done.