Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 47 of 126
Found at i:14002162 original size:57 final size:57
Alignment explanation
Indices: 14001999--14002514 Score: 458
Period size: 57 Copynumber: 9.0 Consensus size: 57
14001989 ATAATTTTTT
* * *
14001999 TGAAAAA-TAATGGCAAAATTGTAAAATCTAGAAAATAGTGACAAAACTGTAAAATC
1 TGAAAAACCAATGGCAAAACTGTAAAATCTAGAAAATAGTGGCAAAACTGTAAAATC
* * * * * *
14002055 TG-GAAATCAGTGGC-AAACTGTAAAATCTAG-AAATCAATGGCAAAAATGTAAAATA
1 TGAAAAACCAATGGCAAAACTGTAAAATCTAGAAAAT-AGTGGCAAAACTGTAAAATC
* * * * *
14002110 TGAAAAACCAGTGGCAAAACTATAAAATCTA-AAAATTAGGGGTAAAACTGTAAAATT
1 TGAAAAACCAATGGCAAAACTGTAAAATCTAGAAAA-TAGTGGCAAAACTGTAAAATC
* * * * * *
14002167 TAAAAAACCAATGGCAAAATTTTAAAATCTGGAAAACAGTGCCAAAACTGTAAAATC
1 TGAAAAACCAATGGCAAAACTGTAAAATCTAGAAAATAGTGGCAAAACTGTAAAATC
* * *
14002224 TGGAAAAACTAATGGCAAAACTGTAAAATCTAGAAAATAGTGGTAAAACTATAAAATC
1 T-GAAAAACCAATGGCAAAACTGTAAAATCTAGAAAATAGTGGCAAAACTGTAAAATC
*
14002282 TGAAAAACCAATGGCAAAACTATAAAATCTAGAAAATATGGAGAACCAGTGGCAAAAC--TAAAA
1 TGAAAAACCAATGGCAAAACTGTAAAATCTAG-AAA-AT--------AGTGGCAAAACTGTAAAA
14002345 TC
56 TC
* * * * * * *
14002347 TGGAAAACTAGTGGCAAAACTGTAAAATCTGGAAAACCAATGGCAAAACTATAAAATC
1 TGAAAAACCAATGGCAAAACTGTAAAATCTAGAAAA-TAGTGGCAAAACTGTAAAATC
* * * * * *
14002405 TGGAAAA-TAATGGCAAAATTGTAAAATCTGGAAAACAGTGGC-AAACTGTAAAACC
1 TGAAAAACCAATGGCAAAACTGTAAAATCTAGAAAATAGTGGCAAAACTGTAAAATC
* * * * *
14002460 TGGAAAACCAGTGGCAAAATTGTAAAATCTA-AAACTAGTGGCAAAATTGTAAAAT
1 TGAAAAACCAATGGCAAAACTGTAAAATCTAGAAAATAGTGGCAAAACTGTAAAAT
14002515 AGTGACAATT
Statistics
Matches: 380, Mismatches: 57, Indels: 46
0.79 0.12 0.10
Matches are distributed among these distances:
54 4 0.01
55 63 0.17
56 63 0.17
57 130 0.34
58 70 0.18
59 2 0.01
63 1 0.00
64 3 0.01
65 34 0.09
67 10 0.03
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.21
Consensus pattern (57 bp):
TGAAAAACCAATGGCAAAACTGTAAAATCTAGAAAATAGTGGCAAAACTGTAAAATC
Found at i:14002318 original size:38 final size:36
Alignment explanation
Indices: 14002267--14002353 Score: 95
Period size: 38 Copynumber: 2.4 Consensus size: 36
14002257 AAAATAGTGG
* *
14002267 TAAAA-CTATAAAATCTGAAAAACCAATGGCAAAAC
1 TAAAATCTAGAAAATATGAAAAACCAATGGCAAAAC
* * *
14002302 TATAAAATCTAGAAAATATGGAGAACCAGTGGCAAAAC
1 --TAAAATCTAGAAAATATGAAAAACCAATGGCAAAAC
*
14002340 TAAAATCTGGAAAA
1 TAAAATCTAGAAAA
14002354 CTAGTGGCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
36 13 0.30
37 5 0.12
38 25 0.58
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.18
Consensus pattern (36 bp):
TAAAATCTAGAAAATATGAAAAACCAATGGCAAAAC
Found at i:14002373 original size:94 final size:94
Alignment explanation
Indices: 14002236--14002413 Score: 286
Period size: 94 Copynumber: 1.9 Consensus size: 94
14002226 GAAAAACTAA
*
14002236 TGGCAAAACTGTAAAATCTAGAAAATAGTGGTAAAACTATAAAATCTGAAAAACCAATGGCAAAA
1 TGGCAAAAC-GTAAAATCTAGAAAATAGTGGCAAAACTATAAAATCTGAAAAACCAATGGCAAAA
14002301 CTATAAAATCTAGAAAATATGGAGAACCAG
65 CTATAAAATCTAGAAAATATGGAGAACCAG
* * *
14002331 TGGCAAAAC-TAAAATCTGGAAAACTAGTGGCAAAACTGTAAAATCTGGAAAACCAATGGCAAAA
1 TGGCAAAACGTAAAATCTAGAAAA-TAGTGGCAAAACTATAAAATCTGAAAAACCAATGGCAAAA
*
14002395 CTATAAAATCTGGAAAATA
65 CTATAAAATCTAGAAAATA
14002414 ATGGCAAAAT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
93 13 0.17
94 55 0.71
95 9 0.12
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (94 bp):
TGGCAAAACGTAAAATCTAGAAAATAGTGGCAAAACTATAAAATCTGAAAAACCAATGGCAAAAC
TATAAAATCTAGAAAATATGGAGAACCAG
Found at i:14002429 original size:28 final size:29
Alignment explanation
Indices: 14002314--14002514 Score: 245
Period size: 27 Copynumber: 7.2 Consensus size: 29
14002304 TAAAATCTAG
* *
14002314 AAAATATGGAGAACCAGTGGCAAAAC--T
1 AAAATCTGGAAAACCAGTGGCAAAACTGT
*
14002341 AAAATCTGGAAAACTAGTGGCAAAACTGT
1 AAAATCTGGAAAACCAGTGGCAAAACTGT
* *
14002370 AAAATCTGGAAAACCAATGGCAAAACTAT
1 AAAATCTGGAAAACCAGTGGCAAAACTGT
* * *
14002399 AAAATCTGGAAAA-TAATGGCAAAATTGT
1 AAAATCTGGAAAACCAGTGGCAAAACTGT
14002427 AAAATCTGGAAAA-CAGTGGC-AAACTGT
1 AAAATCTGGAAAACCAGTGGCAAAACTGT
* *
14002454 AAAACCTGGAAAACCAGTGGCAAAATTGT
1 AAAATCTGGAAAACCAGTGGCAAAACTGT
* *
14002483 AAAATCT--AAAACTAGTGGCAAAATTGT
1 AAAATCTGGAAAACCAGTGGCAAAACTGT
14002510 AAAAT
1 AAAAT
14002515 AGTGACAATT
Statistics
Matches: 154, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
27 65 0.42
28 37 0.24
29 52 0.34
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.20
Consensus pattern (29 bp):
AAAATCTGGAAAACCAGTGGCAAAACTGT
Found at i:14003107 original size:20 final size:19
Alignment explanation
Indices: 14003084--14003131 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
14003074 ACATTATTAA
*
14003084 TATTAATTTTTTATTAAATT
1 TATTAATTTTATATT-AATT
*
14003104 TATTAAATTTATATTAATT
1 TATTAATTTTATATTAATT
14003123 T-TTAATTTT
1 TATTAATTTT
14003132 GAACGGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 7 0.28
19 5 0.20
20 13 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTAATTTTATATTAATT
Found at i:14007020 original size:28 final size:29
Alignment explanation
Indices: 14006979--14007047 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
14006969 TAAACATATA
* *
14006979 AAATTACAA-AAAATAATAA-AAAACTTAT
1 AAATTATAATAAAAT-ATAATAAAACTAAT
*
14007007 AAA-TATTATAAAATATAATAAAACTAAT
1 AAATTATAATAAAATATAATAAAACTAAT
14007035 AAATTATAATAAA
1 AAATTATAATAAA
14007048 TTCTATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
27 7 0.21
28 19 0.56
29 8 0.24
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (29 bp):
AAATTATAATAAAATATAATAAAACTAAT
Found at i:14007027 original size:19 final size:19
Alignment explanation
Indices: 14007005--14007076 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 19
14006995 TAAAAAACTT
14007005 ATAAATATTATAAAATATA
1 ATAAATATTATAAAATATA
* *
14007024 ATAAA-ACTAATAAATTATA
1 ATAAATA-TTATAAAATATA
14007043 ATAAAT-TCTATAAAAT-TAA
1 ATAAATAT-TATAAAATAT-A
*
14007062 AAAAATATT-TAAAAT
1 ATAAATATTATAAAAT
14007077 TTTATAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
18 9 0.21
19 33 0.77
20 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAAATATTATAAAATATA
Found at i:14007027 original size:30 final size:29
Alignment explanation
Indices: 14006970--14007029 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
14006960 ATCTTGATAT
14006970 AAACATATAAAATTACAAAAAATAATAAA
1 AAACATATAAAATTACAAAAAATAATAAA
* * *
14006999 AAACTTATAAATATTATAAAATATAATAAA
1 AAACATATAAA-ATTACAAAAAATAATAAA
14007029 A
1 A
14007030 CTAATAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (29 bp):
AAACATATAAAATTACAAAAAATAATAAA
Found at i:14007144 original size:20 final size:20
Alignment explanation
Indices: 14007057--14007144 Score: 52
Period size: 20 Copynumber: 4.3 Consensus size: 20
14007047 ATTCTATAAA
**
14007057 ATTAAAAAAATATTTAAAAT
1 ATTAAAAAAATATAAAAAAT
* * *
14007077 TTTATAAAAACGTATAAAAATT
1 ATTA-AAAAA-ATATAAAAAAT
* *** *
14007099 CTTAAAACTTTATAGAAAAT
1 ATTAAAAAAATATAAAAAAT
14007119 CA-TAAAAAAATATAAAAAAT
1 -ATTAAAAAAATATAAAAAAT
14007139 ATTAAA
1 ATTAAA
14007145 TTTGATATCA
Statistics
Matches: 48, Mismatches: 16, Indels: 8
0.67 0.22 0.11
Matches are distributed among these distances:
19 1 0.02
20 29 0.60
21 8 0.17
22 10 0.21
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (20 bp):
ATTAAAAAAATATAAAAAAT
Found at i:14007862 original size:18 final size:19
Alignment explanation
Indices: 14007830--14007869 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
14007820 ATGACTCTAA
14007830 AATAATAACAAAGTTA-AT
1 AATAATAACAAAGTTATAT
14007848 AATAA-AACAAGAGTTATAT
1 AATAATAACAA-AGTTATAT
14007867 AAT
1 AAT
14007870 GTCTAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 10 0.50
19 5 0.25
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (19 bp):
AATAATAACAAAGTTATAT
Found at i:14008244 original size:15 final size:15
Alignment explanation
Indices: 14008224--14008257 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
14008214 TACTGTACTT
*
14008224 AAAAATTTGAAAATA
1 AAAAATTTAAAAATA
14008239 AAAAATTTAAAAATA
1 AAAAATTTAAAAATA
14008254 AAAA
1 AAAA
14008258 TAAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (15 bp):
AAAAATTTAAAAATA
Found at i:14008606 original size:30 final size:31
Alignment explanation
Indices: 14008521--14008609 Score: 89
Period size: 29 Copynumber: 3.0 Consensus size: 31
14008511 AAAATTTTGT
* *
14008521 TAAT-TTTATATAGTCTTTAATGATTTATT-A
1 TAATATTTATA-AGTCTTTTATGATTTTTTAA
* *
14008551 -AA-ATTTATTAATTCTTTTATCATTTTTTAA
1 TAATATTTA-TAAGTCTTTTATGATTTTTTAA
14008581 TAATATTTATAAGT-TTTTATGATTTTTTA
1 TAATATTTATAAGTCTTTTATGATTTTTTA
14008610 TATTTTTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
29 20 0.42
30 17 0.35
31 6 0.12
32 5 0.10
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (31 bp):
TAATATTTATAAGTCTTTTATGATTTTTTAA
Found at i:14008732 original size:29 final size:29
Alignment explanation
Indices: 14008691--14008748 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
14008681 ATAATTTTTA
14008691 TTTTTAATGATTTTTAATA-TTTTTATAGG
1 TTTTTAATGATTTTT-ATACTTTTTATAGG
14008720 TTTTTAA-GAATTTTTATACTTTTTTATAG
1 TTTTTAATG-ATTTTTATAC-TTTTTATAG
14008749 AATTTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 4 0.15
29 13 0.50
30 9 0.35
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.62
Consensus pattern (29 bp):
TTTTTAATGATTTTTATACTTTTTATAGG
Found at i:14008743 original size:20 final size:21
Alignment explanation
Indices: 14008709--14008754 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
14008699 GATTTTTAAT
*
14008709 ATTTTTATAGGTTTTTA-AGA
1 ATTTTTATACGTTTTTATAGA
*
14008729 ATTTTTATACTTTTTTATAGA
1 ATTTTTATACGTTTTTATAGA
14008750 ATTTT
1 ATTTT
14008755 AAATATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.61
Consensus pattern (21 bp):
ATTTTTATACGTTTTTATAGA
Found at i:14009511 original size:24 final size:24
Alignment explanation
Indices: 14009479--14009549 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
14009469 AATCTTCCAG
*
14009479 TTAAACTCTATTTATTTATTTCAA
1 TTAAACTCTATTTATTTGTTTCAA
* * *
14009503 TTAAACTCTGTTTATTTGTTTTAG
1 TTAAACTCTATTTATTTGTTTCAA
14009527 TTAAACTCTATTTATTTGTTTCA
1 TTAAACTCTATTTATTTGTTTCA
14009550 GTCAAATTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.27, C:0.11, G:0.06, T:0.56
Consensus pattern (24 bp):
TTAAACTCTATTTATTTGTTTCAA
Found at i:14011517 original size:24 final size:24
Alignment explanation
Indices: 14011461--14011520 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
14011451 AATAATCTTC
14011461 CAGTTAAACTCTGTTTATTTGTTT
1 CAGTTAAACTCTGTTTATTTGTTT
* *
14011485 AAATTAAACTCTGTTTATTTGTTT
1 CAGTTAAACTCTGTTTATTTGTTT
*
14011509 CAGTCAAACTCT
1 CAGTTAAACTCT
14011521 TCTTAGTCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (24 bp):
CAGTTAAACTCTGTTTATTTGTTT
Found at i:14013980 original size:36 final size:36
Alignment explanation
Indices: 14013912--14013980 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
14013902 ATTTTTTTAA
* * * *
14013912 AATATAAAATTATTAAATTTATTATATTATTTTTTG
1 AATATAAAATTATTAAAATTACTAAATAATTTTTTG
14013948 AATATAAAATTATTAAAATTACTAAATAATTTT
1 AATATAAAATTATTAAAATTACTAAATAATTTT
14013981 AATCTCATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (36 bp):
AATATAAAATTATTAAAATTACTAAATAATTTTTTG
Found at i:14014063 original size:14 final size:14
Alignment explanation
Indices: 14014044--14014073 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
14014034 GTCTCTTTCA
14014044 ATTGTTTCTTCACC
1 ATTGTTTCTTCACC
14014058 ATTGTTTCTTCACC
1 ATTGTTTCTTCACC
14014072 AT
1 AT
14014074 AGCCCTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.17, C:0.27, G:0.07, T:0.50
Consensus pattern (14 bp):
ATTGTTTCTTCACC
Found at i:14015143 original size:38 final size:38
Alignment explanation
Indices: 14015092--14015169 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
14015082 CGATGAGGTT
* * *
14015092 AAAATAATTTAATAATTTTAACAATTTTATATTTTAAA
1 AAAATAATATAATAAATATAACAATTTTATATTTTAAA
*
14015130 AAAATAATATAATAAATATAATAATTTTATATTTTAAA
1 AAAATAATATAATAAATATAACAATTTTATATTTTAAA
14015168 AA
1 AA
14015170 TTAATTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (38 bp):
AAAATAATATAATAAATATAACAATTTTATATTTTAAA
Found at i:14015183 original size:11 final size:11
Alignment explanation
Indices: 14015167--14015192 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14015157 TATATTTTAA
14015167 AAATTAATTTT
1 AAATTAATTTT
14015178 AAATTAATTTT
1 AAATTAATTTT
14015189 AAAT
1 AAAT
14015193 CATTTGTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATTAATTTT
Found at i:14018667 original size:6 final size:6
Alignment explanation
Indices: 14018658--14018709 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
14018648 ATGAAAGAAC
* * * *
14018658 AAGATG AAGATC AAGAT- AGAGGTG GAGGTG AAGATG AAGATG AAGATG
1 AAGATG AAGATG AAGATG A-AGATG AAGATG AAGATG AAGATG AAGATG
14018706 AAGA
1 AAGA
14018710 AGATGAGGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
5 1 0.03
6 38 0.97
ACGTcount: A:0.46, C:0.02, G:0.37, T:0.15
Consensus pattern (6 bp):
AAGATG
Found at i:14020808 original size:9 final size:9
Alignment explanation
Indices: 14020794--14020818 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14020784 GTTTAGCATT
14020794 GCATTTTTA
1 GCATTTTTA
14020803 GCATTTTTA
1 GCATTTTTA
14020812 GCATTTT
1 GCATTTT
14020819 ACATTTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.56
Consensus pattern (9 bp):
GCATTTTTA
Found at i:14022655 original size:900 final size:899
Alignment explanation
Indices: 14020919--14022719 Score: 3233
Period size: 900 Copynumber: 2.0 Consensus size: 899
14020909 AGTTTTGATA
*
14020919 AATGCGCTGACAGTTTAACTAAAGTTTTGAAGCGATGCGAGGATACTAATCTGGTGCTAAATTGG
1 AATGCGCTGACAGTTTAACTAAAGTTTTGAAGCGATGCGAGGATACTAATCTAGTGCTAAATTGG
* * *
14020984 GAAAAATGTCACTTCATGGCAACTGAAGGCATTGTGCTTTGGCATTGTATCTCTTGTCAGAGCAT
66 GAAAAATGTCACTTCATGGCAACTGAAGGCATTGTCCTTTGGCATCGTATCTCTTGCCAGAGCAT
* * * *
14021049 AGAAGTAGACAAGGACAAGGTAGAGATTATTGAGAAACTGCCCCCACCTACCAATGTTAAAGGAA
131 AGAAGTAGACAAGCACAAAGTAAAGATTATTGAGAAACTGCCCCCACCTACCAATGTCAAAGGAA
* * *
14021114 TAAGGAGTTTTCTCGGCCACGCAAGATTCTATCGACATTCATCCTTGATTTCTCCAAAATTGCAA
196 TAAGGAGTTTTCTCGGCCACGCAAGATTCTATCGACACTCATCCGTGATTTCTCCAAAATTACAA
14021179 AACCTCTCTGCTCCCTGTTGGAGCAAAATAAAAAGTTTTTGTTCGATGCTGCCTGTTTGGAAGCA
261 AACCTCTCTGCTCCCTGTTGGAGCAAAATAAAAAGTTTTTGTTCGATGCTGCCTGTTTGGAAGCA
14021244 TTTGTAAAAATTAAGCAGCAGTTAGTGCAGGTACCTATTATTGTCGCATTGGACTAGTCACAACC
326 TTTGTAAAAATTAAGCAGCAGTTAGTGCAGGTACCTATTATTGTCGCATTGGACTAGTCACAACC
*
14021309 GTTAGAAGTTATGCGTGATGCAAGCGACTATGCTGTAGGTGTAGTGCTTGGGCAACGCAAAGACA
391 GTTAGAAGTTATGCGTGATGCAAGCGACTATGCTGTAGGTGTAGTGCTTGGGCAACACAAAGACA
14021374 AGGTATTTCATACAATTTATTATGCTAGAAAAATTCTTACTGAAGCGCAGGTTAATTATACAACC
456 AGGTATTTCATACAATTTATTATGCTAGAAAAATTCTTACTGAAGCGCAGGTTAATTATACAACC
* *
14021439 ACAGAAAAAGAATTGTTGGCAATAATTTTTGCATTCGACAAGTTTCGTTCTTATCTTGTCAGCAC
521 ACAAAAAAAGAATTGTTGGCAATAATTTTTGCATTCGACAAGTTTCATTCTTATCTTGTCAGCAC
*
14021504 AAAAGTTATAATCTATACTGATCATTCTGCATTGAGATACCTCTTTGCCAAAAAAGATGCTAAAC
586 AAAAGTTATAATCTATACTAATCATTCTGCATTGAGATACCTCTTTGCCAAAAAAGATGCTAAAC
14021569 CAAGGATGATTAGATGGATCCTGTTATTACAAGAATTTGATGTTGAAATTAAAGATCGAAAAGGA
651 CAAGGATGATTAGATGGATCCTGTTATTACAAGAATTTGATGTTGAAATTAAAGATCGAAAAGGA
*
14021634 TCGAAAATCAGGTAGCAGACTATTTATCTCGTTTGGAATTTGGGAGTGAAGATGAAAATACGTCA
716 TCGAAAATCAGGTAGCAGACTATTTATCCCGTTTGGAATTTGGGAGTGAAGATGAAAATACGTCA
14021699 CAAATTGCCGACGCATTCTCAGACAAGAAGCTATTCTCTATCAATACATCCCCATGGTATGCAGA
781 CAAATTGCCGACGCATTCTCAGACAAGAAGCTATTCTCTATCAATACATCCCCATGGTATGCAGA
14021764 TATTGTCAATTATTTGGTCTGTGGAAAACTACCATTGAGTGCAAATGGTCACCG
846 TATTGTCAATTATTTGGTCTGTGGAAAACTACCATTGAGTGCAAATGGTCACCG
* * *
14021818 AATGCGCTGATAGTTTAACTAAAGTTTTGAAGCGATGTGAGGATACTAATCTAGTGTTAAATTGG
1 AATGCGCTGACAGTTTAACTAAAGTTTTGAAGCGATGCGAGGATACTAATCTAGTGCTAAATTGG
* *
14021883 GAAAAATGTCACTTCATGGCGACTGAAGGCATTGTCCTTTGGCATCGTATCTCTTGCCAGGGCAT
66 GAAAAATGTCACTTCATGGCAACTGAAGGCATTGTCCTTTGGCATCGTATCTCTTGCCAGAGCAT
* * * * * * *
14021948 AGAATTAGACAAGCCCAAAGTAAAGATTATTGAGAAGCTGGCCCTACTTACCAATGTCAAGGGAA
131 AGAAGTAGACAAGCACAAAGTAAAGATTATTGAGAAACTGCCCCCACCTACCAATGTCAAAGGAA
* * *
14022013 TAAGGAGTTTTCTCGGCCATGCAGGATTCTATCGACGACTCATTCGTGATTTCTCCAAAATTACA
196 TAAGGAGTTTTCTCGGCCACGCAAGATTCTATCGAC-ACTCATCCGTGATTTCTCCAAAATTACA
*
14022078 AAACCTCTCTGCTCCCTGTTGGAGCAAAATAAAAAGTTTTTGTTCGATGCTTCCTGTTTGGAAGC
260 AAACCTCTCTGCTCCCTGTTGGAGCAAAATAAAAAGTTTTTGTTCGATGCTGCCTGTTTGGAAGC
*
14022143 ATTTGTAAAAATTAAGCAGCAGTTAGTGTAGGTACCTATTATTGTCGCATTGGACTAGTCACAAC
325 ATTTGTAAAAATTAAGCAGCAGTTAGTGCAGGTACCTATTATTGTCGCATTGGACTAGTCACAAC
14022208 CGTTAGAAGTTATGCGTGATGCAAGCGACTATGCTGTAGGTGTAGTGCTTGGGCAACACAAAGAC
390 CGTTAGAAGTTATGCGTGATGCAAGCGACTATGCTGTAGGTGTAGTGCTTGGGCAACACAAAGAC
*
14022273 AAGGTATTTCATACAATTTGTTATGCTAGAAAAATTCTTACTGAAGCGCAGGTTAATTATACAAC
455 AAGGTATTTCATACAATTTATTATGCTAGAAAAATTCTTACTGAAGCGCAGGTTAATTATACAAC
*
14022338 CACAAAAAAAGAATTGTTGGCAATAATTTTTGCATTCGACAAGTTTCATTCTTATCTTGTCGGCA
520 CACAAAAAAAGAATTGTTGGCAATAATTTTTGCATTCGACAAGTTTCATTCTTATCTTGTCAGCA
14022403 CAAAAGTTATAATCTATACTAATCATTCTGCATTGAGATACCTCTTTGCCAAAAAAGATGCTAAA
585 CAAAAGTTATAATCTATACTAATCATTCTGCATTGAGATACCTCTTTGCCAAAAAAGATGCTAAA
*
14022468 CCAAGGATGATTAGATGGATCCTGTTATTACAAGAATTTGATGTTGAAATTAAGGATCGAAAAGG
650 CCAAGGATGATTAGATGGATCCTGTTATTACAAGAATTTGATGTTGAAATTAAAGATCGAAAAGG
*
14022533 ATTGAAAATCAGGTAGCAGACTATTTATCCCGTTTGGAATTTGGGAGTGAAGATGAAAATACGTC
715 ATCGAAAATCAGGTAGCAGACTATTTATCCCGTTTGGAATTTGGGAGTGAAGATGAAAATACGTC
* *
14022598 ACAAATTGTCGACGCATTCTCAGACAAGAAGCTATTCTCTGTCAATACATCCCCATGGTATGCAG
780 ACAAATTGCCGACGCATTCTCAGACAAGAAGCTATTCTCTATCAATACATCCCCATGGTATGCAG
*
14022663 ATATTGTCAATTATTTGGTCTGTGGAAAACTACCATTGAGTGCAAATGGTCCCCG
845 ATATTGTCAATTATTTGGTCTGTGGAAAACTACCATTGAGTGCAAATGGTCACCG
14022718 AA
1 AA
14022720 AGGTCAGATT
Statistics
Matches: 861, Mismatches: 40, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
899 209 0.24
900 652 0.76
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (899 bp):
AATGCGCTGACAGTTTAACTAAAGTTTTGAAGCGATGCGAGGATACTAATCTAGTGCTAAATTGG
GAAAAATGTCACTTCATGGCAACTGAAGGCATTGTCCTTTGGCATCGTATCTCTTGCCAGAGCAT
AGAAGTAGACAAGCACAAAGTAAAGATTATTGAGAAACTGCCCCCACCTACCAATGTCAAAGGAA
TAAGGAGTTTTCTCGGCCACGCAAGATTCTATCGACACTCATCCGTGATTTCTCCAAAATTACAA
AACCTCTCTGCTCCCTGTTGGAGCAAAATAAAAAGTTTTTGTTCGATGCTGCCTGTTTGGAAGCA
TTTGTAAAAATTAAGCAGCAGTTAGTGCAGGTACCTATTATTGTCGCATTGGACTAGTCACAACC
GTTAGAAGTTATGCGTGATGCAAGCGACTATGCTGTAGGTGTAGTGCTTGGGCAACACAAAGACA
AGGTATTTCATACAATTTATTATGCTAGAAAAATTCTTACTGAAGCGCAGGTTAATTATACAACC
ACAAAAAAAGAATTGTTGGCAATAATTTTTGCATTCGACAAGTTTCATTCTTATCTTGTCAGCAC
AAAAGTTATAATCTATACTAATCATTCTGCATTGAGATACCTCTTTGCCAAAAAAGATGCTAAAC
CAAGGATGATTAGATGGATCCTGTTATTACAAGAATTTGATGTTGAAATTAAAGATCGAAAAGGA
TCGAAAATCAGGTAGCAGACTATTTATCCCGTTTGGAATTTGGGAGTGAAGATGAAAATACGTCA
CAAATTGCCGACGCATTCTCAGACAAGAAGCTATTCTCTATCAATACATCCCCATGGTATGCAGA
TATTGTCAATTATTTGGTCTGTGGAAAACTACCATTGAGTGCAAATGGTCACCG
Found at i:14025787 original size:21 final size:20
Alignment explanation
Indices: 14025763--14025814 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
14025753 TGTGGGTATT
14025763 GAAGAGAAGGAAGAAGAAAAA
1 GAAGAGAAGGAAGAAG-AAAA
*
14025784 GAAGACGAAAG-AGAAGAAAA
1 GAAGA-GAAGGAAGAAGAAAA
14025804 GAA-AG-AGGAAG
1 GAAGAGAAGGAAG
14025815 TTCCTGTCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 2 0.07
18 3 0.11
19 1 0.04
20 7 0.26
21 10 0.37
22 4 0.15
ACGTcount: A:0.63, C:0.02, G:0.35, T:0.00
Consensus pattern (20 bp):
GAAGAGAAGGAAGAAGAAAA
Found at i:14026118 original size:75 final size:75
Alignment explanation
Indices: 14026028--14026175 Score: 206
Period size: 75 Copynumber: 2.0 Consensus size: 75
14026018 CACACAACCG
* * **
14026028 AATCTGGAGGAACAATCCACTGCCCCGGTTGAACCAATAAAAAGGAAACGTAAGTGCAAAGATAA
1 AATCTGGAAGAACAATCCACCGCCCCGGTTGAACCAATAAAAAGGAAACGTAAGCACAAAGATAA
14026093 AAAGAAGCAC
66 AAAGAAGCAC
* * * * * *
14026103 AATCTGGAAGAACAATCCACCGTCCTGGTTGAACTAATAGAAAGGAAACGTAAGCATAAAGATAG
1 AATCTGGAAGAACAATCCACCGCCCCGGTTGAACCAATAAAAAGGAAACGTAAGCACAAAGATAA
14026168 AAAGAAGC
66 AAAGAAGC
14026176 GTAAGGAGGA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 63 1.00
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (75 bp):
AATCTGGAAGAACAATCCACCGCCCCGGTTGAACCAATAAAAAGGAAACGTAAGCACAAAGATAA
AAAGAAGCAC
Found at i:14026327 original size:16 final size:17
Alignment explanation
Indices: 14026306--14026341 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
14026296 GTCATCACAT
*
14026306 TTTTA-TTGTCATTGCA
1 TTTTATTTGTCAATGCA
14026322 TTTTATTTGTCAATGCA
1 TTTTATTTGTCAATGCA
14026339 TTT
1 TTT
14026342 GCATTGTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.19, C:0.11, G:0.11, T:0.58
Consensus pattern (17 bp):
TTTTATTTGTCAATGCA
Found at i:14029067 original size:19 final size:19
Alignment explanation
Indices: 14029043--14029080 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14029033 AAGGTGATGG
14029043 TGCACTCCTTACATAGCGA
1 TGCACTCCTTACATAGCGA
14029062 TGCACTCCTTACATAGCGA
1 TGCACTCCTTACATAGCGA
14029081 ATGAAATGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (19 bp):
TGCACTCCTTACATAGCGA
Found at i:14029986 original size:18 final size:18
Alignment explanation
Indices: 14029958--14029992 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
14029948 ATAATAAACC
14029958 AAATACTTTTTTCAAAAAA
1 AAATAC-TTTTTCAAAAAA
14029977 AAAT-CTTTTTCAAAAA
1 AAATACTTTTTCAAAAA
14029993 TCATCTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 1 0.06
19 4 0.25
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATACTTTTTCAAAAAA
Found at i:14034741 original size:14 final size:14
Alignment explanation
Indices: 14034724--14034753 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14034714 TTTAAACTCT
*
14034724 AAAAGATAAATCTA
1 AAAAGATAAATATA
14034738 AAAAGATAAATATA
1 AAAAGATAAATATA
14034752 AA
1 AA
14034754 TTAAATATAA
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:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (14 bp):
AAAAGATAAATATA
Found at i:14038819 original size:7 final size:7
Alignment explanation
Indices: 14038807--14038836 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
14038797 AGCCTAATAC
14038807 ATATAAT
1 ATATAAT
14038814 ATATAAT
1 ATATAAT
14038821 ATATAAT
1 ATATAAT
14038828 ATATAAT
1 ATATAAT
14038835 AT
1 AT
14038837 TATTTCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
ATATAAT
Found at i:14057993 original size:22 final size:22
Alignment explanation
Indices: 14057968--14058040 Score: 103
Period size: 22 Copynumber: 3.3 Consensus size: 22
14057958 ATTATATTGT
* *
14057968 TGTTTTGGTGCTATTTTTTTGC
1 TGTTTTGGTGTTATTTTTTTAC
14057990 TGTTTTGGTTGTTA-TTTTTTAC
1 TGTTTTGG-TGTTATTTTTTTAC
*
14058012 TGTTTTGGTGTTATGTTTTTAC
1 TGTTTTGGTGTTATTTTTTTAC
14058034 TGTTTTG
1 TGTTTTG
14058041 ATTGTTGTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
21 5 0.11
22 37 0.80
23 4 0.09
ACGTcount: A:0.07, C:0.05, G:0.22, T:0.66
Consensus pattern (22 bp):
TGTTTTGGTGTTATTTTTTTAC
Found at i:14058031 original size:44 final size:44
Alignment explanation
Indices: 14057968--14058051 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
14057958 ATTATATTGT
* * *
14057968 TGTTTTGGTGCTATTTTTTTGCTGTTTTGGTTGTTATTTTTTAC
1 TGTTTTGGTGCTATGTTTTTACTGTTTTGATTGTTATTTTTTAC
* *
14058012 TGTTTTGGTGTTATGTTTTTACTGTTTTGATTGTTGTTTT
1 TGTTTTGGTGCTATGTTTTTACTGTTTTGATTGTTATTTT
14058052 GGTGTTATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.07, C:0.05, G:0.21, T:0.67
Consensus pattern (44 bp):
TGTTTTGGTGCTATGTTTTTACTGTTTTGATTGTTATTTTTTAC
Found at i:14058049 original size:21 final size:20
Alignment explanation
Indices: 14057983--14058051 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 20
14057973 TGGTGCTATT
* *
14057983 TTTTTGCTGTTTTGGTTGTTAT
1 TTTTTACTGTTTT-GTTGTT-G
*
14058005 TTTTTACTGTTTTGGTGTTATG
1 TTTTTACTGTTTTGTTG-T-TG
14058027 TTTTTACTGTTTTGATTGTTG
1 TTTTTACTGTTTTG-TTGTTG
14058048 TTTT
1 TTTT
14058052 GGTGTTATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 9 0.22
22 28 0.70
23 3 0.08
ACGTcount: A:0.07, C:0.04, G:0.20, T:0.68
Consensus pattern (20 bp):
TTTTTACTGTTTTGTTGTTG
Found at i:14058074 original size:23 final size:23
Alignment explanation
Indices: 14058048--14058097 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
14058038 TTGATTGTTG
14058048 TTTTGGTGTTATTATTATTATTA
1 TTTTGGTGTTATTATTATTATTA
* * *
14058071 TTTTGGTGTTGTTTTTATTGTTA
1 TTTTGGTGTTATTATTATTATTA
14058094 TTTT
1 TTTT
14058098 TGTTGCTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.14, C:0.00, G:0.16, T:0.70
Consensus pattern (23 bp):
TTTTGGTGTTATTATTATTATTA
Found at i:14058081 original size:34 final size:34
Alignment explanation
Indices: 14058012--14058085 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
14058002 TATTTTTTAC
* *
14058012 TGTTTTGGTGTTATGTTTTTACTGTTTTGATTGT
1 TGTTTTGGTGTTATGTTTTTACTATTTTGAGTGT
*
14058046 TGTTTTGGTGTTAT-TATTATTATTATTTTG-GTGT
1 TGTTTTGGTGTTATGT-TT-TTACTATTTTGAGTGT
14058080 TGTTTT
1 TGTTTT
14058086 TATTGTTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 1 0.03
34 25 0.71
35 9 0.26
ACGTcount: A:0.11, C:0.01, G:0.22, T:0.66
Consensus pattern (34 bp):
TGTTTTGGTGTTATGTTTTTACTATTTTGAGTGT
Found at i:14058109 original size:23 final size:23
Alignment explanation
Indices: 14058048--14058152 Score: 70
Period size: 24 Copynumber: 4.4 Consensus size: 23
14058038 TTGATTGTTG
*
14058048 TTTTGGTGTTATTATTATTATTAT
1 TTTTGTTGTTATT-TTATTATTAT
*
14058072 TTTGGTGTTG-T-TTTTATTGTTAT
1 TTT--TGTTGTTATTTTATTATTAT
* *
14058095 TTTTGTTGCTATTTTTTCTATTAT
1 TTTTGTTGTTATTTTAT-TATTAT
* * * *
14058119 TTTTGCTGTTGTTTTGGTTGTTAT
1 TTTTGTTGTTATTTT-ATTATTAT
*
14058143 TTTGGTTGTT
1 TTTTGTTGTT
14058153 TGGATGTTAT
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
21 5 0.08
22 1 0.02
23 17 0.27
24 35 0.55
25 2 0.03
26 4 0.06
ACGTcount: A:0.10, C:0.03, G:0.18, T:0.69
Consensus pattern (23 bp):
TTTTGTTGTTATTTTATTATTAT
Found at i:14058146 original size:12 final size:12
Alignment explanation
Indices: 14058036--14058152 Score: 62
Period size: 12 Copynumber: 9.9 Consensus size: 12
14058026 GTTTTTACTG
* *
14058036 TTTTGATTGTTG
1 TTTTGGTTGTTA
14058048 TTTTGG-TGTTA
1 TTTTGGTTGTTA
* *
14058059 TTATT-ATTATTA
1 TT-TTGGTTGTTA
*
14058071 TTTTGG-TGTTG
1 TTTTGGTTGTTA
**
14058082 TTTTTATTGTTA
1 TTTTGGTTGTTA
* *
14058094 TTTTTGTTGCTA
1 TTTTGGTTGTTA
* *
14058106 TTTT-TTCTATTA
1 TTTTGGT-TGTTA
* * *
14058118 TTTTTGCTGTTG
1 TTTTGGTTGTTA
14058130 TTTTGGTTGTTA
1 TTTTGGTTGTTA
14058142 TTTTGGTTGTT
1 TTTTGGTTGTT
14058153 TGGATGTTAT
Statistics
Matches: 77, Mismatches: 22, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
11 16 0.21
12 61 0.79
ACGTcount: A:0.10, C:0.03, G:0.19, T:0.68
Consensus pattern (12 bp):
TTTTGGTTGTTA
Found at i:14058166 original size:21 final size:23
Alignment explanation
Indices: 14058115--14058166 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 23
14058105 ATTTTTTCTA
*
14058115 TTATTTTTGCTGTTGTTTTGGTTG
1 TTATTTTTGC-GTTGTTTTGGATG
14058139 TTA-TTTTG-GTTG-TTTGGATG
1 TTATTTTTGCGTTGTTTTGGATG
14058159 TTATTTTT
1 TTATTTTT
14058167 ATGCGTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 10 0.38
21 8 0.31
23 5 0.19
24 3 0.12
ACGTcount: A:0.08, C:0.02, G:0.23, T:0.67
Consensus pattern (23 bp):
TTATTTTTGCGTTGTTTTGGATG
Found at i:14059188 original size:22 final size:21
Alignment explanation
Indices: 14059147--14059188 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14059137 GAATGATAAA
* *
14059147 TCAGGTTTTTCTTTCTAATTT
1 TCAGCTTTTTCTTCCTAATTT
14059168 TCAGCTTTTTCTTCCTGAATT
1 TCAGCTTTTTCTTCCT-AATT
14059189 CCTAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.14, C:0.19, G:0.10, T:0.57
Consensus pattern (21 bp):
TCAGCTTTTTCTTCCTAATTT
Found at i:14059825 original size:18 final size:20
Alignment explanation
Indices: 14059802--14059842 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
14059792 AGATATTATG
14059802 ATAATTA-AA-TATTTTAAA
1 ATAATTATAATTATTTTAAA
14059820 ATAATTATAATTTATTTTAAA
1 ATAATTATAA-TTATTTTAAA
14059841 AT
1 AT
14059843 TATGCTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 2 0.10
21 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAATTATAATTATTTTAAA
Found at i:14059851 original size:21 final size:21
Alignment explanation
Indices: 14059811--14059851 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14059801 GATAATTAAA
*
14059811 TATTTTAAAATAATTATAATT
1 TATTTTAAAATAATGATAATT
* *
14059832 TATTTTAAAATTATGCTAAT
1 TATTTTAAAATAATGATAAT
14059852 AAATTATTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TATTTTAAAATAATGATAATT
Found at i:14059920 original size:18 final size:19
Alignment explanation
Indices: 14059899--14059938 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
14059889 GATAAAAGCT
* *
14059899 ATTATAATTA-TAATTTAA
1 ATTACAATTATTAATTAAA
14059917 ATTACAATTATTAATTAAA
1 ATTACAATTATTAATTAAA
14059936 ATT
1 ATT
14059939 TGGTGTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTACAATTATTAATTAAA
Found at i:14060406 original size:20 final size:22
Alignment explanation
Indices: 14060383--14060435 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 22
14060373 TTTTTAAAAG
*
14060383 TTTTTATGAATTTTTTTA-T-A
1 TTTTTATGAATATTTTTATTAA
14060403 TTTTTA--AATATTTTTATTAA
1 TTTTTATGAATATTTTTATTAA
14060423 TTTTTATGAATAT
1 TTTTTATGAATAT
14060436 ATATGGACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 9 0.32
19 1 0.04
20 13 0.46
22 5 0.18
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (22 bp):
TTTTTATGAATATTTTTATTAA
Found at i:14060409 original size:30 final size:31
Alignment explanation
Indices: 14060368--14060427 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
14060358 CTAACATGGA
14060368 TATATTTTTTAAA-AGTTTTTATGAATTTTTT
1 TATATTTTTTAAATA-TTTTTATGAATTTTTT
*
14060399 TATA-TTTTTAAATATTTTTATTAATTTTT
1 TATATTTTTTAAATATTTTTATGAATTTTT
14060428 ATGAATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (31 bp):
TATATTTTTTAAATATTTTTATGAATTTTTT
Found at i:14061581 original size:17 final size:18
Alignment explanation
Indices: 14061559--14061594 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
14061549 AGTTAGGCAA
14061559 AAAAAAATA-ATTTTTCT
1 AAAAAAATAGATTTTTCT
14061576 AAAAAAATAGTATTTTTCT
1 AAAAAAATAG-ATTTTTCT
14061595 CCAATCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (18 bp):
AAAAAAATAGATTTTTCT
Found at i:14062161 original size:19 final size:20
Alignment explanation
Indices: 14062125--14062162 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14062115 GAAATAACAA
*
14062125 AAGAAAAATGTGAGATAAGG
1 AAGAAAAATGTGAAATAAGG
14062145 AAGAAAAATG-GAAATAAG
1 AAGAAAAATGTGAAATAAG
14062163 ACATAGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.00, G:0.26, T:0.13
Consensus pattern (20 bp):
AAGAAAAATGTGAAATAAGG
Found at i:14063126 original size:14 final size:14
Alignment explanation
Indices: 14063107--14063138 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14063097 TTTTCAATAA
14063107 TATTTTCTTTGCAT
1 TATTTTCTTTGCAT
*
14063121 TATTTTCTTTGTAT
1 TATTTTCTTTGCAT
14063135 TATT
1 TATT
14063139 CAATTATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.09, G:0.06, T:0.69
Consensus pattern (14 bp):
TATTTTCTTTGCAT
Found at i:14069477 original size:20 final size:20
Alignment explanation
Indices: 14069440--14069478 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14069430 AAGAAAGCGA
*
14069440 GAAAAAAATCTCTCCAAACC
1 GAAAAAAAACTCTCCAAACC
14069460 GAAAAAAACACTCT-CAAAC
1 GAAAAAAA-ACTCTCCAAAC
14069479 AACGAGAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.54, C:0.28, G:0.05, T:0.13
Consensus pattern (20 bp):
GAAAAAAAACTCTCCAAACC
Found at i:14069734 original size:3 final size:3
Alignment explanation
Indices: 14069726--14069783 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
14069716 TGAGAGATTA
14069726 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14069773 ATT ATT ATT AT
1 ATT ATT ATT AT
14069784 ATAAGCGTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:14072178 original size:18 final size:18
Alignment explanation
Indices: 14072128--14072179 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
14072118 CAGACACTAC
* *
14072128 AAAAGAAGAAGAAATAAAA
1 AAAAGAAG-AGAGAGAAAA
*
14072147 AAAAGTAA-AAAGAGAAAA
1 AAAAG-AAGAGAGAGAAAA
14072165 AAAAGAAGAGAGAGA
1 AAAAGAAGAGAGAGA
14072180 GAAGAATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
17 2 0.07
18 18 0.67
19 5 0.19
20 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (18 bp):
AAAAGAAGAGAGAGAAAA
Found at i:14075379 original size:29 final size:29
Alignment explanation
Indices: 14075317--14075405 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 29
14075307 ACTTTACAAT
* * * *
14075317 AATTAGATCAAATCAAAATTTCATATATAA
1 AATTACATAAAATC-AAAGTTCATGTATAA
*
14075347 AATTACATAAAATCAAAGTTCATGTATAC
1 AATTACATAAAATCAAAGTTCATGTATAA
* * *
14075376 AATTGCATATTAAACCATAGTTCATGTATA
1 AATTACATA--AAATCAAAGTTCATGTATA
14075406 GTTTTGATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
29 20 0.41
30 12 0.24
31 17 0.35
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (29 bp):
AATTACATAAAATCAAAGTTCATGTATAA
Found at i:14081428 original size:21 final size:21
Alignment explanation
Indices: 14081387--14081428 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
14081377 TAGCAATTTA
*
14081387 TAGATTTTCAAAAGCAAACTG
1 TAGATTTTCAAAAGAAAACTG
14081408 TAGATTTTCAAAAGAAAACTG
1 TAGATTTTCAAAAGAAAACTG
14081429 AGGCATCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (21 bp):
TAGATTTTCAAAAGAAAACTG
Found at i:14089796 original size:17 final size:17
Alignment explanation
Indices: 14089774--14089818 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
14089764 GTGTGAGTAT
14089774 ATATATATATGTATAAA
1 ATATATATATGTATAAA
*
14089791 ATATATA-ATTTATAAA
1 ATATATATATGTATAAA
14089807 A-A-A-ATATGTATA
1 ATATATATATGTATA
14089819 TAAAATTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 1 0.04
14 7 0.28
15 1 0.04
16 9 0.36
17 7 0.28
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (17 bp):
ATATATATATGTATAAA
Found at i:14092618 original size:21 final size:21
Alignment explanation
Indices: 14092576--14092619 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
14092566 CAAAGACAAT
**
14092576 TACCGATACAACTCTTGGTTC
1 TACCGATACAACTCAAGGTTC
14092597 TACCGATACAAC-CAAGGCTTC
1 TACCGATACAACTCAAGG-TTC
14092618 TA
1 TA
14092620 TTGGTAGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (21 bp):
TACCGATACAACTCAAGGTTC
Found at i:14092677 original size:70 final size:71
Alignment explanation
Indices: 14092594--14092746 Score: 245
Period size: 70 Copynumber: 2.2 Consensus size: 71
14092584 CAACTCTTGG
* * * *
14092594 TTCTACCGATACAACCAAGGCTTCTATTGGTAGAACAAACTCCAGTGAGC-AAGAAGTTGTGACT
1 TTCTACCGATACAACCAAGACCTCTATCGGTAGAACAAACTCCAGTGAGCAAAGAAGTTGTGACC
*
14092658 TGGGAC
66 TGAGAC
*
14092664 TTCTACCGATACAACCAAGACCTCTATCGGTAGAACAAACTCCAGTGAGCAAAGAAGTTGTGGCC
1 TTCTACCGATACAACCAAGACCTCTATCGGTAGAACAAACTCCAGTGAGCAAAGAAGTTGTGACC
14092729 TGAGAC
66 TGAGAC
14092735 TTCTACCGATAC
1 TTCTACCGATAC
14092747 CTTGGCCAAG
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
70 47 0.62
71 29 0.38
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (71 bp):
TTCTACCGATACAACCAAGACCTCTATCGGTAGAACAAACTCCAGTGAGCAAAGAAGTTGTGACC
TGAGAC
Found at i:14096745 original size:12 final size:12
Alignment explanation
Indices: 14096728--14096759 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
14096718 TGGCCCCTTT
14096728 TTAAGTTAAAAG
1 TTAAGTTAAAAG
*
14096740 TTAAGTTAAAAT
1 TTAAGTTAAAAG
14096752 TTAAGTTA
1 TTAAGTTA
14096760 TTATTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (12 bp):
TTAAGTTAAAAG
Found at i:14103470 original size:6 final size:6
Alignment explanation
Indices: 14103459--14103532 Score: 62
Period size: 6 Copynumber: 12.5 Consensus size: 6
14103449 TTAGTGATCA
* * * * *
14103459 AAATTG AAATTG AAAGTG AAAGTG AAAGTG AAAGTG AAATTG GAATTG
1 AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG
* *
14103507 AAACTG ATA-TG -AATTG TAAATTG AAA
1 AAATTG AAATTG AAATTG -AAATTG AAA
14103533 ATCCCTATTA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
4 1 0.02
5 4 0.07
6 48 0.83
7 5 0.09
ACGTcount: A:0.49, C:0.01, G:0.23, T:0.27
Consensus pattern (6 bp):
AAATTG
Found at i:14103508 original size:18 final size:18
Alignment explanation
Indices: 14103459--14103509 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
14103449 TTAGTGATCA
14103459 AAATTGAAATTGAAAGTG
1 AAATTGAAATTGAAAGTG
* *
14103477 AAAGTGAAAGTGAAAGTG
1 AAATTGAAATTGAAAGTG
*
14103495 AAATTGGAATTGAAA
1 AAATTGAAATTGAAA
14103510 CTGATATGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.51, C:0.00, G:0.25, T:0.24
Consensus pattern (18 bp):
AAATTGAAATTGAAAGTG
Found at i:14108146 original size:30 final size:29
Alignment explanation
Indices: 14108095--14108221 Score: 110
Period size: 30 Copynumber: 4.2 Consensus size: 29
14108085 AAATTATTTG
* * *
14108095 TTAACCCTCAAAGTTTTCAAAAATTCATAT
1 TTAACCCT-AAACTTTCCAAAAATTCAAAT
*
14108125 TTGACCTCTAAACTTTCCAAAAATTCAAAT
1 TTAACC-CTAAACTTTCCAAAAATTCAAAT
* * * ***
14108155 TCAACCCTCAAACTTTCTAAATATTTTGAT
1 TTAACCCT-AAACTTTCCAAAAATTCAAAT
*
14108185 TTAACCCCTAAACTTTCCAAAACTTCAAAT
1 TTAA-CCCTAAACTTTCCAAAAATTCAAAT
*
14108215 TTCACCC
1 TTAACCC
14108222 GGTTTTAATG
Statistics
Matches: 75, Mismatches: 19, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
29 5 0.07
30 64 0.85
31 6 0.08
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (29 bp):
TTAACCCTAAACTTTCCAAAAATTCAAAT
Found at i:14124582 original size:17 final size:15
Alignment explanation
Indices: 14124550--14124597 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
14124540 GAAAAGAGAA
*
14124550 AAAGAGAAAGAGAAAG
1 AAAGAG-AAGAAAAAG
14124566 AGAAGAGAAGGAAAAAG
1 A-AAGAGAA-GAAAAAG
*
14124583 AAAAAGAAGAAAAAG
1 AAAGAGAAGAAAAAG
14124598 TTGTTCTGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 7 0.25
16 9 0.32
17 12 0.43
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
AAAGAGAAGAAAAAG
Found at i:14124594 original size:30 final size:30
Alignment explanation
Indices: 14124537--14124594 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
14124527 TGAGGATGTT
*
14124537 GAAGAAAAGAGAAAAAGAGAAAGAGAAAGA
1 GAAGAAAAGAGAAAAAGAAAAAGAGAAAGA
*
14124567 GAAGAGAAG-GAAAAAGAAAAAGAAGAAA
1 GAAGAAAAGAGAAAAAGAAAAAG-AGAAA
14124595 AAGTTGTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (30 bp):
GAAGAAAAGAGAAAAAGAAAAAGAGAAAGA
Found at i:14140208 original size:18 final size:20
Alignment explanation
Indices: 14140185--14140227 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
14140175 TTCTACAAGC
*
14140185 CCAAATACTAAA-TAAAAA-
1 CCAAATACAAAATTAAAAAG
14140203 CCAAATACAAAATTAAAAAG
1 CCAAATACAAAATTAAAAAG
14140223 CCAAA
1 CCAAA
14140228 AGAAAAACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.50
19 6 0.27
20 5 0.23
ACGTcount: A:0.65, C:0.19, G:0.02, T:0.14
Consensus pattern (20 bp):
CCAAATACAAAATTAAAAAG
Found at i:14141216 original size:31 final size:31
Alignment explanation
Indices: 14141133--14141260 Score: 165
Period size: 30 Copynumber: 4.3 Consensus size: 31
14141123 AAAATTATTT
* *
14141133 TTTGACCC-ACAAACTTTTCAAAAATTCAAA
1 TTTGACCCTTCAAACTTTCCAAAAATTCAAA
* *
14141163 TTTGATCC--CAAACTTTCCAAAAATTTAAA
1 TTTGACCCTTCAAACTTTCCAAAAATTCAAA
* * *
14141192 TTTGACCCTTCGAACTTTCTAAAAATTCTAA
1 TTTGACCCTTCAAACTTTCCAAAAATTCAAA
14141223 TTTGACCCTT-AAACTTTCCAAAAATTCAAA
1 TTTGACCCTTCAAACTTTCCAAAAATTCAAA
14141253 TTTGACCC
1 TTTGACCC
14141261 AGTTTTAATG
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
29 26 0.31
30 32 0.38
31 27 0.32
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (31 bp):
TTTGACCCTTCAAACTTTCCAAAAATTCAAA
Found at i:14141254 original size:61 final size:59
Alignment explanation
Indices: 14141148--14141260 Score: 174
Period size: 61 Copynumber: 1.9 Consensus size: 59
14141138 CCCACAAACT
*
14141148 TTTCAAAAATTCAAATTTGATCCCAAACTTTCCAAAAATTTAAATTTGACCCTTCGAAC
1 TTTCAAAAATTCAAATTTGATCCCAAACTTTCCAAAAATTCAAATTTGACCCTTCGAAC
*
14141207 TTTCTAAAAATTCTAATTTGA-CCCTTAAACTTTCCAAAAATTCAAATTTGACCC
1 TTTC-AAAAATTCAAATTTGATCCC--AAACTTTCCAAAAATTCAAATTTGACCC
14141261 AGTTTTAATG
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
59 7 0.14
60 15 0.31
61 27 0.55
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.35
Consensus pattern (59 bp):
TTTCAAAAATTCAAATTTGATCCCAAACTTTCCAAAAATTCAAATTTGACCCTTCGAAC
Found at i:14143203 original size:21 final size:21
Alignment explanation
Indices: 14143174--14143216 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
14143164 ATGGTAATTA
14143174 AATAATATTTATATTTATGAT
1 AATAATATTTATATTTATGAT
* *
14143195 AATATTATTTATGTTTATGAT
1 AATAATATTTATATTTATGAT
14143216 A
1 A
14143217 GTTACATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (21 bp):
AATAATATTTATATTTATGAT
Found at i:14149099 original size:35 final size:35
Alignment explanation
Indices: 14149030--14149099 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
14149020 TGTTTATATC
**
14149030 AAAGTGTATGACAAGTTTGGATTTCTTTGGTTATT
1 AAAGTGTATGACAAGTTTGGATTTCTTTAATTATT
* *
14149065 AAAGTGTATGGCAGGTTTGGATTTCTTTAATTATT
1 AAAGTGTATGACAAGTTTGGATTTCTTTAATTATT
14149100 GTCTGTCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.46
Consensus pattern (35 bp):
AAAGTGTATGACAAGTTTGGATTTCTTTAATTATT
Found at i:14153730 original size:23 final size:22
Alignment explanation
Indices: 14153680--14153736 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
14153670 TATATATTCT
*
14153680 AATTAA-ATTTTATAAATAATTA
1 AATTAATA-TTTAGAAATAATTA
*
14153702 ATATTAATTATTTAGAAATATTTA
1 A-ATTAA-TATTTAGAAATAATTA
14153726 AATTAATATTT
1 AATTAATATTT
14153737 CATATATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
22 6 0.20
23 10 0.33
24 13 0.43
25 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AATTAATATTTAGAAATAATTA
Found at i:14153910 original size:35 final size:35
Alignment explanation
Indices: 14153836--14153910 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
14153826 TTAAATACAT
* *
14153836 ATTTATTACTTTATAATTTCATGTCTAAAATAGAC
1 ATTTTTTACTTTATAATTTCATGTCTAAAATAAAC
14153871 ATTTTTTACTTTATAATTTCATGTCTAAAATAAAC
1 ATTTTTTACTTTATAATTTCATGTCTAAAATAAAC
14153906 ATTTT
1 ATTTT
14153911 ATTTATCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.11, G:0.04, T:0.49
Consensus pattern (35 bp):
ATTTTTTACTTTATAATTTCATGTCTAAAATAAAC
Found at i:14162408 original size:62 final size:63
Alignment explanation
Indices: 14162311--14162434 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 63
14162301 GGGAAGCAAA
* *
14162311 CTCCCCTTTTATATAAGCAACCGGAGGGAAAGAATAGG-AAAAAACAATGTACCAGTTGAATG
1 CTCCCCCTTTATATAAGCAACCAGAGGGAAAGAATAGGAAAAAAACAATGTACCAGTTGAATG
** *
14162373 CTCCCCCTTTATATAAGCAATTAGAGGGAAAGAATAGGAAAAAAACAATGTACTAGTTGAAT
1 CTCCCCCTTTATATAAGCAACCAGAGGGAAAGAATAGGAAAAAAACAATGTACCAGTTGAAT
14162435 CTAAAAATTA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
62 34 0.61
63 22 0.39
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (63 bp):
CTCCCCCTTTATATAAGCAACCAGAGGGAAAGAATAGGAAAAAAACAATGTACCAGTTGAATG
Found at i:14179102 original size:3 final size:3
Alignment explanation
Indices: 14179096--14179149 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
14179086 TAATAATAAT
* * * * * *
14179096 AAC AAC AAC AAC AAC AAC AAC AAT AGC AAT AAC AAT AAC AAT AAC AAT
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
14179144 AAC AAC
1 AAC AAC
14179150 GTTGCGACAA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.65, C:0.24, G:0.02, T:0.09
Consensus pattern (3 bp):
AAC
Found at i:14179105 original size:6 final size:6
Alignment explanation
Indices: 14179076--14179148 Score: 85
Period size: 6 Copynumber: 12.3 Consensus size: 6
14179066 GAAGAATGAA
* * * * * *
14179076 AATAA- AATAAT AATAAT AATAAC AACAAC AACAAC AACAAC AATAGC
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC
14179123 AATAAC AATAAC AATAAC AATAAC AA
1 AATAAC AATAAC AATAAC AATAAC AA
14179149 CGTTGCGACA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
5 5 0.08
6 57 0.92
ACGTcount: A:0.67, C:0.16, G:0.01, T:0.15
Consensus pattern (6 bp):
AATAAC
Found at i:14188852 original size:27 final size:27
Alignment explanation
Indices: 14188798--14188852 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
14188788 GCATGTATAT
* *
14188798 ATAATATATAATTTATTTTTAATCGAA
1 ATAATATATAATTTATTATAAATCGAA
*
14188825 ATAATATATAA-TTATTAATAAATTGAA
1 ATAATATATAATTTATT-ATAAATCGAA
14188852 A
1 A
14188853 GTTTAGGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (27 bp):
ATAATATATAATTTATTATAAATCGAA
Found at i:14189423 original size:17 final size:17
Alignment explanation
Indices: 14189392--14189441 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
14189382 TGAAGTGTGA
*
14189392 ACTGCTAGCTCACCAAG
1 ACTGCAAGCTCACCAAG
** *
14189409 TGTGCAAGGTCACCAAG
1 ACTGCAAGCTCACCAAG
14189426 ACTGCAAGCTCACCAA
1 ACTGCAAGCTCACCAA
14189442 ACTTGAGAGC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.32, C:0.32, G:0.20, T:0.16
Consensus pattern (17 bp):
ACTGCAAGCTCACCAAG
Found at i:14190132 original size:24 final size:24
Alignment explanation
Indices: 14190104--14190154 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
14190094 TCGGAAACGA
*
14190104 GATTCGGAGCCA-TCGGATTTGGTG
1 GATTCGGAGCCACT-GGATTCGGTG
14190128 GATTCGGAGCCACTGGATTCGGTG
1 GATTCGGAGCCACTGGATTCGGTG
14190152 GAT
1 GAT
14190155 CCGGTGGTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.18, C:0.18, G:0.37, T:0.27
Consensus pattern (24 bp):
GATTCGGAGCCACTGGATTCGGTG
Found at i:14192883 original size:18 final size:18
Alignment explanation
Indices: 14192862--14192902 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
14192852 TTGGTTTCAT
* *
14192862 ATTTATTTCTAAGTTTAA
1 ATTTAGTTCTAAATTTAA
14192880 ATTT-GTTCTAAATTTAA
1 ATTTAGTTCTAAATTTAA
14192897 ATTTAG
1 ATTTAG
14192903 CTTAAATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (18 bp):
ATTTAGTTCTAAATTTAA
Found at i:14193734 original size:3 final size:3
Alignment explanation
Indices: 14193726--14193833 Score: 51
Period size: 3 Copynumber: 36.0 Consensus size: 3
14193716 CATTAATGAG
* * *** *
14193726 TAA TAA TAA TAA TAT TAA TAA TAA -AA TAA TAT TAA GGG TAT TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * * ** * *
14193771 TAA T-T TAA TAAA TAT TAA TAA T-G TTT TAG TAA TAA TTAA TAA TAT
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
14193816 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
14193834 GATGAAAGGA
Statistics
Matches: 77, Mismatches: 22, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
2 4 0.05
3 65 0.84
4 8 0.10
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:14193744 original size:9 final size:9
Alignment explanation
Indices: 14193726--14193832 Score: 83
Period size: 9 Copynumber: 11.6 Consensus size: 9
14193716 CATTAATGAG
*
14193726 TAATAATAA
1 TAATATTAA
14193735 TAATATTAA
1 TAATATTAA
*
14193744 TAATA-AAA
1 TAATATTAA
14193752 TAATATTAA
1 TAATATTAA
***
14193761 GGGTATTAAA
1 TAATATT-AA
14193771 TAAT-TTAA
1 TAATATTAA
14193779 TAAATATTAA
1 T-AATATTAA
* *
14193789 TAATGTTTTAG
1 TAA--TATTAA
14193800 TAATAATTAA
1 TAAT-ATTAA
14193810 TAATATTAA
1 TAATATTAA
*
14193819 TAATAATAA
1 TAATATTAA
14193828 TAATA
1 TAATA
14193833 AGATGAAAGG
Statistics
Matches: 77, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
8 10 0.13
9 45 0.58
10 15 0.19
11 7 0.09
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (9 bp):
TAATATTAA
Found at i:14193760 original size:39 final size:39
Alignment explanation
Indices: 14193717--14193832 Score: 109
Period size: 39 Copynumber: 3.0 Consensus size: 39
14193707 AGTAATTGGC
14193717 ATTAATGAGTAATAATAATAATATTAATAATAAAATAAT
1 ATTAATGAGTAATAATAATAATATTAATAATAAAATAAT
* * *
14193756 ATTAA-GGGT-ATTA-AATAAT-TTAATAAATATTAATAAT
1 ATTAATGAGTAATAATAATAATATTAAT-AATA-AAATAAT
* *
14193793 GTT--TTAGTAATAATTAATAATATTAATAATAATAATAAT
1 ATTAATGAGTAATAA-TAATAATATTAATAATAA-AATAAT
14193832 A
1 A
14193833 AGATGAAAGG
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
35 5 0.08
36 12 0.20
37 14 0.23
38 3 0.05
39 21 0.35
40 5 0.08
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (39 bp):
ATTAATGAGTAATAATAATAATATTAATAATAAAATAAT
Found at i:14194883 original size:58 final size:58
Alignment explanation
Indices: 14194777--14194962 Score: 169
Period size: 58 Copynumber: 3.2 Consensus size: 58
14194767 CCTAAATTAT
* * *
14194777 CCAAAAATTACATTTTACCCCCAAACTTTCCAAAATTTCATTTTTAACCCCGATTTCA
1 CCAAAAATTACATTTTACCCCCAAACTTTCCAAAATTCCAGTTTTAACCCCGATTTAA
* * *** * *
14194835 TCAAAAATTACCATTTTACGCTTGAACTTTCCAAAA-TCCCGTTTTAACCGCGATTTAA
1 CCAAAAATTA-CATTTTACCCCCAAACTTTCCAAAATTCCAGTTTTAACCCCGATTTAA
* ** * * * *
14194893 CCAAAAATTATATTTTTACCCCCAAACTTTTTTAAAATT-CATTTTTTGACCTCGATTTTA
1 CCAAAAATTACA-TTTTACCCCCAAAC-TTTCCAAAATTCCA-GTTTTAACCCCGATTTAA
14194953 CCAAAAATTA
1 CCAAAAATTA
14194963 TTATTTTGCC
Statistics
Matches: 100, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
57 1 0.01
58 45 0.45
59 29 0.29
60 25 0.25
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.37
Consensus pattern (58 bp):
CCAAAAATTACATTTTACCCCCAAACTTTCCAAAATTCCAGTTTTAACCCCGATTTAA
Found at i:14198786 original size:16 final size:15
Alignment explanation
Indices: 14198769--14198798 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14198759 CATGTATGGT
14198769 GTGT-ATAAATCTTG
1 GTGTAATAAATCTTG
14198783 GTGTAATAAATCTTG
1 GTGTAATAAATCTTG
14198798 G
1 G
14198799 AAGGTGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (15 bp):
GTGTAATAAATCTTG
Found at i:14200937 original size:27 final size:27
Alignment explanation
Indices: 14200907--14200964 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
14200897 TAATTATCTG
14200907 TATTTGATTTTTCT-TATTCTATAATTA
1 TATTTGATTTTT-TGTATTCTATAATTA
*
14200934 TATTTGATTTTTTGTATTCTTTAATTA
1 TATTTGATTTTTTGTATTCTATAATTA
14200961 -ATTT
1 TATTT
14200965 AATCAGTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 5 0.17
27 24 0.83
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (27 bp):
TATTTGATTTTTTGTATTCTATAATTA
Found at i:14202077 original size:27 final size:27
Alignment explanation
Indices: 14202039--14202103 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
14202029 AAAAATACCT
*
14202039 GACACCAGTGGAGGAACACCAAGTGGC
1 GACACCAATGGAGGAACACCAAGTGGC
* *
14202066 GACACCAATGGAGGAATATCAAGTGGC
1 GACACCAATGGAGGAACACCAAGTGGC
* *
14202093 GGCACTAATGG
1 GACACCAATGG
14202104 GTGTTTTGCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.22, G:0.32, T:0.12
Consensus pattern (27 bp):
GACACCAATGGAGGAACACCAAGTGGC
Found at i:14202312 original size:16 final size:16
Alignment explanation
Indices: 14202291--14202344 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 16
14202281 AAAGAAAGAA
14202291 AGAAGAAGGAAGAAGG
1 AGAAGAAGGAAGAAGG
*
14202307 AGAAGAAGG-GGAAAGG
1 AGAAGAAGGAAG-AAGG
14202323 AGAAGAAGGGGAAGAAGG
1 AGAAGAA--GGAAGAAGG
14202341 AGAA
1 AGAA
14202345 AGAAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 1 0.03
16 20 0.62
18 10 0.31
19 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (16 bp):
AGAAGAAGGAAGAAGG
Found at i:14202313 original size:9 final size:9
Alignment explanation
Indices: 14202291--14202344 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 9
14202281 AAAGAAAGAA
14202291 AGAAGAA-G
1 AGAAGAAGG
14202299 -GAAGAAGG
1 AGAAGAAGG
14202307 AGAAGAAGG
1 AGAAGAAGG
*
14202316 -GGA-AAGG
1 AGAAGAAGG
14202323 AGAAGAAGG
1 AGAAGAAGG
*
14202332 GGAAGAAGG
1 AGAAGAAGG
14202341 AGAA
1 AGAA
14202345 AGAAAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
7 10 0.26
8 5 0.13
9 23 0.61
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (9 bp):
AGAAGAAGG
Found at i:14202327 original size:25 final size:25
Alignment explanation
Indices: 14202299--14202346 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
14202289 AAAGAAGAAG
*
14202299 GAAGAAGGAGAAGAAGGGGAAAGGA
1 GAAGAAGGAGAAGAAGGAGAAAGGA
*
14202324 GAAGAAGGGGAAGAAGGAGAAAG
1 GAAGAAGGAGAAGAAGGAGAAAG
14202347 AAAAAAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (25 bp):
GAAGAAGGAGAAGAAGGAGAAAGGA
Found at i:14202356 original size:25 final size:25
Alignment explanation
Indices: 14202303--14202356 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
14202293 AAGAAGGAAG
* * * *
14202303 AAGGAGAAGAAGGGGAAAGGAGAAG
1 AAGGAGAAGAAGGAGAAAGAAAAAA
*
14202328 AAGGGGAAGAAGGAGAAAGAAAAAA
1 AAGGAGAAGAAGGAGAAAGAAAAAA
14202353 AAGG
1 AAGG
14202357 TAATGTATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (25 bp):
AAGGAGAAGAAGGAGAAAGAAAAAA
Found at i:14202727 original size:20 final size:21
Alignment explanation
Indices: 14202686--14202728 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
14202676 CAATTTACTT
14202686 TAATTTAATTTTGCTAGTTAG
1 TAATTTAATTTTGCTAGTTAG
* *
14202707 TAATTTTATTTTG-TTGTTAG
1 TAATTTAATTTTGCTAGTTAG
14202727 TA
1 TA
14202729 GTAGTAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (21 bp):
TAATTTAATTTTGCTAGTTAG
Found at i:14202845 original size:95 final size:94
Alignment explanation
Indices: 14202700--14203145 Score: 687
Period size: 95 Copynumber: 4.8 Consensus size: 94
14202690 TTAATTTTGC
*
14202700 TAGTTAGTAATTTTATTTTGTTG-T--TAGTAGTAGTAAGTAAAAAATATTGTTCATATTTATTG
1 TAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAGTAAGTAAAAAACATTGTTCATATTTATTG
***
14202762 ATTTAAAATTTAATAATGTTT-AAATTTT
66 ATTTAAAATTTAATAATGTTTAAAAAAAT
14202790 GCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAGTAAGTAAAAAACATTGTTCATATTTAT
1 --TAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAGTAAGTAAAAAACATTGTTCATATTTAT
*
14202855 TGATTTAAAATTTAATAATATTTAAAAAAAT
64 TGATTTAAAATTTAATAATGTTTAAAAAAAT
14202886 TAGTTAGTAATTTTATTTTG-TG-TAGTTAGTAGTAGT-AGTAAAAAACATTGTTCATATTTATT
1 TAGTTAGTAATTTTATTTTGTTGTTAG-TAGTAGTAGTAAGTAAAAAACATTGTTCATATTTATT
14202948 GATTTAAAATTTAATAATGTTT-AAAAAAT
65 GATTTAAAATTTAATAATGTTTAAAAAAAT
* *
14202977 TAGTTAGCAATTTTATTTTGTTGTTAGTAGTAGTAATAGTAAGT-AAAAACATTTTTCATATTTA
1 TAGTTAGTAATTTTATTTTGTTGTTAGTAGTAG---TAGTAAGTAAAAAACATTGTTCATATTTA
14203041 TTGATTT-AAATTTAATAATGTTTAAAAAAAT
63 TTGATTTAAAATTTAATAATGTTTAAAAAAAT
*
14203072 TAGTTAGTAATTTTATTTTGTTGTTAGTAAGTAGTAGTAAGTAAAAAATATTGTTCATATTTATT
1 TAGTTAGTAATTTTATTTTGTTGTTAGT-AGTAGTAGTAAGTAAAAAACATTGTTCATATTTATT
14203137 GATTTAAAA
65 GATTTAAAA
14203146 AATAATTTAA
Statistics
Matches: 328, Mismatches: 11, Indels: 27
0.90 0.03 0.07
Matches are distributed among these distances:
91 26 0.08
92 81 0.25
93 24 0.07
94 61 0.19
95 124 0.38
96 12 0.04
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (94 bp):
TAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAGTAAGTAAAAAACATTGTTCATATTTATTG
ATTTAAAATTTAATAATGTTTAAAAAAAT
Found at i:14202882 original size:45 final size:45
Alignment explanation
Indices: 14202832--14202975 Score: 127
Period size: 45 Copynumber: 3.2 Consensus size: 45
14202822 TAGTAGTAAG
14202832 TAAAAAACATTGTTCATATTTATTGATTTAAAATTTAATAATATT
1 TAAAAAACATTGTTCATATTTATTGATTTAAAATTTAATAATATT
** * * * *
14202877 TAAAAAA-ATTAGTT-AGTAATTTTATT--TTGT-GTAGTTAGTAGTAGTAG
1 TAAAAAACATT-GTTCA-T-A-TTTATTGATT-TAAAATTTAATAATA-T-T
*
14202924 TAAAAAACATTGTTCATATTTATTGATTTAAAATTTAATAATGTT
1 TAAAAAACATTGTTCATATTTATTGATTTAAAATTTAATAATATT
14202969 TAAAAAA
1 TAAAAAA
14202976 TTAGTTAGCA
Statistics
Matches: 74, Mismatches: 13, Indels: 24
0.67 0.12 0.22
Matches are distributed among these distances:
44 4 0.05
45 34 0.46
46 6 0.08
47 26 0.35
48 4 0.05
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (45 bp):
TAAAAAACATTGTTCATATTTATTGATTTAAAATTTAATAATATT
Found at i:14203027 original size:187 final size:186
Alignment explanation
Indices: 14202700--14203145 Score: 722
Period size: 187 Copynumber: 2.4 Consensus size: 186
14202690 TTAATTTTGC
14202700 TAGTTAGTAATTTTATTTTGT-T-GTTAGTAGTAGTAAGTAAAAAATATTGTTCATATTTATTGA
1 TAGTTAGTAATTTTATTTTGTGTAGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATTTATTGA
*** *
14202763 TTTAAAATTTAATAATGTTTAAATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAG
66 TTTAAAATTTAATAATGTTTAAAAAAT-CTAGTTAGCAATTTTATTTTGTTGTTAGTAGTAGTAG
14202828 TAAGTAAAAAACATTGTTCATATTTATTGATTTAAAATTTAATAATATTTAAAAAAAT
130 TAAGTAAAAAACATTGTTCATATTTATTGATTT-AAATTTAATAATATTTAAAAAAAT
*
14202886 TAGTTAGTAATTTTATTTTGTGTAGTTAGTAGTAGT-AGTAAAAAACATTGTTCATATTTATTGA
1 TAGTTAGTAATTTTATTTTGTGTAGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATTTATTGA
14202950 TTTAAAATTTAATAATGTTTAAAAAAT-TAGTTAGCAATTTTATTTTGTTGTTAGTAGTAGTAAT
66 TTTAAAATTTAATAATGTTTAAAAAATCTAGTTAGCAATTTTATTTTGTTGTTAGTAGTAG---T
* *
14203014 AGTAAGT-AAAAACATTTTTCATATTTATTGATTTAAATTTAATAATGTTTAAAAAAAT
128 AGTAAGTAAAAAACATTGTTCATATTTATTGATTTAAATTTAATAATATTTAAAAAAAT
*
14203072 TAGTTAGTAATTTTATTTTGTTGTTAGTAAGTAGTAGTAAGTAAAAAATATTGTTCATATTTATT
1 TAGTTAGTAATTTTATTTTG-TG-TAGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATTTATT
14203137 GATTTAAAA
64 GATTTAAAA
14203146 AATAATTTAA
Statistics
Matches: 243, Mismatches: 9, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
185 32 0.13
186 64 0.26
187 80 0.33
188 33 0.14
189 34 0.14
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (186 bp):
TAGTTAGTAATTTTATTTTGTGTAGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATTTATTGA
TTTAAAATTTAATAATGTTTAAAAAATCTAGTTAGCAATTTTATTTTGTTGTTAGTAGTAGTAGT
AAGTAAAAAACATTGTTCATATTTATTGATTTAAATTTAATAATATTTAAAAAAAT
Found at i:14203382 original size:16 final size:16
Alignment explanation
Indices: 14203333--14203382 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
14203323 TAAACCTAGC
*
14203333 TAATTAATTACCAAAA
1 TAATTAATTATCAAAA
*
14203349 T-A-TAA-TATAAAAA
1 TAATTAATTATCAAAA
14203362 GTAATTAATTATCAAAA
1 -TAATTAATTATCAAAA
14203379 TAAT
1 TAAT
14203383 ACCCCCATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
13 6 0.22
14 4 0.15
15 2 0.07
16 8 0.30
17 7 0.26
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (16 bp):
TAATTAATTATCAAAA
Found at i:14203449 original size:30 final size:30
Alignment explanation
Indices: 14203414--14203515 Score: 73
Period size: 30 Copynumber: 3.4 Consensus size: 30
14203404 AAATGGCACA
14203414 AAATAAATATTTATTTTGTACCATTTTAGT
1 AAATAAATATTTATTTTGTACCATTTTAGT
** * * * * *
14203444 AAAT-AAT-GGTGTGTGGATACTATTTTGGT
1 AAATAAATATTTATTTTG-TACCATTTTAGT
* * * *
14203473 ATATAAAAATATATTTTGTATCATTTTAGT
1 AAATAAATATTTATTTTGTACCATTTTAGT
14203503 AAATAACATATTT
1 AAATAA-ATATTT
14203516 TGGTATTTAA
Statistics
Matches: 48, Mismatches: 20, Indels: 7
0.64 0.27 0.09
Matches are distributed among these distances:
28 4 0.08
29 16 0.33
30 20 0.42
31 8 0.17
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (30 bp):
AAATAAATATTTATTTTGTACCATTTTAGT
Found at i:14204770 original size:43 final size:43
Alignment explanation
Indices: 14204688--14204771 Score: 98
Period size: 43 Copynumber: 2.0 Consensus size: 43
14204678 ATTAACATGT
* * * *
14204688 TAAATTATATTACTTGACTCGTGTTAATATGGTTGCATGTTTC
1 TAAACTATATTACTTGACTCGTATTAATATGCTTACATGTTTC
* *
14204731 TAAACTATATTACTTTACTCTTATTAATAT-CTTAACATGTT
1 TAAACTATATTACTTGACTCGTATTAATATGCTT-ACATGTT
14204772 ATTATTGTGC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 2 0.06
43 32 0.94
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.48
Consensus pattern (43 bp):
TAAACTATATTACTTGACTCGTATTAATATGCTTACATGTTTC
Found at i:14205285 original size:15 final size:12
Alignment explanation
Indices: 14205255--14205288 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
14205245 CCAGAGCAAT
14205255 AAGAAGAGGAGG
1 AAGAAGAGGAGG
14205267 AAGAAGAGGAGG
1 AAGAAGAGGAGG
14205279 ATA-AAGAGGA
1 A-AGAAGAGGA
14205289 AGAGGCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 20 0.95
13 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.44, T:0.03
Consensus pattern (12 bp):
AAGAAGAGGAGG
Found at i:14205420 original size:21 final size:21
Alignment explanation
Indices: 14205394--14205440 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
14205384 ACGAGCCACC
*
14205394 GCAATACTTTACTCCTCCCGG
1 GCAATACTCTACTCCTCCCGG
*
14205415 GCAATACTCTACTCCTCCGGG
1 GCAATACTCTACTCCTCCCGG
14205436 GCAAT
1 GCAAT
14205441 TGGACCCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.36, G:0.17, T:0.26
Consensus pattern (21 bp):
GCAATACTCTACTCCTCCCGG
Found at i:14208677 original size:4 final size:4
Alignment explanation
Indices: 14208668--14208705 Score: 58
Period size: 4 Copynumber: 9.2 Consensus size: 4
14208658 AACACATTAC
*
14208668 CTTT CTTT CTTT CTTT CTTT CTTT CCTCT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT C
14208706 CCGTTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 28 0.90
5 3 0.10
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (4 bp):
CTTT
Found at i:14208701 original size:13 final size:13
Alignment explanation
Indices: 14208671--14208706 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
14208661 ACATTACCTT
*
14208671 TCTTTCTTT-CTT
1 TCTTTCTTTCCTC
14208683 TCTTTCTTTCCTC
1 TCTTTCTTTCCTC
14208696 TCTTTCTTTCC
1 TCTTTCTTTCC
14208707 CGTTTATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (13 bp):
TCTTTCTTTCCTC
Found at i:14208906 original size:27 final size:27
Alignment explanation
Indices: 14208875--14208931 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
14208865 ACACCCCTTA
*
14208875 GTGCCGCCACTTGATATTCCTCCATTG
1 GTGCCGCCACTTGATATTCCTCCACTG
* *
14208902 GTGCCGCCACTTGGTGTTCCTCCACTG
1 GTGCCGCCACTTGATATTCCTCCACTG
14208929 GTG
1 GTG
14208932 TCAGGTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.11, C:0.33, G:0.25, T:0.32
Consensus pattern (27 bp):
GTGCCGCCACTTGATATTCCTCCACTG
Found at i:14213539 original size:20 final size:20
Alignment explanation
Indices: 14213511--14213615 Score: 84
Period size: 20 Copynumber: 5.2 Consensus size: 20
14213501 TCAAAGAGCA
*
14213511 TACAAGGGCACCGGAGTGCG
1 TACAGGGGCACCGGAGTGCG
* * *
14213531 TATAGGGGCATCAGAGTGCG
1 TACAGGGGCACCGGAGTGCG
* * **
14213551 TACAGGAGAAGTGGAGTGCG
1 TACAGGGGCACCGGAGTGCG
* * * *
14213571 TACAGGGACCCCAGAGTGCA
1 TACAGGGGCACCGGAGTGCG
* *
14213591 TACAGGGGCACCGAAGTGCA
1 TACAGGGGCACCGGAGTGCG
14213611 TACAG
1 TACAG
14213616 AAACACCTTC
Statistics
Matches: 63, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.29, C:0.21, G:0.37, T:0.13
Consensus pattern (20 bp):
TACAGGGGCACCGGAGTGCG
Found at i:14213609 original size:40 final size:40
Alignment explanation
Indices: 14213508--14213615 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 40
14213498 GCATCAAAGA
* * * *
14213508 GCATACAAGGGCACCGGAGTGCGTATAGGGGCATCAGAGT
1 GCATACAGGGGCACCGGAGTGCGTACAGGGACACCAGAGT
* * * ** *
14213548 GCGTACAGGAGAAGTGGAGTGCGTACAGGGACCCCAGAGT
1 GCATACAGGGGCACCGGAGTGCGTACAGGGACACCAGAGT
* *
14213588 GCATACAGGGGCACCGAAGTGCATACAG
1 GCATACAGGGGCACCGGAGTGCGTACAG
14213616 AAACACCTTC
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.29, C:0.21, G:0.37, T:0.13
Consensus pattern (40 bp):
GCATACAGGGGCACCGGAGTGCGTACAGGGACACCAGAGT
Found at i:14219633 original size:31 final size:30
Alignment explanation
Indices: 14219537--14219633 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 30
14219527 TTAATATAAT
* *
14219537 ATTTGGT-TTCTAAACTTAATGTTTTTTTTA
1 ATTTGGTATT-TAAACTTGATATTTTTTTTA
* * * *
14219567 ATTTAGTACTCAAATTTGATATATTTTTTTA
1 ATTTGGTATTTAAACTTGATAT-TTTTTTTA
14219598 ATTTGGTATTTAAACTTGAT-TCTTTTTTCTA
1 ATTTGGTATTTAAACTTGATAT-TTTTTT-TA
14219629 ATTTG
1 ATTTG
14219634 ATACCTAATC
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
30 21 0.40
31 32 0.60
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.58
Consensus pattern (30 bp):
ATTTGGTATTTAAACTTGATATTTTTTTTA
Found at i:14219902 original size:59 final size:59
Alignment explanation
Indices: 14219789--14219973 Score: 189
Period size: 59 Copynumber: 3.2 Consensus size: 59
14219779 ATAAATTTAG
** * * * *
14219789 GTACCAAATTGAA-TCTAAAAAAAGCTTAAGTACCAAATTAGGAAAAAATGTCAAGTTCAG
1 GTACCAAATT-AAGTC-AAAAAAAATTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAA
* *
14219849 GTACCAAATTAAGTCAAAAAAAATTTAGGTACCAAATTAAGAAATAGTCTCAAGTTCAA
1 GTACCAAATTAAGTCAAAAAAAATTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAA
* * * * * *
14219908 GTGCCAAATT--G-GATAAAAAAATTTAGCTACCGAATTAAAAAAAAGTGTCAAGTTTAA
1 GTACCAAATTAAGTCA-AAAAAAATTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAA
14219965 GTACCAAAT
1 GTACCAAAT
14219974 CTTATATTAA
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
56 1 0.01
57 46 0.43
59 47 0.44
60 12 0.11
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (59 bp):
GTACCAAATTAAGTCAAAAAAAATTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAA
Found at i:14219959 original size:57 final size:58
Alignment explanation
Indices: 14219819--14219973 Score: 172
Period size: 57 Copynumber: 2.7 Consensus size: 58
14219809 AAAGCTTAAG
* * *
14219819 TACCAAATTAGGAAAAAA-TGTCAAGTTCAGGTACCAAATTAAGTCAAAAAAAATTTAGG
1 TACCAAATTA-AAAAAAAGTGTCAAGTTCAAGTACCAAATTAAGT-AAAAAAAATTTAGC
* * * * *
14219878 TACCAAATTAAGAAATAGTCTCAAGTTCAAGTGCCAAATT--GGATAAAAAAATTTAGC
1 TACCAAATTAAAAAAAAGTGTCAAGTTCAAGTACCAAATTAAGTA-AAAAAAATTTAGC
* *
14219935 TACCGAATTAAAAAAAAGTGTCAAGTTTAAGTACCAAAT
1 TACCAAATTAAAAAAAAGTGTCAAGTTCAAGTACCAAAT
14219974 CTTATATTAA
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
56 1 0.01
57 46 0.57
58 4 0.05
59 29 0.36
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (58 bp):
TACCAAATTAAAAAAAAGTGTCAAGTTCAAGTACCAAATTAAGTAAAAAAAATTTAGC
Found at i:14221188 original size:4 final size:4
Alignment explanation
Indices: 14221181--14221215 Score: 61
Period size: 4 Copynumber: 8.5 Consensus size: 4
14221171 CGGGCAGAAG
14221181 AAGA AAGA AAGA AAGAA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAG-A AAGA AAGA AAGA AAGA AA
14221216 TAAGGAAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:14221203 original size:17 final size:17
Alignment explanation
Indices: 14221176--14221215 Score: 71
Period size: 17 Copynumber: 2.3 Consensus size: 17
14221166 ACAAACGGGC
14221176 AGAAGAAGAAAGAAAGAA
1 AGAA-AAGAAAGAAAGAA
14221194 AGAAAAGAAAGAAAGAA
1 AGAAAAGAAAGAAAGAA
14221211 AGAAA
1 AGAAA
14221216 TAAGGAAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AGAAAAGAAAGAAAGAA
Found at i:14224176 original size:18 final size:17
Alignment explanation
Indices: 14224117--14224181 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
14224107 CCCAACTTGG
* * *
14224117 ATTTTAATTTAAGTTTG
1 ATTTAAATTTAAATTTT
* *
14224134 AATTAATTTTAAA-TTT
1 ATTTAAATTTAAATTTT
14224150 ATTTAAATTTAAATTTT
1 ATTTAAATTTAAATTTT
*
14224167 GTTGTAAATTTAAAT
1 ATT-TAAATTTAAAT
14224182 ACATTTAGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
16 13 0.34
17 14 0.37
18 11 0.29
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTTAAATTTAAATTTT
Found at i:14226052 original size:200 final size:200
Alignment explanation
Indices: 14225682--14226332 Score: 935
Period size: 201 Copynumber: 3.2 Consensus size: 200
14225672 GGAGTAGTTC
* * *
14225682 AACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACCCAAACGCTCAACGC
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTC-AACGCTCAACAC
* * **
14225747 GAGCAAATCTTCGAACCCAGCTTCTTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATTGT
65 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGT
* *
14225812 TAGCTTCCTGATGAGACACAGAGAAGTAGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCA
130 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCG
14225877 AATTAA
195 AATTAA
* * **
14225883 AACAAGCGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGTGCTCAACACG
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACACG
* *
14225948 AGCAAATCTTCGAACCCAGCTTCCAGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTT
66 AGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTT
* * *
14226013 AGCTTCCTGATGAGACACAAAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAACGA
131 AGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGA
*
14226078 ATCAA
196 ATTAA
* * * * *
14226083 AACGAGCGAGACGATCATCTTCCTAATGAGATACAGAGAAGAATACCAACTCAACGCTCAAATAC
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTC-AACAC
* **
14226148 GAGCCAATCTTCGAACCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAAAGGT
65 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGT
* *
14226213 TAGCTTCCTGATGAGACACCGAGAAGTGGACCAAATTCGTCTTCTTGAGGAGATCCAGAGAAGCG
130 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCG
14226278 AATTAA
195 AATTAA
** * * * * *
14226284 AACAAATGATTGCGGTCATCCT-CTCGATGAGACACAGGGAAGAAGACCA
1 AACAAGCGA-GGCGGTCATCTTCCT-GATGAGATACAGAGAAGAATACCA
14226333 GGTCAAGAAA
Statistics
Matches: 397, Mismatches: 50, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
200 184 0.46
201 185 0.47
202 28 0.07
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (200 bp):
AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACACG
AGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTT
AGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGA
ATTAA
Found at i:14226231 original size:201 final size:200
Alignment explanation
Indices: 14225682--14226288 Score: 917
Period size: 200 Copynumber: 3.0 Consensus size: 200
14225672 GGAGTAGTTC
* * * * *
14225682 AACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACCCAAACGCTCAACGC
1 AACAAGCGAGACGATCATCTTCCTGATGAGATACAGAGAAGAATACCAACTC-AACGCTCAACAC
* * **
14225747 GAGCAAATCTTCGAACCCAGCTTCTTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATTGT
65 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGT
* *
14225812 TAGCTTCCTGATGAGACACAGAGAAGTAGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCA
130 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCG
14225877 AATTAA
195 AATTAA
** * * **
14225883 AACAAGCGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGTGCTCAACACG
1 AACAAGCGAGACGATCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACACG
* *
14225948 AGCAAATCTTCGAACCCAGCTTCCAGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTT
66 AGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTT
* * *
14226013 AGCTTCCTGATGAGACACAAAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAACGA
131 AGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGA
*
14226078 ATCAA
196 ATTAA
* * *
14226083 AACGAGCGAGACGATCATCTTCCTAATGAGATACAGAGAAGAATACCAACTCAACGCTCAAATAC
1 AACAAGCGAGACGATCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTC-AACAC
* **
14226148 GAGCCAATCTTCGAACCCAGCTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAAAGGT
65 GAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGT
* *
14226213 TAGCTTCCTGATGAGACACCGAGAAGTGGACCAAATTCGTCTTCTTGAGGAGATCCAGAGAAGCG
130 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCG
14226278 AATTAA
195 AATTAA
14226284 AACAA
1 AACAA
14226289 ATGATTGCGG
Statistics
Matches: 365, Mismatches: 40, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
200 184 0.50
201 181 0.50
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (200 bp):
AACAAGCGAGACGATCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACACG
AGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTT
AGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGA
ATTAA
Found at i:14226678 original size:28 final size:29
Alignment explanation
Indices: 14226647--14226707 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
14226637 CAACTTGGAT
* *
14226647 TTTAATTTAAGTTTGAA-TTAATTTTAAA
1 TTTAATTTAAATTTAAATTTAATTTTAAA
**
14226675 TTT-ATTTAAATTTAAATTTTGTTTTAAA
1 TTTAATTTAAATTTAAATTTAATTTTAAA
14226703 TTTAA
1 TTTAA
14226708 ATACATTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
27 11 0.41
28 15 0.56
29 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (29 bp):
TTTAATTTAAATTTAAATTTAATTTTAAA
Found at i:14226783 original size:14 final size:14
Alignment explanation
Indices: 14226761--14226829 Score: 70
Period size: 13 Copynumber: 5.0 Consensus size: 14
14226751 AAAGTCCATT
*
14226761 TACAAGGGCCCAAA
1 TACAAAGGCCCAAA
* *
14226775 TA-AAAGGGCCAAT
1 TACAAAGGCCCAAA
14226788 TACAAAGGCCCAAA
1 TACAAAGGCCCAAA
*
14226802 TA-AAAGGCCCAAT
1 TACAAAGGCCCAAA
*
14226815 TAGAAATGGCCCAAA
1 TACAAA-GGCCCAAA
14226830 CCAAATTTAG
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
13 22 0.49
14 16 0.36
15 7 0.16
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (14 bp):
TACAAAGGCCCAAA
Found at i:14226791 original size:27 final size:27
Alignment explanation
Indices: 14226760--14226829 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
14226750 AAAAGTCCAT
* *
14226760 TTACAAGGGCCCAAATAAAAGGGCCAA
1 TTACAAAGGCCCAAATAAAAGGCCCAA
14226787 TTACAAAGGCCCAAATAAAAGGCCCAA
1 TTACAAAGGCCCAAATAAAAGGCCCAA
*
14226814 TTAGAAATGGCCCAAA
1 TTACAAA-GGCCCAAA
14226830 CCAAATTTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 31 0.79
28 8 0.21
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.13
Consensus pattern (27 bp):
TTACAAAGGCCCAAATAAAAGGCCCAA
Found at i:14228499 original size:29 final size:29
Alignment explanation
Indices: 14228467--14228564 Score: 114
Period size: 30 Copynumber: 3.3 Consensus size: 29
14228457 CAACAATTAT
*
14228467 ATTTTGACCCTCGAACTTTCCAAAATTCC
1 ATTTTAACCCTCGAACTTTCCAAAATTCC
14228496 ATTTTTAACCC-CG-A-TTTCACCAAAAATTACC
1 A-TTTTAACCCTCGAACTTT--CC-AAAATT-CC
14228527 ATTTT-ACCCTCGAACTTTCCAAAATTCC
1 ATTTTAACCCTCGAACTTTCCAAAATTCC
14228555 ATTTTAACCC
1 ATTTTAACCC
14228565 CGATCTCATC
Statistics
Matches: 59, Mismatches: 1, Indels: 18
0.76 0.01 0.23
Matches are distributed among these distances:
27 3 0.05
28 8 0.14
29 19 0.32
30 22 0.37
31 4 0.07
32 3 0.05
ACGTcount: A:0.31, C:0.31, G:0.04, T:0.35
Consensus pattern (29 bp):
ATTTTAACCCTCGAACTTTCCAAAATTCC
Found at i:14228553 original size:59 final size:59
Alignment explanation
Indices: 14228467--14228783 Score: 313
Period size: 59 Copynumber: 5.2 Consensus size: 59
14228457 CAACAATTAT
14228467 ATTTTGACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACC
1 ATTTT-ACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACC
14228527 ATTTTACCCTCGAACTTTCCAAAATTCCA-TTTTAACCCCGATCTCATCGATCTCACCAAAAATT
1 ATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCG-----AT---T-TCACCAAAAATT
14228591 ACC
57 ACC
* **
14228594 ATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATCTCATAAAAAATTACC
1 ATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACC
* * * * * *
14228653 ATTTTACCCCCGAACCTTCCAAAA-CCTCA-TTTTAGGCCCCGATCTCACC-AAAATTACT
1 ATTTTACCCTCGAACTTTCCAAAATTC-CATTTTTA-ACCCCGATTTCACCAAAAATTACC
* * * * * ** *
14228711 GTTTTACCCGC-AAGCTTTCTAAAATTTCATTTTTGACCCTAATTTCACCAAAAATCA-C
1 ATTTTACCCTCGAA-CTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACC
14228769 ATTTTTACCCTCGAA
1 A-TTTTACCCTCGAA
14228784 AGTCAAAAAT
Statistics
Matches: 214, Mismatches: 25, Indels: 36
0.78 0.09 0.13
Matches are distributed among these distances:
57 2 0.01
58 54 0.25
59 91 0.43
60 7 0.03
63 4 0.02
66 1 0.00
67 44 0.21
68 11 0.05
ACGTcount: A:0.31, C:0.31, G:0.05, T:0.33
Consensus pattern (59 bp):
ATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACC
Found at i:14228596 original size:67 final size:68
Alignment explanation
Indices: 14228507--14228641 Score: 254
Period size: 67 Copynumber: 2.0 Consensus size: 68
14228497 TTTTTAACCC
*
14228507 CGATTTCACCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCA-TTTTAACCCCGATCT
1 CGATCTCACCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATCT
14228571 CAT
66 CAT
14228574 CGATCTCACCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATCT
1 CGATCTCACCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATCT
14228639 CAT
66 CAT
14228642 AAAAAATTAC
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
67 48 0.73
68 18 0.27
ACGTcount: A:0.31, C:0.32, G:0.04, T:0.33
Consensus pattern (68 bp):
CGATCTCACCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATCT
CAT
Found at i:14228627 original size:29 final size:28
Alignment explanation
Indices: 14228585--14228676 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 28
14228575 GATCTCACCA
14228585 AAAATTACCATTTTACCCTCGAACTTTCC
1 AAAATTACCATTTTACCC-CGAACTTTCC
* * **
14228614 AAAATT-CCATTTTTAACCCCGATCTCATAA
1 AAAATTACCA-TTTT-ACCCCGAACT-TTCC
*
14228644 AAAATTACCATTTTACCCCCGAACCTTCC
1 AAAATTACCATTTTA-CCCCGAACTTTCC
14228673 AAAA
1 AAAA
14228677 CCTCATTTTA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
28 3 0.06
29 21 0.43
30 22 0.45
31 3 0.06
ACGTcount: A:0.36, C:0.30, G:0.03, T:0.30
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCGAACTTTCC
Found at i:14228686 original size:126 final size:128
Alignment explanation
Indices: 14228467--14228699 Score: 373
Period size: 126 Copynumber: 1.8 Consensus size: 128
14228457 CAACAATTAT
* *
14228467 ATTTTGACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTT
1 ATTTTGACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATCTCACAAAAAATTACCATTTT
* * *
14228532 ACCCTCGAACTTTCCAAAATTCCATTTTA-ACCCCGATCTCATCGATCTCACCAAAAATTACC
66 ACCCCCGAACCTTCCAAAACTCCATTTTAGACCCCGATCTCATCGATCTCACCAAAAATTACC
*
14228594 ATTTT-ACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATCTCATAAAAAATTACCATTTT
1 ATTTTGACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATCTCACAAAAAATTACCATTTT
*
14228658 ACCCCCGAACCTTCCAAAAC-CTCATTTTAGGCCCCGATCTCA
66 ACCCCCGAACCTTCCAAAACTC-CATTTTAGACCCCGATCTCA
14228700 CCAAAATTAC
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
125 1 0.01
126 80 0.82
127 16 0.16
ACGTcount: A:0.31, C:0.32, G:0.05, T:0.32
Consensus pattern (128 bp):
ATTTTGACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATCTCACAAAAAATTACCATTTT
ACCCCCGAACCTTCCAAAACTCCATTTTAGACCCCGATCTCATCGATCTCACCAAAAATTACC
Found at i:14230228 original size:37 final size:37
Alignment explanation
Indices: 14230178--14230254 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
14230168 CGGCGTTTAC
14230178 GTCGAGGTTGCTCATCAAGCTCATCGTCATCATTAGG
1 GTCGAGGTTGCTCATCAAGCTCATCGTCATCATTAGG
14230215 GTCGAGGTTGCTCATCAAGCTCATCGTCATCATTAGG
1 GTCGAGGTTGCTCATCAAGCTCATCGTCATCATTAGG
14230252 GTC
1 GTC
14230255 CATTTGCCCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (37 bp):
GTCGAGGTTGCTCATCAAGCTCATCGTCATCATTAGG
Found at i:14232876 original size:13 final size:13
Alignment explanation
Indices: 14232858--14232886 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
14232848 ATAAATTAAA
14232858 AAATTTTAAAAAT
1 AAATTTTAAAAAT
14232871 AAA-TTTAAAAAT
1 AAATTTTAAAAAT
14232883 AAAT
1 AAAT
14232887 ACATTACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.80
13 3 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAATTTTAAAAAT
Found at i:14232937 original size:4 final size:4
Alignment explanation
Indices: 14232928--14232967 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
14232918 CTCCTTCTCC
* *
14232928 TTCT TTCT TTCT TTCTT TTAT TTAT TTCT TTCT TTCT TTC
1 TTCT TTCT TTCT TTC-T TTCT TTCT TTCT TTCT TTCT TTC
14232968 AATACCCGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
4 30 0.91
5 3 0.09
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (4 bp):
TTCT
Found at i:14234056 original size:12 final size:12
Alignment explanation
Indices: 14234039--14234063 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14234029 GCAAAAAGAA
14234039 GCCAAAGTTAAG
1 GCCAAAGTTAAG
14234051 GCCAAAGTTAAG
1 GCCAAAGTTAAG
14234063 G
1 G
14234064 AACCCCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.28, T:0.16
Consensus pattern (12 bp):
GCCAAAGTTAAG
Done.