Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 56 of 295
Found at i:16365729 original size:11 final size:11
Alignment explanation
Indices: 16365713--16365755 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
16365703 ATCAACACTA
16365713 AAAAATATGTT
1 AAAAATATGTT
*
16365724 AAAAATACTTATT
1 AAAAATA--TGTT
16365737 AAAAAATATGTT
1 -AAAAATATGTT
16365749 AAAAATA
1 AAAAATA
16365756 CTTATTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 14 0.52
12 3 0.11
13 3 0.11
14 7 0.26
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (11 bp):
AAAAATATGTT
Found at i:16365775 original size:25 final size:25
Alignment explanation
Indices: 16365711--16365761 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
16365701 TAATCAACAC
16365711 TAAAAAATATGTTAAAAATACTTAT
1 TAAAAAATATGTTAAAAATACTTAT
16365736 TAAAAAATATGTTAAAAATACTTAT
1 TAAAAAATATGTTAAAAATACTTAT
16365761 T
1 T
16365762 TTATTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (25 bp):
TAAAAAATATGTTAAAAATACTTAT
Found at i:16367240 original size:82 final size:82
Alignment explanation
Indices: 16367135--16367299 Score: 312
Period size: 82 Copynumber: 2.0 Consensus size: 82
16367125 AACATGTCAT
16367135 AAGCATATACCTTTTATTTTAACTAAGTTTAGCCAAATATACTCATACATTGAACAACCTACCAT
1 AAGCATATACCTTTTATTTTAACTAAGTTTAGCCAAATATACTCATACATTGAACAACCTACCAT
*
16367200 TTAACTCACAAATAACC
66 TTAACCCACAAATAACC
*
16367217 AAGCTTATACCTTTTATTTTAACTAAGTTTAGCCAAATATACTCATACATTGAACAACCTACCAT
1 AAGCATATACCTTTTATTTTAACTAAGTTTAGCCAAATATACTCATACATTGAACAACCTACCAT
16367282 TTAACCCACAAATAACC
66 TTAACCCACAAATAACC
16367299 A
1 A
16367300 CATCAATTAC
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.32
Consensus pattern (82 bp):
AAGCATATACCTTTTATTTTAACTAAGTTTAGCCAAATATACTCATACATTGAACAACCTACCAT
TTAACCCACAAATAACC
Found at i:16367658 original size:45 final size:44
Alignment explanation
Indices: 16367572--16367659 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
16367562 GGCTTTATAT
* * ** *
16367572 ATATACACTTTCAAACTCAAACACATTAAGACTAGCTTATACAC
1 ATATACACTTCCAAAATCAAACACACAAAGACTAGCCTATACAC
* *
16367616 ATATACACTTCCAAAATCAACCAACACAAAGGCTAGCCTATACA
1 ATATACACTTCCAAAATCAAAC-ACACAAAGACTAGCCTATACA
16367660 TGTCATATGT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 19 0.53
45 17 0.47
ACGTcount: A:0.44, C:0.27, G:0.06, T:0.23
Consensus pattern (44 bp):
ATATACACTTCCAAAATCAAACACACAAAGACTAGCCTATACAC
Found at i:16392873 original size:11 final size:11
Alignment explanation
Indices: 16392859--16392883 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16392849 GTGAATAAAT
16392859 TGTGAAATTTA
1 TGTGAAATTTA
16392870 TGTGAAATTTA
1 TGTGAAATTTA
16392881 TGT
1 TGT
16392884 AACAATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (11 bp):
TGTGAAATTTA
Found at i:16393317 original size:138 final size:138
Alignment explanation
Indices: 16393069--16393351 Score: 469
Period size: 138 Copynumber: 2.1 Consensus size: 138
16393059 TAAAAATGTT
* * *
16393069 TGGTATTAATGAATTGTCTAAAATAATTTTTTAGATCAAGAATTGAATCAAACCGAAGATAATCG
1 TGGTATTAATGAATTGTCTAAAATAATTGTTTAGATCAAGAATTAAATCAAACCAAAGATAATCG
**
16393134 GAGAAAAGGAAAAAATTGTCGAATAGTCTTTGGAGGTTCAATTTGCTTACTATTTTGACCAAGTA
66 GAGAAAAGGAAAAAATTGTCGAATAGTCCCTGGAGGTTCAATTTGCTTACTATTTTGACCAAGTA
16393199 AGTTCATA
131 AGTTCATA
16393207 TGGTATTAATGAATTGTCTAAAATAATTGTTTAGATCAAG-ATCTAAATCAAACCAAAGATAATC
1 TGGTATTAATGAATTGTCTAAAATAATTGTTTAGATCAAGAAT-TAAATCAAACCAAAGATAATC
* * * *
16393271 GGGGAAAATGCAAAAATTGTTGAATAGTCCCTGGAGGTTCAATTTGCTTACTATTTTGACCAAGT
65 GGAGAAAAGGAAAAAATTGTCGAATAGTCCCTGGAGGTTCAATTTGCTTACTATTTTGACCAAGT
16393336 AAGTTCATA
130 AAGTTCATA
16393345 TGGTATT
1 TGGTATT
16393352 TATAATTTTG
Statistics
Matches: 135, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
137 2 0.01
138 133 0.99
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (138 bp):
TGGTATTAATGAATTGTCTAAAATAATTGTTTAGATCAAGAATTAAATCAAACCAAAGATAATCG
GAGAAAAGGAAAAAATTGTCGAATAGTCCCTGGAGGTTCAATTTGCTTACTATTTTGACCAAGTA
AGTTCATA
Found at i:16394265 original size:44 final size:44
Alignment explanation
Indices: 16394165--16394287 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 44
16394155 TTAGAAATCT
* * * * *
16394165 GAGCTCGTTGAGTTGGTCCGGGTTCGTGATATGTATGAG-GCATCC
1 GAGCTCATTGAGTTGGTCCGAGTTCAT--TATGGATGCGAGCATCC
** **
16394210 GAGCTTGTTGAGTTGGTTTGAGTTCATTATGGATGCGAGCATCC
1 GAGCTCATTGAGTTGGTCCGAGTTCATTATGGATGCGAGCATCC
*
16394254 GAGCTCATTGAGTTGGTCCGAGTTTATTATGGAT
1 GAGCTCATTGAGTTGGTCCGAGTTCATTATGGAT
16394288 ACGGTACATG
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
43 8 0.12
44 35 0.54
45 22 0.34
ACGTcount: A:0.18, C:0.15, G:0.33, T:0.35
Consensus pattern (44 bp):
GAGCTCATTGAGTTGGTCCGAGTTCATTATGGATGCGAGCATCC
Found at i:16406076 original size:29 final size:27
Alignment explanation
Indices: 16406058--16406127 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
16406048 ATATTAAGTC
16406058 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
16406085 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
16406113 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
16406128 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:16406121 original size:28 final size:28
Alignment explanation
Indices: 16406058--16406155 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
16406048 ATATTAAGTC
*
16406058 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
16406085 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
16406113 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
16406142 CGCACACTTAGTGC
1 CGCACACTTAGTGC
16406156 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:16412434 original size:47 final size:47
Alignment explanation
Indices: 16412376--16412494 Score: 220
Period size: 47 Copynumber: 2.5 Consensus size: 47
16412366 ATGAGTATTC
*
16412376 GAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
16412423 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
16412470 GAATGTAAAAGTGTATATATGTGAT
1 GAATGTGAAAGTGTATATATGTGAT
16412495 GTGAAAGTGT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:16412501 original size:21 final size:21
Alignment explanation
Indices: 16412472--16412515 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
16412462 GATGTGATGA
16412472 ATGTAAAAGTGTATATATGTG
1 ATGTAAAAGTGTATATATGTG
*
16412493 ATGTGAAAGTGTATATATGTG
1 ATGTAAAAGTGTATATATGTG
16412514 AT
1 AT
16412516 AAGGCCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (21 bp):
ATGTAAAAGTGTATATATGTG
Found at i:16412504 original size:68 final size:68
Alignment explanation
Indices: 16412425--16412557 Score: 257
Period size: 68 Copynumber: 2.0 Consensus size: 68
16412415 GATGTGATGA
16412425 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATATAT
16412490 GTG
66 GTG
*
16412493 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATATAT
16412558 ATGTGATAGG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (68 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATATAT
GTG
Found at i:16412511 original size:115 final size:116
Alignment explanation
Indices: 16412381--16412606 Score: 418
Period size: 115 Copynumber: 1.9 Consensus size: 116
16412371 TATTCGAATA
16412381 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGT
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGT
16412445 GATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATATATGTGATG
66 GATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATATATGTGATG
16412496 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATG
* *
16412561 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
65 TGATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATATAT
16412607 ATGTGATAAG
Statistics
Matches: 107, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
115 55 0.51
117 52 0.49
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (116 bp):
TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGT
GATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATATATGTGATG
Found at i:16412571 original size:49 final size:49
Alignment explanation
Indices: 16412493--16412621 Score: 235
Period size: 49 Copynumber: 2.7 Consensus size: 49
16412483 TATATATGTG
16412493 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
16412540 ATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
16412589 ATGTGAAAGTGTATATATATGTGATAAGGCCTA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTA
16412622 TTAGTGCATG
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
47 11 0.14
49 67 0.86
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:16413532 original size:47 final size:47
Alignment explanation
Indices: 16413474--16413592 Score: 220
Period size: 47 Copynumber: 2.5 Consensus size: 47
16413464 ATGAGTATTC
*
16413474 GAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
16413521 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
16413568 GAATGTAAAAGTGTATATATGTGAT
1 GAATGTGAAAGTGTATATATGTGAT
16413593 GTGAAAGTGT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:16413599 original size:21 final size:21
Alignment explanation
Indices: 16413570--16413613 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
16413560 GATGTGATGA
16413570 ATGTAAAAGTGTATATATGTG
1 ATGTAAAAGTGTATATATGTG
*
16413591 ATGTGAAAGTGTATATATGTG
1 ATGTAAAAGTGTATATATGTG
16413612 AT
1 AT
16413614 AAGGCCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (21 bp):
ATGTAAAAGTGTATATATGTG
Found at i:16413602 original size:68 final size:67
Alignment explanation
Indices: 16413523--16413659 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 67
16413513 GATGTGATGA
16413523 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT-TGATGAATGTAAAAGTGTATATAT
16413588 GTG
65 GTG
*
16413591 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATTGATGAATGTGAAAGTGTATATATG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATTGATGAATGTAAAAGTGTATATATG
16413656 TG
66 TG
16413658 AT
1 AT
16413660 AAGGCCTAAT
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
67 28 0.41
68 40 0.59
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.33
Consensus pattern (67 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATTGATGAATGTAAAAGTGTATATATG
TG
Found at i:16413672 original size:114 final size:115
Alignment explanation
Indices: 16413479--16413706 Score: 431
Period size: 114 Copynumber: 2.0 Consensus size: 115
16413469 TATTCGAATA
16413479 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
*
16413544 ATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATATATGTGATG
66 ATAAGGCCTAATGGCCGATGTGATGAATATAAAAGTGTATATATGTGATG
16413594 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT-TGATGAATGTGAAAGTGTATATATGTG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
*
16413658 ATAAGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGAT
66 ATAAGGCCTAATGGCCGATGTGATGAATATAAAAGTGTATATATGTGAT
16413707 AAGGCCTAAT
Statistics
Matches: 111, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
114 74 0.67
115 37 0.33
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.32
Consensus pattern (115 bp):
TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
ATAAGGCCTAATGGCCGATGTGATGAATATAAAAGTGTATATATGTGATG
Found at i:16413828 original size:49 final size:47
Alignment explanation
Indices: 16413591--16413996 Score: 654
Period size: 47 Copynumber: 8.6 Consensus size: 47
16413581 TATATATGTG
16413591 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT-TGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
16413637 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
16413684 ATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
16413731 ATGTGAAAGTGTATATATATGTGAT-AGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
16413779 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
16413828 ATGTGATAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
16413877 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
16413924 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
16413971 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
16413997 TCCCGAAGGG
Statistics
Matches: 342, Mismatches: 14, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
46 40 0.12
47 161 0.47
48 48 0.14
49 93 0.27
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:16414169 original size:35 final size:37
Alignment explanation
Indices: 16414115--16414191 Score: 113
Period size: 35 Copynumber: 2.1 Consensus size: 37
16414105 CCGAGCTCTA
* *
16414115 AAGACCCGATGACTACGTGTGG-GATTTTG-CCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
16414150 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
16414187 AAGAC
1 AAGAC
16414192 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 20 0.54
36 6 0.16
37 11 0.30
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:16418779 original size:29 final size:27
Alignment explanation
Indices: 16418759--16418858 Score: 103
Period size: 27 Copynumber: 3.6 Consensus size: 27
16418749 ATATATTAAG
*
16418759 TCCGCACACTCAGTGCTATATAATCAA
1 TCCGCACACTTAGTGCTATATAATCAA
*
16418786 -CTCGCACACTTAGTGCTCTATAATCAA
1 TC-CGCACACTTAGTGCTATATAATCAA
* * *
16418813 ACTCGCACACTTAGTGCTGTATAATTTAAA
1 TC-CGCACACTTAGTGCTATATAA--TCAA
*
16418843 CCCGCACACTTAGTGC
1 TCCGCACACTTAGTGC
16418859 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 1 0.02
27 23 0.36
28 22 0.34
29 14 0.22
30 4 0.06
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
TCCGCACACTTAGTGCTATATAATCAA
Found at i:16418824 original size:28 final size:28
Alignment explanation
Indices: 16418761--16418858 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
16418751 ATATTAAGTC
*
16418761 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
16418788 CGCACACTTAGTGCTCTATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
16418816 CGCACACTTAGTGCTGTATAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
16418845 CGCACACTTAGTGC
1 CGCACACTTAGTGC
16418859 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.33
28 24 0.38
29 19 0.30
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:16421182 original size:21 final size:21
Alignment explanation
Indices: 16421134--16421173 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16421124 GATTATTTTG
*
16421134 ATGTTTGATGATGGATTATAA
1 ATGTTTGATGATAGATTATAA
16421155 ATGTTTGATGATAG-TTATA
1 ATGTTTGATGATAGATTATA
16421174 CAAGTTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.45
Consensus pattern (21 bp):
ATGTTTGATGATAGATTATAA
Found at i:16433342 original size:38 final size:38
Alignment explanation
Indices: 16433264--16433370 Score: 101
Period size: 39 Copynumber: 2.8 Consensus size: 38
16433254 ATACATAGGT
* * * *
16433264 GAATCTCAACTAGACTATATCTTGTTATATTATCCTGA
1 GAATCTCAACAAGGCTAGATCTCGTTATATTATCCTGA
16433302 GAATCTACAACAAGGCTAGATCTCGTTATATTA-CAC-GA
1 GAATCT-CAACAAGGCTAGATCTCGTTATATTATC-CTGA
* * *
16433340 GAATCTGCAACAAATGTTAGATCTCATTATA
1 GAATCT-CAAC-AAGGCTAGATCTCGTTATA
16433371 ATCTATAATA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
38 19 0.33
39 39 0.67
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.33
Consensus pattern (38 bp):
GAATCTCAACAAGGCTAGATCTCGTTATATTATCCTGA
Found at i:16436993 original size:15 final size:15
Alignment explanation
Indices: 16436973--16437004 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
16436963 GTCTGCACCT
16436973 ATTTTATGAAAATAA
1 ATTTTATGAAAATAA
16436988 ATTTTATGAAAATAA
1 ATTTTATGAAAATAA
16437003 AT
1 AT
16437005 CTCTCTATTT
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:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (15 bp):
ATTTTATGAAAATAA
Found at i:16439370 original size:42 final size:44
Alignment explanation
Indices: 16439274--16439433 Score: 161
Period size: 43 Copynumber: 3.7 Consensus size: 44
16439264 AGCTCGTACA
* * * *
16439274 ATGCCAATGTCCCAAAC-GTGGTCGTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAGTGGTCTTACACGAAATCAAATATCG
* * *
16439317 ATGCCATTGTCCCATACAG-GGTCTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACAGTGGTCTTACACGAAATCAAATATCG
* *
16439359 ATGCCAATGTCCCAGACA-TAGTCTTACTCGTAAATCACAA-ATCG
1 ATGCCAATGTCCCAGACAGTGGTCTTACACG-AAATCA-AATATCG
* *
16439403 ATGCCAACGTCCCAGA-TGTGGTCTTACACGA
1 ATGCCAATGTCCCAGACAGTGGTCTTACACGA
16439434 TAGCACATAT
Statistics
Matches: 96, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 27 0.28
43 40 0.42
44 29 0.30
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACAGTGGTCTTACACGAAATCAAATATCG
Found at i:16442397 original size:48 final size:48
Alignment explanation
Indices: 16442342--16442717 Score: 326
Period size: 48 Copynumber: 7.9 Consensus size: 48
16442332 GTGAATTGCT
* *
16442342 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGAGGCC
** * * * * ** *
16442390 GATGCCATGTCCCAAACATGGTCTTACACAAGCTCTCGTCTTAATACT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGAGGCC
* * * * *
16442438 GATGCCATGTCCCAAACATAGTCTTACACTGGCTCTCATAATGTGGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGAGGCC
* * * * * *
16442486 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAAT-ATCGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGA-GGCC
* * * * * *
16442534 GATGTCATGTTCCAAACATGGTCTTACATTGGCTCTCATATTGTGGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGAGGCC
* * * *
16442582 GATGCCATTTCCCAAACATGGTCTTACATTGGCACACATA-TCATGG-C
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGA-GGCC
* * * * * *
16442629 GATGCCATGTCTCGAACATGGTCTTGCACTGGCACACATATCGTGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGAGGCC
* * * * *
16442677 GATTCCATGTCCCAGACATGGTCTTTCATTGGCACACATAT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAT
16442718 CACCCAAATG
Statistics
Matches: 263, Mismatches: 60, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
47 39 0.15
48 224 0.85
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGAGGCC
Found at i:16442505 original size:96 final size:94
Alignment explanation
Indices: 16442340--16442609 Score: 362
Period size: 96 Copynumber: 2.8 Consensus size: 94
16442330 GGGTGAATTG
* * * *
16442340 CTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCCCAA
1 CTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATTGTGGTCGATGCCATGTCCCAA
*
16442405 ACATGGTCTTACACAAGCTCTCGTCTTAATA-
66 ACATGGTCTTACACAAGCTCTC-AC--AATAC
* * * *
16442436 CTGATGCCATGTCCCAAACATAGTCTTACACTGGCTCTCATAATGTGGTCGATGCCATGTCCCAG
1 CTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATTGTGGTCGATGCCATGTCCCAA
**
16442501 ACATGGTCTTACACTGGCTCTCACAATATC
66 ACATGGTCTTACACAAGCTCTCACAATA-C
* * *
16442531 GCTGATGTCATGTTCCAAACATGGTCTTACATTGGCTCTCATATTGTGGTCGATGCCATTTCCCA
1 -CTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATTGTGGTCGATGCCATGTCCCA
16442596 AACATGGTCTTACA
65 AACATGGTCTTACA
16442610 TTGGCACACA
Statistics
Matches: 153, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
93 4 0.03
95 1 0.01
96 148 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (94 bp):
CTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATTGTGGTCGATGCCATGTCCCAA
ACATGGTCTTACACAAGCTCTCACAATAC
Found at i:16446573 original size:45 final size:44
Alignment explanation
Indices: 16446525--16446784 Score: 313
Period size: 45 Copynumber: 5.8 Consensus size: 44
16446515 GTCTGATTCA
* * * * * *
16446525 TGATGCCATAGCGTCCTTCAGCTATGGTCTTGCTCGATAGAATCA
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTA-AATCG
* * * *
16446570 TGATGCCATAATGTCTTTTAGCTATGGTCTTACTCGTTAAAATTG
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTT-AAATCG
* *
16446615 TGATGTCATAATGTCTTTCAACTATGGTCTTACTCGTTAAAATCG
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTT-AAATCG
* * *
16446660 TGATGCCATAATGTCTTTCAACTATGGTCTTACTTGTTAAAACTG
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAATC-G
* * *
16446705 TGATGCCATAACATCTTTCAGCTATGGTCTTACTCTTTAAAGTCG
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAA-TCG
16446750 TGATGCCATAACGTCTTTCAACTATGGTCTTACTC
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTC
16446785 CCTATGGCCT
Statistics
Matches: 189, Mismatches: 23, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
44 4 0.02
45 183 0.97
46 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (44 bp):
TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAATCG
Found at i:16446666 original size:90 final size:90
Alignment explanation
Indices: 16446525--16446784 Score: 358
Period size: 90 Copynumber: 2.9 Consensus size: 90
16446515 GTCTGATTCA
* * * * * * * *
16446525 TGATGCCATAGCGTCCTTCAGCTATGGTCTTGCTCGATAGAATCATGATGCCATAATGTCTTTTA
1 TGATGCCATAACATCTTTCAGCTATGGTCTTACTCGTTAAAATCGTGATGCCATAATGTCTTTCA
* *
16446590 GCTATGGTCTTACTCGTTAAAATTG
66 ACTATGGTCTTACTCGTTAAAACTG
* ** *
16446615 TGATGTCATAATGTCTTTCAACTATGGTCTTACTCGTTAAAATCGTGATGCCATAATGTCTTTCA
1 TGATGCCATAACATCTTTCAGCTATGGTCTTACTCGTTAAAATCGTGATGCCATAATGTCTTTCA
*
16446680 ACTATGGTCTTACTTGTTAAAACTG
66 ACTATGGTCTTACTCGTTAAAACTG
* * *
16446705 TGATGCCATAACATCTTTCAGCTATGGTCTTACTCTTTAAAGTCGTGATGCCATAACGTCTTTCA
1 TGATGCCATAACATCTTTCAGCTATGGTCTTACTCGTTAAAATCGTGATGCCATAATGTCTTTCA
16446770 ACTATGGTCTTACTC
66 ACTATGGTCTTACTC
16446785 CCTATGGCCT
Statistics
Matches: 149, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
90 149 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (90 bp):
TGATGCCATAACATCTTTCAGCTATGGTCTTACTCGTTAAAATCGTGATGCCATAATGTCTTTCA
ACTATGGTCTTACTCGTTAAAACTG
Found at i:16446819 original size:104 final size:105
Alignment explanation
Indices: 16446681--16446880 Score: 303
Period size: 104 Copynumber: 1.9 Consensus size: 105
16446671 TGTCTTTCAA
* * * *
16446681 CTATGGTCTTACTTGTTAAAACTGTGATGCCATAACATCTTTCAGCTATGGTCTTACTCTTTAAA
1 CTATGGCCTTACTCGTTAAAACTGTGATGCCATAACATCTTTCAGCTATAGTCTTACTCATTAAA
* *
16446746 GTCGTGATGCCATAACGTCTTTCAACTATGGTCTTACTCC
66 ATCGTGATGCCATAACATCTTTCAACTATGGTCTTACTCC
* *
16446786 CTATGGCCTTACTCGTTAAAAC-GTGATGTCATAACATCTTTTAGCTATAGTCTTACTCATTAAA
1 CTATGGCCTTACTCGTTAAAACTGTGATGCCATAACATCTTTCAGCTATAGTCTTACTCATTAAA
* *
16446850 ATCGTGATGCCATAACATTTTTCAGCTATGG
66 ATCGTGATGCCATAACATCTTTCAACTATGG
16446881 ATGGTCTTAC
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
104 65 0.76
105 20 0.24
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (105 bp):
CTATGGCCTTACTCGTTAAAACTGTGATGCCATAACATCTTTCAGCTATAGTCTTACTCATTAAA
ATCGTGATGCCATAACATCTTTCAACTATGGTCTTACTCC
Found at i:16446826 original size:59 final size:60
Alignment explanation
Indices: 16446726--16446843 Score: 157
Period size: 59 Copynumber: 2.0 Consensus size: 60
16446716 CATCTTTCAG
* * * * *
16446726 CTATGGTCTTACTCTTTAAAGTCGTGATGCCATAACGTCTTTCAACTATGGTCTTACTCC
1 CTATGGCCTTACTCGTTAAAGACGTGATGCCATAACATCTTTCAACTATAGTCTTACTCC
* * *
16446786 CTATGGCCTTACTCGTTAAA-ACGTGATGTCATAACATCTTTTAGCTATAGTCTTACTC
1 CTATGGCCTTACTCGTTAAAGACGTGATGCCATAACATCTTTCAACTATAGTCTTACTC
16446844 ATTAAAATCG
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
59 32 0.64
60 18 0.36
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (60 bp):
CTATGGCCTTACTCGTTAAAGACGTGATGCCATAACATCTTTCAACTATAGTCTTACTCC
Found at i:16446843 original size:44 final size:45
Alignment explanation
Indices: 16446793--16446878 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 45
16446783 TCCCTATGGC
* *
16446793 CTTACTCGTTAAAA-CGTGATGTCATAACATCTTTT-AGCTATAGT
1 CTTACTCATTAAAATCGTGATGCCATAACAT-TTTTCAGCTATAGT
16446837 CTTACTCATTAAAATCGTGATGCCATAACATTTTTCAGCTAT
1 CTTACTCATTAAAATCGTGATGCCATAACATTTTTCAGCTAT
16446879 GGATGGTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
44 17 0.45
45 21 0.55
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (45 bp):
CTTACTCATTAAAATCGTGATGCCATAACATTTTTCAGCTATAGT
Found at i:16462530 original size:18 final size:18
Alignment explanation
Indices: 16462497--16462590 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
16462487 AAGGTTTTCT
16462497 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
16462512 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
16462530 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
16462548 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
16462566 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
16462584 TATTGAT
1 TATTGAT
16462591 CGTGACCTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:16467744 original size:42 final size:43
Alignment explanation
Indices: 16467631--16467744 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 43
16467621 GGAATTAAGA
* *
16467631 AATCCGAGCTCGTTGAGCGGTCTGAGTTCGTGATATATGTGAG
1 AATCCGAGCTCGTTGAGTGGTCTGAGTTCGTGATATATGAGAG
* * **
16467674 AATCCGAACTTGTTGAGTGGTCCAAGTTCGTGATATATGAG-G
1 AATCCGAGCTCGTTGAGTGGTCTGAGTTCGTGATATATGAGAG
* *
16467716 CATCCGAGCTCATTGAGTGGTCTGAGTTC
1 AATCCGAGCTCGTTGAGTGGTCTGAGTTC
16467745 ATTATGGATA
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 24 0.41
43 35 0.59
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.31
Consensus pattern (43 bp):
AATCCGAGCTCGTTGAGTGGTCTGAGTTCGTGATATATGAGAG
Found at i:16467775 original size:85 final size:86
Alignment explanation
Indices: 16467632--16467832 Score: 208
Period size: 85 Copynumber: 2.3 Consensus size: 86
16467622 GAATTAAGAA
* * * **
16467632 ATCCGAGCTCGTTGAGCGGTCTGAGTTCGTGATATATGTGAGAATCCGAACTTGTTGAGTGGTCC
1 ATCCGAGCTCGTTGAGTGGTCTGAGTTCATGATAGATACGAGAATCCGAACTTGTTGAGTGGTCC
* * *
16467697 AAGTTCGTGATATATG-AGGC
66 AAGTTCATGATAGATGCAAGC
* * * * * *
16467717 ATCCGAGCTCATTGAGTGGTCTGAGTTCATTATGGATACGAGCATCCTAA-TTCGTTGAGTGGTT
1 ATCCGAGCTCGTTGAGTGGTCTGAGTTCATGATAGATACGAGAATCCGAACTT-GTTGAGTGGTC
* * *
16467781 CGAGTTCATTATGGATGCAAGC
65 CAAGTTCATGATAGATGCAAGC
* *
16467803 ATCCAAGCTCGTTGAGTGGTCCGAGTTCAT
1 ATCCGAGCTCGTTGAGTGGTCTGAGTTCAT
16467833 AATGAATGTG
Statistics
Matches: 94, Mismatches: 20, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
84 2 0.02
85 62 0.66
86 30 0.32
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (86 bp):
ATCCGAGCTCGTTGAGTGGTCTGAGTTCATGATAGATACGAGAATCCGAACTTGTTGAGTGGTCC
AAGTTCATGATAGATGCAAGC
Found at i:16467776 original size:43 final size:43
Alignment explanation
Indices: 16467715--16467832 Score: 150
Period size: 43 Copynumber: 2.7 Consensus size: 43
16467705 GATATATGAG
* * *
16467715 GCATCCGAGCTCATTGAGTGGTCTGAGTTCATTATGGATACGA
1 GCATCCAAGCTCGTTGAGTGGTCTGAGTTCATTATGGATACAA
* *
16467758 GCATCCTAA-TTCGTTGAGTGGT-TCGAGTTCATTATGGATGCAA
1 GCATCC-AAGCTCGTTGAGTGGTCT-GAGTTCATTATGGATACAA
*
16467801 GCATCCAAGCTCGTTGAGTGGTCCGAGTTCAT
1 GCATCCAAGCTCGTTGAGTGGTCTGAGTTCAT
16467833 AATGAATGTG
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
42 3 0.05
43 60 0.94
44 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (43 bp):
GCATCCAAGCTCGTTGAGTGGTCTGAGTTCATTATGGATACAA
Found at i:16467883 original size:51 final size:51
Alignment explanation
Indices: 16467802--16467901 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 51
16467792 TGGATGCAAG
* *
16467802 CATCCAAGCTCGTTGAGTGGTCCGAGTTCATAATGAATGTGATACATGTAA
1 CATCCAAGCTCGTTGAGAGGTCCGAATTCATAATGAATGTGATACATGTAA
* * * * * *
16467853 CATCCGAGCTGGTTGAGAGGTTCGAATTCATTATGGATGTGTTACATGT
1 CATCCAAGCTCGTTGAGAGGTCCGAATTCATAATGAATGTGATACATGT
16467902 TATAAGGTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (51 bp):
CATCCAAGCTCGTTGAGAGGTCCGAATTCATAATGAATGTGATACATGTAA
Found at i:16471589 original size:15 final size:15
Alignment explanation
Indices: 16471541--16471589 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
16471531 GTATCGTATA
*
16471541 TTGGATTTCTTCATC
1 TTGGATTTCTTTATC
* *
16471556 TTGGATTTTTTTGTC
1 TTGGATTTCTTTATC
*
16471571 TTGGATTTCTTTATT
1 TTGGATTTCTTTATC
16471586 TTGG
1 TTGG
16471590 TCTTCTTGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.10, C:0.10, G:0.18, T:0.61
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:16480873 original size:18 final size:18
Alignment explanation
Indices: 16480838--16480875 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
16480828 TTGCTGTGTT
*
16480838 AGTCGAAAGAGCTTGCAA
1 AGTCGAAAGAACTTGCAA
16480856 AGTCGAAA-AACTTGGCAA
1 AGTCGAAAGAACTT-GCAA
16480874 AG
1 AG
16480876 AAAAGAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (18 bp):
AGTCGAAAGAACTTGCAA
Found at i:16483769 original size:41 final size:41
Alignment explanation
Indices: 16483724--16483803 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
16483714 AAAGAAAGAT
*
16483724 GTTGTTTGGGTTGTCGTTGATCGACTGACGAAATCTGCATA
1 GTTGTTTGGGTTGTCATTGATCGACTGACGAAATCTGCATA
16483765 GTTGTTTGGGTTGTCATTGATCGACTGACGAAATCTGCA
1 GTTGTTTGGGTTGTCATTGATCGACTGACGAAATCTGCA
16483804 CACTTCATTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.36
Consensus pattern (41 bp):
GTTGTTTGGGTTGTCATTGATCGACTGACGAAATCTGCATA
Found at i:16486369 original size:14 final size:13
Alignment explanation
Indices: 16486349--16486380 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
16486339 AATATTTAAC
16486349 TTGTTCTTAATTA
1 TTGTTCTTAATTA
16486362 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
16486376 TTGTT
1 TTGTT
16486381 TTGATATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:16495153 original size:14 final size:14
Alignment explanation
Indices: 16495134--16495160 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16495124 ATATTTAACT
16495134 TGTTCTTAATTATG
1 TGTTCTTAATTATG
16495148 TGTTCTTAATTAT
1 TGTTCTTAATTAT
16495161 TATTTTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:16497265 original size:49 final size:49
Alignment explanation
Indices: 16497204--16497336 Score: 178
Period size: 49 Copynumber: 2.7 Consensus size: 49
16497194 ACACATCTAA
* *
16497204 GTCGATGTCATGTCCCAAATAGGTCTTACACTGACTTTCATATACCGAG-
1 GTCGATGCCATGTCCCAAATAGGTCTTACACTGACTCTCATATACCG-GT
* * *
16497253 GTCGATGCCATGTCCCAAATAGGTCTTACACTGGCTCTCATCTATCGGT
1 GTCGATGCCATGTCCCAAATAGGTCTTACACTGACTCTCATATACCGGT
* * *
16497302 GTCAATGCCATGTCCCATACAGGTCTTACACTGAC
1 GTCGATGCCATGTCCCAAATAGGTCTTACACTGAC
16497337 ACATGTCAAG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
48 1 0.01
49 73 0.99
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAAATAGGTCTTACACTGACTCTCATATACCGGT
Found at i:16501789 original size:13 final size:13
Alignment explanation
Indices: 16501768--16501798 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
16501758 GAAGTAATCA
16501768 CACACGGGCGTGT
1 CACACGGGCGTGT
*
16501781 CACATGGGCGTGT
1 CACACGGGCGTGT
16501794 CACAC
1 CACAC
16501799 AGACGTGTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.16
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:16505974 original size:55 final size:55
Alignment explanation
Indices: 16505910--16506035 Score: 139
Period size: 55 Copynumber: 2.3 Consensus size: 55
16505900 GAACCTACCA
* * * * **
16505910 AAAC-AACACGAGCGTGCGACATGCCCGTGCCTTGAAACAGTGG-CTAAACCTGTC
1 AAACTAACACGGGCGTGCAACACGCCCATGCCGAGAAACAGTGGAC-AAACCTGTC
* * *
16505964 AAATTAACACGGGCGTGCAACACGCCCATGCCGAGCAACCGTGGACAAACCTGTC
1 AAACTAACACGGGCGTGCAACACGCCCATGCCGAGAAACAGTGGACAAACCTGTC
*
16506019 AGACTAACACGGGCGTG
1 AAACTAACACGGGCGTG
16506036 GGCCTACATA
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
54 3 0.05
55 55 0.93
56 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.14
Consensus pattern (55 bp):
AAACTAACACGGGCGTGCAACACGCCCATGCCGAGAAACAGTGGACAAACCTGTC
Found at i:16517698 original size:13 final size:13
Alignment explanation
Indices: 16517680--16517710 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
16517670 TTTTATTTTA
16517680 TTTTAAGACTACT
1 TTTTAAGACTACT
16517693 TTTTAAGACTACT
1 TTTTAAGACTACT
16517706 TTTTA
1 TTTTA
16517711 TTTTTCTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.52
Consensus pattern (13 bp):
TTTTAAGACTACT
Found at i:16523582 original size:49 final size:47
Alignment explanation
Indices: 16523522--16523789 Score: 179
Period size: 49 Copynumber: 5.7 Consensus size: 47
16523512 ACATCTAAGT
* * *
16523522 CGATGGCATGTCCCAGAAAAGTCTTACACTGACTTTCATATATCGAGGC
1 CGATGCCATGTCCCAGACAAGTCTTACACT-ACTTTCATATATC-AAGC
* * * * * * *
16523571 CGATGCCATGTCTCAGACAGGTCTTACACTGGCTCTCATCTATCAGTGT
1 CGATGCCATGTCCCAGACAAGTCTTACACT-ACTTTCATATATCA-AGC
* * * * *
16523620 TGATGCCATGCCCCAGACAAGTCTTACACTA---ACAAATGTCAAGC
1 CGATGCCATGTCCCAGACAAGTCTTACACTACTTTCATATATCAAGC
* * * * *
16523664 CGATACCATGTCCCAGATAGGTCTTACACTAGCTTGCATATCTCGAAGC
1 CGATGCCATGTCCCAGACAAGTCTTACACTA-CTTTCATATATC-AAGC
* * * * * *
16523713 CGATG-CATGTCCTAGACATGTCTTACACTAGCTCTCGTCT-T-AATGT
1 CGATGCCATGTCCCAGACAAGTCTTACACTA-CTTTCATATATCAA-GC
*
16523759 CGATGCCATGTCCCAGACATGTCTTACACTA
1 CGATGCCATGTCCCAGACAAGTCTTACACTA
16523790 GCACACATCC
Statistics
Matches: 173, Mismatches: 38, Indels: 18
0.76 0.17 0.08
Matches are distributed among these distances:
44 27 0.16
45 8 0.05
46 6 0.03
47 25 0.14
48 35 0.20
49 72 0.42
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACAAGTCTTACACTACTTTCATATATCAAGC
Found at i:16523647 original size:98 final size:97
Alignment explanation
Indices: 16523474--16523649 Score: 232
Period size: 98 Copynumber: 1.8 Consensus size: 97
16523464 GGGTACGATG
* *
16523474 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACACATCTAAGTCGATGGCATGTCCCAGA
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACACATCTAAGTCGATGCCATGCCCCAGA
16523539 AAAGTCTTACACTGACTTTCATATATCGAGGC
66 AAAGTCTTACACTGACTTTCATATATCGAGGC
* * * *
16523571 CGATGCCATG-TCTCAGACA-GGTCTTACACTGGCTCTCATCTATC-AGTGTTGATGCCATGCCC
1 CGATGCCATGTTC-CAAACATGGTCTTACACTGGCTCACA-C-ATCTA-AGTCGATGCCATGCCC
*
16523633 CAGACAAGTCTTACACT
62 CAGAAAAGTCTTACACT
16523650 AACAAATGTC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
96 20 0.29
97 17 0.25
98 31 0.46
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (97 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACACATCTAAGTCGATGCCATGCCCCAGA
AAAGTCTTACACTGACTTTCATATATCGAGGC
Found at i:16523736 original size:48 final size:45
Alignment explanation
Indices: 16523474--16523791 Score: 135
Period size: 49 Copynumber: 6.7 Consensus size: 45
16523464 GGGTACGATG
* * * * *
16523474 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACACATCT-AAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCT--CTCATCTGAAGC
* * * * *
16523522 CGATGGCATGTCCCAGAAAAGTCTTACACT-GACTTTCATATATCGAGGC
1 CGAT-GCATGTCCCAGACATGTCTTACACTAG-CTCTC--ATCT-GAAGC
* * * *
16523571 CGATGCCATGTCTCAGACAGGTCTTACACTGGCTCTCATCT-ATCAGTGT
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCATCTGA--A--GC
* * * * ** * *
16523620 TGATGCCATGCCCCAGACAAGTCTTACACTA--ACAAATGTCAAGC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCATCTGAAGC
* * *
16523664 CGATACCATGTCCCAGATAGGTCTTACACTAGCT-TGCATATCTCGAAGC
1 CGAT-GCATGTCCCAGACATGTCTTACACTAGCTCT-C--ATCT-GAAGC
* * * *
16523713 CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTTAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTGAA-GC
16523759 CGATGCCATGTCCCAGACATGTCTTACACTAGC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGC
16523792 ACACATCCAT
Statistics
Matches: 203, Mismatches: 44, Indels: 47
0.69 0.15 0.16
Matches are distributed among these distances:
44 26 0.13
45 4 0.02
46 11 0.05
47 48 0.24
48 45 0.22
49 68 0.33
50 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTGAAGC
Found at i:16527807 original size:13 final size:13
Alignment explanation
Indices: 16527785--16527817 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
16527775 AAGGGTTTGT
16527785 TTAT-TAAACTAA
1 TTATCTAAACTAA
16527797 TTATCTAAACTAA
1 TTATCTAAACTAA
*
16527810 TTAACTAA
1 TTATCTAA
16527818 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:16530730 original size:6 final size:6
Alignment explanation
Indices: 16530719--16530768 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
16530709 AAGAAAATTG
* * *
16530719 AAAAAT AAAAAT CAAAAG AAAAAT AAGAAT --AAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
16530765 AAAA
1 AAAA
16530769 TAGGAGGATT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
4 3 0.08
6 33 0.92
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:16530733 original size:28 final size:29
Alignment explanation
Indices: 16530702--16530768 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
16530692 GATATGTCTT
*
16530702 TCAAAATAAGAAAAT-TGAA-AAATAAAAA
1 TCAAAATAA-AAAATAAGAATAAATAAAAA
*
16530730 TCAAAA-GAAAAATAAGAATAAATAAAAA
1 TCAAAATAAAAAATAAGAATAAATAAAAA
*
16530758 TAAAAATAAAA
1 TCAAAATAAAA
16530769 TAGGAGGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
26 5 0.16
27 4 0.12
28 20 0.62
29 3 0.09
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (29 bp):
TCAAAATAAAAAATAAGAATAAATAAAAA
Found at i:16530742 original size:34 final size:33
Alignment explanation
Indices: 16530704--16530768 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 33
16530694 TATGTCTTTC
*
16530704 AAAATAAGAA-AATTGAAAAATAAAAATCAAAAGA
1 AAAATAAGAATAAAT-AAAAATAAAAAT-AAAAGA
16530738 AAAATAAGAATAAATAAAAATAAAAATAAAA
1 AAAATAAGAATAAATAAAAATAAAAATAAAA
16530769 TAGGAGGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 4 0.14
34 22 0.76
35 3 0.10
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (33 bp):
AAAATAAGAATAAATAAAAATAAAAATAAAAGA
Found at i:16530757 original size:22 final size:21
Alignment explanation
Indices: 16530727--16530770 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
16530717 TGAAAAATAA
*
16530727 AAATCAAAAGAAAAATAAGAAT
1 AAATAAAAAGAAAAATAA-AAT
*
16530749 AAATAAAAATAAAAATAAAAT
1 AAATAAAAAGAAAAATAAAAT
16530770 A
1 A
16530771 GGAGGATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (21 bp):
AAATAAAAAGAAAAATAAAAT
Found at i:16530758 original size:16 final size:16
Alignment explanation
Indices: 16530719--16530767 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
16530709 AAGAAAATTG
*
16530719 AAAAATAAAAATCAAAAG
1 AAAAATAAAAAT--AAAT
*
16530737 AAAAATAAGAATAAAT
1 AAAAATAAAAATAAAT
16530753 AAAAATAAAAATAAA
1 AAAAATAAAAATAAA
16530768 ATAGGAGGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 17 0.61
18 11 0.39
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (16 bp):
AAAAATAAAAATAAAT
Found at i:16534181 original size:16 final size:16
Alignment explanation
Indices: 16534160--16534210 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
16534150 ATTACAAGAT
16534160 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
16534176 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
16534195 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
16534211 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:16534193 original size:19 final size:21
Alignment explanation
Indices: 16534158--16534200 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
16534148 AAATTACAAG
16534158 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
16534179 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
16534198 ATC
1 ATC
16534201 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:16534960 original size:206 final size:206
Alignment explanation
Indices: 16534602--16535948 Score: 2093
Period size: 206 Copynumber: 6.5 Consensus size: 206
16534592 CGATCTATTT
*
16534602 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAACCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
* * * * * *
16534667 CAACTATGTCTTCGATTTGCTCCTTGTAAGAACAAGGATACCAAACCATCTTGGATCTGCTTCAG
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
* * * ** * *
16534732 TCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAAACGCCAAACT
131 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
*
16534797 TCAATTTGTTC
196 TCGATTTGTTC
*
16534808 TCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
* * * * *
16534873 CAGCTATGTCTTCGGTTTTTTCTTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGCTTCAG
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
* *** * * *
16534938 TATAAACATCTGAAGATTAGATCTACTATGTGTCTGCTCTCCTTCAAATATGGAGACGCCAAACT
131 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
*
16535003 TTGATTTGTTC
196 TCGATTTGTTC
*
16535014 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCCTCGTAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
* *
16535079 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTAGGATCTGCTTCAA
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
* * * * *
16535144 TATAAACATATGAAGGCCAAATCTACTATATGCCTGCCCTCCGTCGAATATGGAGACGCCAAACT
131 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
16535209 TCGATTTGTTC
196 TCGATTTGTTC
*
16535220 TCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
* *
16535285 CAGCTATGTCTTCGATTTGTTCCTTGTACGCAAAAGGATGCCAAATCACCTTGGATCTGCTTCAG
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
* * * * *
16535350 TATAAACATATGAAGGCTAGATCTGCTATGTGTCTGTTTTCCATCGAATATGGAGACGCTAAACT
131 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
*
16535415 TCAATTTGTTC
196 TCGATTTGTTC
16535426 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
* *
16535491 CAGTTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGTTTCAG
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
*
16535556 TATAAACATATAAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
131 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
* *
16535621 TTGTTTTGTTC
196 TCGATTTGTTC
* *
16535632 TATGACAGTACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
* * *
16535697 CAGCTATGTCCTCGATTTGTTCCTTGTAAGAACAATGATGCCAAATCACCTTGGATCTGCTTCAG
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
* *
16535762 TATAAACATATGAAGGCCAAATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACACCAAACT
131 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
* *
16535827 TTGATTCGTTC
196 TCGATTTGTTC
* * * * *
16535838 TCTGACAATACAGAGATGCCAAATTATCTTAGATTTGCTTCAACGTAAAC-CATGAAAGCTAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
*
16535902 CAGCTATGTTTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
16535949 TGCTATCTTC
Statistics
Matches: 1046, Mismatches: 95, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
205 55 0.05
206 991 0.95
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
TCGATTTGTTC
Found at i:16535985 original size:44 final size:43
Alignment explanation
Indices: 16535918--16536384 Score: 347
Period size: 44 Copynumber: 10.7 Consensus size: 43
16535908 TGTTTTCGAT
* * * *
16535918 TTGTTCCTTGTAAGCACAAGGATGCCAAATCTGCTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCC-AATCTGCTATCTTCAAC
* ** *
16535962 TTGTTCCCTATAAACACAGGGATGCC-GTGCTGAAATCTTCGA-
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCTTCAAC
* * * * ** * ** *
16536004 TCTGTTTCGCTGTAAGCACAGGAATTTCAGTTCTGCTATCTTTGAT
1 T-TG-TTCCCTATAAACACAGGGATGCCA-ATCTGCTATCTTCAAC
16536050 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCC-AATCTGCTATCTTCAAC
* ** *
16536094 TTGTTCCCTATAAACATAGGGATGCC-ATGCTGAAATATTCAA-
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCTTCAAC
* * * * * * *
16536136 TCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGAT
1 T-TG-TTCCCTATAAACACAGGGATGCCA-ATCTGCTATCTTCAAC
16536182 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCC-AATCTGCTATCTTCAAC
**
16536226 TTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCTTCAAC
** **
16536269 TTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTTGA-
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCTTCAAC
** * * * * *
16536311 TCTGCTTTGCTGTAAGCACA-GGAGTGTCAGATCTGCTATCTTCGAT
1 T-TG-TTCCCTATAAACACAGGGA-TGCCA-ATCTGCTATCTTCAAC
16536357 TTGTTCCCTATAAACACAGGGATGCCAA
1 TTGTTCCCTATAAACACAGGGATGCCAA
16536385 ATCTTGTTTC
Statistics
Matches: 335, Mismatches: 66, Indels: 45
0.75 0.15 0.10
Matches are distributed among these distances:
42 8 0.02
43 82 0.24
44 197 0.59
45 40 0.12
46 8 0.02
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
TTGTTCCCTATAAACACAGGGATGCCAATCTGCTATCTTCAAC
Found at i:16536152 original size:132 final size:131
Alignment explanation
Indices: 16535915--16536383 Score: 620
Period size: 132 Copynumber: 3.6 Consensus size: 131
16535905 CTATGTTTTC
* * * *
16535915 GATTTGTTCCTTGTAAGCACAAGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACA
1 GATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACA
* * *
16535980 GGGATGCCGTGCTGAAATCTTCGATCTGTTTCGCTGTAAGCACAGGAATTTCAGTTCTGCTATCT
66 GGGATGCCATGCTGAAATCTTCAATCTG-TTCGCTGTAAGCACAGGAATGTCAGTTCTGCTATCT
16536045 TT
130 TT
*
16536047 GATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACATA
1 GATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACA
* *
16536112 GGGATGCCATGCTGAAATATTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCT
66 GGGATGCCATGCTGAAATCTTCAATCTG-TTCGCTGTAAGCACAGGAATGTCAGTTCTGCTATCT
*
16536177 TC
130 TT
16536179 GATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACA
1 GATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACA
* * * * * * **
16536244 GGGATGCCATGCTGAAATCTTCAA-CTTGTTCCCTATAAACACAGGGATGCCA-TGCTGAAATCT
66 GGGATGCCATGCTGAAATCTTCAATC-TGTTCGCTGTAAGCACAGGAATGTCAGTTCTGCTATCT
16536307 TT
130 TT
* ** * * * * * *
16536309 GATCTGCTTTGCTGTAAGCACA-GGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACA
1 GATTTG-TTCCCTATAAACACAGGGA-TGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACA
16536373 CAGGGATGCCA
64 CAGGGATGCCA
16536384 AATCTTGTTT
Statistics
Matches: 301, Mismatches: 33, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
130 16 0.05
131 76 0.25
132 209 0.69
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (131 bp):
GATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACA
GGGATGCCATGCTGAAATCTTCAATCTGTTCGCTGTAAGCACAGGAATGTCAGTTCTGCTATCTT
T
Found at i:16536327 original size:175 final size:175
Alignment explanation
Indices: 16536035--16536388 Score: 584
Period size: 175 Copynumber: 2.0 Consensus size: 175
16536025 GAATTTCAGT
** * **
16536035 TCTGCTATCTTTGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTC
1 TCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-AATCTGAAATCTTCAACTTGTTC
*
16536100 CCTATAAACATAGGGATGCCATGCTGAAATATTCAATCTGCTTCGCTGTAAGCACAGGAATGTCA
65 CCTATAAACACAGGGATGCCATGCTGAAATATTCAATCTGCTTCGCTGTAAGCACAGGAATGTCA
16536165 GATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAA
130 GATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAA
16536211 TCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTCAACTTGTTC
1 TCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAT-CTGAAATCTTCAACTTGTTC
* ** * *
16536275 CCTATAAACACAGGGATGCCATGCTGAAATCTTTGATCTGCTTTGCTGTAAGCACAGGAGTGTCA
65 CCTATAAACACAGGGATGCCATGCTGAAATATTCAATCTGCTTCGCTGTAAGCACAGGAATGTCA
16536340 GATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAA
130 GATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAA
16536386 TCT
1 TCT
16536389 TGTTTCTTTG
Statistics
Matches: 166, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
174 2 0.01
175 126 0.76
176 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (175 bp):
TCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAATCTGAAATCTTCAACTTGTTCC
CTATAAACACAGGGATGCCATGCTGAAATATTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAG
ATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAA
Found at i:16537259 original size:8 final size:7
Alignment explanation
Indices: 16537242--16537300 Score: 61
Period size: 7 Copynumber: 8.6 Consensus size: 7
16537232 AGCCTCTCCA
16537242 TTTTTCT
1 TTTTTCT
16537249 TTTTTCAT
1 TTTTTC-T
16537257 TTTTCTCT
1 TTTT-TCT
16537265 TTTTTC-
1 TTTTTCT
16537271 TTTTT-T
1 TTTTTCT
*
16537277 TTTTTAT
1 TTTTTCT
*
16537284 TTTTTCC
1 TTTTTCT
16537291 TTTTT-T
1 TTTTTCT
16537297 TTTT
1 TTTT
16537301 GAAATAGAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
6 14 0.31
7 19 0.42
8 10 0.22
9 2 0.04
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:16537267 original size:16 final size:14
Alignment explanation
Indices: 16537242--16537300 Score: 61
Period size: 13 Copynumber: 4.3 Consensus size: 14
16537232 AGCCTCTCCA
16537242 TTTTTCTTTTTTCAT
1 TTTTTCTTTTTTC-T
16537257 TTTTCTCTTTTTTC-
1 TTTT-TCTTTTTTCT
*
16537271 TTTTT-TTTTTTAT
1 TTTTTCTTTTTTCT
*
16537284 TTTTTCCTTTTT-T
1 TTTTTCTTTTTTCT
16537297 TTTT
1 TTTT
16537301 GAAATAGAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 6 0.15
13 11 0.28
14 9 0.23
15 4 0.10
16 9 0.23
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTCTTTTTTCT
Found at i:16537278 original size:27 final size:25
Alignment explanation
Indices: 16537242--16537300 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 25
16537232 AGCCTCTCCA
* *
16537242 TTTTTCTTTTTTCATTTTTCTCTTTT
1 TTTTTTTTTTTTCATTTTT-TCCTTT
*
16537268 TTCTTTTTTTTTTTATTTTTTCCTTT
1 TT-TTTTTTTTTTCATTTTTTCCTTT
16537294 TTTTTTT
1 TTTTTTT
16537301 GAAATAGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 5 0.17
26 9 0.31
27 15 0.52
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (25 bp):
TTTTTTTTTTTTCATTTTTTCCTTT
Found at i:16542829 original size:22 final size:21
Alignment explanation
Indices: 16542799--16542845 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
16542789 TACAAGTTAA
16542799 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
16542821 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
16542842 ATCT
1 ATCT
16542846 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:16542851 original size:19 final size:19
Alignment explanation
Indices: 16542816--16542875 Score: 88
Period size: 17 Copynumber: 3.2 Consensus size: 19
16542806 AGATTACAAG
16542816 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
16542837 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
16542854 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
16542873 ATC
1 ATC
16542876 CTTAAAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 17 0.46
19 11 0.30
20 1 0.03
21 8 0.22
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:16544501 original size:15 final size:15
Alignment explanation
Indices: 16544481--16544511 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16544471 CAATAAAGGG
16544481 TAAGTTATATGTAAT
1 TAAGTTATATGTAAT
16544496 TAAGTTATATGTAAT
1 TAAGTTATATGTAAT
16544511 T
1 T
16544512 TCTTTAAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (15 bp):
TAAGTTATATGTAAT
Found at i:16546497 original size:13 final size:13
Alignment explanation
Indices: 16546475--16546507 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
16546465 AAGGGTTTGT
16546475 TTAT-TAAACTAA
1 TTATCTAAACTAA
16546487 TTATCTAAACTAA
1 TTATCTAAACTAA
*
16546500 TTAACTAA
1 TTATCTAA
16546508 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:16547895 original size:46 final size:46
Alignment explanation
Indices: 16547842--16547975 Score: 166
Period size: 46 Copynumber: 2.9 Consensus size: 46
16547832 ACATCATATA
16547842 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATC-AAGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTAA-AG
* *
16547888 GCCGATGCATG-CCCTAGACATGTCTTACACTAGCTCTCATCTCAAT
1 GCCGATGCATGTCCC-AGACATGTCTTACACTAGCTCTCATCTAAAG
* *
16547934 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT
16547976 TTTTCCCTGG
Statistics
Matches: 78, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
45 3 0.04
46 42 0.54
47 12 0.15
48 21 0.27
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTAAAG
Found at i:16551866 original size:20 final size:21
Alignment explanation
Indices: 16551841--16551882 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
16551831 AGGAAAACAT
16551841 ATATTAA-AATAAAAA-TAAAA
1 ATATTAATAA-AAAAACTAAAA
16551861 ATATTAATAAAAAAACTAAAA
1 ATATTAATAAAAAAACTAAAA
16551882 A
1 A
16551883 AATCATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
ATATTAATAAAAAAACTAAAA
Found at i:16552070 original size:14 final size:14
Alignment explanation
Indices: 16552051--16552081 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
16552041 AAAAAAATTG
16552051 AAAGTAATAACATA
1 AAAGTAATAACATA
16552065 AAAGTAATAACATA
1 AAAGTAATAACATA
16552079 AAA
1 AAA
16552082 AATGATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.19
Consensus pattern (14 bp):
AAAGTAATAACATA
Found at i:16552239 original size:21 final size:20
Alignment explanation
Indices: 16552211--16552250 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
16552201 TTATTATCTT
16552211 AAATTTAA-ATTAAATAATAA
1 AAATTTAAGA-TAAATAATAA
16552231 AAATGTTAAGATAAATAATA
1 AAAT-TTAAGATAAATAATA
16552251 TATTTTATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 13 0.72
22 1 0.06
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AAATTTAAGATAAATAATAA
Found at i:16553310 original size:26 final size:26
Alignment explanation
Indices: 16553279--16553329 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
16553269 TCTTGAATAC
16553279 TAGTTTTTCAAATGACTATTTGAATT
1 TAGTTTTTCAAATGACTATTTGAATT
16553305 TAGTTTTTCAAATGACTATTTGAAT
1 TAGTTTTTCAAATGACTATTTGAAT
16553330 GTATTGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (26 bp):
TAGTTTTTCAAATGACTATTTGAATT
Found at i:16557115 original size:20 final size:19
Alignment explanation
Indices: 16557092--16557184 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 19
16557082 TTTTTTGCAA
16557092 TTTTTATAAATTTTTAATAC
1 TTTTTATAAATTTTT-ATAC
* *
16557112 TTTTAATAAGTTTTTATAAC
1 TTTTTATAAATTTTTAT-AC
*
16557132 TTTTTAAATAAA-TTTTATAT
1 TTTTT--ATAAATTTTTATAC
** *
16557152 TTTTTATAGCTTTTTATAG
1 TTTTTATAAATTTTTATAC
* *
16557171 TATTTATATATTTT
1 TTTTTATAAATTTT
16557185 AAATTTTTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
18 3 0.05
19 20 0.34
20 25 0.43
21 6 0.10
22 4 0.07
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTTATAAATTTTTATAC
Found at i:16557156 original size:30 final size:31
Alignment explanation
Indices: 16557092--16557167 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
16557082 TTTTTTGCAA
* *
16557092 TTTTTATAAATTTTT-AATACTTTTAATAAG
1 TTTTTATAACTTTTTAAATAATTTTAATAAG
*
16557122 TTTTTATAACTTTTTAAATAAATTTT-AT-AT
1 TTTTTATAACTTTTTAAAT-AATTTTAATAAG
*
16557152 TTTTTATAGCTTTTTA
1 TTTTTATAACTTTTTA
16557168 TAGTATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
30 30 0.75
31 5 0.12
32 5 0.12
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTTTATAACTTTTTAAATAATTTTAATAAG
Found at i:16557192 original size:8 final size:9
Alignment explanation
Indices: 16557090--16557214 Score: 63
Period size: 10 Copynumber: 13.0 Consensus size: 9
16557080 TTTTTTTTGC
16557090 AATTTTTAT
1 AATTTTTAT
16557099 AAATTTTTAAT
1 -AATTTTT-AT
* *
16557110 ACTTTTAAT
1 AATTTTTAT
16557119 AAGTTTTTAT
1 AA-TTTTTAT
16557129 AACTTTTTAAAT
1 AA-TTTTT--AT
*
16557141 AAATTTTAT
1 AATTTTTAT
*
16557150 ATTTTTTAT
1 AATTTTTAT
*
16557159 AGCTTTTTAT
1 A-ATTTTTAT
* *
16557169 AGTATTTAT
1 AATTTTTAT
*
16557178 ATATTTTAAAT
1 A-ATTTT-TAT
**
16557189 TTTTTTTAT
1 AATTTTTAT
*
16557198 AATTTCTA-
1 AATTTTTAT
16557206 AATTTTTAT
1 AATTTTTAT
16557215 TTTATTTATA
Statistics
Matches: 86, Mismatches: 21, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
8 7 0.08
9 27 0.31
10 40 0.47
11 8 0.09
12 4 0.05
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (9 bp):
AATTTTTAT
Found at i:16557221 original size:19 final size:18
Alignment explanation
Indices: 16557177--16557221 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
16557167 ATAGTATTTA
16557177 TATATTTTAAATTTTTTT
1 TATATTTTAAATTTTTTT
16557195 TATAATTTCTAAATTTTTATT
1 TAT-ATTT-TAAATTTTT-TT
16557216 T-TATTT
1 TATATTT
16557222 ATATAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.12
19 8 0.33
20 10 0.42
21 3 0.12
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
TATATTTTAAATTTTTTT
Found at i:16558059 original size:126 final size:126
Alignment explanation
Indices: 16557768--16558292 Score: 646
Period size: 126 Copynumber: 4.2 Consensus size: 126
16557758 GGATTTTGTT
* * *
16557768 TTTTTCTATAGTAGTT--TCAAAAAATTAATTTTGAGAAGACGATTTTGAAAAGAAA-A-TGTCA
1 TTTTTCTATAGTAGTTCCTGAAAAAA-TAATTTTGAGAAGACGATTCT-AAAA-AAATAGTGTAA
* * *
16557829 AAAACGCTTCAAGCAGTATGCACTGTCACCAAAATTACTGAAAATAAGCTCCCACGTGGACGCTC
63 AAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAAGCTCCCACGTGGACGCTC
* * * *
16557894 TTTTTCAACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTAAAAA
1 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTAAAAAAATAGTGTAAAAA
* * * * * *
16557959 ATGCTTAAAGTAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACGTGGATGCTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
* * *
16558020 TTTTTCTATAGTAGTTCCTGAAAAAAT-ATTTTTATGAAGATGATTCTAAAAAAATAGTGTCAAA
1 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGA-GAAGACGATTCTAAAAAAATAGTGTAAAA
* * * * *
16558084 AACGCTTCAAGCAGAATGCACTATAAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
** * * *
16558146 TTTTTCTGCAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTTTAAAAA
1 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTAAAAAAATAGTGT-AAAA
* * * * *
16558211 AATGCTTCATGCAGGATGCACTGTCAGCAAAATTACCAAAAAAAGCTCTCACGTGAACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
*
16558273 TTTTTCTATAATAGTTCCTG
1 TTTTTCTATAGTAGTTCCTG
16558293 CTTGGCCTTA
Statistics
Matches: 337, Mismatches: 55, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
125 9 0.03
126 186 0.55
127 135 0.40
128 7 0.02
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (126 bp):
TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTAAAAAAATAGTGTAAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
Found at i:16558121 original size:253 final size:254
Alignment explanation
Indices: 16557766--16558292 Score: 771
Period size: 253 Copynumber: 2.1 Consensus size: 254
16557756 AAGGATTTTG
* *
16557766 TTTTTTTCTATAGTAGTT--TCAAAAAATTAATTTTGAGAAGACGATTTTGAAAAGAAAATGTCA
1 TTTTTTTCTATAGTAGTTCCTGAAAAAATTAATTTTGAGAAGACGATTCTGAAAAGAAAATGTCA
* * * *
16557829 AAAACGCTTCAAGCAGTATGCACTGTCACCAAAATTACTGAAAATAAGCTCCCACGTGGACGCTC
66 AAAACGCTTCAAGCAGAATGCACTATAACCAAAATTACTGAAAA-AAGCTCCCACATGGACGCTC
16557894 TTTTTCAACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGT-AAAA
130 TTTTTCAACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTAAAAA
* * * *
16557958 AATGCTTAAAGTAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACGTGGATGC
195 AATGCTTAAAGCAGGATGCACTGTCAGCAAAATTACCAAAAAAAGCTCTCACGTGAACGC
* *
16558018 TTTTTTTCTATAGTAGTTCCTGAAAAAA-T-ATTTTTATGAAGATGATTCT-AAAA-AAATAGTG
1 TTTTTTTCTATAGTAGTTCCTGAAAAAATTAATTTTGA-GAAGACGATTCTGAAAAGAAA-A-TG
*
16558079 TCAAAAACGCTTCAAGCAGAATGCACTATAAGCAAAATTACTGAAAAAAGCTCCCACATGGACGC
63 TCAAAAACGCTTCAAGCAGAATGCACTATAACCAAAATTACTGAAAAAAGCTCCCACATGGACGC
** * * *
16558144 TCTTTTTCTGCAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTTTAAA
128 TCTTTTTCAACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTAAA
* *
16558209 AAAATGCTTCATGCAGGATGCACTGTCAGCAAAATTACCAAAAAAAGCTCTCACGTGAACGC
193 AAAATGCTTAAAGCAGGATGCACTGTCAGCAAAATTACCAAAAAAAGCTCTCACGTGAACGC
* *
16558271 TCTTTTTCTATAATAGTTCCTG
1 TTTTTTTCTATAGTAGTTCCTG
16558293 CTTGGCCTTA
Statistics
Matches: 247, Mismatches: 22, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
251 3 0.01
252 103 0.42
253 134 0.54
254 7 0.03
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (254 bp):
TTTTTTTCTATAGTAGTTCCTGAAAAAATTAATTTTGAGAAGACGATTCTGAAAAGAAAATGTCA
AAAACGCTTCAAGCAGAATGCACTATAACCAAAATTACTGAAAAAAGCTCCCACATGGACGCTCT
TTTTCAACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTAAAAAA
ATGCTTAAAGCAGGATGCACTGTCAGCAAAATTACCAAAAAAAGCTCTCACGTGAACGC
Found at i:16561542 original size:22 final size:21
Alignment explanation
Indices: 16561516--16561559 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
16561506 TATTGGTTCA
16561516 GCTCTCGACGGGGGTTGTGGTT
1 GCTCT-GACGGGGGTTGTGGTT
*
16561538 GCTCTGGCGGGGGTTGTGGTT
1 GCTCTGACGGGGGTTGTGGTT
16561559 G
1 G
16561560 TGGGTGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.02, C:0.16, G:0.50, T:0.32
Consensus pattern (21 bp):
GCTCTGACGGGGGTTGTGGTT
Found at i:16563967 original size:27 final size:26
Alignment explanation
Indices: 16563936--16563990 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
16563926 GAGCTCTTAA
* *
16563936 TAAAAGGCTCTTTGTGAGCTTCCTGAT
1 TAAAA-GCTCTTTGTGAACTTCCAGAT
**
16563963 TAAAATTTCTTTGTGAACTTCCAGAT
1 TAAAAGCTCTTTGTGAACTTCCAGAT
16563989 TA
1 TA
16563991 TGGCTCTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (26 bp):
TAAAAGCTCTTTGTGAACTTCCAGAT
Found at i:16564053 original size:23 final size:25
Alignment explanation
Indices: 16564027--16564082 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
16564017 AGCCCGGATA
16564027 AGCTTCCCGA-TAT-GCTCTTTGTG
1 AGCTTCCCGATTATGGCTCTTTGTG
*
16564050 AGCTTCCTGATTTATGGCTCTTTGTG
1 AGCTTCCCGA-TTATGGCTCTTTGTG
*
16564076 AGTTTCC
1 AGCTTCC
16564083 TGTTATATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 9 0.32
25 3 0.11
26 16 0.57
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.43
Consensus pattern (25 bp):
AGCTTCCCGATTATGGCTCTTTGTG
Found at i:16564072 original size:26 final size:26
Alignment explanation
Indices: 16564036--16564094 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
16564026 AAGCTTCCCG
16564036 ATAT-GCTCTTTGTGAGCTTCCTGATT
1 ATATGGCTCTTTGTGAGCTTCCTG-TT
*
16564062 -TATGGCTCTTTGTGAGTTTCCTGTT
1 ATATGGCTCTTTGTGAGCTTCCTGTT
16564087 ATATGGCT
1 ATATGGCT
16564095 GGAGAAAGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.14, C:0.17, G:0.22, T:0.47
Consensus pattern (26 bp):
ATATGGCTCTTTGTGAGCTTCCTGTT
Found at i:16573432 original size:24 final size:25
Alignment explanation
Indices: 16573377--16573432 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
16573367 AGCTTATCCA
16573377 AGCTTAATAACAGGAAACTCATAAG
1 AGCTTAATAACAGGAAACTCATAAG
* **
16573402 AGTTTAA-AACA-GAAATCTCATTTG
1 AGCTTAATAACAGGAAA-CTCATAAG
16573426 AGCTTAA
1 AGCTTAA
16573433 CGGGATAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 4 0.15
24 16 0.62
25 6 0.23
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (25 bp):
AGCTTAATAACAGGAAACTCATAAG
Found at i:16578780 original size:25 final size:25
Alignment explanation
Indices: 16578752--16578810 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
16578742 TATCTCTCAT
16578752 GAGCTTACCATTAATCAGCTCAGAG
1 GAGCTTACCATTAATCAGCTCAGAG
* *
16578777 GAGCTTACCATTATTCAGCTCGGAG
1 GAGCTTACCATTAATCAGCTCAGAG
16578802 GAGCTTACC
1 GAGCTTACC
16578811 GTTTACAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (25 bp):
GAGCTTACCATTAATCAGCTCAGAG
Found at i:16579064 original size:22 final size:24
Alignment explanation
Indices: 16579024--16579068 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
16579014 GTGATGTTAC
16579024 ATAATACATTGATATATGAAATGA
1 ATAATACATTGATATATGAAATGA
16579048 ATAATACA-TG-TATATGAAATG
1 ATAATACATTGATATATGAAATG
16579069 TGATTACTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 11 0.52
23 2 0.10
24 8 0.38
ACGTcount: A:0.49, C:0.04, G:0.13, T:0.33
Consensus pattern (24 bp):
ATAATACATTGATATATGAAATGA
Found at i:16580256 original size:30 final size:30
Alignment explanation
Indices: 16580222--16580301 Score: 124
Period size: 30 Copynumber: 2.7 Consensus size: 30
16580212 AGCCAGACGG
*
16580222 CTTGGCCACACGGCTGTGTGAGTCACACAA
1 CTTGGCCACAAGGCTGTGTGAGTCACACAA
* *
16580252 CTTGGCCACATGGCTGTGTGAGTCACACAG
1 CTTGGCCACAAGGCTGTGTGAGTCACACAA
*
16580282 CTTGGCCACAAGGCCGTGTG
1 CTTGGCCACAAGGCTGTGTG
16580302 GCCCCTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.20, C:0.29, G:0.30, T:0.21
Consensus pattern (30 bp):
CTTGGCCACAAGGCTGTGTGAGTCACACAA
Found at i:16581789 original size:18 final size:18
Alignment explanation
Indices: 16581752--16581789 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
16581742 ATAAAATCAC
*
16581752 ATTTTTTACATTTAATAT
1 ATTTTTTACATTTAAAAT
16581770 ATTTTTTA-ATTTCAAAAT
1 ATTTTTTACATTT-AAAAT
16581788 AT
1 AT
16581790 ATAGTGCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTTACATTTAAAAT
Found at i:16584719 original size:22 final size:24
Alignment explanation
Indices: 16584677--16584721 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
16584667 TCACTTATCG
*
16584677 TTTCTTCCACTACATTCTCTAATA
1 TTTCTTCCAATACATTCTCTAATA
16584701 TTTCTTCCAAT-C-TTCTCTAAT
1 TTTCTTCCAATACATTCTCTAAT
16584722 GGCTAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 1 0.05
24 10 0.50
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTCTTCCAATACATTCTCTAATA
Found at i:16585555 original size:24 final size:24
Alignment explanation
Indices: 16585523--16585586 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
16585513 TATTTTCTGA
16585523 TGCTGCTGAAGAGCCCACTCAAAC
1 TGCTGCTGAAGAGCCCACTCAAAC
* * * *
16585547 TGCTACTGAAGATCCTACTCAACC
1 TGCTGCTGAAGAGCCCACTCAAAC
* *
16585571 TGTTGCTAAAGAGCCC
1 TGCTGCTGAAGAGCCC
16585587 GAAAAGATGA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (24 bp):
TGCTGCTGAAGAGCCCACTCAAAC
Found at i:16589760 original size:87 final size:86
Alignment explanation
Indices: 16589559--16589835 Score: 304
Period size: 87 Copynumber: 3.2 Consensus size: 86
16589549 GATGGTCAAA
* * ** * * *
16589559 ACCATCCCTTTTCTTTAATCGATGGTCGAAACCATTCCTTTTCTTTAATCGATGGTCAAAACCAT
1 ACCATCCCTTTTC-ATATTCGATGGTCGTCACCATCCCTTTT-TATATTCGATGGTC-AAACCAT
* * * * *
16589624 CCCTTTTCTTTAATCAATTTTCGTC
63 CCCTTTTC-ATATTCGATGTTCATC
*
16589649 ACCATCCCTTTTCATATTCAATGGTCGTCACCATCCCTTTTTATATTCGATGGTCGAAACCATCC
1 ACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTTATATTCGATGGTC-AAACCATCC
*
16589714 CTTTTCATATTTGATGTTCATC
65 CTTTTCATATTCGATGTTCATC
* * * *
16589736 ACCCTCCCTTTTCATATTCGATGGTCATCACCATCCCTTTTCATATTCAATGGTCAAAGCCATCC
1 ACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTTATATTCGATGGTCAAA-CCATCC
* *
16589801 CTTTTCATATTCGATGGTCA-A
65 CTTTTCATATTCGATGTTCATC
16589822 AGCCATCCCTTTTC
1 A-CCATCCCTTTTC
16589836 TTTAATCGGT
Statistics
Matches: 161, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
86 4 0.02
87 95 0.59
88 27 0.17
89 22 0.14
90 13 0.08
ACGTcount: A:0.22, C:0.29, G:0.10, T:0.39
Consensus pattern (86 bp):
ACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTTATATTCGATGGTCAAACCATCCC
TTTTCATATTCGATGTTCATC
Found at i:16589820 original size:29 final size:28
Alignment explanation
Indices: 16589549--16589835 Score: 259
Period size: 29 Copynumber: 9.8 Consensus size: 28
16589539 AATGCTAAAT
* *
16589549 GATGGTCAAAACCATCCCTTTTCTTTAATC
1 GATGGTC-AAACCATCCCTTTTC-ATATTC
* * *
16589579 GATGGTCGAAACCATTCCTTTTCTTTAATC
1 GATGGTC-AAACCATCCCTTTTC-ATATTC
* *
16589609 GATGGTCAAAACCATCCCTTTTCTTTAATC
1 GATGGTC-AAACCATCCCTTTTC-ATATTC
* ** **
16589639 AATTTTCGTCACCATCCCTTTTCATATTC
1 GATGGTC-AAACCATCCCTTTTCATATTC
* ** *
16589668 AATGGTCGTCACCATCCCTTTTTATATTC
1 GATGGTC-AAACCATCCCTTTTCATATTC
*
16589697 GATGGTCGAAACCATCCCTTTTCATATTT
1 GATGGTC-AAACCATCCCTTTTCATATTC
* * *
16589726 GATGTTCATCACCCTCCCTTTTCATATTC
1 GATGGTCA-AACCATCCCTTTTCATATTC
*
16589755 GATGGTCATCACCATCCCTTTTCATATTC
1 GATGGTCA-AACCATCCCTTTTCATATTC
*
16589784 AATGGTCAAAGCCATCCCTTTTCATATTC
1 GATGGTCAAA-CCATCCCTTTTCATATTC
16589813 GATGGTCAAAGCCATCCCTTTTC
1 GATGGTCAAA-CCATCCCTTTTC
16589836 TTTAATCGGT
Statistics
Matches: 226, Mismatches: 29, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
28 2 0.01
29 151 0.67
30 73 0.32
ACGTcount: A:0.23, C:0.28, G:0.10, T:0.38
Consensus pattern (28 bp):
GATGGTCAAACCATCCCTTTTCATATTC
Found at i:16591586 original size:43 final size:43
Alignment explanation
Indices: 16591374--16591589 Score: 247
Period size: 43 Copynumber: 5.0 Consensus size: 43
16591364 TAGGATTTTT
* * * *
16591374 GATATGTGATTACGTGTAAGAACACGTCTGGGACATTGGCATC
1 GATATGTGATTACGTATAAGACCACGTCTGAGACGTTGGCATC
* *
16591417 GATATGTGATTACGTATAAGACCACGTCTGGGACGTTGGCATT
1 GATATGTGATTACGTATAAGACCACGTCTGAGACGTTGGCATC
** * *
16591460 GATATGTGATTACGTGCAAGACCATGTCTGAGACGTTGGTATC
1 GATATGTGATTACGTATAAGACCACGTCTGAGACGTTGGCATC
* * *
16591503 GATATGTGATTACGTGTAAGACC-CTGTATGGGACAG-TGGCATC
1 GATATGTGATTACGTATAAGACCAC-GTCTGAGAC-GTTGGCATC
* * * *
16591546 GATATGTGATTACATATAAGACCACATTTAAGACGTTGGCATC
1 GATATGTGATTACGTATAAGACCACGTCTGAGACGTTGGCATC
16591589 G
1 G
16591590 TACTATATGT
Statistics
Matches: 148, Mismatches: 21, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
42 1 0.01
43 145 0.98
44 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (43 bp):
GATATGTGATTACGTATAAGACCACGTCTGAGACGTTGGCATC
Found at i:16611518 original size:27 final size:27
Alignment explanation
Indices: 16611480--16611534 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
16611470 AATCATATTC
16611480 ATCAGAAATGCAATATTTAAGAATTTA
1 ATCAGAAATGCAATATTTAAGAATTTA
16611507 ATCAGAAATGCAATATTTAAGAATTTA
1 ATCAGAAATGCAATATTTAAGAATTTA
16611534 A
1 A
16611535 CACACAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (27 bp):
ATCAGAAATGCAATATTTAAGAATTTA
Found at i:16620983 original size:46 final size:46
Alignment explanation
Indices: 16620930--16621102 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
16620920 TGGTTGAGCA
*
16620930 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
16620976 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
16621023 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
16621069 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
16621103 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:16621086 original size:93 final size:93
Alignment explanation
Indices: 16620927--16621097 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
16620917 GGATGGTTGA
* * *
16620927 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
16620992 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
16621020 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
16621085 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
16621098 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:16621364 original size:19 final size:20
Alignment explanation
Indices: 16621327--16621364 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
16621317 ATAAGGTGGT
16621327 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
16621347 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
16621365 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:16627222 original size:20 final size:20
Alignment explanation
Indices: 16627199--16627268 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
16627189 AAATTGCAAA
16627199 AAAAATTCAAAATAATTTTT
1 AAAAATTCAAAATAATTTTT
*
16627219 AAAAAATCAAAATAATTTTT
1 AAAAATTCAAAATAATTTTT
* *
16627239 -TAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTTTT
16627257 AAAAATTTCAAA
1 AAAAA-TTCAAA
16627269 TTTTATAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
18 5 0.12
19 13 0.30
20 25 0.58
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTT
Found at i:16627308 original size:11 final size:11
Alignment explanation
Indices: 16627292--16627336 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
16627282 AAAAAAAATT
16627292 AAAATTATAAA
1 AAAATTATAAA
*
16627303 AAAATTCT-AA
1 AAAATTATAAA
16627313 AAAA-TATAAA
1 AAAATTATAAA
*
16627323 AAAATTTTAAA
1 AAAATTATAAA
16627334 AAA
1 AAA
16627337 TTCTAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.07
10 12 0.41
11 15 0.52
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:16627337 original size:10 final size:10
Alignment explanation
Indices: 16627301--16627344 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
16627291 TAAAATTATA
16627301 AAAAAATTCT
1 AAAAAATTCT
*
16627311 AAAAAATAT-A
1 AAAAAAT-TCT
*
16627321 AAAAAATTTT
1 AAAAAATTCT
16627331 AAAAAATTCT
1 AAAAAATTCT
16627341 AAAA
1 AAAA
16627345 TAATAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 1 0.03
10 27 0.93
11 1 0.03
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAAATTCT
Found at i:16627344 original size:20 final size:20
Alignment explanation
Indices: 16627292--16627337 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
16627282 AAAAAAAATT
*
16627292 AAAATTATAAAAAAATTCTA
1 AAAAATATAAAAAAATTCTA
*
16627312 AAAAATATAAAAAAATTTTA
1 AAAAATATAAAAAAATTCTA
16627332 AAAAAT
1 AAAAAT
16627338 TCTAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAATATAAAAAAATTCTA
Found at i:16628977 original size:38 final size:38
Alignment explanation
Indices: 16628905--16628976 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
16628895 AAAACGCCGT
* *
16628905 TAAAGAACAAGCATTATCGGCGCTTTGTAAAAAAACAC
1 TAAAGAACAAGCATTAGCAGCGCTTTGTAAAAAAACAC
**
16628943 TAAAGAATGAGCATTAGCAGCGCTTT-TAAAAAAA
1 TAAAGAACAAGCATTAGCAGCGCTTTGTAAAAAAA
16628977 AACGCCACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 8 0.27
38 22 0.73
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (38 bp):
TAAAGAACAAGCATTAGCAGCGCTTTGTAAAAAAACAC
Found at i:16629401 original size:21 final size:22
Alignment explanation
Indices: 16629377--16629427 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
16629367 ATTATAGCTT
16629377 AGGGTTTACA-GTATATG-GTTA
1 AGGGTTTA-ATGTATATGAGTTA
*
16629398 AGGGTTTAATGTTTATGAGTTA
1 AGGGTTTAATGTATATGAGTTA
*
16629420 TGGGTTTA
1 AGGGTTTA
16629428 GGGATTATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.54
22 11 0.42
ACGTcount: A:0.25, C:0.02, G:0.29, T:0.43
Consensus pattern (22 bp):
AGGGTTTAATGTATATGAGTTA
Found at i:16629446 original size:22 final size:21
Alignment explanation
Indices: 16629377--16629446 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 21
16629367 ATTATAGCTT
*
16629377 AGGGTTTACAGTA-TATGGTTA
1 AGGGTTTA-AGGATTATGGTTA
* *
16629398 AGGGTTTAATGTTTATGAGTTA
1 AGGGTTTAAGGATTATG-GTTA
* *
16629420 TGGGTTTAGGGATTATGGTTTA
1 AGGGTTTAAGGATTATGG-TTA
16629442 AGGGT
1 AGGGT
16629447 GGTTTAAGGG
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
20 1 0.03
21 13 0.34
22 24 0.63
ACGTcount: A:0.24, C:0.01, G:0.33, T:0.41
Consensus pattern (21 bp):
AGGGTTTAAGGATTATGGTTA
Found at i:16629507 original size:14 final size:14
Alignment explanation
Indices: 16629471--16629505 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
16629461 GATTTAAGGT
*
16629471 TTAAGTGTTAGGGG
1 TTAAGGGTTAGGGG
16629485 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
16629499 TTCAAGG
1 TT-AAGG
16629506 TTCATGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.23, C:0.03, G:0.43, T:0.31
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:16629550 original size:22 final size:22
Alignment explanation
Indices: 16629528--16629568 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16629518 GTTTTATGAT
16629528 TTAT-AGTTTAGGGTTTAGAGA
1 TTATGAGTTTAGGGTTTAGAGA
*
16629549 TTATGAGTTTATGGTTTAGA
1 TTATGAGTTTAGGGTTTAGA
16629569 TTAATTAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (22 bp):
TTATGAGTTTAGGGTTTAGAGA
Found at i:16629684 original size:14 final size:14
Alignment explanation
Indices: 16629667--16629705 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
16629657 ATTATTATAG
16629667 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
* *
16629681 TTTAGGGTATATGG
1 TTTAGGGTTTATGA
*
16629695 TTTAGAGTTTA
1 TTTAGGGTTTA
16629706 AAGTGTATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:16629760 original size:14 final size:15
Alignment explanation
Indices: 16629743--16629775 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
16629733 TATAGATTAT
*
16629743 GGTTTAAGGGTT-GG
1 GGTTTAAGGCTTAGG
16629757 GGTTTAAGGCTTAGG
1 GGTTTAAGGCTTAGG
16629772 GGTT
1 GGTT
16629776 AGAGGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.15, C:0.03, G:0.45, T:0.36
Consensus pattern (15 bp):
GGTTTAAGGCTTAGG
Found at i:16629847 original size:32 final size:32
Alignment explanation
Indices: 16629801--16629871 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
16629791 GGTTTACTTA
*
16629801 AGGA-TTAGACTTTATATATATTAAATGGTTT
1 AGGATTTAGACTTTATATATATTAAATGATTT
*
16629832 AGGATTTAGGCTTTATATATATTAAATGATTT
1 AGGATTTAGACTTTATATATATTAAATGATTT
16629864 AGGATTTA
1 AGGATTTA
16629872 AAGTTTACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
31 4 0.11
32 33 0.89
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (32 bp):
AGGATTTAGACTTTATATATATTAAATGATTT
Found at i:16633928 original size:26 final size:26
Alignment explanation
Indices: 16633899--16634006 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
16633889 TGATACAAAT
16633899 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
16633925 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16633951 GGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16633977 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16634003 TGAT
1 TGAT
16634007 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16634976 original size:37 final size:37
Alignment explanation
Indices: 16634872--16634978 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
16634862 TCCCCACGCA
* * * *
16634872 TAGTTATCGGGTCTTACTCGGACAAAATCTCCACACG
1 TAGTCATCGGGTCTTACCCGGACATAATTTCCACACG
16634909 TAGTCATCGGGTCTTACCCGGACATAATTTCCACACG
1 TAGTCATCGGGTCTTACCCGGACATAATTTCCACACG
16634946 TAGTCATCGGGTCTTACCCGGA-ATATATTTCCA
1 TAGTCATCGGGTCTTACCCGGACATA-ATTTCCA
16634979 AGTTTCATGT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
36 3 0.05
37 62 0.95
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (37 bp):
TAGTCATCGGGTCTTACCCGGACATAATTTCCACACG
Found at i:16635166 original size:48 final size:48
Alignment explanation
Indices: 16635108--16635589 Score: 793
Period size: 48 Copynumber: 10.0 Consensus size: 48
16635098 ATATACACAC
*
16635108 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
16635156 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
16635204 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
16635252 ATCTTATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
16635300 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
16635348 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
16635396 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
16635444 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
16635492 ATCTCATACATATTTCACATTAGCCATTCGGTTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
16635540 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
16635588 AT
1 AT
16635590 ATTTATCTTG
Statistics
Matches: 407, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 407 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:16644443 original size:26 final size:26
Alignment explanation
Indices: 16644414--16644521 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
16644404 TGATACAAAT
16644414 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
16644440 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16644466 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16644492 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16644518 TGAT
1 TGAT
16644522 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16647567 original size:29 final size:29
Alignment explanation
Indices: 16647525--16647611 Score: 174
Period size: 29 Copynumber: 3.0 Consensus size: 29
16647515 CCTATTTTAG
16647525 AAGGTAGAACTTGCTCTTTCTCTGTATAT
1 AAGGTAGAACTTGCTCTTTCTCTGTATAT
16647554 AAGGTAGAACTTGCTCTTTCTCTGTATAT
1 AAGGTAGAACTTGCTCTTTCTCTGTATAT
16647583 AAGGTAGAACTTGCTCTTTCTCTGTATAT
1 AAGGTAGAACTTGCTCTTTCTCTGTATAT
16647612 CTGTATTGTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (29 bp):
AAGGTAGAACTTGCTCTTTCTCTGTATAT
Found at i:16648144 original size:44 final size:44
Alignment explanation
Indices: 16648081--16648169 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
16648071 GCTATCGCTT
16648081 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
1 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
16648125 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
1 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
16648169 T
1 T
16648170 GATGCTATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.46
Consensus pattern (44 bp):
TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
Found at i:16650002 original size:19 final size:21
Alignment explanation
Indices: 16649974--16650021 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
16649964 TTATTATTTA
16649974 TTTTAGTTTTGATTCTAA-AT
1 TTTTAGTTTTGATTCTAATAT
* *
16649994 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTCTAATAT
16650014 TTTTAGTT
1 TTTTAGTT
16650022 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAGTTTTGATTCTAATAT
Found at i:16651745 original size:40 final size:41
Alignment explanation
Indices: 16651701--16651792 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 41
16651691 AAAAACGAGC
* *
16651701 ATTAGCGGCTCTTATAAG-GAAACGCCGCTATATG-TTGAGA
1 ATTAGCGGCGCTTATAAGAGAAACGCCGCTATA-GCTTGACA
* * *
16651741 ATTAGCGGCGCTTATATGAGAAACGGCGCTATAGCTTGACC
1 ATTAGCGGCGCTTATAAGAGAAACGCCGCTATAGCTTGACA
16651782 ATTAGCGGCGC
1 ATTAGCGGCGC
16651793 CTTGGAGAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
40 17 0.38
41 28 0.62
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (41 bp):
ATTAGCGGCGCTTATAAGAGAAACGCCGCTATAGCTTGACA
Found at i:16653792 original size:40 final size:41
Alignment explanation
Indices: 16653737--16653883 Score: 185
Period size: 40 Copynumber: 3.7 Consensus size: 41
16653727 GGATATAACT
* *
16653737 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
* *
16653777 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
*
16653817 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT--AGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
* ** *
16653856 ACTAGTGCAGATGCCTTCGGGACTTAGC
1 ACTCGCACAAATGCCTTCGGGACTTAGC
16653884 TCGGTTTTCA
Statistics
Matches: 96, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 27 0.28
40 67 0.70
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (41 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
Found at i:16655789 original size:22 final size:22
Alignment explanation
Indices: 16655756--16655855 Score: 98
Period size: 22 Copynumber: 4.6 Consensus size: 22
16655746 GATTAGGGTC
16655756 GGGTT-AGGGTTTAAGGGTTTA
1 GGGTTAAGGGTTTAAGGGTTTA
*
16655777 GGGTTAAGGGTTT-ATGGTTTA
1 GGGTTAAGGGTTTAAGGGTTTA
* *
16655798 GGGGTTAGGGGTTT-AGGGTTAA
1 -GGGTTAAGGGTTTAAGGGTTTA
* * *
16655820 GGGTTTATGGTTTAGGGGTTTA
1 GGGTTAAGGGTTTAAGGGTTTA
* *
16655842 GGGTTTATGGTTTA
1 GGGTTAAGGGTTTA
16655856 TGTGTGTATT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
21 22 0.33
22 45 0.67
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.41
Consensus pattern (22 bp):
GGGTTAAGGGTTTAAGGGTTTA
Done.