Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 80 of 182
Found at i:24203593 original size:48 final size:47
Alignment explanation
Indices: 24203467--24203666 Score: 231
Period size: 48 Copynumber: 4.1 Consensus size: 47
24203457 CATGTGAAAA
* * * * *
24203467 TGTGATTATGTGCTTCAGTATAAGACCATAGCTAGGCTATGGCATCGGTG
1 TGTGA-TATGTGTTTCCGTATAAGACCATATCTGGGATATGGCATC-G-G
*
24203517 TGATATGATATGTGATTTCCGTGTAAGACCATATCTGGGATATGGCATCGG
1 TG---TGATATGTG-TTTCCGTATAAGACCATATCTGGGATATGGCATCGG
24203568 TGTGATATGTGATTTCCGTATAAGACCATATCTGGGATATGGCATCGG
1 TGTGATATGTG-TTTCCGTATAAGACCATATCTGGGATATGGCATCGG
* * *
24203616 TGTGATATGTGTTTCCGTGTAAGACCATAAT-TGGGCTATGGCTTCGG
1 TGTGATATGTGTTTCCGTATAAGACCAT-ATCTGGGATATGGCATCGG
24203663 TGTG
1 TGTG
24203667 TGATATTTGA
Statistics
Matches: 135, Mismatches: 10, Indels: 13
0.85 0.06 0.08
Matches are distributed among these distances:
47 34 0.25
48 58 0.43
50 2 0.01
51 3 0.02
52 7 0.05
53 31 0.23
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.34
Consensus pattern (47 bp):
TGTGATATGTGTTTCCGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:24203594 original size:101 final size:95
Alignment explanation
Indices: 24203467--24203666 Score: 251
Period size: 95 Copynumber: 2.0 Consensus size: 95
24203457 CATGTGAAAA
*
24203467 TGTGATTATGTGCTTCAGTATAAGACCATAGCTAGGCTATGGCATCGGTGTGATATGATATGTGA
1 TGTGATTATGTGCTTCAGTATAAGACCATAGCTAGGATATGGCATC-G-GTG---TGATATGTG-
24203532 TTTCCGTGTAAGACCAT-ATCTGGGATATGGCATCGG
60 TTTCCGTGTAAGACCATAAT-TGGGATATGGCATCGG
* * * *
24203568 TGTGA-TATGTGATTTCCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGTTTCC
1 TGTGATTATGTG-CTTCAGTATAAGACCATAGCTAGGATATGGCATCGGTGTGATATGTGTTTCC
* *
24203632 GTGTAAGACCATAATTGGGCTATGGCTTCGG
65 GTGTAAGACCATAATTGGGATATGGCATCGG
24203663 TGTG
1 TGTG
24203667 TGATATTTGA
Statistics
Matches: 90, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
95 35 0.39
96 11 0.12
99 3 0.03
100 7 0.08
101 34 0.38
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.34
Consensus pattern (95 bp):
TGTGATTATGTGCTTCAGTATAAGACCATAGCTAGGATATGGCATCGGTGTGATATGTGTTTCCG
TGTAAGACCATAATTGGGATATGGCATCGG
Found at i:24208902 original size:13 final size:13
Alignment explanation
Indices: 24208850--24208905 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 13
24208840 CCTAATTCTA
*
24208850 TTTTTATTATATT
1 TTTTTATTAAATT
*
24208863 TTTTTATT-AATA
1 TTTTTATTAAATT
* ** *
24208875 TTTTCAAGAATTT
1 TTTTTATTAAATT
24208888 TTTTTATTAAATT
1 TTTTTATTAAATT
24208901 TTTTT
1 TTTTT
24208906 CCGTGTTCTA
Statistics
Matches: 31, Mismatches: 11, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
12 7 0.23
13 24 0.77
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (13 bp):
TTTTTATTAAATT
Found at i:24228960 original size:28 final size:28
Alignment explanation
Indices: 24228928--24229027 Score: 164
Period size: 28 Copynumber: 3.6 Consensus size: 28
24228918 TTTAATAAGT
* * *
24228928 TCGCACACTTAGTGCTTAATAATCAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
24228956 TCGCACACTTAGTGCTTTACCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
24228984 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
24229012 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
24229028 AATCTCATTA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:24230955 original size:12 final size:11
Alignment explanation
Indices: 24230927--24231016 Score: 61
Period size: 11 Copynumber: 8.6 Consensus size: 11
24230917 TTTATTTTTT
24230927 TATTTTTAAAA
1 TATTTTTAAAA
24230938 TATTTTTAAAA
1 TATTTTTAAAA
*
24230949 TACTTTTT---T
1 TA-TTTTTAAAA
*
24230958 TATTTTT---T
1 TATTTTTAAAA
24230966 TATTTTTAAAA
1 TATTTTTAAAA
24230977 TATTTTTAAAA
1 TATTTTTAAAA
*
24230988 TACTTTTT--TA
1 TA-TTTTTAAAA
*
24230998 TTTTTTTAAAA
1 TATTTTTAAAA
24231009 TTATTTTT
1 -TATTTTT
24231017 GGTGTTTATT
Statistics
Matches: 65, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
8 13 0.20
9 7 0.11
10 2 0.03
11 27 0.42
12 16 0.25
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:24231004 original size:38 final size:39
Alignment explanation
Indices: 24230913--24231005 Score: 179
Period size: 39 Copynumber: 2.4 Consensus size: 39
24230903 ATATAGTAAA
24230913 TTTTTTTATTTTTTTATTTTTAAAATATTTTTAAAATAC
1 TTTTTTTATTTTTTTATTTTTAAAATATTTTTAAAATAC
24230952 TTTTTTTATTTTTTTATTTTTAAAATATTTTTAAAATAC
1 TTTTTTTATTTTTTTATTTTTAAAATATTTTTAAAATAC
24230991 -TTTTTTATTTTTTTA
1 TTTTTTTATTTTTTTA
24231006 AAATTATTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 15 0.28
39 39 0.72
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (39 bp):
TTTTTTTATTTTTTTATTTTTAAAATATTTTTAAAATAC
Found at i:24236492 original size:47 final size:47
Alignment explanation
Indices: 24236423--24236535 Score: 183
Period size: 47 Copynumber: 2.4 Consensus size: 47
24236413 AAGGAGGAAG
* *
24236423 AAGTGACAGA-TTATCTACAAAAGTGGTAGCTTGTCCATAATATTATT
1 AAGTGACA-ATTTATCTGCAAAAGTGGTAGCTTGTCCACAATATTATT
*
24236470 AAGTGACAATTTATCTGCAAAAGTGGTAGCTTGTTCACAATATTATT
1 AAGTGACAATTTATCTGCAAAAGTGGTAGCTTGTCCACAATATTATT
24236517 AAGTGACAATTTATCTGCA
1 AAGTGACAATTTATCTGCA
24236536 TTACTGTGAC
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.02
47 61 0.98
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (47 bp):
AAGTGACAATTTATCTGCAAAAGTGGTAGCTTGTCCACAATATTATT
Found at i:24243865 original size:22 final size:22
Alignment explanation
Indices: 24243840--24243882 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24243830 TATCCAAAGA
24243840 ATAACAATAAAATAGTAGCAAT
1 ATAACAATAAAATAGTAGCAAT
* * *
24243862 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
24243883 AATAGAGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAT
Found at i:24243895 original size:22 final size:22
Alignment explanation
Indices: 24243847--24243895 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
24243837 AGAATAACAA
* *
24243847 TAAAATAGTAGCAATATAATAG
1 TAAAATAGTAGCAAAATAAGAG
*
24243869 TAAAATGGTAGCAAAATAGAGAG
1 TAAAATAGTAGCAAAATA-AGAG
24243892 -AAAA
1 TAAAA
24243896 CAACAAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.57, C:0.04, G:0.18, T:0.20
Consensus pattern (22 bp):
TAAAATAGTAGCAAAATAAGAG
Found at i:24249740 original size:28 final size:28
Alignment explanation
Indices: 24249682--24249743 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
24249672 AAAGCCCCTT
24249682 TTTTTTAATAATTACAGAAATGGGCCGA
1 TTTTTTAATAATTACAGAAATGGGCCGA
* * *
24249710 TTTTTTAATTATTTACCGGAATGGGCC-A
1 TTTTTTAA-TAATTACAGAAATGGGCCGA
24249738 TTTTTT
1 TTTTTT
24249744 GCGAAATCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.45
Consensus pattern (28 bp):
TTTTTTAATAATTACAGAAATGGGCCGA
Found at i:24250171 original size:125 final size:124
Alignment explanation
Indices: 24249996--24250227 Score: 340
Period size: 125 Copynumber: 1.9 Consensus size: 124
24249986 CACTTCTACT
* *
24249996 AGGATGCTATTTGAGAAGAAATTGTGAAATCGTGGCCTCGTGGACACGATTTCGCTAC-AGTGGT
1 AGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACACGATTTCGCTACAAGTGGT
* *
24250060 CATGTAAGAAATAATTTTTTTTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACA
66 CATGTAAGAAATAATCTTTTTTGAC-ATTTCTGAGCAAATAGTATAAAATCGCTGATACA
* * * * *
24250120 AGGATGCTATATTGGGCAGAAATTGTTAAATCGCGCCCTCGTGGACGCGATTTCGCTACAATTGG
1 AGGATGCTAT-TTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACACGATTTCGCTACAAGTGG
**
24250185 TCATGTTGGAAATAATCTTTTTTGACATTTCTGAGCAAATAGT
65 TCATGTAAGAAATAATCTTTTTTGACATTTCTGAGCAAATAGT
24250228 GTCAAATTGC
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
124 10 0.11
125 58 0.61
126 27 0.28
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (124 bp):
AGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACACGATTTCGCTACAAGTGGT
CATGTAAGAAATAATCTTTTTTGACATTTCTGAGCAAATAGTATAAAATCGCTGATACA
Found at i:24253294 original size:27 final size:27
Alignment explanation
Indices: 24253256--24253315 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
24253246 AGTTGAATGT
24253256 AATTATAGAAAAAGCTACATTTTATTC
1 AATTATAGAAAAAGCTACATTTTATTC
*
24253283 AATTATAGAAAAAGCTACCTTTTATTC
1 AATTATAGAAAAAGCTACATTTTATTC
24253310 AATTAT
1 AATTAT
24253316 TAATTGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (27 bp):
AATTATAGAAAAAGCTACATTTTATTC
Found at i:24253524 original size:23 final size:23
Alignment explanation
Indices: 24253494--24253643 Score: 124
Period size: 23 Copynumber: 6.3 Consensus size: 23
24253484 ATTAGCTTAG
*
24253494 GGTTAGGGTTTTACATTAAGTTA
1 GGTTAGGGTTTTAAATTAAGTTA
**
24253517 GGTTAGGG-TTTAGGGTTAAGTTA
1 GGTTAGGGTTTTA-AATTAAGTTA
24253540 GGTTAGGGTTTTAAATTAAGTTA
1 GGTTAGGGTTTTAAATTAAGTTA
*** *
24253563 GGTTTTTAATTTTAATTAAATTAGGTTA
1 GG---TTAGGGTT--TTAAATTAAGTTA
*
24253591 GGTTAGGGTTTTTAATTCAA-TTA
1 GGTTAGGGTTTTAAATT-AAGTTA
* *
24253614 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTAAATTAAGTTA
*
24253637 AGTTAGG
1 GGTTAGG
24253644 TTAGGTTAGG
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
22 6 0.06
23 69 0.66
24 5 0.05
25 5 0.05
26 5 0.05
28 14 0.13
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.45
Consensus pattern (23 bp):
GGTTAGGGTTTTAAATTAAGTTA
Found at i:24253553 original size:18 final size:18
Alignment explanation
Indices: 24253509--24253571 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 18
24253499 GGGTTTTACA
24253509 TTAAGTTAGGTTAGGGTTT
1 TTAAGTTAGGTTAGGG-TT
24253528 AGGGTTAAGTTAGGTTAGGGTT
1 ----TTAAGTTAGGTTAGGGTT
* * *
24253550 TTAAATTAAGTTAGGTTT
1 TTAAGTTAGGTTAGGGTT
24253568 TTAA
1 TTAA
24253572 TTTTAATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 19 0.51
22 2 0.05
23 16 0.43
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (18 bp):
TTAAGTTAGGTTAGGGTT
Found at i:24253596 original size:56 final size:51
Alignment explanation
Indices: 24253531--24253971 Score: 201
Period size: 59 Copynumber: 7.7 Consensus size: 51
24253521 AGGGTTTAGG
* * ***
24253531 GTTAAGTTAGGTTAGGGTTTTAAATTAAGTTAGGTTTTTAATTTTAATTAAA
1 GTTAGGTTAGGTTAGGGTTTTTAATTAA-TTAGGTTAGGAATTTTAATTAAA
**
24253583 -TTAGGTTAGGTTAGGGTTTTTAATTCAATTAGGTTAGGGTTTTTAATTAAATTAA
1 GTTAGGTTAGGTTAGGGTTTTTAATT-AATTAGGTTAGGAATTTTAATT--A--AA
* *
24253638 GTTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGTGTTTTTAATTCAA
1 GTTAGGTTAGGTTAGGGTTTTTAATT-AATTAGGTTAGG--A---ATTTTAATTAAA
* *
24253695 -TTAAGTTAGGGTTTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAA
1 GTTAGGTTA-GG--TTAGGGTTTTTAATT-AATTAGGTTAGG--A---ATTTTAATTAAA
**
24253754 -TTAGGTTAGAGTTTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAA
1 GTTAGGTTAG-G--TTAGGG---TT--TTTAATTAA-TTAGGTTAGGAATTTTAATTAAA
* *
24253813 -TTAAGTTAGGGTTTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAA
1 GTTAGGTTA-GG--TTAGGGTTTTTAATT-AATTAGGTTAGG--A---ATTTTAATTAAA
**
24253872 -TTAGGTTAGAGTTTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAA
1 GTTAGGTTAG-G--TTAGGG---TT--TTTAATTAA-TTAGGTTAGGAATTTTAATTAAA
* *
24253931 -TTAAGTTAGGGTTTTAGGGTTTTTAATTAAATTAAGTTAGG
1 GTTAGGTTA-GG--TTAGGGTTTTTAATT-AATTAGGTTAGG
24253972 GTTTTAGGGT
Statistics
Matches: 331, Mismatches: 21, Indels: 72
0.78 0.05 0.17
Matches are distributed among these distances:
51 38 0.11
52 2 0.01
53 1 0.00
54 33 0.10
55 6 0.02
56 48 0.15
57 4 0.01
58 2 0.01
59 144 0.44
60 2 0.01
61 9 0.03
62 4 0.01
63 4 0.01
64 34 0.10
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (51 bp):
GTTAGGTTAGGTTAGGGTTTTTAATTAATTAGGTTAGGAATTTTAATTAAA
Found at i:24253793 original size:23 final size:26
Alignment explanation
Indices: 24253572--24254863 Score: 1085
Period size: 28 Copynumber: 48.5 Consensus size: 26
24253562 AGGTTTTTAA
*
24253572 TTTTAATTAAATTAGGTTAGGTTAGGGT
1 TTTTAATTAAATTA--ATAGGTTAGGGT
*
24253600 TTTTAATTCAA-T--TAGGTTAGGGT
1 TTTTAATTAAATTAATAGGTTAGGGT
24253623 TTTTAATTAAATTAAGTTAGGTTAGGTTAGGGT
1 TTTTAATTAAATT-A---A---TAGGTTAGGGT
* *
24253656 TTTTAATTAAATTAGGTTAGGTTAGTGT
1 TTTTAATTAAATTA--ATAGGTTAGGGT
*
24253684 TTTTAATTCAATTAAGTTAGGGTTTTAGGGT
1 TTTTAATTAAATTAA--TA-GG--TTAGGGT
*
24253715 TTTTAATTAAATTAGGTTAGGTTAGGGT
1 TTTTAATTAAATTA--ATAGGTTAGGGT
*
24253743 TTTTAATTAAATTAGGTTAGAGTTTTAGGGT
1 TTTTAATTAAATTA--ATAG-G--TTAGGGT
*
24253774 TTTTAATTTAATTAAGTTAGGTTAGGGT
1 TTTTAATTAAATTAA--TAGGTTAGGGT
24253802 TTTTAATTAAATTAAGTTAGGGTTTTAGGGT
1 TTTTAATTAAATTAA--TA-GG--TTAGGGT
*
24253833 TTTTAATTAAATTAGGTTAGGTTAGGGT
1 TTTTAATTAAATTA--ATAGGTTAGGGT
*
24253861 TTTTAATTAAATTAGGTTAGAGTTTTAGGGT
1 TTTTAATTAAATTA--ATAG-G--TTAGGGT
*
24253892 TTTTAATTTAATTAAGTTAGGTTAGGGT
1 TTTTAATTAAATTAA--TAGGTTAGGGT
24253920 TTTTAATTAAATTAAGTTAGGGTTTTAGGGT
1 TTTTAATTAAATTAA--TA-GG--TTAGGGT
24253951 TTTTAATTAAATT-A-A-GTTAGGG-
1 TTTTAATTAAATTAATAGGTTAGGGT
* **
24253973 TTTTAGGGTTTAGGGTTCAATTAGGTTAGGGT
1 TTTTA---ATTA-AATT-AA-TAGGTTAGGGT
24254005 TTTTAATTAAATTAAGTTAGGTTAGGGT
1 TTTTAATTAAATTAA--TAGGTTAGGGT
*
24254033 TTTTAATTCAA-T--TAGGTTAGGGT
1 TTTTAATTAAATTAATAGGTTAGGGT
24254056 TTTTAATTAAATTAAGTTAGGTTAGGGT
1 TTTTAATTAAATTAA--TAGGTTAGGGT
*
24254084 TTTTAATTCAA-T--TAGGTTAGGGT
1 TTTTAATTAAATTAATAGGTTAGGGT
24254107 TTTTAATTAAATTAAGTTAGGTTAGGGT
1 TTTTAATTAAATTAA--TAGGTTAGGGT
*
24254135 TTTTAATTCAA-T--TAGGTTAGGGT
1 TTTTAATTAAATTAATAGGTTAGGGT
24254158 TTTTAATTAAATTAAGTTAGGTTAGGGT
1 TTTTAATTAAATTAA--TAGGTTAGGGT
*
24254186 TTTTAATTCAA-T--TAGGTTAGGGT
1 TTTTAATTAAATTAATAGGTTAGGGT
24254209 TTTTAATTAAATTAAGTTAGGTTAGGGT
1 TTTTAATTAAATTAA--TAGGTTAGGGT
*
24254237 TTTTAATTCAA-T--TAGGTTAGGGT
1 TTTTAATTAAATTAATAGGTTAGGGT
24254260 TTTTAATTAAATTAAGTTAGGTTAGGGT
1 TTTTAATTAAATTAA--TAGGTTAGGGT
*
24254288 TTTTAATTCAA-T--TAGGTTAGGGT
1 TTTTAATTAAATTAATAGGTTAGGGT
24254311 TTTTAATTAAATTAAGTTAGGTTAGGGT
1 TTTTAATTAAATTAA--TAGGTTAGGGT
*
24254339 TTTTAATTCAA-T--TAGGTTAGGGT
1 TTTTAATTAAATTAATAGGTTAGGGT
24254362 TTTTAATTAAATTAAGTTAGGTTAGGGT
1 TTTTAATTAAATTAA--TAGGTTAGGGT
*
24254390 TTTTAATTCAA-T--TAGGTTAGGGT
1 TTTTAATTAAATTAATAGGTTAGGGT
24254413 TTTTAATTAAATTAAGTTAGGTTAGGGT
1 TTTTAATTAAATTAA--TAGGTTAGGGT
*
24254441 TTTTAATTCAA-T--TAGGTTAGGGT
1 TTTTAATTAAATTAATAGGTTAGGGT
24254464 TTTTAATTAAATTAAGTTAGGTTAGGGT
1 TTTTAATTAAATTAA--TAGGTTAGGGT
*
24254492 TTTTAATTCAA-T--TAGGTTAGGGT
1 TTTTAATTAAATTAATAGGTTAGGGT
24254515 TTTTAATTAAATTAAGTTAGGTTAGGGT
1 TTTTAATTAAATTAA--TAGGTTAGGGT
*
24254543 TTTTAATTCAA-T--TAGGTTAGGGT
1 TTTTAATTAAATTAATAGGTTAGGGT
24254566 TTTTAATTAAATTAAGTTAGGTTAGGGT
1 TTTTAATTAAATTAA--TAGGTTAGGGT
*
24254594 TTTTAATTCAA-T--TAGGTTAGGGT
1 TTTTAATTAAATTAATAGGTTAGGGT
24254617 TTTTAATTAAATTAAGTTAGGTTAGGGT
1 TTTTAATTAAATTAA--TAGGTTAGGGT
*
24254645 TTTTAATTCAA-T--TAGGTTAGGGT
1 TTTTAATTAAATTAATAGGTTAGGGT
24254668 TTTTAATTAAATTAAGTTAGGTTAGGGT
1 TTTTAATTAAATTAA--TAGGTTAGGGT
*
24254696 TTTTAATTCAA-T--TAGGTTAGGGT
1 TTTTAATTAAATTAATAGGTTAGGGT
24254719 TTTTAATTAAATT-A-A-GTTAGGG-
1 TTTTAATTAAATTAATAGGTTAGGGT
* **
24254741 TTTTAGGGTTTAGGGTTCAATTAGGTTAGGGT
1 TTTTA---ATTA-AATT-AA-TAGGTTAGGGT
24254773 TTTTAATTAAATTAAGTTAGGTTAGGGT
1 TTTTAATTAAATTAA--TAGGTTAGGGT
*
24254801 TTTTAATTCAA-T--TAGGTTAGGGT
1 TTTTAATTAAATTAATAGGTTAGGGT
* *
24254824 TTTTAATTCAATTAGGTTAGGTTAGGGT
1 TTTTAATTAAATTA--ATAGGTTAGGGT
*
24254852 TTTTAATCAAAT
1 TTTTAATTAAAT
24254864 AATGTCAAAC
Statistics
Matches: 1074, Mismatches: 61, Indels: 258
0.77 0.04 0.19
Matches are distributed among these distances:
22 10 0.01
23 350 0.33
24 17 0.02
25 7 0.01
26 4 0.00
27 21 0.02
28 483 0.45
29 14 0.01
30 9 0.01
31 124 0.12
32 11 0.01
33 24 0.02
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (26 bp):
TTTTAATTAAATTAATAGGTTAGGGT
Found at i:24254051 original size:51 final size:51
Alignment explanation
Indices: 24253644--24254858 Score: 1836
Period size: 51 Copynumber: 22.9 Consensus size: 51
24253634 TTAAGTTAGG
* *
24253644 TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGTGTTTTTAATTCAATTAA
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTC----AA
* *
24253699 GTTAGGGTTTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTA
1 -TTA-GG--TTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATT-CA--A
* *
24253757 GGTTAGAGTTTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAA
1 --TTAG-G--TTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAA-T---TCAA
* *
24253817 GTTAGGGTTTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTA
1 -TTA-GG--TTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATT-CA--A
* *
24253875 GGTTAGAGTTTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAA
1 --TTAG-G--TTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAA-T---TCAA
****
24253935 GTTAGGGTTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTTAGGGTTTAGGGTTCAA
1 -TTA-GG--TTAGGGTTTTTAATTAAATTAAGTTA-GG--TTAGGGTTTTTAATTCAA
24253993 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
24254044 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
24254095 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
24254146 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
24254197 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
24254248 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
24254299 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
24254350 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
24254401 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
24254452 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
24254503 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
24254554 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
24254605 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
24254656 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
****
24254707 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTTAGGGTTTAGGGTTCAA
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTA-GG--TTAGGGTTTTTAATTCAA
24254761 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
* *
24254812 TTAGGTTAGGGTTTTTAATTCAATTAGGTTAGGTTAGGGTTTTTAAT
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAAT
24254859 CAAATAATGT
Statistics
Matches: 1099, Mismatches: 31, Indels: 63
0.92 0.03 0.05
Matches are distributed among these distances:
51 767 0.70
52 2 0.00
53 4 0.00
54 71 0.06
55 1 0.00
56 7 0.01
57 5 0.00
58 8 0.01
59 212 0.19
60 8 0.01
61 1 0.00
62 11 0.01
63 2 0.00
ACGTcount: A:0.29, C:0.02, G:0.23, T:0.47
Consensus pattern (51 bp):
TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTCAA
Found at i:24254838 original size:18 final size:21
Alignment explanation
Indices: 24254793--24254844 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 21
24254783 ATTAAGTTAG
24254793 GTTAGGGTTTTTAATTCAATTA
1 GTTAGGGTTTTTAATTCAA-TA
24254815 GGTTAGGGTTTTTAATTCAATTA
1 -GTTAGGGTTTTTAATTCAA-TA
24254838 GGTTAGG
1 -GTTAGG
24254845 TTAGGGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.46
Consensus pattern (21 bp):
GTTAGGGTTTTTAATTCAATA
Found at i:24257013 original size:14 final size:15
Alignment explanation
Indices: 24256996--24257029 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24256986 AATAAATATC
24256996 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
24257010 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
24257025 TAAAA
1 TAAAA
24257030 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:24257252 original size:22 final size:22
Alignment explanation
Indices: 24257227--24257268 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
24257217 ATTTGGAGAT
*
24257227 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
24257249 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
24257269 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:24257276 original size:30 final size:30
Alignment explanation
Indices: 24257240--24257298 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
24257230 TTGAAGGAAA
* *
24257240 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
24257270 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
24257299 AATTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:24257295 original size:22 final size:22
Alignment explanation
Indices: 24257270--24257346 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
24257260 ATTTGAGAGT
*
24257270 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
* *
24257292 TTGAGAGAATTTTTAAAGGGAA
1 TTGAGAGAATTTTTGAAGGAAA
24257314 TTGAGAGAATTTTTGAA-GAAA
1 TTGAGAGAATTTTTGAAGGAAA
*
24257335 TTGAGCGAATTT
1 TTGAGAGAATTT
24257347 GTTTGTGAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
21 14 0.29
22 35 0.71
ACGTcount: A:0.39, C:0.01, G:0.27, T:0.32
Consensus pattern (22 bp):
TTGAGAGAATTTTTGAAGGAAA
Found at i:24257318 original size:52 final size:51
Alignment explanation
Indices: 24257218--24257320 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 51
24257208 TTAATATGAA
* * * *
24257218 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAAGGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGAAAGGAATTTGAGAG
*
24257269 TTTGAGAGAATTTTGGAAGGAAATTGAGAGAATTTTTAAAGGGAA-TTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAATTTTGAAA-GGAATTTGAGAG
24257321 AATTTTTGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
51 4 0.09
52 37 0.82
53 4 0.09
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGAAAGGAATTTGAGAG
Found at i:24264176 original size:5 final size:5
Alignment explanation
Indices: 24264166--24264195 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
24264156 CAAGTAACCA
24264166 TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC
1 TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC
24264196 AACTATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAC
Found at i:24265404 original size:9 final size:9
Alignment explanation
Indices: 24265390--24265438 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
24265380 TTTGGTTAAA
24265390 AATTAACCG
1 AATTAACCG
24265399 AATTAACCG
1 AATTAACCG
* *
24265408 AATTACCCA
1 AATTAACCG
24265417 AATTAACCG
1 AATTAACCG
*
24265426 AATTACCCG
1 AATTAACCG
24265435 AATT
1 AATT
24265439 GAATCACTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:24265564 original size:18 final size:18
Alignment explanation
Indices: 24265541--24265584 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
24265531 AATTTTTATG
*
24265541 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGAATA
24265559 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
24265577 CTTGGGTT
1 ATTGGGTT
24265585 TGGATTGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:24277493 original size:18 final size:18
Alignment explanation
Indices: 24277463--24277497 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
24277453 CCATGTAGGG
24277463 GAAATGTAAGCAATGCCT
1 GAAATGTAAGCAATGCCT
24277481 GAAA-GTAAGGCAATGCC
1 GAAATGTAA-GCAATGCC
24277498 GGTTGAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (18 bp):
GAAATGTAAGCAATGCCT
Found at i:24286960 original size:17 final size:18
Alignment explanation
Indices: 24286938--24286972 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24286928 ATTTGGGTCA
*
24286938 TGTGGG-CCACAGGGGCG
1 TGTGGGCCCACACGGGCG
24286955 TGTGGGCCCACACGGGCG
1 TGTGGGCCCACACGGGCG
24286973 AACATCATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.11, C:0.29, G:0.49, T:0.11
Consensus pattern (18 bp):
TGTGGGCCCACACGGGCG
Found at i:24287928 original size:18 final size:18
Alignment explanation
Indices: 24287884--24287931 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
24287874 GCAATAAAAA
24287884 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAATTGAAT
* *
24287902 AACGATTTGTAAA-TGAAT
1 AATGTTTTG-AAATTGAAT
24287920 AATGTTTTGAAA
1 AATGTTTTGAAA
24287932 ACAAATGACA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 19 0.76
19 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.40
Consensus pattern (18 bp):
AATGTTTTGAAATTGAAT
Found at i:24291235 original size:33 final size:33
Alignment explanation
Indices: 24291193--24291259 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
24291183 AAATGACAAT
*
24291193 GTTCTAAGGGAATATAAAATATATATAGATTTG
1 GTTCTAAGGGAATATAAAATATATATAAATTTG
24291226 GTTCTAAGGGAATATAAAATATATATAAATTTG
1 GTTCTAAGGGAATATAAAATATATATAAATTTG
24291259 G
1 G
24291260 ATGCAATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.43, C:0.03, G:0.18, T:0.36
Consensus pattern (33 bp):
GTTCTAAGGGAATATAAAATATATATAAATTTG
Found at i:24295641 original size:26 final size:26
Alignment explanation
Indices: 24295610--24295690 Score: 112
Period size: 26 Copynumber: 3.1 Consensus size: 26
24295600 CTTATGCAAA
*
24295610 TCCCGATATATGGCTCTTTGTGAACT
1 TCCCGATATAAGGCTCTTTGTGAACT
24295636 TCCCGATCA-AAGGCTCTTTGTGAACT
1 TCCCGAT-ATAAGGCTCTTTGTGAACT
*
24295662 TCCCGAT-TAAAGGCTCTTTGTGAGCT
1 TCCCGATAT-AAGGCTCTTTGTGAACT
24295688 TCC
1 TCC
24295691 TGCTTAATGG
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
26 49 0.98
27 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.35
Consensus pattern (26 bp):
TCCCGATATAAGGCTCTTTGTGAACT
Found at i:24295703 original size:26 final size:26
Alignment explanation
Indices: 24295621--24295690 Score: 122
Period size: 26 Copynumber: 2.7 Consensus size: 26
24295611 CCCGATATAT
*
24295621 GGCTCTTTGTGAACTTCCCGATCAAA
1 GGCTCTTTGTGAACTTCCCGATTAAA
24295647 GGCTCTTTGTGAACTTCCCGATTAAA
1 GGCTCTTTGTGAACTTCCCGATTAAA
*
24295673 GGCTCTTTGTGAGCTTCC
1 GGCTCTTTGTGAACTTCC
24295691 TGCTTAATGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (26 bp):
GGCTCTTTGTGAACTTCCCGATTAAA
Found at i:24301227 original size:50 final size:50
Alignment explanation
Indices: 24301110--24301347 Score: 243
Period size: 50 Copynumber: 4.8 Consensus size: 50
24301100 GATAATAACA
* ** *
24301110 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCACGTA-C--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCA--TATCGG
* * * * * **
24301159 TACCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
24301209 TGCCAATGCCATGTCCCAGACATGATCTTACGA-GGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATATCGG
* *
24301259 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
24301309 TGCCAACACCATGT-CCAAACATGGTCTTACATGGGACCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCT
24301348 TTTTACCCAA
Statistics
Matches: 163, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
47 2 0.01
48 1 0.01
49 61 0.37
50 98 0.60
51 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:24308832 original size:50 final size:49
Alignment explanation
Indices: 24308689--24308923 Score: 161
Period size: 50 Copynumber: 4.7 Consensus size: 49
24308679 AACATGCCAA
* * ** * * *
24308689 AGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATATAC--TGCCA
1 AGCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATCT-CGGTGCCC
* * * * * ** * *
24308737 ATGCCATATCCCAGATATGGTCTTACATGAGAGTTCCCATATCGGTGCCC
1 A-GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCC
* **
24308787 ATGCCATGTCCCAAACATGATCTTATGGGGGACCTCTCATCTCGGTGCCAAC
1 A-GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATCTCGGTGCC--C
* * * * *
24308839 AG-CATGTCCCAAACATGGTCTTACATGGGACCTTTTATCTTGGTGCCA
1 AGCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCC
* *
24308887 ACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 A-GCCATGTCCCAAACATGGTCTTACAGGGGACCTCT
24308924 TTACCCAAAT
Statistics
Matches: 150, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
48 3 0.02
49 34 0.23
50 110 0.73
51 1 0.01
52 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
AGCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCC
Found at i:24308919 original size:100 final size:99
Alignment explanation
Indices: 24308683--24308923 Score: 227
Period size: 100 Copynumber: 2.4 Consensus size: 99
24308673 GATAATAACA
** * *
24308683 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATATACTGCCAATGCCATATCC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATACTGCCAAAGCCATATCC
* * *
24308748 CAGATATGGTCTTACATGAGAGTTCCCATATCGG
66 CAAACATGGTCTTACATGAGACTTCCCATATCGG
* * * * *** * *
24308782 TGCCCATGCCATGTCCCAAACATGATCTTATGGGGGACCTCTCATCT-CGGTGCCAACAG-CATG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAC--TGCCAA-AGCCATA
* ** * *
24308845 TCCCAAACATGGTCTTACATGGGACCTT-TTATCTTGG
63 TCCCAAACATGGTCTTACATGAGA-CTTCCCATATCGG
*
24308882 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
24308924 TTACCCAAAT
Statistics
Matches: 110, Mismatches: 28, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
98 1 0.01
99 36 0.33
100 70 0.64
101 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (99 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATACTGCCAAAGCCATATCC
CAAACATGGTCTTACATGAGACTTCCCATATCGG
Found at i:24313191 original size:42 final size:42
Alignment explanation
Indices: 24313145--24313228 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
24313135 TTTGAATATA
*
24313145 TGAAATTTGATGGATACAAAAATTTCCCGTATTGATTGTGGT
1 TGAAATTCGATGGATACAAAAATTTCCCGTATTGATTGTGGT
* *
24313187 TGAAATTCGATGGATACAGAAATTTCCCGTATTGGTTGTGGT
1 TGAAATTCGATGGATACAAAAATTTCCCGTATTGATTGTGGT
24313229 CCTGCATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.37
Consensus pattern (42 bp):
TGAAATTCGATGGATACAAAAATTTCCCGTATTGATTGTGGT
Found at i:24313339 original size:24 final size:24
Alignment explanation
Indices: 24313271--24313339 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
24313261 AAGAGTGTCT
* * *
24313271 CGTTATTAGCCCTCTGGAGCTTCC
1 CGTTAATAGCTCTTTGGAGCTTCC
* *
24313295 CGTTATATGGTTC-TTGTGAGCTTCC
1 CGTTA-ATAGCTCTTTG-GAGCTTCC
24313320 CGTTAATAGCTCTTTGGAGC
1 CGTTAATAGCTCTTTGGAGC
24313340 ATCTCAATCG
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
24 16 0.46
25 19 0.54
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (24 bp):
CGTTAATAGCTCTTTGGAGCTTCC
Found at i:24313580 original size:25 final size:25
Alignment explanation
Indices: 24313548--24313609 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
24313538 GAAGCTACCT
*
24313548 ATTA-ATGGCTCATATGAGCTTCCC
1 ATTAGATGGCTCACATGAGCTTCCC
* *
24313572 GTTAGATGGCTCACATGAGCTTCCT
1 ATTAGATGGCTCACATGAGCTTCCC
*
24313597 ATTATATGGCTCA
1 ATTAGATGGCTCA
24313610 AGAGTGTGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 3 0.09
25 29 0.91
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (25 bp):
ATTAGATGGCTCACATGAGCTTCCC
Found at i:24313635 original size:27 final size:25
Alignment explanation
Indices: 24313600--24313656 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
24313590 GCTTCCTATT
24313600 ATATGGCTCAAGAGTGTGC-TTCCCGA
1 ATATGGCTCAA-A-TGTGCATTCCCGA
* *
24313626 TTATGTGCTCTAATGTGCATTCCCGA
1 ATATG-GCTCAAATGTGCATTCCCGA
24313652 ATATG
1 ATATG
24313657 AATTGACGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 5 0.19
26 16 0.62
27 5 0.19
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (25 bp):
ATATGGCTCAAATGTGCATTCCCGA
Found at i:24314013 original size:23 final size:23
Alignment explanation
Indices: 24313983--24314028 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
24313973 AAATGGTATG
*
24313983 TTAGTTTCCCGTTATACGAACTT
1 TTAGTTTCCCATTATACGAACTT
24314006 TTAGTTTCCCATTATACGAACTT
1 TTAGTTTCCCATTATACGAACTT
24314029 ACTAAGCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (23 bp):
TTAGTTTCCCATTATACGAACTT
Found at i:24314871 original size:40 final size:41
Alignment explanation
Indices: 24314827--24314921 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 41
24314817 TTTTGAATGC
*
24314827 CCACACGGCTTGAGAC-GGGCGTGCCTCTTGACCATGTGAG
1 CCACACGGCCTGAGACAGGGCGTGCCTCTTGACCATGTGAG
*
24314867 CCACACGGCCTGAGACATGGGCGTGCCTCTTGACCGTGTGAG
1 CCACACGGCCTGAGACA-GGGCGTGCCTCTTGACCATGTGAG
*
24314909 CCACATGGCCTGA
1 CCACACGGCCTGA
24314922 CCAGACGGGC
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 15 0.30
42 35 0.70
ACGTcount: A:0.18, C:0.32, G:0.32, T:0.19
Consensus pattern (41 bp):
CCACACGGCCTGAGACAGGGCGTGCCTCTTGACCATGTGAG
Found at i:24317187 original size:42 final size:41
Alignment explanation
Indices: 24317049--24317210 Score: 166
Period size: 42 Copynumber: 3.9 Consensus size: 41
24317039 AACTCGTACA
* * *
24317049 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAA-CACA-ATCG
* * *
24317092 ATGCC-ACTGTCTCAGACAGGGTCTTACACGAAACA-AATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAACACAAT-CG
* * *
24317133 ATGCCAATGTCCCAAACATTGTCTTACACGTAACACAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAACACAA-TCG
*
24317175 ATGCCAACGTCCCAGACATGGTTTTACACGATAACA
1 ATGCCAACGTCCCAGACATGGTCTTACACG-TAACA
24317211 TATATAAAAA
Statistics
Matches: 97, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
40 2 0.02
41 30 0.31
42 35 0.36
43 30 0.31
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAACACAATCG
Found at i:24325362 original size:6 final size:5
Alignment explanation
Indices: 24325338--24325380 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
24325328 AGCATAAACA
* *
24325338 TATTT TATTT TATTT TATATT TATATA TATTT TAATT TATTT T
1 TATTT TATTT TATTT TAT-TT TAT-TT TATTT TATTT TATTT T
24325381 GTACATTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 23 0.70
6 10 0.30
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (5 bp):
TATTT
Found at i:24325843 original size:12 final size:12
Alignment explanation
Indices: 24325826--24325852 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24325816 CACTTTCAAG
24325826 ATTAATGATGCC
1 ATTAATGATGCC
24325838 ATTAATGATGCC
1 ATTAATGATGCC
24325850 ATT
1 ATT
24325853 CGCTTACGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (12 bp):
ATTAATGATGCC
Found at i:24327260 original size:29 final size:29
Alignment explanation
Indices: 24327221--24327282 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
24327211 ACCCAGACAG
*
24327221 TGTGTCTTACATGG-TCTAGCACATGGCCA
1 TGTGTCATACATGGCT-TAGCACATGGCCA
* *
24327250 TGTGTCATACATGGCTTGGCACATGGCTA
1 TGTGTCATACATGGCTTAGCACATGGCCA
24327279 TGTG
1 TGTG
24327283 GCGTCAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 28 0.97
30 1 0.03
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.32
Consensus pattern (29 bp):
TGTGTCATACATGGCTTAGCACATGGCCA
Found at i:24328717 original size:31 final size:31
Alignment explanation
Indices: 24328650--24328718 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
24328640 GTTATAAATG
* * *
24328650 TAAATATGACATAAAATATAATTAGATGTAT
1 TAAATATAAAATAAAATATAATTACATGTAT
* *
24328681 AAAATATAAAATAATAATATAA-TACATGTCT
1 TAAATATAAAATAA-AATATAATTACATGTAT
24328712 TAAATAT
1 TAAATAT
24328719 GTCATATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
31 24 0.77
32 7 0.23
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (31 bp):
TAAATATAAAATAAAATATAATTACATGTAT
Found at i:24339267 original size:16 final size:16
Alignment explanation
Indices: 24339248--24339310 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 16
24339238 AATATGATTT
*
24339248 TAATGTAATAGAGCTG
1 TAATGGAATAGAGCTG
24339264 TAATGGAATAGAGCTG
1 TAATGGAATAGAGCTG
**
24339280 ---T--AATAGAGAAG
1 TAATGGAATAGAGCTG
24339291 TAATGGAATAGAGCTG
1 TAATGGAATAGAGCTG
24339307 TAAT
1 TAAT
24339311 CAATAATTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
11 8 0.22
13 1 0.03
14 1 0.03
16 27 0.73
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:24339293 original size:27 final size:27
Alignment explanation
Indices: 24339251--24339310 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
24339241 ATGATTTTAA
**
24339251 TGTAATAGAGCTGTAATGGAATAGAGC
1 TGTAATAGAGAAGTAATGGAATAGAGC
24339278 TGTAATAGAGAAGTAATGGAATAGAGC
1 TGTAATAGAGAAGTAATGGAATAGAGC
24339305 TGTAAT
1 TGTAAT
24339311 CAATAATTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.40, C:0.05, G:0.28, T:0.27
Consensus pattern (27 bp):
TGTAATAGAGAAGTAATGGAATAGAGC
Found at i:24339545 original size:11 final size:10
Alignment explanation
Indices: 24339525--24339573 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
24339515 ATAAAAATAA
24339525 ATAATTTAAT
1 ATAATTTAAT
*
24339535 CATATTTTAAT
1 -ATAATTTAAT
24339546 ATAATTTAAT
1 ATAATTTAAT
*
24339556 A-AA-AT-AT
1 ATAATTTAAT
24339563 ATAATTTAAT
1 ATAATTTAAT
24339573 A
1 A
24339574 ATTACGTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
7 3 0.10
8 3 0.10
9 3 0.10
10 13 0.42
11 9 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (10 bp):
ATAATTTAAT
Found at i:24343664 original size:3 final size:3
Alignment explanation
Indices: 24343656--24343705 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
24343646 GTGAATTAAA
* *
24343656 TAT TAT TA- TAT GAT TAT TAT AAT ATAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
24343701 TAT TA
1 TAT TA
24343706 CAATGGCATC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:24343970 original size:104 final size:104
Alignment explanation
Indices: 24343790--24343996 Score: 369
Period size: 104 Copynumber: 2.0 Consensus size: 104
24343780 AGACATTTTA
* *
24343790 GATTTTAACCTTTCCGACTCAACCAATTTTGAATTAATATATGAGTGCGACGACCCTGGATCAAT
1 GATTTTAACCTTCCCGACTCAACCAATTTTGAATTAATATATGAATGCGACGACCCTGGATCAAT
*
24343855 TAAAGCATAAATAGGTTTAGAATGCAATAAAAATATACG
66 TAAAGCATAAATAGGTTCAGAATGCAATAAAAATATACG
* *
24343894 GATTTTAACCTTCCCGACTCAACCAGTTTTGAATTAATATATGAATGCGACGACCTTGGATCAAT
1 GATTTTAACCTTCCCGACTCAACCAATTTTGAATTAATATATGAATGCGACGACCCTGGATCAAT
24343959 TAAAGCATAAATAGGTTCAGAATGCAATAAAAATATAC
66 TAAAGCATAAATAGGTTCAGAATGCAATAAAAATATAC
24343997 CTTTCACAAC
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 98 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (104 bp):
GATTTTAACCTTCCCGACTCAACCAATTTTGAATTAATATATGAATGCGACGACCCTGGATCAAT
TAAAGCATAAATAGGTTCAGAATGCAATAAAAATATACG
Found at i:24350890 original size:22 final size:22
Alignment explanation
Indices: 24350835--24350912 Score: 95
Period size: 22 Copynumber: 3.5 Consensus size: 22
24350825 TATACCACAC
* *
24350835 TAGTAGGCACCAAAGTGCTTTAA
1 TAGTAGGCACCGAAGTGC-TGAA
* *
24350858 TAGTAGACACCGAAGTGCTGAG
1 TAGTAGGCACCGAAGTGCTGAA
24350880 TAGTAGGCACCGAAGTGC-GAA
1 TAGTAGGCACCGAAGTGCTGAA
24350901 TCAGTAGGCACC
1 T-AGTAGGCACC
24350913 ATAGTGCAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
21 3 0.06
22 29 0.60
23 16 0.33
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.19
Consensus pattern (22 bp):
TAGTAGGCACCGAAGTGCTGAA
Found at i:24350918 original size:22 final size:22
Alignment explanation
Indices: 24350836--24350946 Score: 77
Period size: 22 Copynumber: 5.0 Consensus size: 22
24350826 ATACCACACT
* *
24350836 AGTAGGCACCAAAGTGCTTTAAT-
1 AGTAGGCACCGAAGTGC--AAATC
* * *
24350859 AGTAGACACCGAAGTGCTGAGT-
1 AGTAGGCACCGAAGTGC-AAATC
*
24350881 AGTAGGCACCGAAGTGCGAATC
1 AGTAGGCACCGAAGTGCAAATC
24350903 AGTAGGCACC-ATAGTGCAAATC
1 AGTAGGCACCGA-AGTGCAAATC
* *
24350925 AATAGGC-CTCGTAGTGCAAATC
1 AGTAGGCAC-CGAAGTGCAAATC
24350947 CTGTACAAAC
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
21 5 0.07
22 55 0.73
23 15 0.20
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (22 bp):
AGTAGGCACCGAAGTGCAAATC
Found at i:24354487 original size:51 final size:51
Alignment explanation
Indices: 24354424--24354614 Score: 230
Period size: 51 Copynumber: 3.8 Consensus size: 51
24354414 CCGGTTCACA
* * * *
24354424 TAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCTGATAAACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACACG
* * *
24354475 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCTGGTACACG
*
24354526 TAGTAGCCTGCACATAGTACTACACATACG-GCCCATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACAC--ACGTGACCATCACTATCTGGTACACG
*
24354576 TAGTAGCCTACACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
24354615 TTCACTTTCA
Statistics
Matches: 119, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
48 3 0.03
49 7 0.06
50 35 0.29
51 67 0.56
52 3 0.03
53 4 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACACG
Found at i:24354601 original size:101 final size:102
Alignment explanation
Indices: 24354422--24354606 Score: 286
Period size: 101 Copynumber: 1.8 Consensus size: 102
24354412 TACCGGTTCA
*
24354422 CATAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCTGATAAACGTAGTAGCCTGCA
1 CATAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCTGATAAACGTAGTAGCCTACA
24354487 CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
* * * *
24354524 CATAGTAGCCTGCACATAGTACTACACATACG-GCCCATCA-T-TCTGGTACACGTAGTAGCCTA
1 CATAGTAGCATGCACATAGTACTACACAT--GTGACCATCACTATCTGATAAACGTAGTAGCCTA
24354586 CACATAGTACTACACACGTGA
64 CACATAGTACTACACACGTGA
24354607 CCATCACTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
101 39 0.51
102 29 0.38
103 7 0.09
104 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (102 bp):
CATAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCTGATAAACGTAGTAGCCTACA
CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
Found at i:24363832 original size:31 final size:31
Alignment explanation
Indices: 24363791--24363865 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
24363781 TAGATTTAAA
* *
24363791 TATGACATATTTAAGACATGT-ATTATATTAT
1 TATGTCATATTTAAGACATCTAATTATATT-T
* * * *
24363822 TATTTTATATTTTATACATCTAATTATATTT
1 TATGTCATATTTAAGACATCTAATTATATTT
24363853 TATGTCATATTTA
1 TATGTCATATTTA
24363866 CATTTATAAC
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
31 26 0.76
32 8 0.24
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (31 bp):
TATGTCATATTTAAGACATCTAATTATATTT
Found at i:24365266 original size:29 final size:29
Alignment explanation
Indices: 24365233--24365294 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
24365223 TTCTTGACGC
*
24365233 CACATAGCCATGTGCCAAG-CCATGTATGA
1 CACATAGCCATGTG-CAAGACCATGTAAGA
* *
24365262 CACATGGCCATGTGCTAGACCATGTAAGA
1 CACATAGCCATGTGCAAGACCATGTAAGA
24365291 CACA
1 CACA
24365295 CTGTCTGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.19
Consensus pattern (29 bp):
CACATAGCCATGTGCAAGACCATGTAAGA
Found at i:24369436 original size:50 final size:50
Alignment explanation
Indices: 24369336--24369444 Score: 130
Period size: 50 Copynumber: 2.2 Consensus size: 50
24369326 TCGGGGAAAC
* * * * *
24369336 AAGATTCGCTATTGTAGCTTCAATCTATTCCACTGCACCGTCAGGGAAGT
1 AAGATTCGCCATTGCAGCTTCAATCTATTCCACCGCACAGTCAGGAAAGT
* * *
24369386 AAGATTCGCCATTGCAGCTTCAATCTTTTCCACCGGACAG-CTTGGAAAGT
1 AAGATTCGCCATTGCAGCTTCAATCTATTCCACCGCACAGTC-AGGAAAGT
24369436 AAGATTCGC
1 AAGATTCGC
24369445 TATCTTCGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
49 1 0.02
50 49 0.98
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (50 bp):
AAGATTCGCCATTGCAGCTTCAATCTATTCCACCGCACAGTCAGGAAAGT
Found at i:24369635 original size:45 final size:46
Alignment explanation
Indices: 24369557--24371281 Score: 2433
Period size: 45 Copynumber: 38.3 Consensus size: 46
24369547 TCACTAGTAG
* *
24369557 TACAGGAAGACAAGA-TCTGCTATCTTTAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
* * * * *
24369602 TATAGGAAGACAAGACT-TGTTATATTC-GATCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAG-TCTACTTCGCTGCCAA
24369647 TACAAGAAGACAAG-GTCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
24369692 TACAAGAAGACAAG-GTCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
24369737 TACAAGAAGACAAG-GTCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
24369782 TACAAGAAGACAAG-GTCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
24369827 TACAAGAAGACAAG-GTCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
24369872 TACAAGAAGACAAG-GTCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
24369917 TACAAGAAGACAAG-GTCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
24369962 TACAAGAAGACAAG-GTCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
24370007 TACAAGAAGACAAG-GTCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
24370052 TACAAGAAGACAAG-GTCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
24370097 TACAAGAAGACAAG-GTCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
24370142 TACAAGAAGACAAG-GTCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
24370187 TACAAGAAGACAAG-GTCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
24370232 TACAAGAAGACAAG-GTCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
24370277 TACAAGAAGACAAG-GTCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
24370322 TACAAGAAGACAAG-GTCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
24370367 TACAAGAAGACAAG-GTCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
24370412 TACAAGAAGACAAG-GTCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
* *
24370457 TACAAGAAGACAAGACT-TTCTATCTTC-GATCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAG-TCTACTTCGCTGCCAA
* * *
24370502 TACAGGAAGACAAGA-TCTGCTATCTTCAGTCTACTTCACTGCCGA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
* * * *
24370547 TACAGGAAGACAAGA-TCTACTATCTTCAATCTACTTTGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
* * * *
24370592 TACAGGAAGACAAGA-TCTGTTATCTTCAGTTTACTTTGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
* * * * *
24370637 TACAGGAAGATAAAACT-TGCTATCTTC-GATCTACTTCGCTGTCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAG-TCTACTTCGCTGCCAA
* *
24370682 TACAGGAAGACAAGA-TCTGCTATCTTCAGTCTACTTCACTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
* * *
24370727 TACAGGAAGATAAGACT-TGCTATCTTC-GATCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAG-TCTACTTCGCTGCCAA
* * *
24370772 TACAGGGAGACAAGA-TCTGCTATCTTCAGTCTACTTCGCTGCCGA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
* * * *
24370817 TACAGGAAGACAAGA-TCTACTATCTTCAATCTACTTTGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
* * * *
24370862 TACAGGAAGACAAGA-TCTGTTATCTTCAGTTTACTTTGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
* * * * *
24370907 TACAGGAAGATAAAACT-TGCTATCTTC-GATCTACTTCGCTGTCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAG-TCTACTTCGCTGCCAA
* * *
24370952 TACAGGAAGACAAGA-TCTGCTATCTTCAGTCTACTTCACTGCCGA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
* * * *
24370997 TACAGGAAGACAAGA-TCTACTATCTTCAATCTACTTTGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
* * * *
24371042 TACAGGAAGACAAGA-TCTGTTATCTTCAGTTTACTTTGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
* * * * *
24371087 TACAGGAAGATAAAACT-TGCTATCTTC-GATCTACTTCGCTGTCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAG-TCTACTTCGCTGCCAA
*
24371132 TACAGGAAGACAAGA-TCTGCTATCTTCAGTCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
* * *
24371177 TACAGGAAGACAAGACT-TGCTATCTT-TGATCTACTTCGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAG-TCTACTTCGCTGCCAA
* * *
24371222 TATAGGAAGACAAGA-TCTGCTATCTTCAGTCTACTTTGCTGCCAA
1 TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
* *
24371267 TATAGGAAGACAAGA
1 TACAAGAAGACAAGA
24371282 CTTGATGTGA
Statistics
Matches: 1571, Mismatches: 81, Indels: 56
0.92 0.05 0.03
Matches are distributed among these distances:
44 14 0.01
45 1543 0.98
46 14 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (46 bp):
TACAAGAAGACAAGAGTCTGCTATCTTCAGTCTACTTCGCTGCCAA
Found at i:24373062 original size:16 final size:15
Alignment explanation
Indices: 24373041--24373092 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
24373031 CAATAGAGGT
24373041 TTTTTTATTTTTTTGC
1 TTTTTT-TTTTTTTGC
24373057 TTTTTTTCTTTTTTGC
1 TTTTTTT-TTTTTTGC
** *
24373073 TTGCTTTTTTTTTAC
1 TTTTTTTTTTTTTGC
24373088 TTTTT
1 TTTTT
24373093 GCTTGCTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 11 0.37
16 19 0.63
ACGTcount: A:0.04, C:0.10, G:0.06, T:0.81
Consensus pattern (15 bp):
TTTTTTTTTTTTTGC
Found at i:24373082 original size:22 final size:22
Alignment explanation
Indices: 24373040--24373105 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
24373030 CCAATAGAGG
24373040 TTTTTTTA-TTTTT--TTGCTT
1 TTTTTTTACTTTTTGCTTGCTT
*
24373059 TTTTTCT--TTTTTGCTTGCTT
1 TTTTTTTACTTTTTGCTTGCTT
24373079 TTTTTTTACTTTTTGCTTGCTT
1 TTTTTTTACTTTTTGCTTGCTT
24373101 TTTTT
1 TTTTT
24373106 GCCTCCACAG
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
18 5 0.12
19 6 0.15
20 12 0.29
22 18 0.44
ACGTcount: A:0.03, C:0.11, G:0.08, T:0.79
Consensus pattern (22 bp):
TTTTTTTACTTTTTGCTTGCTT
Found at i:24376366 original size:37 final size:36
Alignment explanation
Indices: 24376252--24376376 Score: 96
Period size: 37 Copynumber: 3.4 Consensus size: 36
24376242 AATATAAAAA
* * * *
24376252 ATATATATTTA-AAATAAATAAAGAATATGTACATAT
1 ATATATATATATAAATATAGAAA-AATATGTACATGT
* * *
24376288 ATATAAAT-TATAAGATATAGTAAGAA-ATGTATATG-
1 ATATATATATATAA-ATATAG-AAAAATATGTACATGT
24376323 AGTATATATATATAAATTATAGAAAAATATGTACATGT
1 A-TATATATATATAAA-TATAGAAAAATATGTACATGT
*
24376361 ATATATGTATTATAAA
1 ATATATATA-TATAAA
24376377 AAACGCATGT
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
35 3 0.04
36 27 0.39
37 31 0.44
38 9 0.13
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.37
Consensus pattern (36 bp):
ATATATATATATAAATATAGAAAAATATGTACATGT
Found at i:24383939 original size:29 final size:30
Alignment explanation
Indices: 24383877--24383943 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
24383867 AAAGTACAAT
*
24383877 GACTAAAATTGACCAATTCAAAAAATATAAG
1 GACTAAAATTGACCAAAT-AAAAAATATAAG
* * *
24383908 GACTAAAATTGATCAAAT-AAAAGTATAGG
1 GACTAAAATTGACCAAATAAAAAATATAAG
24383937 GACTAAA
1 GACTAAA
24383944 TCTATAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 16 0.50
31 16 0.50
ACGTcount: A:0.54, C:0.10, G:0.13, T:0.22
Consensus pattern (30 bp):
GACTAAAATTGACCAAATAAAAAATATAAG
Found at i:24391663 original size:25 final size:25
Alignment explanation
Indices: 24391629--24391678 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
24391619 AAAAAAAGAA
24391629 ACGAGGCTAGACACACTTTGTCTTT
1 ACGAGGCTAGACACACTTTGTCTTT
24391654 ACGAGGCTAGACACACTTTGTCTTT
1 ACGAGGCTAGACACACTTTGTCTTT
24391679 CACAATGACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (25 bp):
ACGAGGCTAGACACACTTTGTCTTT
Found at i:24392653 original size:15 final size:16
Alignment explanation
Indices: 24392630--24392663 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
24392620 CTAAATATGA
*
24392630 AAATTTTGG-TTTTTT
1 AAATATTGGATTTTTT
24392645 AAATATTGGATTTTTT
1 AAATATTGGATTTTTT
24392661 AAA
1 AAA
24392664 GAAAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (16 bp):
AAATATTGGATTTTTT
Found at i:24393362 original size:56 final size:55
Alignment explanation
Indices: 24393249--24393402 Score: 202
Period size: 56 Copynumber: 2.8 Consensus size: 55
24393239 AGTAGATACG
* * *
24393249 TAGGAATCAAATTGCTAAAAGATAACAT-CATAATAATATCTTCTAATATCTAAT
1 TAGGAATCAAATTGCTAAAAGATAATATCCATAATAATATCCTCTAACATCTAAT
** * * *
24393303 TAGGAATCAAATTGCTAGGAGAGAATATCCAATAATAATATCCTGTAACATCTTAT
1 TAGGAATCAAATTGCTAAAAGATAATATCC-ATAATAATATCCTCTAACATCTAAT
*
24393359 TAGGAATCAAATTCCTAAAAGATAATATCTCATAATAATATCCT
1 TAGGAATCAAATTGCTAAAAGATAATATC-CATAATAATATCCT
24393403 AACATTCCCC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 24 0.28
55 1 0.01
56 59 0.69
57 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (55 bp):
TAGGAATCAAATTGCTAAAAGATAATATCCATAATAATATCCTCTAACATCTAAT
Found at i:24396778 original size:56 final size:56
Alignment explanation
Indices: 24396713--24396869 Score: 251
Period size: 56 Copynumber: 2.8 Consensus size: 56
24396703 AGTAGTTATG
* *
24396713 TAGGAATCAAATTGCTAAAATATAATATCCCATAATAATATCCTATAATATCCCAT
1 TAGGAATCAAATTGCTAAAAAATAATATCCCATAATAATATCCTATAACATCCCAT
* * *
24396769 TAGGAATCAAATTGCTAAGAGAGAATATCCCATAATAATATCCTATAACATCCCAT
1 TAGGAATCAAATTGCTAAAAAATAATATCCCATAATAATATCCTATAACATCCCAT
**
24396825 TAGGAATCAAATTGCTAAAAAATAATATTGCATAATAATATCCTA
1 TAGGAATCAAATTGCTAAAAAATAATATCCCATAATAATATCCTA
24396870 ACAGATAAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 92 1.00
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.30
Consensus pattern (56 bp):
TAGGAATCAAATTGCTAAAAAATAATATCCCATAATAATATCCTATAACATCCCAT
Found at i:24397925 original size:42 final size:42
Alignment explanation
Indices: 24397873--24397996 Score: 142
Period size: 42 Copynumber: 3.0 Consensus size: 42
24397863 AGGCTGCACA
* * * *
24397873 GAAGCACATAAGTGCTAAATGGAAACCCGTAAGGGTTGAACG
1 GAAGCTCATAAGAGCTAAATGGAAACCCATAAGGGTTAAACG
* * *
24397915 GAAGCTCATAAGAGCTGAATGGAAACCTATAAGGGTTAAACT
1 GAAGCTCATAAGAGCTAAATGGAAACCCATAAGGGTTAAACG
* * *
24397957 GAAGCTCAAAAGAGCTGAACT-GAAACCCAGAAGGGTTAAA
1 GAAGCTCATAAGAGCT-AAATGGAAACCCATAAGGGTTAAA
24397997 TTGAAACTCA
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
42 67 0.97
43 2 0.03
ACGTcount: A:0.41, C:0.16, G:0.26, T:0.17
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTAAATGGAAACCCATAAGGGTTAAACG
Found at i:24397926 original size:21 final size:21
Alignment explanation
Indices: 24397902--24397964 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
24397892 TGGAAACCCG
24397902 TAAGGGTTGAACGGAAGCTCA
1 TAAGGGTTGAACGGAAGCTCA
* * * *
24397923 TAAGAGCTGAATGGAAAC-CTA
1 TAAGGGTTGAACGGAAGCTC-A
* *
24397944 TAAGGGTTAAACTGAAGCTCA
1 TAAGGGTTGAACGGAAGCTCA
24397965 AAAGAGCTGA
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (21 bp):
TAAGGGTTGAACGGAAGCTCA
Found at i:24398432 original size:22 final size:22
Alignment explanation
Indices: 24398404--24398446 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
24398394 CATGTTTTTT
24398404 CAATTTATACCCCTCAACTTTA
1 CAATTTATACCCCTCAACTTTA
24398426 CAATTTATACCCCTCAACTTT
1 CAATTTATACCCCTCAACTTT
24398447 CAAAATTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (22 bp):
CAATTTATACCCCTCAACTTTA
Found at i:24410148 original size:4 final size:4
Alignment explanation
Indices: 24410139--24410171 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
24410129 CTAATAGAAA
24410139 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
24410172 GTAGAAGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:24411608 original size:22 final size:22
Alignment explanation
Indices: 24411559--24411608 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
24411549 TACTAACTCA
24411559 ATAAATAATATTATTAATATAT
1 ATAAATAATATTATTAATATAT
*
24411581 AAAAATAAT-TTATATAATA-AT
1 ATAAATAATATTAT-TAATATAT
24411602 ATTAAAT
1 A-TAAAT
24411609 TGTATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATAAATAATATTATTAATATAT
Found at i:24412128 original size:18 final size:19
Alignment explanation
Indices: 24412107--24412153 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
24412097 AATTTATAAC
24412107 AAATAATAAATTTT-AGAA
1 AAATAATAAATTTTAAGAA
* *
24412125 AAATTATTAAATTTTAATAA
1 AAA-TAATAAATTTTAAGAA
24412145 AAAT-ATAAA
1 AAATAATAAA
24412154 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 7 0.29
19 11 0.46
20 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AAATAATAAATTTTAAGAA
Found at i:24412205 original size:30 final size:31
Alignment explanation
Indices: 24412171--24412242 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
24412161 AAATTAGAAG
24412171 AAAAAAAATTAT-AAAAATTGTAAAAAAAT-A
1 AAAAAAAATT-TGAAAAATTGTAAAAAAATCA
* * *
24412201 AAAAAAAATTTGTAAAATTTTATAAAAATCA
1 AAAAAAAATTTGAAAAATTGTAAAAAAATCA
*
24412232 TAAAAAAATTT
1 AAAAAAAATTT
24412243 AATGACCCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 1 0.03
30 24 0.67
31 11 0.31
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (31 bp):
AAAAAAAATTTGAAAAATTGTAAAAAAATCA
Found at i:24412462 original size:9 final size:9
Alignment explanation
Indices: 24412448--24412586 Score: 70
Period size: 9 Copynumber: 14.7 Consensus size: 9
24412438 CTTAATAAAA
24412448 TTTTATAAT
1 TTTTATAAT
24412457 TTTTAT-AT
1 TTTTATAAT
*
24412465 TTCTAT-AT
1 TTTTATAAT
24412473 ATTTTATAAT
1 -TTTTATAAT
24412483 ATTTT-TACGAT
1 -TTTTATA--AT
*
24412494 TTTTATAAAA
1 TTTTAT-AAT
*
24412504 TTTTACAATT
1 TTTTATAA-T
*
24412514 TTTTATATTT
1 TTTTATA-AT
*
24412524 TTTTACAAT
1 TTTTATAAT
24412533 TTTTAT-AT
1 TTTTATAAT
24412541 TTTTAATAATT
1 TTTT-ATAA-T
*
24412552 TTTTATTAAAA
1 TTTTA-T-AAT
*
24412563 TTTAATAAT
1 TTTTATAAT
* *
24412572 ATTTATAGT
1 TTTTATAAT
24412581 TTTTAT
1 TTTTAT
24412587 TGATTTTAAT
Statistics
Matches: 100, Mismatches: 17, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
8 15 0.15
9 36 0.36
10 33 0.33
11 13 0.13
12 3 0.03
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:24412473 original size:10 final size:9
Alignment explanation
Indices: 24412447--24412487 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
24412437 ACTTAATAAA
24412447 ATTTTATA-
1 ATTTTATAT
24412455 ATTTT-TAT
1 ATTTTATAT
24412463 ATTTCTATAT
1 ATTT-TATAT
24412473 ATTTTATAAT
1 ATTTTAT-AT
24412483 ATTTT
1 ATTTT
24412488 TACGATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 2 0.07
8 9 0.31
9 4 0.14
10 14 0.48
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (9 bp):
ATTTTATAT
Found at i:24412497 original size:20 final size:20
Alignment explanation
Indices: 24412474--24412539 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
24412464 TTTCTATATA
*
24412474 TTTTATAATATTTTTACGAT
1 TTTTATAATATTTTTACAAT
*
24412494 TTTTATAA-AATTTTACAAT
1 TTTTATAATATTTTTACAAT
*
24412513 TTTT-TATATTTTTTTACAAT
1 TTTTATA-ATATTTTTACAAT
24412533 TTTTATA
1 TTTTATA
24412540 TTTTTAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
18 2 0.05
19 14 0.36
20 21 0.54
21 2 0.05
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTATAATATTTTTACAAT
Found at i:24412554 original size:19 final size:18
Alignment explanation
Indices: 24412448--24412557 Score: 87
Period size: 19 Copynumber: 5.9 Consensus size: 18
24412438 CTTAATAAAA
24412448 TTTTATAA-TTTTTATAT
1 TTTTATAATTTTTTATAT
* *
24412465 TTCTATATATTTTATAATAT
1 TTTTATA-ATTTT-TTATAT
** * *
24412485 TTTTACGATTTTTATAAAA
1 TTTTATAATTTTT-TATAT
*
24412504 TTTTACAATTTTTTATAT
1 TTTTATAATTTTTTATAT
* *
24412522 TTTTTTACAATTTTTATAT
1 TTTTATA-ATTTTTTATAT
24412541 TTTTAATAATTTTTTAT
1 TTTT-ATAATTTTTTAT
24412558 TAAAATTTAA
Statistics
Matches: 71, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
17 6 0.08
18 10 0.14
19 44 0.62
20 11 0.15
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTTTATAATTTTTTATAT
Found at i:24412716 original size:87 final size:87
Alignment explanation
Indices: 24412625--24412810 Score: 231
Period size: 87 Copynumber: 2.2 Consensus size: 87
24412615 AAATATGTGG
*
24412625 CTTAATTTTATTTTTTT-TAAG-TTTGAGGGTCATTTTGATGTATTTTAAAAGTTTAAGTAC-CT
1 CTTAATTTTATTTTTTTAAAAGATTTGAGGG-CATTTTGATGTATTTTAAAAGTTTAAGTACTC-
* **
24412687 AATTGAGTGTACAAAAAAA-TAGGGA
64 AAAT-A-AATACAAAAAAATTAGGGA
* * *
24412712 CTTAA-TTGATTTTTTTAAAAGATTTGAGGGCCTTTTGATGTATTTTAAAATTTTAAGTACTCAA
1 CTTAATTTTATTTTTTTAAAAGATTTGAGGGCATTTTGATGTATTTTAAAAGTTTAAGTACTCAA
24412776 ATAAATACAAAAAAATTAGGGA
66 ATAAATACAAAAAAATTAGGGA
24412798 CTTAATTTT-TTTT
1 CTTAATTTTATTTT
24412811 AATTTAAAGG
Statistics
Matches: 86, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
85 10 0.12
86 26 0.30
87 41 0.48
88 9 0.10
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (87 bp):
CTTAATTTTATTTTTTTAAAAGATTTGAGGGCATTTTGATGTATTTTAAAAGTTTAAGTACTCAA
ATAAATACAAAAAAATTAGGGA
Found at i:24413407 original size:23 final size:23
Alignment explanation
Indices: 24413377--24413422 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
24413367 TATAGAGTAA
* *
24413377 CTCTGTCTTTTGACACGTTTTTT
1 CTCTGTCTTTTAACACGCTTTTT
24413400 CTCTGTCTTTTAACACGCTTTTT
1 CTCTGTCTTTTAACACGCTTTTT
24413423 GCTTGTTAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.11, C:0.24, G:0.11, T:0.54
Consensus pattern (23 bp):
CTCTGTCTTTTAACACGCTTTTT
Found at i:24418251 original size:43 final size:43
Alignment explanation
Indices: 24418203--24418288 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
24418193 TATGTGATTG
24418203 ATATTGAAATGGA-AAAGATGAGAAATGACTATGAGATGAGAAA
1 ATATTGAAAT-GACAAAGATGAGAAATGACTATGAGATGAGAAA
* * *
24418246 ATATTGAAATGACAAATATGTGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGACAAAGATGAGAAATGACTATGAGATGAGAAA
24418289 TGAGATATGA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
42 2 0.05
43 37 0.95
ACGTcount: A:0.50, C:0.02, G:0.23, T:0.24
Consensus pattern (43 bp):
ATATTGAAATGACAAAGATGAGAAATGACTATGAGATGAGAAA
Found at i:24418264 original size:15 final size:16
Alignment explanation
Indices: 24418244--24418273 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24418234 TGAGATGAGA
24418244 AAATAT-TGAAATGAC
1 AAATATGTGAAATGAC
24418259 AAATATGTGAAATGA
1 AAATATGTGAAATGA
24418274 TTATGAGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.27
Consensus pattern (16 bp):
AAATATGTGAAATGAC
Found at i:24422332 original size:49 final size:49
Alignment explanation
Indices: 24422279--24422377 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 49
24422269 ATAAGGGATA
* *
24422279 AAATAGTGATAAGAATGTAGACAGTGGAAGACTAAGTTTAGCAATGTAT
1 AAATAGTGATAAGAATGTAGACAGTAGAAGACCAAGTTTAGCAATGTAT
* *
24422328 AAATAGTGATAAGAGTGTAGACAGTAGAAGACCAAGTTTAGCATTGTAT
1 AAATAGTGATAAGAATGTAGACAGTAGAAGACCAAGTTTAGCAATGTAT
24422377 A
1 A
24422378 GCCTAGATCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.26
Consensus pattern (49 bp):
AAATAGTGATAAGAATGTAGACAGTAGAAGACCAAGTTTAGCAATGTAT
Found at i:24429475 original size:17 final size:17
Alignment explanation
Indices: 24429442--24429474 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24429432 ATAAAATAGA
*
24429442 ATATTTTTATTGATTTT
1 ATATTTTTATTAATTTT
24429459 ATATTTTTA-TAATTTT
1 ATATTTTTATTAATTTT
24429475 TTTTTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
ATATTTTTATTAATTTT
Found at i:24433282 original size:52 final size:52
Alignment explanation
Indices: 24433204--24433307 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
24433194 ACCGCACCAC
* * * *
24433204 ATCTTTCAGACAATATCTCCTAAGTGTAAGTAAGTATAAGTTAACAAGTTCA
1 ATCTTCCACACAAAATCTCCCAAGTGTAAGTAAGTATAAGTTAACAAGTTCA
24433256 ATCTTCCACACAAAATCTCCCAAGTGTAAGTAAGTATAAGTTAACAAGTTCA
1 ATCTTCCACACAAAATCTCCCAAGTGTAAGTAAGTATAAGTTAACAAGTTCA
24433308 GGTATCTTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (52 bp):
ATCTTCCACACAAAATCTCCCAAGTGTAAGTAAGTATAAGTTAACAAGTTCA
Found at i:24443201 original size:29 final size:29
Alignment explanation
Indices: 24443140--24443194 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
24443130 GCCATAGTAT
24443140 GGGGGAAATTGAAAAGTCTTAAACCTTAG
1 GGGGGAAATTGAAAAGTCTTAAACCTTAG
*
24443169 GGGGGAAA-TGAAAAGTCTTAGACCTT
1 GGGGGAAATTGAAAAGTCTTAAACCTT
24443195 GGAGGGGCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.24
Consensus pattern (29 bp):
GGGGGAAATTGAAAAGTCTTAAACCTTAG
Found at i:24450290 original size:37 final size:37
Alignment explanation
Indices: 24450248--24450320 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
24450238 CGATGATGGC
24450248 AAAGAGTTTTGATTGTTTGTCCCTGTGTATGCAAAAG
1 AAAGAGTTTTGATTGTTTGTCCCTGTGTATGCAAAAG
* * *
24450285 AAAGAGTTTTGATTGTTTTTTCTTGTGTATGCAAAA
1 AAAGAGTTTTGATTGTTTGTCCCTGTGTATGCAAAA
24450321 ATCCTTCCGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.42
Consensus pattern (37 bp):
AAAGAGTTTTGATTGTTTGTCCCTGTGTATGCAAAAG
Found at i:24450709 original size:44 final size:45
Alignment explanation
Indices: 24450659--24450748 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 45
24450649 TTGTTTGAAT
*
24450659 ATGATATTAACGTGTA-CTCACTAAAG-TTTTTTGTGAAATTTTTG
1 ATGATATTAACGTGTACCT-ACTAAAGTTTTTTTGTGAAATCTTTG
*
24450703 ATGATATTAACGTGTACCTATTAAAGTTTTTTTGTGAAATCTTTG
1 ATGATATTAACGTGTACCTACTAAAGTTTTTTTGTGAAATCTTTG
24450748 A
1 A
24450749 ATTTGTGCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
44 22 0.52
45 20 0.48
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.46
Consensus pattern (45 bp):
ATGATATTAACGTGTACCTACTAAAGTTTTTTTGTGAAATCTTTG
Found at i:24450971 original size:492 final size:483
Alignment explanation
Indices: 24450055--24451034 Score: 1519
Period size: 492 Copynumber: 2.0 Consensus size: 483
24450045 ACAATGAGTT
24450055 TTACTCTTAATTGGCCTTGTGAAGTAAACTTTATTGATGTTGTTCGGTCTGATCGACAAACCATG
1 TTACTCTTAATTGGCCTTGTGAAGTAAACTTTATTGATGTTGTTCGGTCTGATCGACAAACCATG
*
24450120 AATTTAATCTTGCGTGATAATGATTTTTCACGAAAAACACATAATTTGTTTGAATATGATATTAA
66 AATTTAATCTTGCATGATAATGATTTTTCACGAAAAACACATAATTTGTTTGAATATGATATTAA
24450185 CGTGTACCCACTAAAGTTTTTTGTGAAATTTTTGAATTTGTGCAAATCTGTTTCGATGATGGCAA
131 CGTGTACCCACTAAAGTTTTTTGTGAAATTTTTGAATTTGTGCAAATCTGTTTCGATGATGG-AA
* **
24450250 AGAGTTTTGATTGTTTGTCCCTGTGTATGCAAAAGAAAGAGTTTTGATTGTTTTTTCTTGTGTAT
195 AGAGTTTTGATTGTGTGTCAATGTGTATGCAAAAGAAAGAGTTTTGATTGTTTTTTCTTGTGTAT
24450315 GCAAAAATCCTTCCGGTTTGACATATTTGATTTACTAAACCCTTTGCTACACTTTAGCATAAGTA
260 GCAAAAATCCTTCCGGTTTGACATATTTGATTTACTAAACCCTTTGCTACACTTTAGCATAAGTA
*
24450380 ATCAAACTCATGTTTTTAAACCCGGAATATGTTTTGATTCATTTTGCGGGAAAAACCAGCATCTT
325 ATCAAACTCATGTTTTTAAACCCGGAATATGTTTTGATTCATTTTGCGGGAAAAAACAGCATCTT
* *
24450445 AAAGTTTGTGCAAATAATTTCTATTTGTTTGATACTTGGTTTTTGAATAAGGAAACGAGGATTGA
390 AAAGTTTGTACAAATAATTTCTATTTGTTTGATACTTGGTTTTTGAATAAGGAAACAAGGATTGA
24450510 CAAATTTGATTCCAATTTAAATTTGTTCC
455 CAAATTTGATTCCAATTTAAATTTGTTCC
24450539 TTACTCTTAATTGGCCTTGTGAAGTAAACTTTATTGATGTTGTTCGGTCTGATCGACAAACCATG
1 TTACTCTTAATTGGCCTTGTGAAGTAAACTTTATTGATGTTGTTCGGTCTGATCGACAAACCATG
24450604 AATTTAATCTTGCATGATAATGATTTTTCACGAAAAACACATAATTTGTTTGAATATGATATTAA
66 AATTTAATCTTGCATGATAATGATTTTTCACGAAAAACACATAATTTGTTTGAATATGATATTAA
* ** *
24450669 CGTGTACTCACTAAAGTTTTTTGTGAAATTTTTGATGATATTAACGTGTACCTAT-TAAAGTTTT
131 CGTGTACCCACTAAAGTTTTTTGTGAAATTTTTGA--AT-TT---GTG--CAAATCT---GTTTC
** * * **
24450733 TTTG-T-G-AA-A-TCTTTGAATT-TGTG-CAAATTTGT-TTCAATGGTGGGAAAGAGTTTTGAT
185 GATGATGGAAAGAGT-TTTG-ATTGTGTGTC-AATGTGTATGCAA----AAGAAAGAGTTTTGAT
* *
24450790 TGTTTTTTCTTGTGTATGCAAAAATCCTTCCGGTTTGACATGTTTGATTTACTGAACCCTTTGCT
243 TGTTTTTTCTTGTGTATGCAAAAATCCTTCCGGTTTGACATATTTGATTTACTAAACCCTTTGCT
24450855 ACACTTTAGCATAAGTAATCAAACTCATGTTTTTAAACCCGGAATATGTTTTGATTCATTTTGCG
308 ACACTTTAGCATAAGTAATCAAACTCATGTTTTTAAACCCGGAATATGTTTTGATTCATTTTGCG
* *
24450920 GGAAAAAACAGCATTTTAAAGTTTGTACGAATAATTTCTATTTGTTTGATACTTGGTTTTTGAAT
373 GGAAAAAACAGCATCTTAAAGTTTGTACAAATAATTTCTATTTGTTTGATACTTGGTTTTTGAAT
* *
24450985 AAGGAAACAAGGATTGACAAATTTGATTTCAATTTAAATTTGTTCT
438 AAGGAAACAAGGATTGACAAATTTGATTCCAATTTAAATTTGTTCC
24451031 TTAC
1 TTAC
24451035 GTCATTTTGT
Statistics
Matches: 455, Mismatches: 23, Indels: 28
0.90 0.05 0.06
Matches are distributed among these distances:
484 163 0.36
486 2 0.00
487 2 0.00
488 6 0.01
489 12 0.03
490 8 0.02
491 1 0.00
492 254 0.56
493 1 0.00
494 6 0.01
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (483 bp):
TTACTCTTAATTGGCCTTGTGAAGTAAACTTTATTGATGTTGTTCGGTCTGATCGACAAACCATG
AATTTAATCTTGCATGATAATGATTTTTCACGAAAAACACATAATTTGTTTGAATATGATATTAA
CGTGTACCCACTAAAGTTTTTTGTGAAATTTTTGAATTTGTGCAAATCTGTTTCGATGATGGAAA
GAGTTTTGATTGTGTGTCAATGTGTATGCAAAAGAAAGAGTTTTGATTGTTTTTTCTTGTGTATG
CAAAAATCCTTCCGGTTTGACATATTTGATTTACTAAACCCTTTGCTACACTTTAGCATAAGTAA
TCAAACTCATGTTTTTAAACCCGGAATATGTTTTGATTCATTTTGCGGGAAAAAACAGCATCTTA
AAGTTTGTACAAATAATTTCTATTTGTTTGATACTTGGTTTTTGAATAAGGAAACAAGGATTGAC
AAATTTGATTCCAATTTAAATTTGTTCC
Found at i:24454816 original size:6 final size:6
Alignment explanation
Indices: 24454805--24454846 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
24454795 ATCTTCGTAC
* *
24454805 TCATCT TCATCT CCA-CT ATCGTCT TCATCT TCATCT TCATCT
1 TCATCT TCATCT TCATCT -TCATCT TCATCT TCATCT TCATCT
24454847 CCACCATTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 2 0.07
6 26 0.87
7 2 0.07
ACGTcount: A:0.17, C:0.36, G:0.02, T:0.45
Consensus pattern (6 bp):
TCATCT
Found at i:24463274 original size:30 final size:30
Alignment explanation
Indices: 24463240--24463335 Score: 156
Period size: 30 Copynumber: 3.2 Consensus size: 30
24463230 CCTCCACCTC
*
24463240 CTGGTGCTCCTCCACCACCTCCTCCGAAAG
1 CTGGTGCTCCTCCACCACCTCCTCCAAAAG
* *
24463270 CTGGTGCTCCTCCACCACCTCCTTCTAAAG
1 CTGGTGCTCCTCCACCACCTCCTCCAAAAG
*
24463300 CTGGCGCTCCTCCACCACCTCCTCCAAAAG
1 CTGGTGCTCCTCCACCACCTCCTCCAAAAG
24463330 CTGGTG
1 CTGGTG
24463336 GTGGTCCTAG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.17, C:0.45, G:0.17, T:0.22
Consensus pattern (30 bp):
CTGGTGCTCCTCCACCACCTCCTCCAAAAG
Found at i:24473379 original size:25 final size:23
Alignment explanation
Indices: 24473346--24473391 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
24473336 CTCTCATCTC
*
24473346 TCTTCTCTTGGTTTTTTCTTTGCTT
1 TCTTCTCTT--TTTTTTATTTGCTT
*
24473371 TCTTTTCTTTTTTTTATTTGC
1 TCTTCTCTTTTTTTTATTTGC
24473392 ATAGCATGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.02, C:0.17, G:0.09, T:0.72
Consensus pattern (23 bp):
TCTTCTCTTTTTTTTATTTGCTT
Found at i:24479438 original size:18 final size:19
Alignment explanation
Indices: 24479406--24479441 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
24479396 AAAAATTAAA
24479406 AAAATTTCATAAAAAATAG
1 AAAATTTCATAAAAAATAG
*
24479425 AAAA-TTCATTAAAAATA
1 AAAATTTCATAAAAAATA
24479442 AAGAAAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAATTTCATAAAAAATAG
Found at i:24479628 original size:16 final size:16
Alignment explanation
Indices: 24479590--24479621 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24479580 TTAGATCAAG
*
24479590 ATATTTATATATATAT
1 ATATGTATATATATAT
24479606 ATATGTATATATATAT
1 ATATGTATATATATAT
24479622 CATTGTACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATATGTATATATATAT
Found at i:24480856 original size:11 final size:10
Alignment explanation
Indices: 24480836--24480875 Score: 53
Period size: 11 Copynumber: 3.7 Consensus size: 10
24480826 CTGGAAGATT
24480836 AAAAAAAATA
1 AAAAAAAATA
24480846 AAAAAACAATA
1 AAAAAA-AATA
24480857 AAAATAAAATA
1 AAAA-AAAATA
24480868 AAATAAAA
1 AAA-AAAA
24480876 GTGGATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.22
11 18 0.67
12 3 0.11
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:24482707 original size:14 final size:13
Alignment explanation
Indices: 24482685--24482724 Score: 62
Period size: 14 Copynumber: 3.0 Consensus size: 13
24482675 ATTTTTTAAA
24482685 ATTTTAATAAATT
1 ATTTTAATAAATT
24482698 ATTATTAATAAATT
1 ATT-TTAATAAATT
*
24482712 ATTTTAAAAAATT
1 ATTTTAATAAATT
24482725 GGGTTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTTTAATAAATT
Found at i:24486113 original size:21 final size:19
Alignment explanation
Indices: 24486076--24486150 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
24486066 AATCATATCT
24486076 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
24486095 TCCAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
24486116 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
24486135 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
24486151 CTTGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:24486579 original size:44 final size:43
Alignment explanation
Indices: 24486496--24486940 Score: 421
Period size: 44 Copynumber: 10.1 Consensus size: 43
24486486 AGACTTGTAT
* * * ** * *
24486496 CTTCGATCTACTTCGCCACCAGTACGGGAAGACATGATCTGCTA
1 CTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTACTA
* * * * * * * *
24486540 CATTTGATCTATTTCATGTCGATACATGAAGATAAGATCTGCTTT
1 C-TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTAC-TA
*
24486585 CTTCGATCTACTT--CGCCAATACATGAAGACAAGATCTACTTT
1 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTAC-TA
* * *
24486627 CTTCGATCTACTT--CGCCACTAGTATGGGAAGACAAGATCTGCTA
1 CTTCGATCTACTTCACGCCAATA-CAT--GAAGACAAGATCTACTA
* *
24486671 TCTTCGATCTACTTCACGCCAATACATGAAGGCAAGATCTATTA
1 -CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTA
*
24486715 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTA
1 -CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTA
24486759 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTA
1 -CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTA
* * * *
24486803 TATTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGATTT
1 -CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT-ACTA
* * * *** *
24486848 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTA
1 CTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTACTA
*
24486892 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTA
1 -CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTA
24486936 TCTTC
1 -CTTC
24486941 AACCTGCTCC
Statistics
Matches: 336, Mismatches: 54, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
42 44 0.13
43 2 0.01
44 206 0.61
45 75 0.22
46 2 0.01
47 7 0.02
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (43 bp):
CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTA
Found at i:24486776 original size:88 final size:88
Alignment explanation
Indices: 24486493--24486940 Score: 528
Period size: 89 Copynumber: 5.1 Consensus size: 88
24486483 ATAAGACTTG
* * * ** * * * *
24486493 TATCTTCGATCTACTTCGCCACCAGTACGGGAAGACATGATCTGCTA-CATTTGATCTATTTCAT
1 TATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTACTATC-TTTGATCTACTTCAC
* * *
24486557 GTCGATACATGAAGATAAGATCTGC
64 GCCAATACATGAAGACAAGATCTGC
* * *
24486582 TTTCTTCGATCTACTT--CGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTT--CGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCTTTGATCTACTTCACGC
* *
24486643 CACTAGTATGGGAAGACAAGATCTGC
66 CAATA-CAT--GAAGACAAGATCTGC
* *
24486669 TATCTTCGATCTACTTCACGCCAATACATGAAGGCAAGATCTATTATCTTTGATCTACTTCACGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCTTTGATCTACTTCACGC
*
24486734 CAATACATGAAGACAAGATCTAC
66 CAATACATGAAGACAAGATCTGC
*
24486757 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATATTTGATCTACTTCACGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCTTTGATCTACTTCACGC
*
24486822 CAATACATGAAGACAAGATCTGA
66 CAATACATGAAGACAAGATCTGC
* * * * *** * *
24486845 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACG
1 TATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTACTATCTTTGATCTACTTCACG
24486910 CCAATACATGAAGACAAGATCTGC
65 CCAATACATGAAGACAAGATCTGC
24486934 TATCTTC
1 TATCTTC
24486941 AACCTGCTCC
Statistics
Matches: 309, Mismatches: 41, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
84 4 0.01
85 2 0.01
86 31 0.10
87 30 0.10
88 113 0.37
89 120 0.39
90 2 0.01
91 7 0.02
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (88 bp):
TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCTTTGATCTACTTCACGC
CAATACATGAAGACAAGATCTGC
Found at i:24487028 original size:45 final size:45
Alignment explanation
Indices: 24486977--24487116 Score: 160
Period size: 44 Copynumber: 3.2 Consensus size: 45
24486967 GCAAGGCTGG
24486977 TATCTTCGCTCTGCTTCGCTGTCGATGTAGGAAGGCAAGATCTGC
1 TATCTTCGCTCTGCTTCGCTGTCGATGTAGGAAGGCAAGATCTGC
* * * * *** * * *
24487022 TATCTTCAAC-CTGCTCCACT-ACGACCCAGGGAGGCAAG-GCTGG
1 TATCTTC-GCTCTGCTTCGCTGTCGATGTAGGAAGGCAAGATCTGC
24487065 TATCTTCGCTCTGCTTCGCTGTCGATGTAGGAAGGCAAGATCTGC
1 TATCTTCGCTCTGCTTCGCTGTCGATGTAGGAAGGCAAGATCTGC
24487110 TATCTTC
1 TATCTTC
24487117 AACCTGCTCC
Statistics
Matches: 71, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
42 1 0.01
43 18 0.25
44 26 0.37
45 25 0.35
46 1 0.01
ACGTcount: A:0.19, C:0.27, G:0.25, T:0.29
Consensus pattern (45 bp):
TATCTTCGCTCTGCTTCGCTGTCGATGTAGGAAGGCAAGATCTGC
Found at i:24487073 original size:88 final size:88
Alignment explanation
Indices: 24486924--24488446 Score: 1375
Period size: 88 Copynumber: 17.3 Consensus size: 88
24486914 TACATGAAGA
*
24486924 CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGCTCT
1 CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
* *
24486989 GCTTCGCTGTCGATGTAGGAAGG
66 GCTTCGCTGTCGATGCAGGGAGG
*
24487012 CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGCTCT
1 CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
* *
24487077 GCTTCGCTGTCGATGTAGGAAGG
66 GCTTCGCTGTCGATGCAGGGAGG
24487100 CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
1 CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
* ** * * * * *
24487165 GTTTAACTATTGGTACAGGAAGG
66 GCTTCGCTGTCGATGCAGGGAGG
* * *
24487188 CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGTTGGTATCTTCAACCT
1 CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
* ** * **
24487253 GCTCCGC-CACAACCCAGGGAGG
66 GCTTCGCTGTCGATGCAGGGAGG
* * * * * * * *** * * * * *
24487275 CAAG-GCTGGTATCTTCGATCTGCTTCGCTGTCGATGTAGGAAGGCAAGATCTGCTATCTTCAAC
1 CAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACCCAGGGAGGCAAG-GCTGGTATCTTCGAT
* * * * **
24487339 CTGCTCCACT-ACAACCCAGGGAGG
64 CTGCTTCGCTGTCGATGCAGGGAGG
* * * * * ** * *** * * * * *
24487363 CAAG-GCTGGTATCTTCGATCTGTTTAACTATTGGTACAGGAAGGCAAGATCTGCTATCTTCAAC
1 CAAGATCTGCTATCTTCAACCTGCTCCACTA-CGACCCAGGGAGGCAAG-GCTGGTATCTTCGAT
* * * **
24487427 CTGCTCCACT-ACGACCCAGGGAGG
64 CTGCTTCGCTGTCGATGCAGGGAGG
* * * ** * *
24487451 CAAGGT-TGGTATCTTCAACCTGCTCCACTACAAATCAAGGAGGCAAGGTTGGTATCTTCGATCT
1 CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
*
24487515 GCTTCGCTGTCGATGCAGGGATG
66 GCTTCGCTGTCGATGCAGGGAGG
* *
24487538 CAAGATCTGCTATCTTCAACCTGTTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
1 CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
* ** * * * * *
24487603 GTTTAACTATTGGTACAGGAAGG
66 GCTTCGCTGTCGATGCAGGGAGG
* * *
24487626 CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGTTGGTATCTTCAACCT
1 CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
* * * * *
24487691 GCTCCACT-ACAAAT-CAAGGAGG
66 GCTTCGCTGTC-GATGCAGGGAGG
* * * * * * * ** * * * * *
24487713 CAAGGT-TGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGGATGCAAGATCTGCTATCTTCAAC
1 CAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACCCAGGGAGGCAAG-GCTGGTATCTTCGAT
* * * **
24487777 CTG-TTCCACT-ACAACCCAGGGAGG
64 CTGCTT-CGCTGTCGATGCAGGGAGG
* * * * * ** * *** * * * * *
24487801 CAAG-GCTGGTATCTTCGATCTGTTTAACTATTGGTACAGGAAGGCAAGATCTGCTATCTTCAAC
1 CAAGATCTGCTATCTTCAACCTGCTCCACTA-CGACCCAGGGAGGCAAG-GCTGGTATCTTCGAT
* * * **
24487865 CTGCTCCACT-ACGACCCAGGGAGG
64 CTGCTTCGCTGTCGATGCAGGGAGG
* * * ** * *
24487889 CAAGGT-TGGTATCTTCAACCTGCTCCACTACAAATCAAGGAGGCAAGGTTGGTATCTTCGATCT
1 CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
* *
24487953 GCTTCGCTGTAGATGCAGGAAGG
66 GCTTCGCTGTCGATGCAGGGAGG
*
24487976 CAAGATCTGCTATCTTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATC
1 CAAGATCTGCTATC-TTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATC
*
24488041 TGCTTCGCTGTCGATGCAGGGATG
65 TGCTTCGCTGTCGATGCAGGGAGG
* *
24488065 CAAGATCTGCTATCTTCAACCTGTTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
1 CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
*
24488130 GCTTCGCTGTCGATGCAGGGATG
66 GCTTCGCTGTCGATGCAGGGAGG
* * *
24488153 CAAGATCTGCTATCTTCAACCTGATCCACTACAACCCAGGGAGGCAAGGCAGGTATCTTCGATCT
1 CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
*
24488218 GCTTCGCTGTCGATGCAGGGATG
66 GCTTCGCTGTCGATGCAGGGAGG
* * *
24488241 CAAGATCTGCTATCTTCAACCTGATCCACTACAACCCAGGGAGGCAAGGCAGGTATCTTCGATCT
1 CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
*
24488306 GCTTCGCTGTCGATGCAGGGATG
66 GCTTCGCTGTCGATGCAGGGAGG
* *
24488329 CAAGATCTGCTATCTTCAACCTGATCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
1 CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
* * * *
24488394 GCTTCACCGTC-AGTACAGGAAGG
66 GCTTCGCTGTCGA-TGCAGGGAGG
* * *
24488417 AAAGATCTGTTATTTTCAACCTGCTCCACT
1 CAAGATCTGCTATCTTCAACCTGCTCCACT
24488447 GTAAACCAGG
Statistics
Matches: 1238, Mismatches: 177, Indels: 40
0.85 0.12 0.03
Matches are distributed among these distances:
86 73 0.06
87 102 0.08
88 981 0.79
89 82 0.07
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (88 bp):
CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
GCTTCGCTGTCGATGCAGGGAGG
Found at i:24487254 original size:131 final size:131
Alignment explanation
Indices: 24486919--24488300 Score: 931
Period size: 131 Copynumber: 10.5 Consensus size: 131
24486909 GCCAATACAT
* *
24486919 GAAGACAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTC
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGTTGGTATCTTC
* * * * *** * * * * * * *
24486984 -GCTCTGCTTCGCTGTCGATGTAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTA-CGAC
66 AAC-CTGCTCCACT-ACGACCCAGGGAGGCAAG-GCTGGTATCTTCGATCTGCTTCACTATCGAT
24487047 CCAG
128 CCAG
* * * * * * * *** * * *
24487051 GGAGGCAAG-GCTGGTATCTTC-GCTCTGCTTCGCTGTCGATGTAGGAAGGCAAGATCTGCTATC
1 GAAGGCAAGATCTGCTATCTTCAAC-CTGCTCCACT-ACGACCCAGGGAGGCAAGGT-TGGTATC
* * * *
24487114 TTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGTTTAACTATTGGT
63 TTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTATCGAT
*
24487179 ACAG
128 CCAG
24487183 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGTTGGTATCTTC
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGTTGGTATCTTC
* * * * * **
24487248 AACCTGCTCCGCCACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGTA
66 AACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTATCGATCCA
24487313 G
131 G
* *
24487314 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTC
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGTTGGTATCTTC
* * * ** * *** * * * * * * *
24487379 GATCTGTTTAACTATTGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTA-CGACC
66 AACCTGCTCCACTA-CGACCCAGGGAGGCAAG-GCTGGTATCTTCGATCTGCTTCACTATCGATC
24487443 CAG
129 CAG
* * * * ** *
24487446 GGAGGCAAGGT-TGGTATCTTCAACCTGCTCCACTACAAATCAAGGAGGCAAGGTTGGTATCTTC
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGTTGGTATCTTC
* * * * * ** * * * * * * *
24487510 GATCTGCTTCGCTGTCGATGCAGGGATGCAAGATCTGCTATCTTCAACCTG-TTCCACTA-CAAC
66 AACCTGCTCCACT-ACGACCCAGGGAGGCAAG-GCTGGTATCTTCGATCTGCTT-CACTATCGAT
24487573 CCAG
128 CCAG
* * * * * * ** * *** * * *
24487577 GGAGGCAAG-GCTGGTATCTTCGATCTGTTTAACTATTGGTACAGGAAGGCAAGATCTGCTATCT
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTA-CGACCCAGGGAGGCAAGGT-TGGTATCT
* * * * *
24487641 TCAACCTGCTCCACTACGACCCAGGGAGGCAAGGTTGGTATCTTCAACCTGCTCCACTA-CAAAT
64 TCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTATC-GAT
*
24487705 CAAG
128 CCAG
* * * * * * * ** * * *
24487709 G-AGGCAAGGT-TGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGGATGCAAGATCTGCTATCT
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACCCAGGGAGGCAAGGT-TGGTATCT
* * * * * * *
24487772 TCAACCTGTTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGTTTAACTATTGGTA
64 TCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTATCGATC
24487837 CAG
129 CAG
24487840 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGTTGGTATCTTC
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGTTGGTATCTTC
* ** * * * * * *
24487905 AACCTGCTCCACTACAAATCAAGGAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGTAGATGCA
66 AACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTATCGATCCA
24487970 G
131 G
* *
24487971 GAAGGCAAGATCTGCTATCTTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTT
1 GAAGGCAAGATCTGCTATC-TTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGTTGGTATCTT
* * * * * ** * * * * * *
24488036 CGATCTGCTTCGCTGTCGATGCAGGGATGCAAGATCTGCTATCTTCAACCTG-TTCCACTA-CAA
65 CAACCTGCTCCACT-ACGACCCAGGGAGGCAAG-GCTGGTATCTTCGATCTGCTT-CACTATCGA
*
24488099 CCCAG
127 TCCAG
* * * * * * * * ** * * *
24488104 GGAGGCAAG-GCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGGATGCAAGATCTGCTATCT
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACCCAGGGAGGCAAGGT-TGGTATCT
* * * * * *
24488168 TCAACCTGATCCACTACAACCCAGGGAGGCAAGGCAGGTATCTTCGATCTGCTTCGCTGTCGATG
64 TCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTATCGATC
24488233 CAG
129 CAG
* * * * **
24488236 GGATGCAAGATCTGCTATCTTCAACCTGATCCACTACAACCCAGGGAGGCAAGGCAGGTATCTTC
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGTTGGTATCTTC
24488301 GATCTGCTTC
Statistics
Matches: 968, Mismatches: 252, Indels: 61
0.76 0.20 0.05
Matches are distributed among these distances:
130 2 0.00
131 544 0.56
132 253 0.26
133 151 0.16
134 18 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (131 bp):
GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGTTGGTATCTTC
AACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTATCGATCCA
G
Found at i:24487270 original size:219 final size:219
Alignment explanation
Indices: 24487022--24488124 Score: 1891
Period size: 219 Copynumber: 5.0 Consensus size: 219
24487012 CAAGATCTGC
* ** * * *
24487022 TATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGCTCTGCTTCGCTGT
1 TATCTTCAACCTGCTCCACTACAAATCAAGGAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGT
* *
24487087 CGATGTAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTG
66 CGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTG
24487152 GTATCTTCGATCTGTTTAACTATTGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCAC
131 GTATCTTCGATCTGTTTAACTATTGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCAC
24487217 TACGACCCAGGGAGGCAAGGTTGG
196 TACGACCCAGGGAGGCAAGGTTGG
* * ** * *
24487241 TATCTTCAACCTGCTCCGCCACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGT
1 TATCTTCAACCTGCTCCACTACAAATCAAGGAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGT
*
24487306 CGATGTAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTG
66 CGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTG
24487371 GTATCTTCGATCTGTTTAACTATTGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCAC
131 GTATCTTCGATCTGTTTAACTATTGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCAC
24487436 TACGACCCAGGGAGGCAAGGTTGG
196 TACGACCCAGGGAGGCAAGGTTGG
24487460 TATCTTCAACCTGCTCCACTACAAATCAAGGAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGT
1 TATCTTCAACCTGCTCCACTACAAATCAAGGAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGT
* * *
24487525 CGATGCAGGGATGCAAGATCTGCTATCTTCAACCTGTTCCACTACAACCCAGGGAGGCAAGGCTG
66 CGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTG
24487590 GTATCTTCGATCTGTTTAACTATTGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCAC
131 GTATCTTCGATCTGTTTAACTATTGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCAC
24487655 TACGACCCAGGGAGGCAAGGTTGG
196 TACGACCCAGGGAGGCAAGGTTGG
24487679 TATCTTCAACCTGCTCCACTACAAATCAAGGAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGT
1 TATCTTCAACCTGCTCCACTACAAATCAAGGAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGT
* * *
24487744 CGATGCAGGGATGCAAGATCTGCTATCTTCAACCTGTTCCACTACAACCCAGGGAGGCAAGGCTG
66 CGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTG
24487809 GTATCTTCGATCTGTTTAACTATTGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCAC
131 GTATCTTCGATCTGTTTAACTATTGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCAC
24487874 TACGACCCAGGGAGGCAAGGTTGG
196 TACGACCCAGGGAGGCAAGGTTGG
24487898 TATCTTCAACCTGCTCCACTACAAATCAAGGAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGT
1 TATCTTCAACCTGCTCCACTACAAATCAAGGAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGT
*
24487963 AGATGCAGGAAGGCAAGATCTGCTATCTTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCT
66 CGATGCAGGAAGGCAAGATCTGCTATC-TTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCT
* ** * * * * * * *
24488028 GGTATCTTCGATCTGCTTCGCTGTCGATGCAGGGATGCAAGATCTGCTATCTTCAACCTGTTCCA
130 GGTATCTTCGATCTGTTTAACTATTGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCA
* *
24488093 CTACAACCCAGGGAGGCAAGGCTGG
195 CTACGACCCAGGGAGGCAAGGTTGG
24488118 TATCTTC
1 TATCTTC
24488125 GATCTGCTTC
Statistics
Matches: 852, Mismatches: 31, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
219 731 0.86
220 121 0.14
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (219 bp):
TATCTTCAACCTGCTCCACTACAAATCAAGGAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGT
CGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTG
GTATCTTCGATCTGTTTAACTATTGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCAC
TACGACCCAGGGAGGCAAGGTTGG
Found at i:24495390 original size:21 final size:21
Alignment explanation
Indices: 24495353--24495407 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
24495343 AATCATATCT
24495353 TCCAAGATTGC--ATATCATA
1 TCCAAGATTGCATATATCATA
24495372 TCCAAGATTGCATATATCATA
1 TCCAAGATTGCATATATCATA
* *
24495393 TCTAAGATTGTATAT
1 TCCAAGATTGCATAT
24495408 TCTTGAAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 11 0.34
21 21 0.66
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (21 bp):
TCCAAGATTGCATATATCATA
Found at i:24499890 original size:31 final size:31
Alignment explanation
Indices: 24499811--24499879 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
24499801 ATGGTGGCTA
*
24499811 AACTATTTGAATA-TTTTTATTTAAGTCATTG
1 AACTATTT-AAAAGTTTTTATTTAAGTCATTG
* *
24499842 AATTATTTAAAAGTTTTTATTTAAGTTATTG
1 AACTATTTAAAAGTTTTTATTTAAGTCATTG
*
24499873 AGCTATT
1 AACTATT
24499880 AAGATTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 3 0.09
31 29 0.91
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.52
Consensus pattern (31 bp):
AACTATTTAAAAGTTTTTATTTAAGTCATTG
Found at i:24500351 original size:19 final size:20
Alignment explanation
Indices: 24500302--24500353 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
24500292 AAATTTCAAA
* *
24500302 AAATTATAAAAACTACTTTT
1 AAATTATAAAAAATACATTT
* *
24500322 AAA-AATTAAAAATA-ATTT
1 AAATTATAAAAAATACATTT
24500340 AAATTATAAAAAAT
1 AAATTATAAAAAAT
24500354 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
18 6 0.24
19 16 0.64
20 3 0.12
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATTATAAAAAATACATTT
Found at i:24500369 original size:16 final size:16
Alignment explanation
Indices: 24500324--24500360 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
24500314 CTACTTTTAA
24500324 AAATTA-AAAATAATTT
1 AAATTATAAAA-AATTT
24500340 AAATTATAAAAAATTT
1 AAATTATAAAAAATTT
24500356 AAATT
1 AAATT
24500361 TAATTAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTATAAAAAATTT
Found at i:24513327 original size:28 final size:28
Alignment explanation
Indices: 24513279--24513338 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
24513269 CAGTACTCTC
* *
24513279 TTCTTCTTCTTTCTCGATCTTTTTCTTT
1 TTCTTCTTCTTTCTCGATCTTTTACTGT
* *
24513307 TTCTTCTTCTTT-TATGTTCTTTTACTGT
1 TTCTTCTTCTTTCT-CGATCTTTTACTGT
24513335 TTCT
1 TTCT
24513339 AGATCTGTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 1 0.04
28 26 0.96
ACGTcount: A:0.05, C:0.22, G:0.05, T:0.68
Consensus pattern (28 bp):
TTCTTCTTCTTTCTCGATCTTTTACTGT
Found at i:24514951 original size:463 final size:463
Alignment explanation
Indices: 24514086--24515000 Score: 1776
Period size: 463 Copynumber: 2.0 Consensus size: 463
24514076 TAGAGGGTTT
24514086 AATATTCCTCTTAAACAAAATTCTGTTGTACAGAGAACTAAAAAATTAGATGTGGAATTGTCTTG
1 AATATTCCTCTTAAACAAAATTCTGTTGTACAGAGAACTAAAAAATTAGATGTGGAATTGTCTTG
*
24514151 TTTGCTTGAATCTAGAGTCGAAAAAATAAGGCCCTTGCCATTTTAGATAAGCATTTTCATGATGG
66 TTTGCTTGAATCTAGAGTCAAAAAAATAAGGCCCTTGCCATTTTAGATAAGCATTTTCATGATGG
24514216 GAGTTATGTCTACAATTATGAGCATGCTATGAATGGGAGAATTTATTTGGTGATAGAGGTAATTA
131 GAGTTATGTCTACAATTATGAGCATGCTATGAATGGGAGAATTTATTTGGTGATAGAGGTAATTA
*
24514281 GTTCTTTTACTCAGTGTATAACTTATAAATTGCAAGTTCAGAATAATATTATTTTTCTTTCGATC
196 GTTCTTTTACTCAGTGTATAACTTATAAATTGCAAGTTCAGAACAATATTATTTTTCTTTCGATC
24514346 ATCTATGCTAGTAATGATGGTGTTAAAAGAAACGCTCTATGGTCTTACCTTGACAGTTTGAAGAA
261 ATCTATGCTAGTAATGATGGTGTTAAAAGAAACGCTCTATGGTCTTACCTTGACAGTTTGAAGAA
*
24514411 TCAAGTTGGGGATTCTCCTTGGATGCTTGGAGGTGATTATAATGTTATTTTTCTTCCTGAAGAGA
326 TCAAGTTGGGGATTCTCCTTAGATGCTTGGAGGTGATTATAATGTTATTTTTCTTCCTGAAGAGA
24514476 GTTCATGTTTCAATGGATCTAGTACTGCTAACATGAGTGATTTTCAGGATGTTATTAGTAGTACA
391 GTTCATGTTTCAATGGATCTAGTACTGCTAACATGAGTGATTTTCAGGATGTTATTAGTAGTACA
24514541 GAGAACTA
456 GAGAACTA
24514549 AATATTCCTCTTAAACAAAATTCTGTTGTACAGAGAACTAAAAAATTAGATGTGGAATTGTCTTG
1 AATATTCCTCTTAAACAAAATTCTGTTGTACAGAGAACTAAAAAATTAGATGTGGAATTGTCTTG
24514614 TTTGCTTGAATCTAGAGTCAAAAAAATAAGGCCCTTGCCATTTTAGATAAGCATTTTCATGATGG
66 TTTGCTTGAATCTAGAGTCAAAAAAATAAGGCCCTTGCCATTTTAGATAAGCATTTTCATGATGG
*
24514679 GAGTTATGTCTACAATTATGAGCATGCTGTGAATGGGAGAATTTATTTGGTGATAGAGGTAATTA
131 GAGTTATGTCTACAATTATGAGCATGCTATGAATGGGAGAATTTATTTGGTGATAGAGGTAATTA
*
24514744 GTTCTTTTACTCAGTGTATAACTTATAAATTGCAAGTTCAGAACAATATTCTTTTTCTTTCGATC
196 GTTCTTTTACTCAGTGTATAACTTATAAATTGCAAGTTCAGAACAATATTATTTTTCTTTCGATC
*
24514809 ATCTATGCTAGTAATGATGGTGTTGAAAGAAACGCTCTATGGTCTTACCTTGACAGTTTGAAGAA
261 ATCTATGCTAGTAATGATGGTGTTAAAAGAAACGCTCTATGGTCTTACCTTGACAGTTTGAAGAA
24514874 TCAAGTTGGGGATTCTCCTTAGATGCTTGGAGGTGATTATAATGTTATTTTTCTTCCTGAAGAGA
326 TCAAGTTGGGGATTCTCCTTAGATGCTTGGAGGTGATTATAATGTTATTTTTCTTCCTGAAGAGA
24514939 GTTCATGTTTCAATGGATCTAGTACTGCTAACATGAGTGATTTTCAGGATGTTATTAGTAGT
391 GTTCATGTTTCAATGGATCTAGTACTGCTAACATGAGTGATTTTCAGGATGTTATTAGTAGT
24515001 TTGGGCATTC
Statistics
Matches: 446, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
463 446 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.37
Consensus pattern (463 bp):
AATATTCCTCTTAAACAAAATTCTGTTGTACAGAGAACTAAAAAATTAGATGTGGAATTGTCTTG
TTTGCTTGAATCTAGAGTCAAAAAAATAAGGCCCTTGCCATTTTAGATAAGCATTTTCATGATGG
GAGTTATGTCTACAATTATGAGCATGCTATGAATGGGAGAATTTATTTGGTGATAGAGGTAATTA
GTTCTTTTACTCAGTGTATAACTTATAAATTGCAAGTTCAGAACAATATTATTTTTCTTTCGATC
ATCTATGCTAGTAATGATGGTGTTAAAAGAAACGCTCTATGGTCTTACCTTGACAGTTTGAAGAA
TCAAGTTGGGGATTCTCCTTAGATGCTTGGAGGTGATTATAATGTTATTTTTCTTCCTGAAGAGA
GTTCATGTTTCAATGGATCTAGTACTGCTAACATGAGTGATTTTCAGGATGTTATTAGTAGTACA
GAGAACTA
Found at i:24516648 original size:23 final size:22
Alignment explanation
Indices: 24516629--24516694 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
24516619 ATACACTTGG
24516629 ACCGTAGTGTCACTTTCACTAGT
1 ACCGTAGTG-CACTTTCACTAGT
* *
24516652 ACTGTAGTGCTGCTTTCACTAGT
1 ACCGTAGTGC-ACTTTCACTAGT
*
24516675 ACCGTAGTGCCACTATCACT
1 ACCGTAGTG-CACTTTCACT
24516695 TGCGCGCTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 1 0.03
23 34 0.94
24 1 0.03
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.33
Consensus pattern (22 bp):
ACCGTAGTGCACTTTCACTAGT
Found at i:24523555 original size:107 final size:107
Alignment explanation
Indices: 24523429--24523626 Score: 288
Period size: 107 Copynumber: 1.9 Consensus size: 107
24523419 GTCATTTTAA
** * * * * * *
24523429 AAAAAAATTGGGTGTTGGCCAGTAGATGGCTGGCACAAAGTATATTTTTCGGGTCTTAAGGCATT
1 AAAAAAATTGGGTACTGGCCAATAGATGACTGGAACAAAGTACATTTTTCGGGTCCTAAGACATT
24523494 TTTTTTACTTTGGGACACTGATGGCCGGCACAAGAGTTATTT
66 TTTTTTACTTTGGGACACTGATGGCCGGCACAAGAGTTATTT
* * * *
24523536 AAAAAAATTGTGTACTGGCCAATAGATGATTGGAACCAAGTACATTTTTTGGGTCCTAAGACATT
1 AAAAAAATTGGGTACTGGCCAATAGATGACTGGAACAAAGTACATTTTTCGGGTCCTAAGACATT
24523601 TTTTTTACTTTGGGACACTGATGGCC
66 TTTTTTACTTTGGGACACTGATGGCC
24523627 AGTACCACCT
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
107 79 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (107 bp):
AAAAAAATTGGGTACTGGCCAATAGATGACTGGAACAAAGTACATTTTTCGGGTCCTAAGACATT
TTTTTTACTTTGGGACACTGATGGCCGGCACAAGAGTTATTT
Found at i:24526753 original size:22 final size:22
Alignment explanation
Indices: 24526728--24526800 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
24526718 TTCTTATTCC
24526728 TAATTTAAAACACATTAAATTA
1 TAATTTAAAACACATTAAATTA
** * *
24526750 TAATACAATATACA-TACATATT-
1 TAATTTAAAACACATTA-A-ATTA
24526772 TAATTTAAAACACATTAAATATA
1 TAATTTAAAACACATTAAAT-TA
24526795 TTAATT
1 -TAATT
24526801 CAATTGAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
21 4 0.11
22 23 0.62
23 5 0.14
24 5 0.14
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (22 bp):
TAATTTAAAACACATTAAATTA
Found at i:24527202 original size:11 final size:11
Alignment explanation
Indices: 24527188--24527289 Score: 58
Period size: 11 Copynumber: 9.8 Consensus size: 11
24527178 GTGAATAAAG
24527188 TGAAATGAATA
1 TGAAATGAATA
*
24527199 TGAAATGAAAA
1 TGAAATGAATA
24527210 T--AA--AATA
1 TGAAATGAATA
* *
24527217 TGAACTGAATT
1 TGAAATGAATA
24527228 TGAAATGAA-A
1 TGAAATGAATA
*
24527238 CTAAAAT--AT-
1 -TGAAATGAATA
*
24527247 TTAAATGAATA
1 TGAAATGAATA
*
24527258 GGAAATGAAATA
1 TGAAATG-AATA
* *
24527270 TTAAATTAATA
1 TGAAATGAATA
24527281 TGAAATGAA
1 TGAAATGAA
24527290 AATAAAGTAT
Statistics
Matches: 66, Mismatches: 15, Indels: 20
0.65 0.15 0.20
Matches are distributed among these distances:
7 4 0.06
8 5 0.08
9 4 0.06
10 2 0.03
11 43 0.65
12 8 0.12
ACGTcount: A:0.56, C:0.02, G:0.14, T:0.28
Consensus pattern (11 bp):
TGAAATGAATA
Found at i:24527225 original size:29 final size:30
Alignment explanation
Indices: 24527188--24527267 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 30
24527178 GTGAATAAAG
24527188 TGAAATGAATATGAAATGAAAATAAAATA-
1 TGAAATGAATATGAAATGAAAATAAAATAT
* * *
24527217 TGAACTGAATTTGAAATGAAACTAAAATAT
1 TGAAATGAATATGAAATGAAAATAAAATAT
* *
24527247 TTAAATGAATAGGAAATGAAA
1 TGAAATGAATATGAAATGAAA
24527268 TATTAAATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 26 0.60
30 17 0.40
ACGTcount: A:0.56, C:0.03, G:0.15, T:0.26
Consensus pattern (30 bp):
TGAAATGAATATGAAATGAAAATAAAATAT
Found at i:24527280 original size:23 final size:24
Alignment explanation
Indices: 24527241--24527290 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
24527231 AATGAAACTA
24527241 AAATATTTAAATGAATAGGAAATG
1 AAATATTTAAATGAATAGGAAATG
* *
24527265 AAATA-TTAAATTAATATGAAATG
1 AAATATTTAAATGAATAGGAAATG
24527288 AAA
1 AAA
24527291 ATAAAGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (24 bp):
AAATATTTAAATGAATAGGAAATG
Found at i:24527292 original size:29 final size:27
Alignment explanation
Indices: 24527190--24527314 Score: 89
Period size: 29 Copynumber: 4.6 Consensus size: 27
24527180 GAATAAAGTG
*
24527190 AAATGAATATGAAATGAAAATAAAATAT
1 AAATTAATATGAAATGAAAAT-AAATAT
* * * *
24527218 GAACTGAATTTGAAATGAAACTAAA-AT
1 -AAATTAATATGAAATGAAAATAAATAT
* *
24527245 -ATTTAA-ATG-AATAGGAAATGAAATATT
1 AAATTAATATGAAAT-GAAAAT-AAATA-T
24527272 AAATTAATATGAAATGAAAATAAAGTAT
1 AAATTAATATGAAATGAAAATAAA-TAT
24527300 AAATTGAA-ATGAAAT
1 AAATT-AATATGAAAT
24527315 AAATTACAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
23 3 0.04
24 6 0.08
25 7 0.09
26 1 0.01
27 3 0.04
28 24 0.31
29 30 0.39
30 3 0.04
ACGTcount: A:0.58, C:0.02, G:0.13, T:0.28
Consensus pattern (27 bp):
AAATTAATATGAAATGAAAATAAATAT
Found at i:24527419 original size:12 final size:12
Alignment explanation
Indices: 24527402--24527483 Score: 53
Period size: 12 Copynumber: 6.8 Consensus size: 12
24527392 CAAATTTAGA
24527402 TGAAATGAAATG
1 TGAAATGAAATG
24527414 TGAAATGAAATG
1 TGAAATGAAATG
* * **
24527426 AGTAAT-AAAAA
1 TGAAATGAAATG
*
24527437 TGAAATG-AATT
1 TGAAATGAAATG
* *
24527448 TAGAAATGTAATT
1 T-GAAATGAAATG
24527461 TGGAAATTGAAAT-
1 T-GAAA-TGAAATG
24527474 TGAAATGAAA
1 TGAAATGAAA
24527484 AAAGAAAAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
11 15 0.27
12 26 0.46
13 10 0.18
14 5 0.09
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.28
Consensus pattern (12 bp):
TGAAATGAAATG
Found at i:24527692 original size:28 final size:27
Alignment explanation
Indices: 24527641--24527703 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
24527631 AAAACTAAAA
* * *
24527641 AAATGAAATGAGAAAATTATTGAATTT
1 AAATGAAATGAGAAAAATATTGAAATG
24527668 AAATGAAATTGAGAAAAA-ATATGAAATG
1 AAATGAAA-TGAGAAAAATAT-TGAAATG
24527696 AAATGAAA
1 AAATGAAA
24527704 AAAATTTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.32
28 21 0.68
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (27 bp):
AAATGAAATGAGAAAAATATTGAAATG
Found at i:24527698 original size:23 final size:21
Alignment explanation
Indices: 24527668--24527734 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
24527658 TATTGAATTT
24527668 AAATGAAATTGAGAAAAAATATG
1 AAATGAAA-TGA-AAAAAATATG
*
24527691 AAATGAAATGAAAAAAATTTG
1 AAATGAAATGAAAAAAATATG
*
24527712 AATTG-AA--AAAAAAAT-TG
1 AAATGAAATGAAAAAAATATG
24527729 AAATGA
1 AAATGA
24527735 GACTACTTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 6 0.15
18 8 0.20
20 2 0.05
21 13 0.32
22 3 0.08
23 8 0.20
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.22
Consensus pattern (21 bp):
AAATGAAATGAAAAAAATATG
Found at i:24527837 original size:5 final size:5
Alignment explanation
Indices: 24527809--24527911 Score: 62
Period size: 5 Copynumber: 18.6 Consensus size: 5
24527799 AAAATTAATA
* *
24527809 AAATG AAATG TTAAATG AATATG AAATG AAATG TAATTTG TAATG AATATG
1 AAATG AAATG --AAATG AA-ATG AAATG AAATG -AA-ATG AAATG AA-ATG
* * * *
24527860 AAATA AAATG AAATG TTAAATG AATTTG TAATG ATTATG AAATG AAATG
1 AAATG AAATG AAATG --AAATG AA-ATG AAATG A-AATG AAATG AAATG
24527909 AAA
1 AAA
24527912 GTTTAAATGA
Statistics
Matches: 76, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
5 44 0.58
6 20 0.26
7 12 0.16
ACGTcount: A:0.51, C:0.00, G:0.17, T:0.32
Consensus pattern (5 bp):
AAATG
Done.