Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 182 of 410
Found at i:55507505 original size:25 final size:25
Alignment explanation
Indices: 55507471--55507520 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
55507461 TTATTTAGAT
55507471 TCTCGAGGATACATTGAGATGTTGC
1 TCTCGAGGATACATTGAGATGTTGC
*
55507496 TCTCGAGGATACGTTGAGATGTTGC
1 TCTCGAGGATACATTGAGATGTTGC
55507521 ATTCTTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (25 bp):
TCTCGAGGATACATTGAGATGTTGC
Found at i:55509625 original size:43 final size:42
Alignment explanation
Indices: 55509530--55509627 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
55509520 AATTTGAGAT
*
55509530 TTACATGTAAGACCATGTCTAGGACATCGGCATCATATTTGA
1 TTACATGTAAGACCATATCTAGGACATCGGCATCATATTTGA
*** * *
55509572 TTTTGTGTAAGACCCTATCTAGGATAGT-GGCATCGATATTTGA
1 TTACATGTAAGACCATATCTAGGACA-TCGGCATC-ATATTTGA
55509615 TTACATGTAAGAC
1 TTACATGTAAGAC
55509628 GACATCTGAG
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 26 0.58
43 19 0.42
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (42 bp):
TTACATGTAAGACCATATCTAGGACATCGGCATCATATTTGA
Found at i:55513589 original size:56 final size:55
Alignment explanation
Indices: 55513514--55513621 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 55
55513504 GTATCCATTG
* *
55513514 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATGGATAATTAAATTTGTAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATT-AATTTGTAA
* *
55513570 GATGATAAATTATCGCTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
55513622 CAGTCTATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
55 6 0.12
56 42 0.88
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGTAA
Found at i:55514681 original size:10 final size:10
Alignment explanation
Indices: 55514663--55514696 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
55514653 AATGTTATCA
*
55514663 TAATAATATT
1 TAATTATATT
55514673 TAATTATATT
1 TAATTATATT
55514683 TAATTATAATT
1 TAATTAT-ATT
55514694 TAA
1 TAA
55514697 ACAAATATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 16 0.73
11 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TAATTATATT
Found at i:55517475 original size:30 final size:30
Alignment explanation
Indices: 55517439--55517530 Score: 184
Period size: 30 Copynumber: 3.1 Consensus size: 30
55517429 AATCAGAAGT
55517439 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
55517469 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
55517499 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
55517529 TT
1 TT
55517531 CGGCTACTTA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGCGATTTAAACTAGC
Found at i:55519410 original size:39 final size:39
Alignment explanation
Indices: 55519356--55519508 Score: 236
Period size: 39 Copynumber: 3.9 Consensus size: 39
55519346 GAATGTTCGA
*
55519356 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
55519395 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
55519434 ATGATATCCGGGCTAAGCCCGAAGGCAA-TGTTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTG-TGCGAGTT
* *
55519473 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
55519509 GGTTACCATA
Statistics
Matches: 104, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
38 2 0.02
39 86 0.83
40 14 0.13
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:55519524 original size:40 final size:38
Alignment explanation
Indices: 55519357--55519538 Score: 211
Period size: 39 Copynumber: 4.6 Consensus size: 38
55519347 AATGTTCGAG
* *
55519357 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGC-ATTGTGCGAGTTA
*
55519396 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGC-ATTGTGCGAGTTA
* *
55519435 TGATATCCGGGCTAAGCCCGAAGGCAATGTTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCATTG-TGCGAGTTA
* *
55519474 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTA
** * *
55519514 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
55519539 TGTTTTGAAC
Statistics
Matches: 125, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
38 3 0.02
39 83 0.66
40 37 0.30
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (38 bp):
TGATATCCGGGCTAAGCCCGAAGGCATTGTGCGAGTTA
Found at i:55523036 original size:71 final size:71
Alignment explanation
Indices: 55522948--55523111 Score: 274
Period size: 71 Copynumber: 2.3 Consensus size: 71
55522938 CGATTTGTCT
*
55522948 CGTAACTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGTGACCTAGCTACATTTAT
1 CGTAACTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
55523013 CTTTCA
66 CTTTCA
* *
55523019 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCATGCATGCGACCTAGCTACATTTAT
1 CGTAACTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
55523084 CTTTCA
66 CTTTCA
* * *
55523090 GGTATCTCTCTTGCCTACATGG
1 CGTAACTCTCTTGTCTACATGG
55523112 GATACATCTC
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 87 1.00
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.37
Consensus pattern (71 bp):
CGTAACTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:55524720 original size:28 final size:28
Alignment explanation
Indices: 55524670--55524766 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
55524660 ATTTAAACCC
*
55524670 TAGGGGT-ATATT-GGTAATTTTGCTATT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
*
55524697 TAGGGGTAATTTCGGTAATATTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
55524725 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
55524753 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
55524767 TGATCTACGC
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 9 0.14
28 54 0.86
ACGTcount: A:0.22, C:0.08, G:0.26, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:55525281 original size:27 final size:27
Alignment explanation
Indices: 55525219--55525281 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
55525209 CAGTCACTTG
*
55525219 CCCACAA-GGGCAAAATAGTCATTTAA
1 CCCACAAGGGGCAAAATAGTAATTTAA
* * *
55525245 CACC-CTAGGGGCAAAATGGTAATTTTA
1 C-CCACAAGGGGCAAAATAGTAATTTAA
55525272 CCCACAAGGG
1 CCCACAAGGG
55525282 TATTTCAGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
26 5 0.17
27 24 0.83
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.19
Consensus pattern (27 bp):
CCCACAAGGGGCAAAATAGTAATTTAA
Found at i:55525383 original size:27 final size:26
Alignment explanation
Indices: 55525263--55525458 Score: 158
Period size: 27 Copynumber: 7.3 Consensus size: 26
55525253 GGGCAAAATG
** *
55525263 GTAATTTTACCCACAAGGGTATTTCA
1 GTAATTTTACAAACAAGGGTATTTTA
** * *
55525289 GTAATTTTACCCTACAGGGGTTTTTTA
1 GTAATTTTA-CAAACAAGGGTATTTTA
* * *
55525316 GTAATTTTTCAAACCATGGGTATTTTG
1 GTAATTTTACAAA-CAAGGGTATTTTA
*
55525343 GTAATTTTATAAACAAAGGGTATTTTA
1 GTAATTTTACAAAC-AAGGGTATTTTA
* *
55525370 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAAC-AAGGGTATTTTA
* ** ***
55525397 GTAGTTTTACAAATTGAGGGTATTGCG
1 GTAATTTTACAAA-CAAGGGTATTTTA
*
55525424 GTAATTTCACAAACCAAGGGTATTTTA
1 GTAATTTTACAAA-CAAGGGTATTTTA
55525451 GTAATTTT
1 GTAATTTT
55525459 GTAAATCGAG
Statistics
Matches: 133, Mismatches: 33, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
26 12 0.09
27 121 0.91
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (26 bp):
GTAATTTTACAAACAAGGGTATTTTA
Found at i:55525470 original size:54 final size:54
Alignment explanation
Indices: 55525315--55525472 Score: 174
Period size: 54 Copynumber: 2.9 Consensus size: 54
55525305 GGGGTTTTTT
* * * **
55525315 AGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAA-CAAAGGGTATTTT
1 AGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATC-GAGGGTATTGC
* * * * *
55525369 AGTAATTTTACAAACTAGGGGTATTTTGGTAGTTTTACAAATTGAGGGTATTGC
1 AGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTGC
* * * *
55525423 GGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 AGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCGAGGGTA
55525473 AAACAGTAAT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
54 85 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (54 bp):
AGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTGC
Found at i:55525480 original size:27 final size:27
Alignment explanation
Indices: 55525450--55525681 Score: 222
Period size: 27 Copynumber: 8.6 Consensus size: 27
55525440 AGGGTATTTT
*
55525450 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
55525477 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
55525504 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* * *
55525531 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
55525558 GGTAATTATGTAAAT-TAGGTGTAAAAC
1 AGTAATTCTGTAAATCGAGG-GTAAAAC
* *
55525585 GGTAATTCTGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* **
55525612 -GATAATTTTACAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
55525639 AGTAATTCTATAAA-CTGAGGGTAAAAT
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
55525666 GGTAATTTTGTAAATC
1 AGTAATTCTGTAAATC
55525682 AGGAGTACTT
Statistics
Matches: 171, Mismatches: 24, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
26 5 0.03
27 160 0.94
28 6 0.04
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:55525681 original size:81 final size:81
Alignment explanation
Indices: 55525452--55525681 Score: 284
Period size: 81 Copynumber: 2.8 Consensus size: 81
55525442 GGTATTTTAG
**
55525452 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAATAATTCTGTAA
1 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAAT-AAGGGTAAAACGGTAATTCTGTAA
55525517 A-CTGAGGGTAAAACGA
65 ATCTGAGGGTAAAACGA
* * ** * *
55525533 TAATTATGTAAATCGGGGGTAAAATGGTAATTATGTAAATTAGGTGTAAAACGGTAATTCTGTAA
1 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATAAGG-GTAAAACGGTAATTCTGTAA
*
55525598 ATC-GGGGGTAAAACGA
65 ATCTGAGGGTAAAACGA
** * * * *
55525614 TAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAACTGAGGGTAAAATGGTAATTTTGTAA
1 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAA-TAAGGGTAAAACGGTAATTCTGTAA
55525679 ATC
65 ATC
55525682 AGGAGTACTT
Statistics
Matches: 126, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
80 3 0.02
81 118 0.94
82 5 0.04
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (81 bp):
TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATAAGGGTAAAACGGTAATTCTGTAAA
TCTGAGGGTAAAACGA
Found at i:55528946 original size:28 final size:28
Alignment explanation
Indices: 55528899--55528995 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
55528889 ATTTAAACCC
55528899 TAGGGGT-ATATT-GGTAATTTTGCTATT
1 TAGGGGTAAT-TTCGGTAATTTTGCTATT
*
55528926 TAGGGGTAATTTCGGTAATTTTGCTGTT
1 TAGGGGTAATTTCGGTAATTTTGCTATT
* *
55528954 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTATT
55528982 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
55528996 TGATCTACGC
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
27 9 0.14
28 55 0.86
ACGTcount: A:0.21, C:0.07, G:0.27, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTATT
Found at i:55529646 original size:27 final size:27
Alignment explanation
Indices: 55529616--55529677 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
55529606 GGGCAAAATG
55529616 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
55529643 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
55529670 GTAATTTT
1 GTAATTTT
55529678 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:55529690 original size:27 final size:27
Alignment explanation
Indices: 55529630--55529812 Score: 170
Period size: 27 Copynumber: 6.8 Consensus size: 27
55529620 TTTTACCCCA
* **
55529630 CAAGGGTATTTCAGTAATTTTACCCTA-
1 CAAGGGTATTTTAGTAATTTTA-CAAAC
* *
55529657 CAGGGGTATTTTAGTAATTTTTCAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
55529684 CATGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
*
55529711 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * * * *
55529738 TAGGGGTATTTTGGTAGTTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
** *** *
55529765 TGAGGGTATTGCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
55529792 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTAGTAATTTT
55529813 GTAAATCGAG
Statistics
Matches: 124, Mismatches: 31, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
26 2 0.02
27 122 0.98
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAC
Found at i:55529749 original size:81 final size:81
Alignment explanation
Indices: 55529631--55529812 Score: 215
Period size: 81 Copynumber: 2.2 Consensus size: 81
55529621 TTTACCCCAC
* ** * *
55529631 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTTTCAAA-CCATGGGTATTT
1 AAGGGTATTTTAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTACAAATCCA-GGGTATTG
* * *
55529695 TGGTAATTTTATAAACA
65 CGGTAATTTCACAAACA
* * **
55529712 AAGGGTATTTTAGTAATTTTA-CAAACTAGGGGTATTTTGGTAGTTTTACAAATTGAGGGTATTG
1 AAGGGTATTTTAGTAATTTTACCAAAC-AGGGGTATTTTAGTAATTTTACAAATCCAGGGTATTG
*
55529776 CGGTAATTTCACAAACC
65 CGGTAATTTCACAAACA
55529793 AAGGGTATTTTAGTAATTTT
1 AAGGGTATTTTAGTAATTTT
55529813 GTAAATCGAG
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 3 0.03
81 82 0.95
82 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
AAGGGTATTTTAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTACAAATCCAGGGTATTGC
GGTAATTTCACAAACA
Found at i:55529834 original size:27 final size:27
Alignment explanation
Indices: 55529804--55530036 Score: 222
Period size: 27 Copynumber: 8.6 Consensus size: 27
55529794 AGGGTATTTT
*
55529804 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
55529831 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
55529858 AATAATTCTGTAAA-CTGAGGGTAAAA-
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* * * *
55529884 TGATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
55529912 AGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
55529939 GGTAATTCTATAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
55529966 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
55529993 AGTAATTCTATAAA-CTGAGGGTAAAAT
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
55530020 GGTAATTTTGTAAATCG
1 AGTAATTCTGTAAATCG
55530037 GGAGTACTTT
Statistics
Matches: 171, Mismatches: 27, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
26 2 0.01
27 166 0.97
28 3 0.02
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:55529836 original size:54 final size:54
Alignment explanation
Indices: 55529660--55529837 Score: 169
Period size: 54 Copynumber: 3.3 Consensus size: 54
55529650 TACCCTACAG
** * * *
55529660 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAA-CAAA
1 GGGTATTACAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATC-GA
** * * * * *
55529714 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAGTTTTACAAATTGA
1 GGGTATTACAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCGA
* * * * *
55529768 GGGTATTGCGGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTACAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCGA
**
55529822 GGGTAAAACAGTAATT
1 GGGTATTACAGTAATT
55529838 CTGTAAATCA
Statistics
Matches: 101, Mismatches: 22, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
54 101 1.00
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTACAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCGA
Found at i:55530015 original size:81 final size:80
Alignment explanation
Indices: 55529805--55530038 Score: 272
Period size: 81 Copynumber: 2.9 Consensus size: 80
55529795 GGGTATTTTA
**
55529805 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAATAATTCTGTA
1 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAAT-AAGGGTAAAACGGTAATTCTGTA
* *
55529870 AA-CTGAGGGTAAAATG
65 AATC-GGGGGTAAAACG
* * * * * * *
55529886 ATAATTATGTAAATCGGGGGTAAAATAGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAA-TAAGGGTAAAACGGTAATTCTGTA
55529951 AATCGGGGGTAAAACG
65 AATCGGGGGTAAAACG
** * * * *
55529967 GTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAACTGAGGGTAAAATGGTAATTTTGTA
1 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAA-TAAGGGTAAAACGGTAATTCTGTA
55530032 AATCGGG
65 AATCGGG
55530039 AGTACTTTGG
Statistics
Matches: 126, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
81 124 0.98
82 2 0.02
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.29
Consensus pattern (80 bp):
GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATAAGGGTAAAACGGTAATTCTGTAA
ATCGGGGGTAAAACG
Found at i:55538168 original size:71 final size:71
Alignment explanation
Indices: 55538057--55538219 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
55538047 CGATTTGTCT
55538057 CGTAGCTCTCTTGTCTACAT-GTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
55538121 CTTTCA
66 CTTTCA
55538127 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
55538192 CTTTCA
66 CTTTCA
*
55538198 CGTAGCTCTCTTGCCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
55538220 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 20 0.22
71 71 0.78
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:55538257 original size:71 final size:70
Alignment explanation
Indices: 55538057--55538253 Score: 231
Period size: 71 Copynumber: 2.8 Consensus size: 70
55538047 CGATTTGTCT
* * * * *
55538057 CGTAGCTCTCTTGTCTACAT-GTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGCCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
55538121 CTTTCA
65 CTTTCA
* * * * *
55538127 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGCCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
55538192 CTTTCA
65 CTTTCA
* *
55538198 CGTAGCTCTCTTGCCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGCCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
55538254 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 21 0.18
71 74 0.63
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGCCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:55545779 original size:28 final size:28
Alignment explanation
Indices: 55545736--55545815 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 28
55545726 CATACATGCT
* *
55545736 TATGGCCCATTTGGCCCAATCTCAT-TCA
1 TATGGCCCATTAGGCCCAATCACATCT-A
55545764 TATGGCCCATTAGGCCCAAATCACATCTA
1 TATGGCCCATTAGGCCC-AATCACATCTA
* *
55545793 TATGGCCCACTCGGCCCAATCAC
1 TATGGCCCATTAGGCCCAATCAC
55545816 TTTTACAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.48
29 23 0.50
30 1 0.02
ACGTcount: A:0.25, C:0.35, G:0.15, T:0.25
Consensus pattern (28 bp):
TATGGCCCATTAGGCCCAATCACATCTA
Found at i:55545796 original size:29 final size:28
Alignment explanation
Indices: 55545736--55545815 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 28
55545726 CATACATGCT
* *
55545736 TATGGCCCATTTGGCCCAATCTCATTCA
1 TATGGCCCATTAGGCCCAATCACATTCA
55545764 TATGGCCCATTAGGCCCAAATCACA-TCTA
1 TATGGCCCATTAGGCCC-AATCACATTC-A
* *
55545793 TATGGCCCACTCGGCCCAATCAC
1 TATGGCCCATTAGGCCCAATCAC
55545816 TTTTACAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
28 24 0.52
29 22 0.48
ACGTcount: A:0.25, C:0.35, G:0.15, T:0.25
Consensus pattern (28 bp):
TATGGCCCATTAGGCCCAATCACATTCA
Found at i:55548438 original size:24 final size:24
Alignment explanation
Indices: 55548406--55548468 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
55548396 AATCTCAAAT
55548406 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
55548430 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
55548454 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
55548469 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:55555510 original size:24 final size:24
Alignment explanation
Indices: 55555478--55555564 Score: 174
Period size: 24 Copynumber: 3.6 Consensus size: 24
55555468 AATCTCAAAT
55555478 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
55555502 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
55555526 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
55555550 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
55555565 ACATAATAAG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:55555578 original size:48 final size:48
Alignment explanation
Indices: 55555478--55555586 Score: 166
Period size: 48 Copynumber: 2.3 Consensus size: 48
55555468 AATCTCAAAT
** * *
55555478 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGACATAATATA
55555526 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ACATAATATA
55555574 GCACTATGTGTGC
1 GCACTATGTGTGC
55555587 AACATTCGGT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
48 51 0.91
49 5 0.09
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGACATAATATA
Found at i:55563397 original size:45 final size:45
Alignment explanation
Indices: 55563301--55563397 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 45
55563291 AGATCCTGAT
* * *
55563301 TGAAAGACGTAATGGCATCACGATTTTATCGAGTAAGACAATAAC
1 TGAAAGACATAATGGCATCACGATTCTATCGAGTAACACAATAAC
* * * *
55563346 TAAAAGACATTATGGCATCACGATTCTATCGAGTAACACTATAGC
1 TGAAAGACATAATGGCATCACGATTCTATCGAGTAACACAATAAC
55563391 TGAAAGA
1 TGAAAGA
55563398 TGCTATGGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (45 bp):
TGAAAGACATAATGGCATCACGATTCTATCGAGTAACACAATAAC
Found at i:55564428 original size:20 final size:20
Alignment explanation
Indices: 55564403--55564456 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
55564393 TATTTAAGCT
55564403 AAAGTAAGTAAATGCAATGA
1 AAAGTAAGTAAATGCAATGA
*
55564423 AAAGTAAGTAAATGCAATGG
1 AAAGTAAGTAAATGCAATGA
55564443 AAAGTAAGTAAATG
1 AAAGTAAGTAAATG
55564457 GAAGGGTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.54, C:0.04, G:0.22, T:0.20
Consensus pattern (20 bp):
AAAGTAAGTAAATGCAATGA
Found at i:55569867 original size:40 final size:40
Alignment explanation
Indices: 55569782--55569932 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
55569772 AATTGAATGA
* * * **
55569782 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
55569822 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
55569863 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
55569902 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
55569933 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:55569946 original size:40 final size:40
Alignment explanation
Indices: 55569819--55569948 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
55569809 ATGCTGGAAA
* * *
55569819 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
55569859 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
55569899 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
55569939 TTATATCCGG
1 TTATATCCGG
55569949 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:55577862 original size:40 final size:40
Alignment explanation
Indices: 55577777--55577927 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
55577767 AATTGAATGA
* * * **
55577777 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
55577817 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
55577858 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
55577897 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
55577928 ACTGGTTATA
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:55583522 original size:29 final size:29
Alignment explanation
Indices: 55583489--55583620 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
55583479 GTGACGAGAT
*
55583489 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
55583518 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
55583547 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
55583576 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
55583605 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
55583621 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:55586440 original size:28 final size:29
Alignment explanation
Indices: 55586408--55586506 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
55586398 ATAATAAGCC
*
55586408 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
55586436 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
55586464 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
55586493 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55586507 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:55586629 original size:2 final size:2
Alignment explanation
Indices: 55586622--55586654 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
55586612 TGCATACATG
*
55586622 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55586655 TTATCATTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55596753 original size:46 final size:46
Alignment explanation
Indices: 55596703--55596874 Score: 215
Period size: 46 Copynumber: 3.7 Consensus size: 46
55596693 TGGTTGAGCA
*
55596703 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
55596749 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
55596796 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
55596842 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT
55596875 TCGGGCGGGT
Statistics
Matches: 108, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.56
47 30 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:55596859 original size:93 final size:93
Alignment explanation
Indices: 55596700--55596871 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
55596690 GGATGGTTGA
* *
55596700 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
55596765 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* * *
55596793 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
55596858 TGAGTCCGAGTTCA
66 TGAGTCCGAGTTCA
55596872 CTTTCGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:55598757 original size:28 final size:27
Alignment explanation
Indices: 55598694--55598763 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
55598684 ATAGTGAGTC
55598694 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* *
55598721 CGCACACTTACTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
55598749 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55598764 GTACAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:55606597 original size:27 final size:28
Alignment explanation
Indices: 55606567--55606634 Score: 106
Period size: 26 Copynumber: 2.5 Consensus size: 28
55606557 ATAGTGAGTC
55606567 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
55606594 CGCACACTTA--GCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
55606620 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55606635 GTACAAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 10 0.27
26 14 0.38
27 10 0.27
28 3 0.08
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55610937 original size:46 final size:46
Alignment explanation
Indices: 55610884--55611095 Score: 144
Period size: 46 Copynumber: 4.5 Consensus size: 46
55610874 GACAGTTACC
*
55610884 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGAGAACT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTACGAGAACT
* * * *
55610930 AGTGTAAGACATGTCTGGGACATGAATCAGCCTTGAGATATACCAG--CC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCC---ACAT-TACGAGAACT
* * * *** * *
55610978 AGTGTAAGACATATCTGGGACATTCATCGGCTTTGA-GACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-CACATTACGAGAACT
* * * * * *
55611024 AGTTTAAGACATGTTTGGGACATGCATTAGCCTCGAGATA-TAGAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-A-TTACGAGAA-CT
*
55611072 AGTGTAAGACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
55611096 GCATAGACAC
Statistics
Matches: 127, Mismatches: 28, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
44 4 0.03
45 1 0.01
46 59 0.46
47 3 0.02
48 52 0.41
49 3 0.02
50 5 0.04
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTACGAGAACT
Found at i:55611043 original size:94 final size:94
Alignment explanation
Indices: 55610882--55611095 Score: 268
Period size: 94 Copynumber: 2.3 Consensus size: 94
55610872 GTGACAGTTA
*
55610882 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGAGAACTAGTGTAAGACATGTCTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGACGAGAACTAGTGTAAGACATGTCTG
* *
55610947 GGACATGAATCAGCCTTGAGATATACCAG
66 GGACATGAATCAGCCTCGAGATATACAAG
* * *** * * *
55610976 CCAGTGTAAGACATATCTGGGACATTCATCGGCTTTGA-GACGAGAGCTAGTTTAAGACATGTTT
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGC-CACATGACGAGAACTAGTGTAAGACATGTCT
* * *
55611040 GGGACATGCATTAGCCTCGAGATATAGAAG
65 GGGACATGAATCAGCCTCGAGATATACAAG
* *
55611070 CTAGTGTAAGACCTGTCTGGGACATG
1 CCAGTGTAAGACATGTCTGGGACATG
55611096 GCATAGACAC
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
94 100 0.99
95 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (94 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGACGAGAACTAGTGTAAGACATGTCTG
GGACATGAATCAGCCTCGAGATATACAAG
Found at i:55611091 original size:48 final size:48
Alignment explanation
Indices: 55610884--55611198 Score: 218
Period size: 48 Copynumber: 6.6 Consensus size: 48
55610874 GACAGTTACC
* * * *
55610884 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-TTACGAGAA-CT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATA-TAGAAGCT
* * ** *
55610930 AGTGTAAGACATGTCTGGGACATGAATCAGCCTTGAGATATACCAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATAGAAGCT
* * * * * **
55610978 AGTGTAAGACATATCTGGGACATTCATCGGCTTTGAGA-CGAG-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATAGAAGCT
* * *
55611024 AGTTTAAGACATGTTTGGGACATGCATTAGCCTCGAGATATAGAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATAGAAGCT
* * *
55611072 AGTGTAAGACCTGTCTGGGACATGGCAT-AGACAC-CGAGAGAT-GAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCAG-C-CTCGAGATATAGA-AGCT
* * * * * *
55611121 AGTGTAAGACCTATTTGGGACACGACATCAGCCT-TA-ATATATGAAAGTT
1 AGTGTAAGACATGTCTGGGACATG-CATCAGCCTCGAGATATA-G-AAGCT
*
55611170 AGTGTAAGACTTGTCTGGGACATGACATC
1 AGTGTAAGACATGTCTGGGACATG-CATC
55611199 GACTTTAATG
Statistics
Matches: 210, Mismatches: 44, Indels: 27
0.75 0.16 0.10
Matches are distributed among these distances:
46 63 0.30
47 9 0.04
48 67 0.32
49 67 0.32
50 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATAGAAGCT
Found at i:55611129 original size:49 final size:48
Alignment explanation
Indices: 55611012--55611193 Score: 145
Period size: 49 Copynumber: 3.8 Consensus size: 48
55611002 CATCGGCTTT
* * *
55611012 GAGACGAGAGCTAGTTTAAGACATGTTTGGGACATGCATTAGCCTCGA
1 GAGATGAGAGCTAGTGTAAGACCTGTTTGGGACATGCATTAGCCTCGA
* *
55611060 GATAT-AGAAGCTAGTGTAAGACCTGTCTGGGACATGGCA-TAGACAC-CGA
1 GAGATGAG-AGCTAGTGTAAGACCTGTTTGGGACAT-GCATTAG-C-CTCGA
* * * * **
55611109 GAGATGAGAGCCAGTGTAAGACCTATTTGGGACACGACATCAGCCTTAA
1 GAGATGAGAGCTAGTGTAAGACCTGTTTGGGACATG-CATTAGCCTCGA
* * * * * *
55611158 TATATGAAAGTTAGTGTAAGACTTGTCTGGGACATG
1 GAGATGAGAGCTAGTGTAAGACCTGTTTGGGACATG
55611194 ACATCGACTT
Statistics
Matches: 104, Mismatches: 22, Indels: 15
0.74 0.16 0.11
Matches are distributed among these distances:
47 2 0.02
48 32 0.31
49 65 0.62
50 5 0.05
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.24
Consensus pattern (48 bp):
GAGATGAGAGCTAGTGTAAGACCTGTTTGGGACATGCATTAGCCTCGA
Found at i:55614447 original size:38 final size:40
Alignment explanation
Indices: 55614333--55614494 Score: 168
Period size: 40 Copynumber: 4.1 Consensus size: 40
55614323 CGGGATTCAA
* * *
55614333 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
* *** *
55614373 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
* *
55614413 CCGGATATAACAACTCGCA-AA-TGCCTTTGGGTCTTAGC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
* * * *
55614451 CCGGATATAATC-ACTAGCATAAATGCCTTCGAGACTTAGC
1 CCGGATATAA-CAACTAGCACAATTGCCTTCGGGTCTTAGC
55614491 CCGG
1 CCGG
55614495 GTATCATTCA
Statistics
Matches: 101, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
38 32 0.32
39 5 0.05
40 64 0.63
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:55614478 original size:78 final size:80
Alignment explanation
Indices: 55614333--55614494 Score: 184
Period size: 78 Copynumber: 2.0 Consensus size: 80
55614323 CGGGATTCAA
* * ** * *
55614333 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
* *
55614398 CCTTCGGGTCTTAGC
66 CCTTCGAGACTTAGC
** * * * *
55614413 CCGGATATAACAACTCGCA-AA-TGCCTTTGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
55614476 CCTTCGAGACTTAGC
66 CCTTCGAGACTTAGC
55614491 CCGG
1 CCGG
55614495 GTATCATTCA
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 50 0.74
79 2 0.03
80 16 0.24
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGAGACTTAGC
Found at i:55622677 original size:49 final size:47
Alignment explanation
Indices: 55622503--55622772 Score: 396
Period size: 47 Copynumber: 5.7 Consensus size: 47
55622493 CCCTTCGGGA
* * * * * *
55622503 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
55622550 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55622597 CTTGTCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55622644 CTTATCACATATATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55622693 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55622742 CTTATCACATATATACACTTTCACATTCATC
1 CTTATCACATATATACACTTTCACATTCATC
55622773 GCGTCAAATC
Statistics
Matches: 207, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 114 0.55
49 93 0.45
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55622701 original size:96 final size:94
Alignment explanation
Indices: 55622503--55622772 Score: 396
Period size: 96 Copynumber: 2.8 Consensus size: 94
55622493 CCCTTCGGGA
* * * * * * *
55622503 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
55622568 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
55622597 CTTGTCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
55622662 AGTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
55622693 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
55622758 ACTTTCACATTCATC
64 ACTTTCACATTCATC
55622773 GCGTCAAATC
Statistics
Matches: 157, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
94 46 0.29
96 65 0.41
98 46 0.29
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:55625536 original size:40 final size:40
Alignment explanation
Indices: 55625479--55625715 Score: 339
Period size: 40 Copynumber: 5.9 Consensus size: 40
55625469 CGAATACACG
* * * * * *
55625479 TCACCAGCATGATTGCTCTTCGGGACCTATCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
55625519 ACACCAGCACGAATGCTCTTCGGAACTTAGACCGGATACA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
*
55625559 TCACCAGCACGAATGCTCTTTGGAACTTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
55625599 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* * *
55625639 TCACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* * *
55625679 TCACTAGCACGAATGCTCTTCGGGACTTAACCCGGAT
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
55625716 CATTGTCGAG
Statistics
Matches: 181, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.22
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:55628408 original size:49 final size:47
Alignment explanation
Indices: 55628234--55628503 Score: 396
Period size: 47 Copynumber: 5.7 Consensus size: 47
55628224 CCCTTCGGGA
* * * * * *
55628234 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
55628281 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55628328 CTTGTCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55628375 CTTATCACATATATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55628424 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55628473 CTTATCACATATATACACTTTCACATTCATC
1 CTTATCACATATATACACTTTCACATTCATC
55628504 GCGTCAAATC
Statistics
Matches: 207, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 114 0.55
49 93 0.45
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55628432 original size:96 final size:94
Alignment explanation
Indices: 55628234--55628503 Score: 396
Period size: 96 Copynumber: 2.8 Consensus size: 94
55628224 CCCTTCGGGA
* * * * * * *
55628234 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
55628299 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
55628328 CTTGTCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
55628393 AGTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
55628424 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
55628489 ACTTTCACATTCATC
64 ACTTTCACATTCATC
55628504 GCGTCAAATC
Statistics
Matches: 157, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
94 46 0.29
96 65 0.41
98 46 0.29
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:55631717 original size:40 final size:40
Alignment explanation
Indices: 55631657--55631818 Score: 166
Period size: 40 Copynumber: 4.0 Consensus size: 40
55631647 CGGGATTCAA
* ** *
55631657 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
55631697 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
55631737 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * * *
55631777 CCGGATATAATC-ACTAGCATAAATGCCTTCGAGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
55631817 CC
1 CC
55631819 AGGTATCATT
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 97 0.95
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:55631804 original size:80 final size:80
Alignment explanation
Indices: 55631657--55631818 Score: 191
Period size: 80 Copynumber: 2.0 Consensus size: 80
55631647 CGGGATTCAA
* * ** * *
55631657 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
* *
55631722 CCTTCGGGTCTTAGC
66 CCTTCGAGACTTAGC
** * * *
55631737 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
55631801 GCCTTCGAGACTTAGC
65 GCCTTCGAGACTTAGC
55631817 CC
1 CC
55631819 AGGTATCATT
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 66 0.97
81 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGAGACTTAGC
Found at i:55637181 original size:68 final size:64
Alignment explanation
Indices: 55637071--55637322 Score: 237
Period size: 68 Copynumber: 3.9 Consensus size: 64
55637061 ATACAGATGG
** * * *
55637071 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACGAGAC
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACGAG--
55637134 ATTA
62 A-TA
*
55637138 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACG-GATA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * *
55637202 TATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
55637267 TA
63 TA
* * *
55637269 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
55637323 CAAAATTATG
Statistics
Matches: 156, Mismatches: 20, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
62 1 0.01
63 43 0.28
64 4 0.03
65 3 0.02
66 46 0.29
67 8 0.05
68 50 0.32
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:55639210 original size:130 final size:129
Alignment explanation
Indices: 55638973--55639228 Score: 494
Period size: 130 Copynumber: 2.0 Consensus size: 129
55638963 AAAGATCATT
*
55638973 CATTTACTAAATTGCTAGACGCAAACAAAGTTCGAATTTAACACTTATACAAGTAAGTTCCATAA
1 CATTTACTAAATTGCTAGACGCAAACAAAGTTCGAATTTAACAATTATACAAGTAAGTTCCATAA
55639038 GATACCATAATCACATGACTTCTACACGAAGGTCAAAGTATCATTCTACTTATTGTCTATCTAC
66 GATACCATAATCACATGACTTCTACACGAAGGTCAAAGTATCATTCTACTTATTGTCTATCTAC
55639102 CATTCTACTAAATTGCTAGACGCAAACAAAGTTCGAATTTAACAATTATACAAGTAAGTTCCATA
1 CATT-TACTAAATTGCTAGACGCAAACAAAGTTCGAATTTAACAATTATACAAGTAAGTTCCATA
55639167 AGATACCATAATCACATGACTTCTACACGAAGGTCAAAGTATCATTCTACTTATTGTCTATC
65 AGATACCATAATCACATGACTTCTACACGAAGGTCAAAGTATCATTCTACTTATTGTCTATC
55639229 CTATACATGC
Statistics
Matches: 125, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
129 4 0.03
130 121 0.97
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.31
Consensus pattern (129 bp):
CATTTACTAAATTGCTAGACGCAAACAAAGTTCGAATTTAACAATTATACAAGTAAGTTCCATAA
GATACCATAATCACATGACTTCTACACGAAGGTCAAAGTATCATTCTACTTATTGTCTATCTAC
Found at i:55640372 original size:47 final size:47
Alignment explanation
Indices: 55640309--55640413 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
55640299 CCCTTCGGGA
* *
55640309 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
55640356 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
55640403 CTTATCACATA
1 CTTATCACATA
55640414 AGTAATACTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:55644357 original size:40 final size:40
Alignment explanation
Indices: 55644299--55644574 Score: 417
Period size: 40 Copynumber: 6.9 Consensus size: 40
55644289 GAATACACAT
*
55644299 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
* * * *
55644339 CATCGGCACGAATACCCTTCGGGATTTAGGCTGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
* * *
55644379 CACCAGCATGAATACCCTTCGGGATTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
* *
55644419 CACAGGCACGAATGCCCTTCAGGATTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
* *
55644459 CACTGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
55644499 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
* * *
55644539 TACCGGCACGAATGCCCTTCAGGACTTAGCCCGGAT
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGAT
55644575 CATCGTCGAG
Statistics
Matches: 213, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 213 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (40 bp):
CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
Found at i:55644701 original size:38 final size:38
Alignment explanation
Indices: 55644615--55644706 Score: 112
Period size: 38 Copynumber: 2.4 Consensus size: 38
55644605 CTCTATATGA
* * * **
55644615 AGCCAGTGGGTCTTAATCCGGACATAATCTCTGTACAT
1 AGCCAGCGGGTCTTTACCCGGACATAATCTCTACACAT
* *
55644653 AGCCATCGGGTCTTTACCCGGACATAATCTCTACATAT
1 AGCCAGCGGGTCTTTACCCGGACATAATCTCTACACAT
*
55644691 AGTCAGCGGGTCTTTA
1 AGCCAGCGGGTCTTTA
55644707 AACTCGGATT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (38 bp):
AGCCAGCGGGTCTTTACCCGGACATAATCTCTACACAT
Found at i:55645675 original size:130 final size:129
Alignment explanation
Indices: 55645438--55645693 Score: 476
Period size: 130 Copynumber: 2.0 Consensus size: 129
55645428 AAAGATCATT
*
55645438 CATTTACTAAATTGCTAGACGCAAACAAAGTTCGAATTTAACACTTATACAAGTAAGTTCCATAA
1 CATTTACTAAATTGCTAGACGCAAACAAAGTTCGAATTTAACAATTATACAAGTAAGTTCCATAA
*
55645503 GATACCGTAATCACATGACTTCTACACGAAGGTCAAAGTATCATTCTACTTATTGTCTATCTAC
66 GATACCATAATCACATGACTTCTACACGAAGGTCAAAGTATCATTCTACTTATTGTCTATCTAC
*
55645567 CATTCTACTAAATTGCTAGACGCAAACAAAGTTTGAATTTAACAATTATACAAGTAAGTTCCATA
1 CATT-TACTAAATTGCTAGACGCAAACAAAGTTCGAATTTAACAATTATACAAGTAAGTTCCATA
55645632 AGATACCATAATCACATGACTTCTACACGAAGGTCAAAGTATCATTCTACTTATTGTCTATC
65 AGATACCATAATCACATGACTTCTACACGAAGGTCAAAGTATCATTCTACTTATTGTCTATC
55645694 CTATACATGC
Statistics
Matches: 123, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
129 4 0.03
130 119 0.97
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (129 bp):
CATTTACTAAATTGCTAGACGCAAACAAAGTTCGAATTTAACAATTATACAAGTAAGTTCCATAA
GATACCATAATCACATGACTTCTACACGAAGGTCAAAGTATCATTCTACTTATTGTCTATCTAC
Found at i:55646843 original size:47 final size:47
Alignment explanation
Indices: 55646774--55646878 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 47
55646764 CCCTTCGGGA
* * *
55646774 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGTC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
55646821 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
55646868 CTTATCACATA
1 CTTATCACATA
55646879 ATTAATACTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:55648811 original size:27 final size:28
Alignment explanation
Indices: 55648755--55648824 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
55648745 AAATTTGTAC
55648755 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
55648783 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
55648810 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55648825 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:55648835 original size:27 final size:27
Alignment explanation
Indices: 55648755--55648836 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
55648745 AAATTTGTAC
* *
55648755 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
55648783 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
55648810 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
55648837 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:55654597 original size:28 final size:28
Alignment explanation
Indices: 55654565--55654633 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
55654555 GCGTAGATCA
55654565 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
55654593 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
55654621 CGATA-TACCCCTA
1 CGAAATTACCCCTA
55654634 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:55659472 original size:27 final size:28
Alignment explanation
Indices: 55659416--55659485 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
55659406 AAATTTGTAC
55659416 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
55659444 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
55659471 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55659486 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:55659496 original size:27 final size:27
Alignment explanation
Indices: 55659416--55659497 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
55659406 AAATTTGTAC
* *
55659416 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
55659444 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
55659471 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
55659498 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:55662232 original size:40 final size:39
Alignment explanation
Indices: 55662137--55662249 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 39
55662127 ACCGGATATA
*
55662137 AACT-GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAAT
1 AACTAGCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAAC
** * *
55662176 AACTCTCACGAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 AACTAGCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAAC
* *
55662216 CACTAGCACAATTGCCTTCGGGTCTTAACCCGGA
1 AACTAGCACAA-TGCCTTCGGGTCTTAGCCCGGA
55662250 ATAATTTCCA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.10
40 57 0.90
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (39 bp):
AACTAGCACAATGCCTTCGGGTCTTAGCCCGGATAGAAC
Found at i:55666312 original size:28 final size:27
Alignment explanation
Indices: 55666271--55666368 Score: 83
Period size: 28 Copynumber: 3.6 Consensus size: 27
55666261 CTGACCGATC
**
55666271 TCGCACACGTAGTGCTCGGTTAAAGAAT
1 TCGCACACACAGTGCTC-GTTAAAGAAT
* **
55666299 TCGCACACACAGTGCCTAC-TGACCG-AT
1 TCGCACACACAGTG-CT-CGTTAAAGAAT
* *
55666326 CTCACACACATAGTGCTCGTTAAAGAAT
1 -TCGCACACACAGTGCTCGTTAAAGAAT
55666354 TCGCACACACAGTGC
1 TCGCACACACAGTGC
55666369 CTCAATTCAT
Statistics
Matches: 53, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
26 1 0.02
27 20 0.38
28 29 0.55
29 2 0.04
30 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (27 bp):
TCGCACACACAGTGCTCGTTAAAGAAT
Found at i:55666370 original size:55 final size:56
Alignment explanation
Indices: 55666240--55666370 Score: 228
Period size: 56 Copynumber: 2.4 Consensus size: 56
55666230 CATGAAACGA
* * *
55666240 AATTCGCACACACAGTGCCCACTGACCGATCTCGCACACGTAGTGCTCGGTTAAAG
1 AATTCGCACACACAGTGCCTACTGACCGATCTCACACACATAGTGCTCGGTTAAAG
55666296 AATTCGCACACACAGTGCCTACTGACCGATCTCACACACATAGTGCTC-GTTAAAG
1 AATTCGCACACACAGTGCCTACTGACCGATCTCACACACATAGTGCTCGGTTAAAG
55666351 AATTCGCACACACAGTGCCT
1 AATTCGCACACACAGTGCCT
55666371 CAATTCATTC
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
55 27 0.38
56 45 0.62
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (56 bp):
AATTCGCACACACAGTGCCTACTGACCGATCTCACACACATAGTGCTCGGTTAAAG
Found at i:55666380 original size:25 final size:25
Alignment explanation
Indices: 55666352--55666406 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
55666342 TCGTTAAAGA
55666352 ATTCGCACACACAGTGCCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
*
55666377 ATTCGCACACATAGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
55666402 ATTCG
1 ATTCG
55666407 TTATTACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:55667506 original size:20 final size:20
Alignment explanation
Indices: 55667477--55667517 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
55667467 TAACTCATGT
*
55667477 CAGATTAGTAAAATTTTGAA
1 CAGATCAGTAAAATTTTGAA
55667497 CAGATCAGTAAAATTTTGAA
1 CAGATCAGTAAAATTTTGAA
55667517 C
1 C
55667518 TTTTTCTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32
Consensus pattern (20 bp):
CAGATCAGTAAAATTTTGAA
Found at i:55669016 original size:2 final size:2
Alignment explanation
Indices: 55669004--55669039 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
55668994 ACTTTAATAC
*
55669004 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55669040 CCCTTTCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:55672941 original size:40 final size:40
Alignment explanation
Indices: 55672839--55673006 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
55672829 AAATTGAATG
* * * * *
55672839 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
* ***
55672879 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
* * *
55672919 ATATCCGGGCTAAGACCCGAAGGC-GTTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAATT
* * *
55672959 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-GTAATT
55672999 ATATCCGG
1 ATATCCGG
55673007 TTATATTCCG
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 101 0.95
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
Found at i:55675200 original size:2 final size:2
Alignment explanation
Indices: 55675193--55675227 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
55675183 ATTATGTATG
55675193 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55675228 CACCAACTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:55676767 original size:56 final size:56
Alignment explanation
Indices: 55676707--55676841 Score: 227
Period size: 56 Copynumber: 2.4 Consensus size: 56
55676697 TCCCAGACAG
* *
55676707 GGTCTTACTCGCACACTTATATCAGAGTCACATA-TCGATGCCAACGTATAAAATGT
1 GGTCTTACTCGCACACATATATCAGAGTCACATACT-GATGCCAACGTATAAAACGT
*
55676763 GGTCTTGCTCGCACACATATATCAGAGTCACATACTGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCAGAGTCACATACTGATGCCAACGTATAAAACGT
55676819 GGTCTTACTCGCACACATATATC
1 GGTCTTACTCGCACACATATATC
55676842 GATGCCATGG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
56 73 0.99
57 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAGTCACATACTGATGCCAACGTATAAAACGT
Found at i:55681835 original size:2 final size:2
Alignment explanation
Indices: 55681828--55681860 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
55681818 AAACACTATC
55681828 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
55681861 CCTTAAGATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:55690934 original size:46 final size:48
Alignment explanation
Indices: 55690861--55690984 Score: 119
Period size: 48 Copynumber: 2.6 Consensus size: 48
55690851 ATATTGAAGT
* * * * *
55690861 CGATGCCATGTTCCAGACATATC-TACACTAAC-T-CATGTCTCAATGC
1 CGATG-CATGTCCCAGGCATGTCTTACACTAACTTGCATCTCTCAAGGC
** * *
55690907 CGATGCATGTCCCAGGCATGTCTTACACTGGCTTGCATCTTTCGAGGC
1 CGATGCATGTCCCAGGCATGTCTTACACTAACTTGCATCTCTCAAGGC
* *
55690955 TGATGCATGCCCCAGGCATGTCTTACACTA
1 CGATGCATGTCCCAGGCATGTCTTACACTA
55690985 GCACACATAT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
45 14 0.22
46 12 0.19
47 1 0.02
48 36 0.57
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCATGTCCCAGGCATGTCTTACACTAACTTGCATCTCTCAAGGC
Found at i:55692816 original size:40 final size:39
Alignment explanation
Indices: 55692759--55692977 Score: 233
Period size: 40 Copynumber: 5.5 Consensus size: 39
55692749 TCGAATGGTG
* * *
55692759 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGC-AAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
55692800 TCCGGGCAATTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
55692839 ACTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGG-CAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
55692879 ACCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGG-CAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
55692919 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACTATAA
1 TCCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
55692960 -CCGGGCAATGTCCCGAAG
1 TCCGGGCAA-GTCCCGAAG
55692978 ACAATCGAGC
Statistics
Matches: 156, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 14 0.09
40 133 0.85
41 9 0.06
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (39 bp):
TCCGGGCAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55692899 original size:80 final size:79
Alignment explanation
Indices: 55692760--55692991 Score: 257
Period size: 80 Copynumber: 2.9 Consensus size: 79
55692750 CGAATGGTGT
* * * * * *
55692760 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGCAATTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAAACCGGGCAAGTCCCGAAGGCATTCG
55692825 TGCGAGTTACCAAAA
65 TGCGAGTTACCAAAA
* * * *
55692840 CTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGG-CAAGTCCCGAAGGCATTCG
* *
55692905 TGCGAGTTACTAAAT
65 TGCGAGTTACCAAAA
* * * * * * *
55692920 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCAATGTCCCGAAGACAATCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGGCAA-GTCCCGAAGGCATTCG
*
55692985 AGCGAGT
65 TGCGAGT
55692992 CGATATATCC
Statistics
Matches: 127, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 15 0.12
80 112 0.88
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGGCAAGTCCCGAAGGCATTCGT
GCGAGTTACCAAAA
Found at i:55692973 original size:120 final size:120
Alignment explanation
Indices: 55692760--55692977 Score: 287
Period size: 120 Copynumber: 1.8 Consensus size: 120
55692750 CGAATGGTGT
* * * *
55692760 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGCAATTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGCAAGTCCCGAAGGCAATTG
* * * *
55692825 TGCGAGTTACCAAAACTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
66 TGCGAATCACCAAAACCGGGTCAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
55692880 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGGCTAAGTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGC-AAGTCCCGAAGGCAATT
* *
55692944 GTGCGAATCACTATAACCGGG-CAATGTCCCGAAG
65 GTGCGAATCACCAAAACCGGGTCAA-GTCCCGAAG
55692978 ACAATCGAGC
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
119 18 0.22
120 65 0.78
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGCAAGTCCCGAAGGCAATTG
TGCGAATCACCAAAACCGGGTCAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:55695435 original size:49 final size:49
Alignment explanation
Indices: 55695309--55695517 Score: 300
Period size: 49 Copynumber: 4.3 Consensus size: 49
55695299 CCCTTCGGGA
* * * * * *
55695309 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55695356 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55695403 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55695452 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
55695501 CTTATCACATATGTATA
1 CTTATCACATATATATA
55695518 TCTCATACAT
Statistics
Matches: 147, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
46 1 0.01
47 45 0.31
49 101 0.69
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55704106 original size:40 final size:40
Alignment explanation
Indices: 55704004--55704194 Score: 204
Period size: 40 Copynumber: 4.8 Consensus size: 40
55703994 CGAATGGTGT
* * * * * *
55704004 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* *
55704045 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
55704085 CTGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * *
55704125 CCGGGTTAAGTCCCGAAGGCATTCGTGCCAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
55704165 CTGGGCTAATTCCCGAAGGCGA-TTGTGCGA
1 CCGGGTTAAGTCCCGAAGGC-ATTTGTGCGA
55704195 ATCACTATAA
Statistics
Matches: 126, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
40 101 0.80
41 25 0.20
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:55704158 original size:80 final size:80
Alignment explanation
Indices: 55704006--55704194 Score: 227
Period size: 80 Copynumber: 2.4 Consensus size: 80
55703996 AATGGTGTCC
* * * * * *
55704006 GGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTCGT
*
55704071 GCGAGTTACCAAAACT
65 GCCAGTTACCAAAACT
* * * *
55704087 GGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTCGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTCGTG
* *
55704152 CCAGTTACTAAATCT
66 CCAGTTACCAAAACT
*
55704167 GGGCTAATTCCCGAAGGCGA-TTGTGCGA
1 GGGCTAAGTCCCGAAGGC-ATTTGTGCGA
55704195 ATCACTATAA
Statistics
Matches: 91, Mismatches: 16, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
80 67 0.74
81 24 0.26
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTCGTG
CCAGTTACCAAAACT
Found at i:55704218 original size:80 final size:79
Alignment explanation
Indices: 55704006--55704222 Score: 215
Period size: 80 Copynumber: 2.7 Consensus size: 79
55703996 AATGGTGTCC
* * * *
55704006 GGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAAT-TCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGC-ATTGTGCGAA-TCACTAAA-CCGGGTCAATGTCCCGAAGGCATTCG
*
55704070 TGCGAGTTACCAAAACT
63 TGCCAGTTACCAAAACT
* * * * * *
55704087 GGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAA-GTCCCGAAGGCATTCGT
1 GGGCTAAGTCCCGAAGGCA-TTGTGCGAATCA-CTAAACCGGGTCAATGTCCCGAAGGCATTCGT
* *
55704151 GCCAGTTACTAAATCT
64 GCCAGTTACCAAAACT
* *
55704167 GGGCTAATTCCCGAAGGCGATTGTGCGAATCACTATAACCTGG-CAATGTCCCGAAG
1 GGGCTAAGTCCCGAAGGC-ATTGTGCGAATCACTA-AACCGGGTCAATGTCCCGAAG
55704223 ACAATCGAGC
Statistics
Matches: 110, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
79 4 0.04
80 78 0.71
81 28 0.25
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (79 bp):
GGGCTAAGTCCCGAAGGCATTGTGCGAATCACTAAACCGGGTCAATGTCCCGAAGGCATTCGTGC
CAGTTACCAAAACT
Found at i:55706826 original size:15 final size:15
Alignment explanation
Indices: 55706806--55706835 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
55706796 ATTGGAGGAG
55706806 AGGTTAAAGAGTGCA
1 AGGTTAAAGAGTGCA
55706821 AGGTTAAAGAGTGCA
1 AGGTTAAAGAGTGCA
55706836 TCAAGGGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (15 bp):
AGGTTAAAGAGTGCA
Found at i:55714703 original size:27 final size:28
Alignment explanation
Indices: 55714673--55714742 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
55714663 ATAGTGAGTC
* *
55714673 CGCACACCTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
55714700 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
55714728 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55714743 GTACAAGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 20 0.51
28 19 0.49
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:55716728 original size:41 final size:43
Alignment explanation
Indices: 55716682--55716832 Score: 164
Period size: 43 Copynumber: 3.6 Consensus size: 43
55716672 ACCGGCACGA
* * *
55716682 AGCCTGCTAGACTTTAAGTCTGA-ACTCA-TTCACCGGCATT-T
1 AGCCTGCTAGACTTGAAGCCCGATA-TCATTTCACCGGCATTAT
* *
55716723 CGCCTGCTAGGCTTGAAGCCCGATATCATTTCACCGGCATTAT
1 AGCCTGCTAGACTTGAAGCCCGATATCATTTCACCGGCATTAT
* * * * *
55716766 AGCCTGCTAGGCCTAAAGCCCGATATTATCTCACCGGCATTAT
1 AGCCTGCTAGACTTGAAGCCCGATATCATTTCACCGGCATTAT
* *
55716809 AGCCTGCTAGGCTCGAAGCCCGAT
1 AGCCTGCTAGACTTGAAGCCCGAT
55716833 TATATTATTC
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
41 21 0.22
42 13 0.14
43 60 0.64
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (43 bp):
AGCCTGCTAGACTTGAAGCCCGATATCATTTCACCGGCATTAT
Found at i:55716745 original size:81 final size:85
Alignment explanation
Indices: 55716630--55716845 Score: 210
Period size: 81 Copynumber: 2.6 Consensus size: 85
55716620 TTTGATCAAA
* * * *
55716630 TCACCGGCATATAGCCTGCTAGGTTTTAAACCCGAAT-TCA-TCACCGGCACGA-AGCCTGCTAG
1 TCACCGGCATTTAGCCTGCTAGGCTTGAAGCCCGAATATCATTCACCGGCACGATAGCCTGCTAG
* * * *
55716692 ACTTTAAGTCTGA-ACTCAT-
66 ACCTAAAGCCCGATA-TCATC
* **
55716711 TCACCGGCATTTCGCCTGCTAGGCTTGAAGCCCG-ATATCATTTCACCGGCATTATAGCCTGCTA
1 TCACCGGCATTTAGCCTGCTAGGCTTGAAGCCCGAATATCA-TTCACCGGCACGATAGCCTGCTA
* *
55716775 GGCCTAAAGCCCGATATTATC
65 GACCTAAAGCCCGATATCATC
* *
55716796 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATTATATTATTCACC
1 TCACCGGCATT-TAGCCTGCTAGGCTTGAAGCCCGA--ATATCATTCACC
55716846 AGCTTAAAGC
Statistics
Matches: 109, Mismatches: 16, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
80 2 0.02
81 32 0.29
83 10 0.09
84 21 0.19
85 12 0.11
86 21 0.19
88 6 0.06
89 5 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (85 bp):
TCACCGGCATTTAGCCTGCTAGGCTTGAAGCCCGAATATCATTCACCGGCACGATAGCCTGCTAG
ACCTAAAGCCCGATATCATC
Found at i:55716828 original size:43 final size:43
Alignment explanation
Indices: 55716707--55716832 Score: 177
Period size: 43 Copynumber: 3.0 Consensus size: 43
55716697 AAGTCTGAAC
* *
55716707 TCAT-TCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
* *
55716748 TCATTTCACCGGCATTATAGCCTGCTAGGC-CTAAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTC-GAAGCCCGATA
*
55716791 TTATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGAT
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGAT
55716833 TATATTATTC
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 4 0.05
42 11 0.15
43 59 0.79
44 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (43 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
Found at i:55716873 original size:43 final size:46
Alignment explanation
Indices: 55716724--55716874 Score: 128
Period size: 43 Copynumber: 3.5 Consensus size: 46
55716714 CCGGCATTTC
* * *
55716724 GCCTGCTAGGCTTGAAGCCCGA-TATCA-T-T-TCACCGGCATTATA
1 GCCTGCTAGGCTCGAAGCCCGATTAT-ATTATCTCACCAGCATTAAA
* * *
55716767 GCCTGCTAGGC-CTAAAGCCCG---ATATTATCTCACCGGCATTATA
1 GCCTGCTAGGCTC-GAAGCCCGATTATATTATCTCACCAGCATTAAA
55716810 GCCTGCTAGGCTCGAAGCCCGATTATATTAT-TCACCAGC-TTAAA
1 GCCTGCTAGGCTCGAAGCCCGATTATATTATCTCACCAGCATTAAA
*
55716854 G-CTCGCTAGGC-CGAGGCCCGA
1 GCCT-GCTAGGCTCGAAGCCCGA
55716875 ATATCACATT
Statistics
Matches: 93, Mismatches: 6, Indels: 18
0.79 0.05 0.15
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 61 0.66
44 13 0.14
45 7 0.08
46 7 0.08
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (46 bp):
GCCTGCTAGGCTCGAAGCCCGATTATATTATCTCACCAGCATTAAA
Found at i:55718569 original size:14 final size:15
Alignment explanation
Indices: 55718540--55718569 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
55718530 CAAAATTTAG
55718540 ACATGATACTTTCAC
1 ACATGATACTTTCAC
55718555 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
55718569 A
1 A
55718570 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:55741865 original size:29 final size:29
Alignment explanation
Indices: 55741831--55741991 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
55741821 TACTCGATTT
** * *
55741831 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
55741860 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
55741889 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
55741918 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
55741947 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
55741976 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
55741992 ATCTCGTCAC
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 114 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:55749349 original size:29 final size:29
Alignment explanation
Indices: 55749315--55749446 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
55749305 TACTCGATTT
** * *
55749315 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
55749344 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
55749373 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
55749402 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
55749431 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
55749447 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:55761116 original size:40 final size:40
Alignment explanation
Indices: 55761071--55761238 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
55761061 CGGAATATAA
55761071 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
55761111 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
55761151 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* *** * * * * *
55761191 CCAGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
55761231 CCGGATAT
1 CCGGATAT
55761239 CATTCAATTT
Statistics
Matches: 100, Mismatches: 27, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
39 1 0.01
40 99 0.99
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:55761221 original size:80 final size:80
Alignment explanation
Indices: 55761087--55761236 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
55761077 ATAACCACGT
* * *
55761087 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCAGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
55761152 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
55761167 GCACAATTGCCTTCGGGTCTTAACCCAGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCAGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
55761230 CCCGGAT
64 CCCGGAT
55761237 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCAGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:55767758 original size:31 final size:31
Alignment explanation
Indices: 55767723--55767786 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
55767713 CCTTTTCATA
*
55767723 TTTCATATTTCATAACACTGGCCCGAAGCCT
1 TTTCAAATTTCATAACACTGGCCCGAAGCCT
** *
55767754 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGCCCGAAGCCT
55767785 TT
1 TT
55767787 ACGGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGCCCGAAGCCT
Found at i:55768032 original size:24 final size:24
Alignment explanation
Indices: 55767999--55768146 Score: 244
Period size: 24 Copynumber: 6.2 Consensus size: 24
55767989 GGCCTAGTCT
* *
55767999 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTGATAACTGGGGCATAAGCC
*
55768023 CTTTTTATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCC
*
55768047 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCC
55768070 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCC
55768094 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCC
55768118 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCC
*
55768142 ATTTT
1 CTTTT
55768147 TCACTTCCTC
Statistics
Matches: 118, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
23 22 0.19
24 96 0.81
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (24 bp):
CTTTTGATAACTGGGGCATAAGCC
Found at i:55768221 original size:20 final size:20
Alignment explanation
Indices: 55768196--55768256 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
55768186 TTATGATTAC
55768196 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
55768216 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
55768236 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
55768256 A
1 A
55768257 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:55768331 original size:25 final size:25
Alignment explanation
Indices: 55768299--55768346 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55768289 ATACATAAAC
* * *
55768299 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
55768324 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
55768347 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:55772436 original size:46 final size:46
Alignment explanation
Indices: 55772341--55772457 Score: 128
Period size: 46 Copynumber: 2.5 Consensus size: 46
55772331 GACGAGTGCT
** * *
55772341 AGTGTAAGATGTGTCTGAGACATGCATCAGCTTCAAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGACGTAAGCC
* * * *
55772387 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAGGATG-ACAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGACGTA-AGCC
*
55772433 AGTGTAAGACCATGTTTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
55772458 GCTTTGACGT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
45 1 0.02
46 45 0.75
47 14 0.23
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGACGTAAGCC
Found at i:55776680 original size:16 final size:16
Alignment explanation
Indices: 55776659--55776693 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
55776649 ACTTTAAGCT
55776659 TTTTGGCGTTTCGGCA
1 TTTTGGCGTTTCGGCA
*
55776675 TTTTGGCTTTTCGGCA
1 TTTTGGCGTTTCGGCA
55776691 TTT
1 TTT
55776694 CGACTTTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.17, G:0.26, T:0.51
Consensus pattern (16 bp):
TTTTGGCGTTTCGGCA
Found at i:55776700 original size:16 final size:16
Alignment explanation
Indices: 55776667--55776701 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
55776657 CTTTTTGGCG
* *
55776667 TTTCGGCATTTTGGCT
1 TTTCGGCATTTCGACT
55776683 TTTCGGCATTTCGACT
1 TTTCGGCATTTCGACT
55776699 TTT
1 TTT
55776702 GCTGATCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.20, G:0.20, T:0.51
Consensus pattern (16 bp):
TTTCGGCATTTCGACT
Found at i:55779435 original size:43 final size:42
Alignment explanation
Indices: 55779372--55779488 Score: 110
Period size: 43 Copynumber: 2.7 Consensus size: 42
55779362 TCGATGAAAC
* * * * *
55779372 TGTCCTAGATAGGGTTTTACACGAAATCGATTAAT-GATGCCAA
1 TGTCCCAGATATGGTCTTACACGAAATC-A-CAATAAATGCCAA
* *
55779415 TGTCCCAGATATGGTCTTACATGTAATCACAATACAATGCCAA
1 TGTCCCAGATATGGTCTTACACGAAATCACAATA-AATGCCAA
* * *
55779458 TGTCCCAGACATGGTCTTACATGTAATCACA
1 TGTCCCAGATATGGTCTTACACGAAATCACA
55779489 TCTCTCGATA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 3 0.05
42 1 0.02
43 60 0.94
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (42 bp):
TGTCCCAGATATGGTCTTACACGAAATCACAATAAATGCCAA
Found at i:55781353 original size:40 final size:40
Alignment explanation
Indices: 55781268--55781444 Score: 186
Period size: 40 Copynumber: 4.5 Consensus size: 40
55781258 TGGATGATAA
*
55781268 CCGGGCTAAGTCCC-AAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
55781308 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
55781348 CCGGGCTAAGTCCCAAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
55781388 CCGGGCTATGTCCCGAAGGCA-TTGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
55781427 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
55781445 TACTTGGCTT
Statistics
Matches: 118, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 15 0.13
39 15 0.13
40 75 0.64
41 9 0.08
42 4 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:55794541 original size:20 final size:20
Alignment explanation
Indices: 55794516--55794553 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55794506 GTTTATTCGC
*
55794516 GATTTTCAATATTTTGTAAT
1 GATTTTCAAAATTTTGTAAT
*
55794536 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
55794554 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.55
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAT
Found at i:55795972 original size:28 final size:28
Alignment explanation
Indices: 55795940--55796008 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
55795930 GCGTAGATCA
55795940 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
55795968 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
55795996 CGATA-TACCCCTA
1 CGAAATTACCCCTA
55796009 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:55802295 original size:20 final size:20
Alignment explanation
Indices: 55802270--55802307 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55802260 GTTTATTCGC
*
55802270 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
55802290 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
55802308 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:55805006 original size:40 final size:40
Alignment explanation
Indices: 55804947--55805053 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
55804937 CAATTGAATG
* * * *
55804947 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
55804987 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
55805027 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
55805054 CGTGCAAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:55805073 original size:40 final size:39
Alignment explanation
Indices: 55804988--55805114 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
55804978 CTGGAAATTA
* * *
55804988 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
55805026 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* * *
55805068 TATCCGGGCTAAGACCCGAGGGCATTCGTGCATGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
55805108 TATCCGG
1 TATCCGG
55805115 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 70 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:55811740 original size:17 final size:17
Alignment explanation
Indices: 55811714--55811748 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
55811704 CGTACATGAG
* *
55811714 AGAAACAAAAACAAAGA
1 AGAAAAAAAAAAAAAGA
55811731 AGAAAAAAAAAAAAAGA
1 AGAAAAAAAAAAAAAGA
55811748 A
1 A
55811749 AGGAAGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (17 bp):
AGAAAAAAAAAAAAAGA
Found at i:55813048 original size:40 final size:40
Alignment explanation
Indices: 55812989--55813095 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
55812979 CAATTGAATG
* * * *
55812989 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
55813029 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
55813069 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
55813096 CGTGCAAGTT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:55813115 original size:40 final size:40
Alignment explanation
Indices: 55813030--55813156 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 40
55813020 CTGGAAATTA
* * *
55813030 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-TG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTTC
55813068 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTC
* * * *
55813110 TATCCGGGCTAAGACCCGAGGGCATTCGTGCATGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTC
55813150 TATCCGG
1 TATCCGG
55813157 TTGTATTCGA
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 69 0.90
41 2 0.03
42 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTC
Found at i:55816272 original size:35 final size:35
Alignment explanation
Indices: 55816206--55816273 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
55816196 GTGGCATCTG
* ** *
55816206 AGCTCGTTGAGAGGTCTGAGTTCATTATGGATGCA
1 AGCTCATTGAGAGGTCCAAGTTCATGATGGATGCA
* *
55816241 AGCTCATTGAGAGGTCCAATTTCATGGTGGATG
1 AGCTCATTGAGAGGTCCAAGTTCATGATGGATG
55816274 TGATTCATGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.31
Consensus pattern (35 bp):
AGCTCATTGAGAGGTCCAAGTTCATGATGGATGCA
Found at i:55824019 original size:22 final size:19
Alignment explanation
Indices: 55823974--55824013 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
55823964 TCCCATTGGC
55823974 TTGGGATGAACCACCATAG
1 TTGGGATGAACCACCATAG
55823993 TTGGGATGAACCACCATAG
1 TTGGGATGAACCACCATAG
55824012 TT
1 TT
55824014 TATGGGCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (19 bp):
TTGGGATGAACCACCATAG
Found at i:55838409 original size:40 final size:39
Alignment explanation
Indices: 55838364--55838570 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
55838354 CGGAATACAA
*
55838364 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
55838404 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
55838444 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG-
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
55838483 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
55838523 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
55838563 CCGGATAT
1 CCGGATAT
55838571 CATTCAATTG
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
38 4 0.03
39 27 0.19
40 105 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:55838553 original size:79 final size:80
Alignment explanation
Indices: 55838364--55838569 Score: 213
Period size: 79 Copynumber: 2.6 Consensus size: 80
55838354 CGGAATACAA
* * *
55838364 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT
1 CCGGATATAACAACTA-GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAAT
*
55838428 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * * * **
55838444 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG-CCGGATGTGGTC-ACTAGCAC-AAT
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAAAT
*
55838506 GGCCTTCGGGTCTTAAC
65 -GCCTTCGGGTATTAAC
** * * *
55838523 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
55838570 TCATTCAATT
Statistics
Matches: 104, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.56
80 43 0.41
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:55840563 original size:12 final size:12
Alignment explanation
Indices: 55840546--55840573 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
55840536 CTCAAGTTAT
55840546 CACACGGCCTAG
1 CACACGGCCTAG
55840558 CACACGGCCTAG
1 CACACGGCCTAG
55840570 CACA
1 CACA
55840574 TGGGTGTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.43, G:0.21, T:0.07
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:55843354 original size:11 final size:11
Alignment explanation
Indices: 55843340--55843364 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
55843330 TTCAATTTGG
55843340 TTTTTATTTAA
1 TTTTTATTTAA
55843351 TTTTTATTTAA
1 TTTTTATTTAA
55843362 TTT
1 TTT
55843365 CTAACTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTATTTAA
Found at i:55845102 original size:43 final size:43
Alignment explanation
Indices: 55844993--55845135 Score: 148
Period size: 43 Copynumber: 3.3 Consensus size: 43
55844983 TAAGACAACA
* * * *
55844993 TCTGGGACATTGGCATCGACT-TATGATTTACGTGTAAGTCCATG
1 TCTGGGACATTGGCATCGA-TATTTGATTT-CATGTAAGACCCTG
* * *
55845037 TTTGGGATATCGGCATCG-TATTTGATTTCATGTAAGACCCTG
1 TCTGGGACATTGGCATCGATATTTGATTTCATGTAAGACCCTG
* *
55845079 TCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACCAC-G
1 TCTGGGACATTGGCATCGATATTTGATTTCATGTAAGACC-CTG
*
55845122 TCAGGGACATTGGC
1 TCTGGGACATTGGC
55845136 CTTGTATGAG
Statistics
Matches: 82, Mismatches: 14, Indels: 7
0.80 0.14 0.07
Matches are distributed among these distances:
42 26 0.32
43 40 0.49
44 16 0.20
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
TCTGGGACATTGGCATCGATATTTGATTTCATGTAAGACCCTG
Found at i:55847633 original size:43 final size:43
Alignment explanation
Indices: 55847585--55847750 Score: 169
Period size: 43 Copynumber: 3.9 Consensus size: 43
55847575 TATCGAGAGA
*
55847585 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
55847628 TGTGATTA-AGTGTAAGACCATCTCTGGGACATTGGCATCGTTAA
1 TGTGATTACA-TGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* * * * * *
55847672 T-CGATTTCGTGTAAGACCCTGTCTAGGACAATGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
55847713 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
55847751 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 19, Indels: 11
0.77 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 87 0.88
44 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:55851242 original size:13 final size:13
Alignment explanation
Indices: 55851224--55851249 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55851214 GCTCGACAGG
55851224 GACACGCCCGTGT
1 GACACGCCCGTGT
55851237 GACACGCCCGTGT
1 GACACGCCCGTGT
55851250 ACGATTGCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Done.