Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold26
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: 1656043
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.27
Warning! 334368 characters in sequence are not A, C, G, or T
File 4 of 8
Found at i:841140 original size:31 final size:31
Alignment explanation
Indices: 841102--841166 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
841092 GAGCTCATCT
841102 ACACTCTCTCGGGGTAATTTAGGACAAGGAG
1 ACACTCTCTCGGGGTAATTTAGGACAAGGAG
*
841133 ACACTCTCTTGGGGTAATTTAGGACAAGGAG
1 ACACTCTCTCGGGGTAATTTAGGACAAGGAG
841164 ACA
1 ACA
841167 GGCCATTGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (31 bp):
ACACTCTCTCGGGGTAATTTAGGACAAGGAG
Found at i:841764 original size:32 final size:32
Alignment explanation
Indices: 841723--841785 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
841713 TGGAGATACA
841723 CTGTGGCATTTTGATAGAATACATATCACAAC
1 CTGTGGCATTTTGATAGAATACATATCACAAC
841755 CTGTGGCATTTTGATAGAATACATATCACAA
1 CTGTGGCATTTTGATAGAATACATATCACAA
841786 GGACCATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (32 bp):
CTGTGGCATTTTGATAGAATACATATCACAAC
Found at i:842629 original size:19 final size:20
Alignment explanation
Indices: 842605--842651 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
842595 TGCATGTATT
842605 GATACATTGAAAAA-ATATC
1 GATACATTGAAAAATATATC
842624 GATACATTGAAAAATATATC
1 GATACATTGAAAAATATATC
*
842644 GACACATT
1 GATACATT
842652 TGGATCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.28
Consensus pattern (20 bp):
GATACATTGAAAAATATATC
Found at i:842756 original size:21 final size:20
Alignment explanation
Indices: 842712--842762 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
842702 CATGGTCCTA
* *
842712 TATCGATACATTCACTTATG
1 TATCGATATATTCACTAATG
842732 TATCGATATATTCACTAATTG
1 TATCGATATATTCACTAA-TG
842753 TATCGATATA
1 TATCGATATA
842763 AATTGTAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (20 bp):
TATCGATATATTCACTAATG
Found at i:846457 original size:41 final size:42
Alignment explanation
Indices: 846366--846467 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 42
846356 TTAAGTGTGC
* * * *
846366 CATGTTCTTCGAGGACAAAGGAGAAAAAGAAATAAAGTGCGT
1 CATGCTCTTTGAGGACAAAGGAGAAAAAGAAATAAAATACGT
* * *
846408 CTTACTCTTTGAGGACAAAGGA-AAAAGGAAATAAAATACGT
1 CATGCTCTTTGAGGACAAAGGAGAAAAAGAAATAAAATACGT
846449 CATGCTCTTTGAGGACAAA
1 CATGCTCTTTGAGGACAAA
846468 AAGGTACCAC
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
41 33 0.65
42 18 0.35
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.22
Consensus pattern (42 bp):
CATGCTCTTTGAGGACAAAGGAGAAAAAGAAATAAAATACGT
Found at i:846624 original size:61 final size:61
Alignment explanation
Indices: 846446--847575 Score: 1146
Period size: 62 Copynumber: 18.4 Consensus size: 61
846436 AAATAAAATA
* * *
846446 CGTCATGCTCTTTGAGGACAAAAAGGTACCACCAACTTGTGTGGGCTTT-AAAAGGAAAAAGGAA
1 CGTCCTGCTCTTTGAGGAC-TAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAA-G--
846510 AG
61 -G
* * * *
846512 TGTCCTGCTCTTTGAGGACTGTAAGGTGCCACCAACTTGTGTGGGCCTT-AAAAGGAAAAGG
1 CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG
* * * * * * *
846573 CGTCCTACTCTTTGAGGACTGAAAAGTGCCACCAATTTATGTAGGCGTT-AAAAGGAAAAGG
1 CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG
* * * *
846634 CATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTT-AAAAGGAAAAGG
1 CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG
* * *
846695 CATCCTACTCTTTGAGGATTGAAAGGTGCCACCAAC---T-T--G---T--AAA-AAAAAGG
1 CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG
* * ** * * * * *
846745 CATCCTACTCTTTGAGGGTTAGAAAGTGTCACCAACTTGTATGAGCTTT-AAAAGGAAAAGG
1 CGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG
* * *
846806 CGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTATGTGGGCTTTGAAAAGAAAAA-A
1 CGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG
* * * * *
846867 CATCCTGCTCTTTGAGGACTAAAGTGTGCAACTAACTCGTGTGGGCTTTGAAAAGAAAGAGG
1 CGTCCTGCTCTTTGAGGACTAAAG-GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG
* * * * * **
846929 CATCCTGCTCTTTAAGGACTAAATAGTTCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAAA
1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAAAGG
* *
846992 TGTCCTGCTCTTTGAGGACTAAAGTGTGCCACCAACTTATGTGGGCTTTGAAAAGAAAAAAAGG
1 CGTCCTGCTCTTTGAGGACTAAAG-GTGCCACCAACTTGTGTGGGCTTTGAAAAG--AAAAAGG
* * * *
847056 AGTCTTGCTCTTTGAGGATTAAATGGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAAGG
1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG
* * * *
847118 CATCCTGCTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAAGAAAAACG
1 CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG
* * * *
847180 CATCCTGCTCTTTGAGAATTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGG
1 CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG
* * * * *
847242 TGTCCTGTTCTTTGAGGTCTAAAGGGTGCCACCAACTCGTATGGGCTTTGAAAAGAAAAAGG
1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG
* * * *
847304 CATCCTACTTTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAGG
1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAAAGG
* * * * * *
847367 CGTCCTGCTCTTTGAGGACTAAAGGGTGCCACTAACTCGTGTGAGTTTTGAAAGGAAAAATG
1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG
* * * *
847429 TGTCCTACTCTTTGAGGACTAAAGGTGCCACCAATTTGTGTGGGC-TTGAAAAGAAAAAGA
1 CGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG
* * *
847489 TGTCCTGTTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGG
1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG
* *
847551 TGTCTTGCTCTTTGAGGACTAAAGG
1 CGTCCTGCTCTTTGAGGACTAAAGG
847576 GCTAAAAGGG
Statistics
Matches: 917, Mismatches: 121, Indels: 57
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.00
50 37 0.04
51 3 0.00
52 1 0.00
53 1 0.00
54 1 0.00
55 1 0.00
56 1 0.00
57 1 0.00
58 1 0.00
59 1 0.00
60 38 0.04
61 283 0.31
62 331 0.36
63 109 0.12
64 55 0.06
65 6 0.01
66 46 0.05
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (61 bp):
CGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGG
Found at i:846759 original size:50 final size:50
Alignment explanation
Indices: 846689--846785 Score: 160
Period size: 50 Copynumber: 1.9 Consensus size: 50
846679 CTTTAAAAGG
846689 AAAAGGCATCCTACTCTTTGAGGATT-GAAAGGTGCCACCAACTTGTAAAA
1 AAAAGGCATCCTACTCTTTGAGGATTAGAAA-GTGCCACCAACTTGTAAAA
* *
846739 AAAAGGCATCCTACTCTTTGAGGGTTAGAAAGTGTCACCAACTTGTA
1 AAAAGGCATCCTACTCTTTGAGGATTAGAAAGTGCCACCAACTTGTA
846786 TGAGCTTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 40 0.91
51 4 0.09
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (50 bp):
AAAAGGCATCCTACTCTTTGAGGATTAGAAAGTGCCACCAACTTGTAAAA
Found at i:846822 original size:111 final size:111
Alignment explanation
Indices: 846628--846843 Score: 337
Period size: 111 Copynumber: 1.9 Consensus size: 111
846618 CGTTAAAAGG
*
846628 AAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAA
1 AAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGAGCTTTAAAAGGAAAA
*
846693 GGCATCCTACTCTTTGAGGA-TTGAAAGGTGCCACCAACTTGTAAAA
66 GGCATCCTACTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTAAAA
** *
846739 AAAAGGCATCCTACTCTTTGAGGGTTAGAAA-GTGTCACCAACTTGTATGAGCTTTAAAAGGAAA
1 AAAAGGCATCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTATGAGCTTTAAAAGGAAA
* *
846803 AGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTT
65 AGGCATCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTT
846844 ATGTGGGCTT
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
111 87 0.91
112 9 0.09
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (111 bp):
AAAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGAGCTTTAAAAGGAAAA
GGCATCCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTAAAA
Found at i:848275 original size:13 final size:13
Alignment explanation
Indices: 848257--848281 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
848247 CATAAAGTGT
848257 TGTATCGATACAA
1 TGTATCGATACAA
848270 TGTATCGATACA
1 TGTATCGATACA
848282 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:848279 original size:33 final size:33
Alignment explanation
Indices: 848237--848303 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
848227 ATCAACGATT
848237 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
848270 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
848303 T
1 T
848304 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:848362 original size:13 final size:13
Alignment explanation
Indices: 848344--848368 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
848334 ATCACTTAAA
848344 TGTATCGATACAT
1 TGTATCGATACAT
848357 TGTATCGATACA
1 TGTATCGATACA
848369 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:857403 original size:51 final size:51
Alignment explanation
Indices: 857345--857461 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
857335 TCGAAAATAA
857345 CGGGGTTGGAGTATCACCAATTGTGGAAAATCGGTATTTTGAAAATAAAA-
1 CGGGGTTGGAGTATCACCAATTGTGGAAAATCGGTATTTTGAAAATAAAAT
* * * * * *
857395 CTGGGGTTGGAGTATCCCCGATTGTGGAACATTGGTGTTTTGGAAATAAAAT
1 C-GGGGTTGGAGTATCACCAATTGTGGAAAATCGGTATTTTGAAAATAAAAT
857447 CGGGGTTGGAGTATC
1 CGGGGTTGGAGTATC
857462 TCCTCGAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
50 1 0.02
51 57 0.97
52 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.31, T:0.30
Consensus pattern (51 bp):
CGGGGTTGGAGTATCACCAATTGTGGAAAATCGGTATTTTGAAAATAAAAT
Found at i:857481 original size:79 final size:77
Alignment explanation
Indices: 857398--857545 Score: 206
Period size: 79 Copynumber: 1.9 Consensus size: 77
857388 AATAAAACTG
* * ** * * * *
857398 GGGTTGGAGTATCCCCGATTGTGGAACATTGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCT
1 GGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAACCGGAGTTGAAGTA-C-
857463 CCTCGAAAATAAAA
64 CCTCGAAAATAAAA
857477 GGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAACCGGAGTTGAAGTACCC
1 GGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAACCGGAGTTGAAGTACCC
857542 TCGA
66 TCGA
857546 TGGTGAAAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
77 6 0.10
78 1 0.02
79 54 0.89
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (77 bp):
GGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAACCGGAGTTGAAGTACCC
TCGAAAATAAAA
Found at i:857550 original size:51 final size:51
Alignment explanation
Indices: 857479--857575 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
857469 AAATAAAAGG
* * *
857479 GTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAACCGGA
1 GTTGAAGTATCCCCGATGGTGAAAAATCAGTATTTTAGAAATAAAACCGGA
*
857530 GTTGAAGTA-CCCTCGATGGTGAAAAATCGGTATTTTAGAAATAAAA
1 GTTGAAGTATCCC-CGATGGTGAAAAATCAGTATTTTAGAAATAAAA
857576 ACATGAATGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 3 0.07
51 38 0.93
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (51 bp):
GTTGAAGTATCCCCGATGGTGAAAAATCAGTATTTTAGAAATAAAACCGGA
Found at i:857571 original size:130 final size:130
Alignment explanation
Indices: 857300--857577 Score: 328
Period size: 130 Copynumber: 2.1 Consensus size: 130
857290 AAAAATTTAA
* * **
857300 TATTTTGGAGATAAAAACGTGGTTGAAGTATTCCCTCGAAAATAACGGGGTTGGAGTATCACCAA
1 TATTTTGGAAATAAAAACGGGGTTGAAGTATTCCCTCGAAAATAAAAGGGTTGGAGTATCACCAA
* * * * * * * * *
857365 TTGTGGAAAATCGGTATTTTGAAAATAAAACTGGGGTTGGAGTATCCCCGATTGTGGAACATTGG
66 TGGTGGAAAATCAGTATTTTGAAAATAAAACCGGAGTTGAAGTATCCCCGATGGTGAAAAATCGG
* * * * *
857430 TGTTTTGGAAATAAAATCGGGGTTGGAGTA-TCTCCTCGAAAATAAAAGGGTTGGAGTATCCCCG
1 TATTTTGGAAATAAAAACGGGGTTGAAGTATTC-CCTCGAAAATAAAAGGGTTGGAGTATCACCA
*
857494 ATGGTGGAAAATCAGTGTTTT-AGAAATAAAACCGGAGTTGAAGTA-CCCTCGATGGTGAAAAAT
65 ATGGTGGAAAATCAGTATTTTGA-AAATAAAACCGGAGTTGAAGTATCCC-CGATGGTGAAAAAT
857557 CGG
128 CGG
*
857560 TATTTTAGAAATAAAAAC
1 TATTTTGGAAATAAAAAC
857578 ATGAATGAAA
Statistics
Matches: 123, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
129 6 0.05
130 117 0.95
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (130 bp):
TATTTTGGAAATAAAAACGGGGTTGAAGTATTCCCTCGAAAATAAAAGGGTTGGAGTATCACCAA
TGGTGGAAAATCAGTATTTTGAAAATAAAACCGGAGTTGAAGTATCCCCGATGGTGAAAAATCGG
Found at i:860749 original size:51 final size:51
Alignment explanation
Indices: 860689--860786 Score: 160
Period size: 51 Copynumber: 1.9 Consensus size: 51
860679 CATTCATGTT
* *
860689 TTTATTTCTAAAATATCGATTTTCCACTATCGAGGATACTCCAACCCTGAC
1 TTTATTTCTAAAATATCGATTTTCCACAATCGAGGATACTCAAACCCTGAC
* *
860740 TTTATTTCTAAAATATCGATTTTTCACAATCGGGGATACTCAAACCC
1 TTTATTTCTAAAATATCGATTTTCCACAATCGAGGATACTCAAACCC
860787 CATTATTTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (51 bp):
TTTATTTCTAAAATATCGATTTTCCACAATCGAGGATACTCAAACCCTGAC
Found at i:860878 original size:51 final size:51
Alignment explanation
Indices: 860818--860915 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 51
860808 TCAACCCTAT
** *
860818 TTTTATTTCCAAAACACCGATTTT-TCACCATCG-GTGATACTTCAACCTCGG
1 TTTTATTTCCAAAACACAAATTTTCT-ACCATCGAG-GATACTCCAACCTCGG
860869 TTTTATTTCCAAAACACAAATTTTCTACCATCGAGGATACTCCAACC
1 TTTTATTTCCAAAACACAAATTTTCTACCATCGAGGATACTCCAACC
860916 CTGTTATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 40 0.95
52 2 0.05
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (51 bp):
TTTTATTTCCAAAACACAAATTTTCTACCATCGAGGATACTCCAACCTCGG
Found at i:860923 original size:130 final size:130
Alignment explanation
Indices: 860687--861090 Score: 383
Period size: 130 Copynumber: 3.1 Consensus size: 130
860677 TTCATTCATG
* * * * * * * * ** *
860687 TTTTTATTTCTAAAATATCGATTTTCCACTATCGAGGATACTCCAACCCTGACTTTATTTCTAAA
1 TTTTTATTTCCAAAACACCAATGTTCCACCATCGGGGATATTCCAACCCTGGTTTTATTTCCAAA
* * * * ** * * *
860752 ATATC-GATTTTTC-ACAATCGGGGATACTCAAACCCCATTATTTCCAAGGGGATACTTCAACCC
66 ACA-CAGAATTTTCTAC-ATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCC
860815 TA
129 TA
* * * *
860817 TTTTTATTTCCAAAACACCGATTTTTCACCATCGGTGATACTT-CAA-CCTCGGTTTTATTTCCA
1 TTTTTATTTCCAAAACACCAATGTTCCACCATCGGGGATA-TTCCAACCCT-GGTTTTATTTCCA
* *
860880 AAACACA-AATTTTCTACCATCGAGGATACTCCAACCCTGTTATTTTTGAGAGGAT-CTCCAATC
64 AAACACAGAATTTTCTA-CATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAA-C
860943 CC-A
127 CCTA
* * **
860946 ATTTTATTTCTAAAACACCAATGTTCCACCATCGGGGATATTCCAACCCTGGTTTTATTTCCTGA
1 TTTTTATTTCCAAAACACCAATGTTCCACCATCGGGGATATTCCAACCCTGGTTTTATTTCCAAA
* * *
861011 ACACAGATTTTTCATA-ATCGAAGATACTCCGACCCTGTTATTTTCGAGGGGATACTCCAACCCT
66 ACACAGAATTTTC-TACATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCT
861075 A
130 A
*
861076 TTTTTATCTCCAAAA
1 TTTTTATTTCCAAAA
861091 TATTAAATTT
Statistics
Matches: 224, Mismatches: 38, Indels: 24
0.78 0.13 0.08
Matches are distributed among these distances:
128 2 0.01
129 107 0.48
130 111 0.50
131 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (130 bp):
TTTTTATTTCCAAAACACCAATGTTCCACCATCGGGGATATTCCAACCCTGGTTTTATTTCCAAA
ACACAGAATTTTCTACATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCTA
Found at i:861000 original size:129 final size:128
Alignment explanation
Indices: 860688--861079 Score: 389
Period size: 129 Copynumber: 3.0 Consensus size: 128
860678 TCATTCATGT
* * * * * ** *
860688 TTTTATTTCTAAAATATCGATTTTCCACTATCGAGGATACTCCAACCCTGACTTTATTTCTAAAA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATATTCCAACCCTGGTTTTATTTCCAAAA
* * * * ** * * *
860753 TATCGATTTTTC-ACAATCGGGGATACTCAAACCCCATTATTTCCAAGGGGATACTTCAACCCTA
66 CA-CAATTTTTCTAC-ATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCC-A
*
860817 T
128 A
* * *
860818 TTTTATTTCCAAAACACCGATTTTTCACCATCGGTGATACTT-CAA-CCTCGGTTTTATTTCCAA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATA-TTCCAACCCT-GGTTTTATTTCCAA
* * *
860881 AACACAAATTTTCTACCATCGAGGATACTCCAACCCTGTTATTTTTGAGAGGAT-CTCCAATCCC
64 AACACAATTTTTCTA-CATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAA-CCC
860945 AA
127 AA
* * **
860947 TTTTATTTCTAAAACACCAATGTTCCACCATCGGGGATATTCCAACCCTGGTTTTATTTCCTGAA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATATTCCAACCCTGGTTTTATTTCCAAAA
* * *
861012 CACAGATTTTTCATA-ATCGAAGATACTCCGACCCTGTTATTTTCGAGGGGATACTCCAACCCTA
66 CACA-ATTTTTC-TACATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCAA
861076 TTTT
1 TTTT
861080 TATCTCCAAA
Statistics
Matches: 215, Mismatches: 37, Indels: 21
0.79 0.14 0.08
Matches are distributed among these distances:
128 2 0.01
129 112 0.52
130 97 0.45
131 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (128 bp):
TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATATTCCAACCCTGGTTTTATTTCCAAAA
CACAATTTTTCTACATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCAA
Found at i:863400 original size:13 final size:13
Alignment explanation
Indices: 863382--863406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
863372 ATAATGCACA
863382 GTATCGATACATT
1 GTATCGATACATT
863395 GTATCGATACAT
1 GTATCGATACAT
863407 GACCACTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:867523 original size:654 final size:654
Alignment explanation
Indices: 866275--867587 Score: 2563
Period size: 654 Copynumber: 2.0 Consensus size: 654
866265 GCTTATTCTC
*
866275 AGAAATCAAAACAAAAGAAGGAGGATGTGTCACCTTTGGCGATAACTCGAAAGGAAGAATCGAAG
1 AGAAATCAAAACAAAAGAAGGAGGATGTGTCACCTTTGGCGATAACTCGAAAGGAAGAATAGAAG
866340 GAATCGGCACCATTGGTAACATCTCTTCATTTTGTATTGAAAATGTTTTATATGTCAATGGTCTA
66 GAATCGGCACCATTGGTAACATCTCTTCATTTTGTATTGAAAATGTTTTATATGTCAATGGTCTA
866405 AAACATAACCTCCTAAGCATTAGTCAATTATGTGACAAAGGTATGAAAGTAGTTTTTGAATCACA
131 AAACATAACCTCCTAAGCATTAGTCAATTATGTGACAAAGGTATGAAAGTAGTTTTTGAATCACA
* *
866470 AGAATGTCACGTAATTGATATTTGTAGTAATAAGACAATTTTCCTCGGCCATAGAGAAGGGAACA
196 AGAATGCCACGTAATTGATATTTGTAATAATAAGACAATTTTCCTCGGCCATAGAGAAGGGAACA
866535 TTTATGTTGTGCATTTAGATGTTTTAAGTTCCCAAAACGTATGTTTTGTTGCCGACAACAATGAC
261 TTTATGTTGTGCATTTAGATGTTTTAAGTTCCCAAAACGTATGTTTTGTTGCCGACAACAATGAC
866600 ATACCTTGGCTATGGCATCGAAAATTAGGACACGCAAGTATGAGTGTTCTTTCAAAGTTATCTAG
326 ATACCTTGGCTATGGCATCGAAAATTAGGACACGCAAGTATGAGTGTTCTTTCAAAGTTATCTAG
*
866665 GAAGAACCTTGTTATTGGATTACCTAAGGTTAAATTTGATTGCAATAAGGTATGTGATGCTTGTG
391 GAAGAACCTTGTTATTAGATTACCTAAGGTTAAATTTGATTGCAATAAGGTATGTGATGCTTGTG
866730 TAAAGGGTAAGCATAAAAGAACTACTTTTAAACCCATAAACATTGTCATGACATCTAGAGTATTG
456 TAAAGGGTAAGCATAAAAGAACTACTTTTAAACCCATAAACATTGTCATGACATCTAGAGTATTG
866795 CAACTAGTTCATATCGACTTATTTGGTCCAACTAGAACGCAAAGTCTAGGTGGTAAAAGATATGG
521 CAACTAGTTCATATCGACTTATTTGGTCCAACTAGAACGCAAAGTCTAGGTGGTAAAAGATATGG
866860 TTTTGTTATTGTGGATGACTATTCAAGATATACTTGGGTTTTATTTTTAAGCACTAAGGATGAAG
586 TTTTGTTATTGTGGATGACTATTCAAGATATACTTGGGTTTTATTTTTAAGCACTAAGGATGAAG
866925 CTTT
651 CTTT
* *
866929 AGAAATCAAAACAAAATAATGAGGATGTGTCACCTTTGGCGATAACTCGAAAGGAAGAATAGAAG
1 AGAAATCAAAACAAAAGAAGGAGGATGTGTCACCTTTGGCGATAACTCGAAAGGAAGAATAGAAG
866994 GAATCGGCACCATTGGTAACATCTCTTCATTTTGTATTGAAAATGTTTTATATGTCAATGGTCTA
66 GAATCGGCACCATTGGTAACATCTCTTCATTTTGTATTGAAAATGTTTTATATGTCAATGGTCTA
867059 AAACATAACCTCCTAAGCATTAGTCAATTATGTGACAAAGGTATGAAAGTAGTTTTTGAATCACA
131 AAACATAACCTCCTAAGCATTAGTCAATTATGTGACAAAGGTATGAAAGTAGTTTTTGAATCACA
867124 AGAATGCCACGTAATTGATATTTGTAATAATAAGACAATTTTCCTCGGCCATAGAGAAGGGAACA
196 AGAATGCCACGTAATTGATATTTGTAATAATAAGACAATTTTCCTCGGCCATAGAGAAGGGAACA
867189 TTTATGTTGTGCATTTAGATGTTTTAAGTTCCCAAAACGTATGTTTTGTTGCCGACAACAATGAC
261 TTTATGTTGTGCATTTAGATGTTTTAAGTTCCCAAAACGTATGTTTTGTTGCCGACAACAATGAC
867254 ATACCTTGGCTATGGCATCGAAAATTAGGACACGCAAGTATGAGTGTTCTTTCAAAGTTATCTAG
326 ATACCTTGGCTATGGCATCGAAAATTAGGACACGCAAGTATGAGTGTTCTTTCAAAGTTATCTAG
*
867319 GAAGGACCTTGTTATTAGATTACCTAAGGTTAAATTTGATTGCAATAAGGTATGTGATGCTTGTG
391 GAAGAACCTTGTTATTAGATTACCTAAGGTTAAATTTGATTGCAATAAGGTATGTGATGCTTGTG
867384 TAAAGGGTAAGCATAAAAGAACTACTTTTAAACCCATAAACATTGTCATGACATCTAGAGTATTG
456 TAAAGGGTAAGCATAAAAGAACTACTTTTAAACCCATAAACATTGTCATGACATCTAGAGTATTG
867449 CAACTAGTTCATATCGACTTATTTGGTCCAACTAGAACGCAAAGTCTAGGTGGTAAAAGATATGG
521 CAACTAGTTCATATCGACTTATTTGGTCCAACTAGAACGCAAAGTCTAGGTGGTAAAAGATATGG
867514 TTTTGTTATTGTGGATGACTATTCAAGATATACTTGGGTTTTATTTTTAAGCACTAAGGATGAAG
586 TTTTGTTATTGTGGATGACTATTCAAGATATACTTGGGTTTTATTTTTAAGCACTAAGGATGAAG
867579 CTTT
651 CTTT
867583 AGAAA
1 AGAAA
867588 AACTCATCAC
Statistics
Matches: 652, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
654 652 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (654 bp):
AGAAATCAAAACAAAAGAAGGAGGATGTGTCACCTTTGGCGATAACTCGAAAGGAAGAATAGAAG
GAATCGGCACCATTGGTAACATCTCTTCATTTTGTATTGAAAATGTTTTATATGTCAATGGTCTA
AAACATAACCTCCTAAGCATTAGTCAATTATGTGACAAAGGTATGAAAGTAGTTTTTGAATCACA
AGAATGCCACGTAATTGATATTTGTAATAATAAGACAATTTTCCTCGGCCATAGAGAAGGGAACA
TTTATGTTGTGCATTTAGATGTTTTAAGTTCCCAAAACGTATGTTTTGTTGCCGACAACAATGAC
ATACCTTGGCTATGGCATCGAAAATTAGGACACGCAAGTATGAGTGTTCTTTCAAAGTTATCTAG
GAAGAACCTTGTTATTAGATTACCTAAGGTTAAATTTGATTGCAATAAGGTATGTGATGCTTGTG
TAAAGGGTAAGCATAAAAGAACTACTTTTAAACCCATAAACATTGTCATGACATCTAGAGTATTG
CAACTAGTTCATATCGACTTATTTGGTCCAACTAGAACGCAAAGTCTAGGTGGTAAAAGATATGG
TTTTGTTATTGTGGATGACTATTCAAGATATACTTGGGTTTTATTTTTAAGCACTAAGGATGAAG
CTTT
Found at i:872756 original size:20 final size:20
Alignment explanation
Indices: 872731--872771 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
872721 AAAGGTCAAA
872731 ACCTTCAAATGTATCGATAC
1 ACCTTCAAATGTATCGATAC
*
872751 ACCTTCAGATGTATCGATAC
1 ACCTTCAAATGTATCGATAC
872771 A
1 A
872772 TAATGCACAG
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:0.34, C:0.24, G:0.12, T:0.29
Consensus pattern (20 bp):
ACCTTCAAATGTATCGATAC
Found at i:872805 original size:19 final size:20
Alignment explanation
Indices: 872760--872809 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
872750 CACCTTCAGA
*
872760 TGTATCGATACATAATGCAC
1 TGTATCGATACATAATCCAC
* *
872780 AGTATCGATACATGA-CCAC
1 TGTATCGATACATAATCCAC
872799 TGTATCGATAC
1 TGTATCGATAC
872810 TTGCAAAGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (20 bp):
TGTATCGATACATAATCCAC
Found at i:875634 original size:28 final size:28
Alignment explanation
Indices: 875603--875659 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
875593 CAAGTTGACT
875603 AAGCCAAATTTCATTAACTGGATCTACA
1 AAGCCAAATTTCATTAACTGGATCTACA
*
875631 AAGCCAAATTTCATTAATTGGATCTACA
1 AAGCCAAATTTCATTAACTGGATCTACA
875659 A
1 A
875660 TCTTAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (28 bp):
AAGCCAAATTTCATTAACTGGATCTACA
Found at i:878316 original size:15 final size:16
Alignment explanation
Indices: 878282--878320 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
878272 ATATTGTTGG
*
878282 ATTAAATTTGAGATTTA
1 ATTAAATTT-AGACTTA
878299 ATTAAATTT-GACTTA
1 ATTAAATTTAGACTTA
878314 ATTAAAT
1 ATTAAAT
878321 AAAAGATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.57
17 9 0.43
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (16 bp):
ATTAAATTTAGACTTA
Found at i:879021 original size:51 final size:52
Alignment explanation
Indices: 878940--879041 Score: 143
Period size: 51 Copynumber: 2.0 Consensus size: 52
878930 TATCGGTACA
* *
878940 TTATGTTTTTTACCCAGATGTTTTGATACATTTTTCAATGTATCGATACATT
1 TTATGTTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATT
* * * *
878992 TTAT-TTTTTTACTCATATGTATCGATACATTTTTTAATGTATTGATACAT
1 TTATGTTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
879042 CTAGTTAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 40 0.91
52 4 0.09
ACGTcount: A:0.26, C:0.12, G:0.10, T:0.52
Consensus pattern (52 bp):
TTATGTTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATT
Found at i:894067 original size:20 final size:20
Alignment explanation
Indices: 894042--894096 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
894032 AAAATCCGCT
894042 ACAACTTGTGACATTCTGTC
1 ACAACTTGTGACATTCTGTC
894062 ACAACTTGTGACATTCTGTC
1 ACAACTTGTGACATTCTGTC
*
894082 ATAACTTGTGACATT
1 ACAACTTGTGACATT
894097 TCATCATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (20 bp):
ACAACTTGTGACATTCTGTC
Found at i:896431 original size:3 final size:3
Alignment explanation
Indices: 896415--896470 Score: 67
Period size: 3 Copynumber: 18.7 Consensus size: 3
896405 CAAATAAATG
* * * *
896415 ATC ATC ATT TTC ATC ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
*
896463 ATA ATC AT
1 ATC ATC AT
896471 ATTCATCTTC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.30, C:0.29, G:0.00, T:0.41
Consensus pattern (3 bp):
ATC
Found at i:896432 original size:12 final size:12
Alignment explanation
Indices: 896415--896477 Score: 72
Period size: 12 Copynumber: 5.2 Consensus size: 12
896405 CAAATAAATG
*
896415 ATCATCATTTTC
1 ATCATCATCTTC
*
896427 ATCATCATCATC
1 ATCATCATCTTC
* *
896439 TTCATCATCATC
1 ATCATCATCTTC
896451 ATCATCATCTTC
1 ATCATCATCTTC
* *
896463 ATAATCATATTC
1 ATCATCATCTTC
896475 ATC
1 ATC
896478 TTCTTCATCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.30, C:0.29, G:0.00, T:0.41
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:896469 original size:21 final size:21
Alignment explanation
Indices: 896425--896485 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
896415 ATCATCATTT
*
896425 TCATCATCATCATCTTCATCA
1 TCATCATCATCATCTTCATAA
896446 TCATCATCATCATCTTCATAA
1 TCATCATCATCATCTTCATAA
*
896467 TCAT-ATTCATCTTCTTCAT
1 TCATCA-TCATCATCTTCAT
896486 CACCCTTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 1 0.03
21 36 0.97
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.43
Consensus pattern (21 bp):
TCATCATCATCATCTTCATAA
Found at i:901350 original size:2 final size:2
Alignment explanation
Indices: 901343--901376 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
901333 TCTTGATTGC
901343 AT AT 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
901377 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:902304 original size:2 final size:2
Alignment explanation
Indices: 902297--902329 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
902287 CAAATATTAG
902297 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 T
902330 GAAAATAAGC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:903475 original size:2 final size:2
Alignment explanation
Indices: 903468--903508 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
903458 AATTCAAGGA
903468 AT AT AT AT 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 AT AT AT AT A
903509 GAGAGAGAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:903513 original size:2 final size:2
Alignment explanation
Indices: 903508--903556 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
903498 ATATATATAT
*
903508 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
903550 AG AG AG A
1 AG AG AG A
903557 CAAAGATGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:905870 original size:144 final size:144
Alignment explanation
Indices: 905606--905871 Score: 352
Period size: 144 Copynumber: 1.8 Consensus size: 144
905596 GAGTTTCTGA
* *
905606 AGATGCTTCAACAATCCAATCTCTTGAGGGATGGAACCAGAGAGTTTGTTGGCATGAAGGTAAAG
1 AGATGCTTCAACAATCCAATCTCTTGAGGAATAGAACCAGAGAGTTTGTTGGCATGAAGGTAAAG
** * * * *
905671 AAGGGATAAATGCACCAAGTTTTCTATTGAAGTTGGGATAGAACCCATGAGATTATTATGGGATA
66 AACAGATAAATGCACCAAGTTTCCAATTGAAGTTGGGATAGAACCCATCAAATTATTATGGGATA
905736 TGTCAAGCTCTTGG
131 TGTCAAGCTCTTGG
* * * * *
905750 AGATGTTTCAAGAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG
1 AGATGCTTCAACAATCCAATCTCTTGAGGAATAGAACCAGAGAGTTTGTTGGCATGAAGGTAAAG
* * ** * * *
905815 AACAGATATATTCGTCAAGTTTCCAATTGAAGTTGGGATTGGACCCGTCAAATTATT
66 AACAGATAAATGCACCAAGTTTCCAATTGAAGTTGGGATAGAACCCATCAAATTATT
905872 TTGAGACAAA
Statistics
Matches: 102, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
144 102 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (144 bp):
AGATGCTTCAACAATCCAATCTCTTGAGGAATAGAACCAGAGAGTTTGTTGGCATGAAGGTAAAG
AACAGATAAATGCACCAAGTTTCCAATTGAAGTTGGGATAGAACCCATCAAATTATTATGGGATA
TGTCAAGCTCTTGG
Found at i:905960 original size:360 final size:360
Alignment explanation
Indices: 905403--906234 Score: 1418
Period size: 360 Copynumber: 2.3 Consensus size: 360
905393 GATCTCATAT
** * * * * * *
905403 ATCCAATCTCTTTG-GGAATGGAACCAGAGAGATTATTGCTTTGAAGGTAAAGAA-AGGATAAAT
1 ATCCAATCTC-TTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAGAACA-GATATAT
* * * * * *
905466 TCACCAAGTTTCCTATTGAAGCTGGTATTGGACCCATCAAAATATTTTCAGACAAATAAAGCTCA
64 TCATCAAGTTTCCAATTGAAGCTGGGATTGGACCCGTCAAATTATTTTGAGACAAATAAAGCTCA
905531 GAAAGAGATCTCAAATATACAATCTCTTCTGGAATGCCACCAGAGAGACTATTCTCGGATAAGCT
129 GAAAGAGATCTCAAATATACAATCTCTTCTGGAATGCCACCAGAGAGACTATTCTCGGATAAGCT
905596 GAGTTTCTGAAGATGCTTCAACAATCCAATCTCTTGAGGGATGGAACCAGAGAGTTTGTTGGCAT
194 GAGTTTCTGAAGATGCTTCAACAATCCAATCTCTTGAGGGATGGAACCAGAGAGTTTGTTGGCAT
905661 GAAGGTAAAGAAGGGATAAATGCACCAAGTTTTCTATTGAAGTTGGGATAGAACCCATGAGATTA
259 GAAGGTAAAGAAGGGATAAATGCACCAAGTTTTCTATTGAAGTTGGGATAGAACCCATGAGATTA
905726 TTATGGGATATGTCAAGCTCTTGGAGATGTTTCAAGA
324 TTATGGGATATGTCAAGCTCTTGGAGATGTTTCAAGA
905763 ATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAGAACAGATATATTC
1 ATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAGAACAGATATATTC
* *
905828 GTCAAGTTTCCAATTGAAGTTGGGATTGGACCCGTCAAATTATTTTGAGACAAATAAAGCTCCA-
66 ATCAAGTTTCCAATTGAAGCTGGGATTGGACCCGTCAAATTATTTTGAGACAAATAAAGCT-CAG
* * *
905892 TAAGGGATCTCAAATATCCAATCTCTTCTGGAATGCCACCAGAGAGACTATTCTCGGATAAGCTG
130 AAAGAGATCTCAAATATACAATCTCTTCTGGAATGCCACCAGAGAGACTATTCTCGGATAAGCTG
* *
905957 AGTTTCTGAAGATGCTTCAACAATCTAATCTCTTGAGGGATGGAACCAGAGAGTTTGTTGGCTTG
195 AGTTTCTGAAGATGCTTCAACAATCCAATCTCTTGAGGGATGGAACCAGAGAGTTTGTTGGCATG
906022 AAGGTAAAGAAGGGATAAATGCACCAAGTTTTCTATTGAAGTTGGGATAGAACCCATGAGATTAT
260 AAGGTAAAGAAGGGATAAATGCACCAAGTTTTCTATTGAAGTTGGGATAGAACCCATGAGATTAT
906087 TATGGGATATGTCAAGCTCTTGGAGATGTTTCAAGA
325 TATGGGATATGTCAAGCTCTTGGAGATGTTTCAAGA
*
906123 ATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAGAGCAGATATATTC
1 ATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAGAACAGATATATTC
906188 ATCAAGTTTCCAATTGAAGCTGGGATTGGACCCGTCAAATTATTTTG
66 ATCAAGTTTCCAATTGAAGCTGGGATTGGACCCGTCAAATTATTTTG
906235 GGATAATTCA
Statistics
Matches: 445, Mismatches: 24, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
359 3 0.01
360 439 0.99
361 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (360 bp):
ATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAGAACAGATATATTC
ATCAAGTTTCCAATTGAAGCTGGGATTGGACCCGTCAAATTATTTTGAGACAAATAAAGCTCAGA
AAGAGATCTCAAATATACAATCTCTTCTGGAATGCCACCAGAGAGACTATTCTCGGATAAGCTGA
GTTTCTGAAGATGCTTCAACAATCCAATCTCTTGAGGGATGGAACCAGAGAGTTTGTTGGCATGA
AGGTAAAGAAGGGATAAATGCACCAAGTTTTCTATTGAAGTTGGGATAGAACCCATGAGATTATT
ATGGGATATGTCAAGCTCTTGGAGATGTTTCAAGA
Found at i:906566 original size:144 final size:144
Alignment explanation
Indices: 905966--906516 Score: 773
Period size: 144 Copynumber: 3.8 Consensus size: 144
905956 GAGTTTCTGA
* * * ** *
905966 AGATGCTTCAACAATCTAATCTCTTGAGGGATGGAACCAGAGAGTTTGTTGGCT-TGAAGGTAAA
1 AGATGCTTCAATAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGG-TATGAAGGTAAA
** * * * * * * * * * * * *
906030 GAAGGGATAAATGCACCAAGTTTTCTATTGAAGTTGGGATAGAACCCATGAGATTATTATGGGAT
65 GAACAGATATATTCATCAAGTTTCCAATTGAAGCTGGTATTGGACCCGTCAAATTATTATGGGAT
* * *
906095 -ATGTCAAGCTCTTGG
130 AAT-TCAAGATCATAG
* *
906110 AGATGTTTCAAGAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG
1 AGATGCTTCAATAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG
* * *
906175 AGCAGATATATTCATCAAGTTTCCAATTGAAGCTGGGATTGGACCCGTCAAATTATTTTGGGATA
66 AACAGATATATTCATCAAGTTTCCAATTGAAGCTGGTATTGGACCCGTCAAATTATTATGGGATA
906240 ATTCAAGATCATAG
131 ATTCAAGATCATAG
906254 AGATGCTTCAATAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG
1 AGATGCTTCAATAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG
* *
906319 AACAGATATATTCATCAAGTTTCCAATTGAAGCTGGTATTGGACCCGTGAGATTATTATGGGATA
66 AACAGATATATTCATCAAGTTTCCAATTGAAGCTGGTATTGGACCCGTCAAATTATTATGGGATA
906384 ATTCAAGATCATAG
131 ATTCAAGATCATAG
* *
906398 AGATGCTTCAATAATCCTATCTCTTCAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG
1 AGATGCTTCAATAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG
*
906463 AACAGATATATTCATCAAGTTTCCAATTGAAGCTGGTATTGGACCCATCAAATT
66 AACAGATATATTCATCAAGTTTCCAATTGAAGCTGGTATTGGACCCGTCAAATT
906517 GTTGTGAGAT
Statistics
Matches: 368, Mismatches: 37, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
143 1 0.00
144 365 0.99
145 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (144 bp):
AGATGCTTCAATAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG
AACAGATATATTCATCAAGTTTCCAATTGAAGCTGGTATTGGACCCGTCAAATTATTATGGGATA
ATTCAAGATCATAG
Found at i:906627 original size:288 final size:288
Alignment explanation
Indices: 906046--906598 Score: 677
Period size: 288 Copynumber: 1.9 Consensus size: 288
906036 ATAAATGCAC
* * * * * *
906046 CAAGTTTTCTATTGAAGTTGGGATAGAACCCATGAGATTATTATGGGATATGTCAAGCTCTTGGA
1 CAAGTTTCCAATTGAAGCTGGGATAGAACCCATGAGATTATTATGGGATATGTCAAGATCATAGA
* *
906111 GATGTTTCAAGAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAGA
66 GATGCTTCAAGAATCCAATCTCTTCAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAGA
* * * *
906176 GCAGATATATTCATCAAGTTTCCAATTGAAGCTGGGATTGGACCCGTCAAATTATTTTGGGATAA
131 ACAGATATATTCATCAAGTTTCCAATTGAAGCTGGGATTGGACCCATCAAATTATTGTGAGATAA
* * * * * * *** * *
906241 TTCAAGATCATAGAGATGCTTCAATAATCCAATCTCTTGAGGAATATAACCTGAGAGTTTGTTGG
196 ATAAAGATCAAAGAGATGCTTCAATAATCCAAGCTCTTGAGGAATATAACCAGAAAAACTATTGA
* * *
906306 TATGAAGGTAAAGAACAGATATATTCAT
261 AAAGAAGGTAAAGAACAGACATATTCAT
* * * *
906334 CAAGTTTCCAATTGAAGCTGGTATTGGACCCGTGAGATTATTATGGGATAAT-TCAAGATCATAG
1 CAAGTTTCCAATTGAAGCTGGGATAGAACCCATGAGATTATTATGGGAT-ATGTCAAGATCATAG
* *
906398 AGATGCTTCAATAATCCTATCTCTTCAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG
65 AGATGCTTCAAGAATCCAATCTCTTCAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAG
* *
906463 AACAGATATATTCATCAAGTTTCCAATTGAAGCTGGTATTGGACCCATCAAATTGTTGTGAGATA
130 AACAGATATATTCATCAAGTTTCCAATTGAAGCTGGGATTGGACCCATCAAATTATTGTGAGATA
* * * *
906528 AATAAAGTTCTGAAAGGGAT-C-TCAA-ATATCCAAGCTCTTTAGGTATGA-AACCAGAAAAACT
195 AATAAAGATC--AAAGAGATGCTTCAATA-ATCCAAGCTCTTGAGGAAT-ATAACCAGAAAAACT
906589 ATT-AAAAGAA
256 ATTGAAAAGAA
906599 AGGATAAGAT
Statistics
Matches: 223, Mismatches: 37, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
287 5 0.02
288 208 0.93
289 4 0.02
290 6 0.03
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.31
Consensus pattern (288 bp):
CAAGTTTCCAATTGAAGCTGGGATAGAACCCATGAGATTATTATGGGATATGTCAAGATCATAGA
GATGCTTCAAGAATCCAATCTCTTCAGGAATATAACCTGAGAGTTTGTTGGTATGAAGGTAAAGA
ACAGATATATTCATCAAGTTTCCAATTGAAGCTGGGATTGGACCCATCAAATTATTGTGAGATAA
ATAAAGATCAAAGAGATGCTTCAATAATCCAAGCTCTTGAGGAATATAACCAGAAAAACTATTGA
AAAGAAGGTAAAGAACAGACATATTCAT
Found at i:908229 original size:20 final size:20
Alignment explanation
Indices: 908206--908244 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
908196 AATTTTTTTA
*
908206 TTCATTCATCATT-TTTAAAG
1 TTCATACAT-ATTATTTAAAG
908226 TTCATACATATTATTTAAA
1 TTCATACATATTATTTAAA
908245 AAATATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.49
Consensus pattern (20 bp):
TTCATACATATTATTTAAAG
Found at i:908451 original size:18 final size:17
Alignment explanation
Indices: 908431--908484 Score: 62
Period size: 13 Copynumber: 3.4 Consensus size: 17
908421 AAGATTATAA
908431 AAAAATAAAATATTAAT
1 AAAAATAAAATATTAAT
*
908448 AAAAAT----TATAAAT
1 AAAAATAAAATATTAAT
908461 AAAAATAAAATATTAATT
1 AAAAATAAAATATTAA-T
908479 AAAAAT
1 AAAAAT
908485 TTTAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
13 12 0.40
17 11 0.37
18 7 0.23
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATAAAATATTAAT
Found at i:908467 original size:30 final size:30
Alignment explanation
Indices: 908418--908492 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 30
908408 GTACGTACTT
*
908418 TTAAAGATTAT-AAAAAAATAAAATATTAA
1 TTAAAAATTATAAAAAAAATAAAATATTAA
908447 -TAAAAATTATAAATAAAAATAAAATATTAA
1 TTAAAAATTATAAA-AAAAATAAAATATTAA
*
908477 TTAAAAATTTTAAAAA
1 TTAAAAATTATAAAAA
908493 TATTATATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
28 9 0.22
29 2 0.05
30 18 0.44
31 12 0.29
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (30 bp):
TTAAAAATTATAAAAAAAATAAAATATTAA
Found at i:909472 original size:29 final size:28
Alignment explanation
Indices: 909425--909479 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
909415 TATATAAATA
*
909425 CATTAATAAATATATTTATATAATTATT
1 CATTAATAAATATACTTATATAATTATT
*
909453 CATTACATAAATTTACTTATATAATTA
1 CATTA-ATAAATATACTTATATAATTA
909480 ATTGCATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (28 bp):
CATTAATAAATATACTTATATAATTATT
Found at i:909560 original size:18 final size:21
Alignment explanation
Indices: 909533--909574 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
909523 AATATTTTTA
909533 ATAATAATTT-TCTT-TTATC
1 ATAATAATTTATCTTATTATC
909552 ATAAT-ATTTCATCTTATTATC
1 ATAATAATTT-ATCTTATTATC
909573 AT
1 AT
909575 TATTGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
18 4 0.20
19 5 0.25
20 4 0.20
21 7 0.35
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (21 bp):
ATAATAATTTATCTTATTATC
Found at i:909653 original size:21 final size:21
Alignment explanation
Indices: 909623--909676 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
909613 TTAATTTTAT
* *
909623 TATTACAATACTCAATCTCAC
1 TATTATAATAATCAATCTCAC
* *
909644 TATTATAATAATTAATTTCAC
1 TATTATAATAATCAATCTCAC
*
909665 TATTATTATAAT
1 TATTATAATAAT
909677 TTTTAATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (21 bp):
TATTATAATAATCAATCTCAC
Found at i:910046 original size:24 final size:25
Alignment explanation
Indices: 910003--910051 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
909993 GCCACCCATT
*
910003 TGTTTGTCAAAAATGGTGGTTATTTTA
1 TGTTTGTCAAAAA--GTGGTGATTTTA
910030 TGTTTGTCAAAAA-TGGTGATTT
1 TGTTTGTCAAAAAGTGGTGATTT
910052 CTTTTGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
27 13 0.62
ACGTcount: A:0.27, C:0.04, G:0.22, T:0.47
Consensus pattern (25 bp):
TGTTTGTCAAAAAGTGGTGATTTTA
Found at i:910063 original size:28 final size:27
Alignment explanation
Indices: 910005--910094 Score: 85
Period size: 28 Copynumber: 3.4 Consensus size: 27
909995 CACCCATTTG
*
910005 TTTGTCAAAAATGGTGGTTATTTTATG
1 TTTGTCAAAAATGGTGGTTATTTTATA
* * *
910032 TTTGTCAAAAATGGTGATTTCTTTTGTA
1 TTTGTCAAAAATGGTG-GTTATTTTATA
* * * *
910060 TTTGTCAAATATGGAGGCT-TGTT-TA
1 TTTGTCAAAAATGGTGGTTATTTTATA
910085 TTTGTCAAAA
1 TTTGTCAAAA
910095 TTTGTGACTA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
25 11 0.21
26 3 0.06
27 17 0.33
28 21 0.40
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTATTTTATA
Found at i:910175 original size:20 final size:20
Alignment explanation
Indices: 910150--910195 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
910140 AAATAGAAGC
*
910150 TCCCTCCTCCCTCTCAAGTA
1 TCCCTCATCCCTCTCAAGTA
* **
910170 TCCCTCATCTCTCTCTTGTA
1 TCCCTCATCCCTCTCAAGTA
910190 TCCCTC
1 TCCCTC
910196 TTCAATTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.48, G:0.04, T:0.37
Consensus pattern (20 bp):
TCCCTCATCCCTCTCAAGTA
Found at i:914611 original size:27 final size:28
Alignment explanation
Indices: 914579--914647 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
914569 CACCCATTTC
*
914579 TTTGTCAAAAATGGTGG-TTATTTTATG
1 TTTGTCAAAAATGGTGGTTTATTTTATA
* *
914606 TTTGTCAAAAATGGTGGTTTCTTTTGTA
1 TTTGTCAAAAATGGTGGTTTATTTTATA
*
914634 TTTGTCAAATATGG
1 TTTGTCAAAAATGG
914648 AGGCTTGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.25, C:0.06, G:0.22, T:0.48
Consensus pattern (28 bp):
TTTGTCAAAAATGGTGGTTTATTTTATA
Found at i:914637 original size:28 final size:27
Alignment explanation
Indices: 914579--914668 Score: 94
Period size: 28 Copynumber: 3.4 Consensus size: 27
914569 CACCCATTTC
*
914579 TTTGTCAAAAATGGTGGTTATTTTATG
1 TTTGTCAAAAATGGTGGTTATTTTATA
* *
914606 TTTGTCAAAAATGGTGGTTTCTTTTGTA
1 TTTGTCAAAAATGGTGG-TTATTTTATA
* * * *
914634 TTTGTCAAATATGGAGGCT-TGTT-TA
1 TTTGTCAAAAATGGTGGTTATTTTATA
914659 TTTGTCAAAA
1 TTTGTCAAAA
914669 TTTGTGGCTA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
25 11 0.20
26 3 0.06
27 18 0.33
28 22 0.41
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.47
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTATTTTATA
Found at i:914749 original size:20 final size:20
Alignment explanation
Indices: 914724--914769 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
914714 AAATAGAAGC
*
914724 TCCCTCCTCCCTCTCAAGTA
1 TCCCTCATCCCTCTCAAGTA
* **
914744 TCCCTCATCTCTCTCTTGTA
1 TCCCTCATCCCTCTCAAGTA
914764 TCCCTC
1 TCCCTC
914770 TTCAATTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.48, G:0.04, T:0.37
Consensus pattern (20 bp):
TCCCTCATCCCTCTCAAGTA
Found at i:915570 original size:104 final size:107
Alignment explanation
Indices: 915396--915607 Score: 324
Period size: 104 Copynumber: 2.0 Consensus size: 107
915386 TTAATGTCCA
915396 TTTATATACATGCATGCAAATATATATATATGTATACTGATAAAGTGTAATATTCTTAAATTTTA
1 TTTATATACATGCATGCAAATATATATATA-GTATAC-GATAAAGTGTAATATTCTTAAATTTTA
* * * *
915461 AATGCATTGATAAAAAATTTTATTTTTTACATAGTTGGACCATAG
64 AATGCATCGATAAAAAA-TTTATTTTTCACACAATTGGACCATAG
*
915506 TTTATATACATGCATGC-AA-ATATATATA-TATAC-ATAAAGTGTAATATTTTTAAATTTTAAA
1 TTTATATACATGCATGCAAATATATATATAGTATACGATAAAGTGTAATATTCTTAAATTTTAAA
915567 TGCATCGATAAAAAATTTATTTTTCACACAATTGGACCATA
66 TGCATCGATAAAAAATTTATTTTTCACACAATTGGACCATA
915608 CAATGAAATT
Statistics
Matches: 97, Mismatches: 5, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
103 23 0.24
104 41 0.42
106 5 0.05
108 9 0.09
109 2 0.02
110 17 0.18
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (107 bp):
TTTATATACATGCATGCAAATATATATATAGTATACGATAAAGTGTAATATTCTTAAATTTTAAA
TGCATCGATAAAAAATTTATTTTTCACACAATTGGACCATAG
Found at i:915866 original size:45 final size:45
Alignment explanation
Indices: 915801--915890 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
915791 CATAATAGAG
* *
915801 ATGTCTATATTTAAGACTTTCAATGAAGATTATTCTTGATTGGAC
1 ATGTCTATATTCAAGACTTTCAATGAAAATTATTCTTGATTGGAC
* * *
915846 ATGTCTATATTCAAGCCTTTCGATGAAAATTATTTTTGATTGGAC
1 ATGTCTATATTCAAGACTTTCAATGAAAATTATTCTTGATTGGAC
915891 TACACTTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (45 bp):
ATGTCTATATTCAAGACTTTCAATGAAAATTATTCTTGATTGGAC
Found at i:919157 original size:16 final size:16
Alignment explanation
Indices: 919136--919168 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
919126 TACTTCAAGC
919136 TTACATTGAAGATTGT
1 TTACATTGAAGATTGT
919152 TTACATTGAAGATTGT
1 TTACATTGAAGATTGT
919168 T
1 T
919169 CTTGACTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.45
Consensus pattern (16 bp):
TTACATTGAAGATTGT
Found at i:919760 original size:10 final size:9
Alignment explanation
Indices: 919739--919783 Score: 53
Period size: 8 Copynumber: 5.4 Consensus size: 9
919729 CAAGTAACAC
919739 ATATATTAT
1 ATATATTAT
919748 AT-TATTAT
1 ATATATTAT
*
919756 ATAT-TAAT
1 ATATATTAT
919764 ATATA-TAT
1 ATATATTAT
919772 ATATATT-T
1 ATATATTAT
919780 ATAT
1 ATAT
919784 CATAACATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 27 0.87
9 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATATATTAT
Found at i:920213 original size:21 final size:17
Alignment explanation
Indices: 920168--920209 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
920158 ATCAATAAAA
*
920168 AATAAAATTAAAAATAT
1 AATATAATTAAAAATAT
*
920185 AATATAATTAAATA-AT
1 AATATAATTAAAAATAT
920201 AAT-TAATTA
1 AATATAATTA
920210 TAATAGACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 5 0.22
17 12 0.52
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AATATAATTAAAAATAT
Found at i:920487 original size:18 final size:20
Alignment explanation
Indices: 920448--920495 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 20
920438 AACATTTTCA
920448 TATATTTATATTATTATTATAT
1 TATATTT-T-TTATTATTATAT
920470 TAT-TTTTTTATT-TTATAT
1 TATATTTTTTATTATTATAT
920488 TATATTTT
1 TATATTTT
920496 AATTATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 9 0.36
19 9 0.36
20 1 0.04
21 3 0.12
22 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TATATTTTTTATTATTATAT
Found at i:920507 original size:28 final size:28
Alignment explanation
Indices: 920419--920507 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 28
920409 TTGTGTCTCA
* *
920419 TTTATTTTATA-TAGATTTTAA-CATTT
1 TTTATTTTATATTATATTTTAATTATTT
* *
920445 TCATATATTTATATTAT-TATTATATTATTTT
1 T-TTAT-TTTATATTATATTTTA-ATTA-TTT
920476 TTTATTTTATATTATATTTTAATTATTT
1 TTTATTTTATATTATATTTTAATTATTT
920504 TTTA
1 TTTA
920508 CTTCATGTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
26 1 0.02
27 3 0.06
28 17 0.34
29 17 0.34
30 8 0.16
31 4 0.08
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.66
Consensus pattern (28 bp):
TTTATTTTATATTATATTTTAATTATTT
Found at i:920973 original size:16 final size:18
Alignment explanation
Indices: 920952--920985 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
920942 ATTTGTATTG
920952 TATTTAT-A-TTATTTTA
1 TATTTATAATTTATTTTA
920968 TATTTATAATTTATTTTA
1 TATTTATAATTTATTTTA
920986 AAAAATCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTATAATTTATTTTA
Found at i:922007 original size:84 final size:84
Alignment explanation
Indices: 921908--922084 Score: 345
Period size: 84 Copynumber: 2.1 Consensus size: 84
921898 TTAGCAGATA
*
921908 TGACTTTTATTAAAATTTTATTTTTGATGATCTTTTAAAAGTTTTCATTGTTTGTCAATGATTTT
1 TGACTTTTATTAAAATTTTATTTTTGATAATCTTTTAAAAGTTTTCATTGTTTGTCAATGATTTT
921973 TTTTTTCAAGTTTTTTATC
66 TTTTTTCAAGTTTTTTATC
921992 TGACTTTTATTAAAATTTTATTTTTGATAATCTTTTAAAAGTTTTCATTGTTTGTCAATGATTTT
1 TGACTTTTATTAAAATTTTATTTTTGATAATCTTTTAAAAGTTTTCATTGTTTGTCAATGATTTT
922057 TTTTTTCAAGTTTTTTATC
66 TTTTTTCAAGTTTTTTATC
922076 TGACTTTTA
1 TGACTTTTA
922085 AAAGTTTATA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 92 1.00
ACGTcount: A:0.24, C:0.07, G:0.09, T:0.59
Consensus pattern (84 bp):
TGACTTTTATTAAAATTTTATTTTTGATAATCTTTTAAAAGTTTTCATTGTTTGTCAATGATTTT
TTTTTTCAAGTTTTTTATC
Found at i:923174 original size:26 final size:25
Alignment explanation
Indices: 923145--923197 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
923135 TTTTTAACCT
* *
923145 TATTTATTTTTATTTAATTTTTATAA
1 TATTTATTGTTATCTAATTTTTA-AA
923171 TATTTATTGTTATCTAATTTTTAAA
1 TATTTATTGTTATCTAATTTTTAAA
923196 TA
1 TA
923198 ATATTCAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (25 bp):
TATTTATTGTTATCTAATTTTTAAA
Found at i:923299 original size:16 final size:16
Alignment explanation
Indices: 923259--923302 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
923249 TTTATATAAC
*
923259 TAATTAATTAGTTATA
1 TAATTAATTACTTATA
923275 -AA-T--TTACTTATA
1 TAATTAATTACTTATA
923287 TAATTAATTACTTATA
1 TAATTAATTACTTATA
923303 CTAAAAGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 8
0.72 0.03 0.25
Matches are distributed among these distances:
12 8 0.35
13 2 0.09
14 2 0.09
15 2 0.09
16 9 0.39
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATTAATTACTTATA
Found at i:923638 original size:21 final size:21
Alignment explanation
Indices: 923573--923630 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
923563 AAAATATGTA
923573 TTTGGATGAAAGAATGCATTT
1 TTTGGATGAAAGAATGCATTT
923594 TTTGGATGAAAGAATGCATTT
1 TTTGGATGAAAGAATGCATTT
*
923615 TTTGGATGAAAAAATG
1 TTTGGATGAAAGAATG
923631 TAACTTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.36
Consensus pattern (21 bp):
TTTGGATGAAAGAATGCATTT
Found at i:926863 original size:21 final size:21
Alignment explanation
Indices: 926824--926863 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
926814 AATCTTTACA
*
926824 TTTTAATTTTCAAGCAAATAT
1 TTTTAATTTTCAAACAAATAT
* *
926845 TTTTATTTTTCAAATAAAT
1 TTTTAATTTTCAAACAAAT
926864 TTAGTATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (21 bp):
TTTTAATTTTCAAACAAATAT
Found at i:926945 original size:27 final size:27
Alignment explanation
Indices: 926914--926971 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
926904 TTAATTTAAA
*
926914 ATTAAATTTGCTAATAATGTTATTAGT
1 ATTAAATTTGCTAATAATGTTATTAGC
*
926941 ATTAAATTTGTTAATAATGTTATTAGC
1 ATTAAATTTGCTAATAATGTTATTAGC
926968 ATTA
1 ATTA
926972 CACAAAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.48
Consensus pattern (27 bp):
ATTAAATTTGCTAATAATGTTATTAGC
Found at i:933676 original size:48 final size:48
Alignment explanation
Indices: 933624--933729 Score: 140
Period size: 48 Copynumber: 2.2 Consensus size: 48
933614 AAATAATATT
* * * *
933624 AAAATTAAAACCAATCTAAAACACACGGAAAAAGCAATTGAAATCTGA
1 AAAATTAAAACCAATCCAAAACACAAGAAAAAAGCAACTGAAATCTGA
* * *
933672 AAAATTAAAATCAGTCCAAAACACAAGAAAAAAGCAACTGAAATTTGA
1 AAAATTAAAACCAATCCAAAACACAAGAAAAAAGCAACTGAAATCTGA
*
933720 AAAAGTAAAA
1 AAAATTAAAA
933730 AGCTGGTAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.59, C:0.14, G:0.10, T:0.16
Consensus pattern (48 bp):
AAAATTAAAACCAATCCAAAACACAAGAAAAAAGCAACTGAAATCTGA
Found at i:933872 original size:14 final size:14
Alignment explanation
Indices: 933853--933882 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
933843 ATTTCAGTTT
933853 TATTCACACAATCA
1 TATTCACACAATCA
933867 TATTCACACAATCA
1 TATTCACACAATCA
933881 TA
1 TA
933883 ATAATAAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (14 bp):
TATTCACACAATCA
Found at i:934737 original size:3 final size:3
Alignment explanation
Indices: 934729--934756 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
934719 ATATTAGATT
934729 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
934757 ACATAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:937430 original size:18 final size:19
Alignment explanation
Indices: 937395--937430 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
937385 TAATTAAATA
*
937395 ATTTAATCTATTTTGTATT
1 ATTTAATCTATATTGTATT
937414 ATTTAAT-TATATTGTAT
1 ATTTAATCTATATTGTAT
937431 AAGTATTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (19 bp):
ATTTAATCTATATTGTATT
Found at i:938892 original size:18 final size:18
Alignment explanation
Indices: 938853--938916 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
938843 TTATCAACTC
* * *
938853 CAAATGTATCCTCTGCCA
1 CAAATGTATCCCCTACCT
938871 CAAATGTATCCCCTACCT
1 CAAATGTATCCCCTACCT
* *
938889 CAAATATATTCTCC-ACCT
1 CAAATGTA-TCCCCTACCT
938907 CAAATGTATC
1 CAAATGTATC
938917 AACGAGAGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
17 2 0.05
18 33 0.85
19 4 0.10
ACGTcount: A:0.31, C:0.33, G:0.06, T:0.30
Consensus pattern (18 bp):
CAAATGTATCCCCTACCT
Found at i:939239 original size:30 final size:32
Alignment explanation
Indices: 939203--939262 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
939193 ACTTTTTTAA
939203 TATGAA-TATTTTACT-ATA-ATAATAAAAAAT
1 TATGAATTATTTTACTCATATA-AATAAAAAAT
*
939233 TATGAATTATTTTTCTCATATAAATAAAAA
1 TATGAATTATTTTACTCATATAAATAAAAA
939263 TTCATTATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 8 0.31
32 11 0.42
33 1 0.04
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (32 bp):
TATGAATTATTTTACTCATATAAATAAAAAAT
Found at i:939264 original size:31 final size:30
Alignment explanation
Indices: 939203--939262 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 30
939193 ACTTTTTTAA
939203 TATGAATATTTTACTATAATAATAAAAAAT
1 TATGAATATTTTACTATAATAATAAAAAAT
*
939233 TATGAATTATTTTTCTCAT-ATAAATAAAAA
1 TATGAA-TATTTTACT-ATAAT-AATAAAAA
939263 TTCATTATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 10 0.38
32 10 0.38
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (30 bp):
TATGAATATTTTACTATAATAATAAAAAAT
Found at i:941279 original size:23 final size:22
Alignment explanation
Indices: 941253--941297 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
941243 TAAATAGAAT
941253 TTAT-TTAAATAATATCATCTTAA
1 TTATATTAAATAAT-T-ATCTTAA
941276 TTATAATTAAATAATTATCTTA
1 TTAT-ATTAAATAATTATCTTA
941298 TTCTACTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 10 0.50
24 1 0.05
25 9 0.45
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATATTAAATAATTATCTTAA
Found at i:941523 original size:29 final size:29
Alignment explanation
Indices: 941491--941553 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
941481 TAAGGATACA
* *
941491 TTTAATATTTAAACAAATTTGATCAAATT
1 TTTAATATTCAAACAAATTTGATCAAAAT
* *
941520 TTTAATATTCAATCAAATTTGTTCAAAAT
1 TTTAATATTCAAACAAATTTGATCAAAAT
941549 TTTAA
1 TTTAA
941554 GACCCATTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (29 bp):
TTTAATATTCAAACAAATTTGATCAAAAT
Found at i:942763 original size:8 final size:8
Alignment explanation
Indices: 942750--942784 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
942740 TGAGTCTAAG
942750 AATATATA
1 AATATATA
942758 AATATATA
1 AATATATA
*
942766 TATATATA
1 AATATATA
*
942774 TATATATA
1 AATATATA
942782 AAT
1 AAT
942785 GGTATAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
AATATATA
Found at i:942764 original size:2 final size:2
Alignment explanation
Indices: 942751--942781 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
942741 GAGTCTAAGA
*
942751 AT AT AT AA 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 A
942782 AATGGTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:950374 original size:24 final size:27
Alignment explanation
Indices: 950301--950371 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
950291 AAACAAGCCT
* *
950301 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAACACAAA--ATAACCA
950329 CCATTTTTGACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAATAACCA
950356 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
950372 AATGGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAATAACCA
Found at i:954922 original size:24 final size:27
Alignment explanation
Indices: 954849--954919 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
954839 AAACAAGCCT
* *
954849 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAACACAAA--ATAACCA
954877 CCATTTTTGACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAATAACCA
954904 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
954920 AATGGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAATAACCA
Found at i:956528 original size:16 final size:18
Alignment explanation
Indices: 956497--956533 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
956487 AATTTCCGAA
956497 TATCAAAACTAAATTT-T
1 TATCAAAACTAAATTTAT
956514 TATCAAAAC-AAATTTAT
1 TATCAAAACTAAATTTAT
956531 TAT
1 TAT
956534 TCCGTGTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.41
Consensus pattern (18 bp):
TATCAAAACTAAATTTAT
Found at i:956822 original size:2 final size:2
Alignment explanation
Indices: 956815--956854 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
956805 AAACTCCTCT
956815 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
956855 GATGAAAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:958353 original size:22 final size:23
Alignment explanation
Indices: 958317--958375 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 23
958307 ATTTAAGGTT
*
958317 TAAAAATATATTATTATTTTTAAA
1 TAAAAATA-ATTATTATTTTAAAA
*
958341 T-ATAATAATTATTATTTTAAAA
1 TAAAAATAATTATTATTTTAAAA
958363 TAAAAATAATTAT
1 TAAAAATAATTAT
958376 ATAAATAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 15 0.48
23 15 0.48
24 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TAAAAATAATTATTATTTTAAAA
Found at i:958374 original size:20 final size:21
Alignment explanation
Indices: 958329--958375 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
958319 AAAATATATT
* *
958329 ATTATTTTTAAATATAATAATT
1 ATTA-TTTTAAATATAAAAATA
958351 ATTATTTTAAA-ATAAAAATA
1 ATTATTTTAAATATAAAAATA
958371 ATTAT
1 ATTAT
958376 ATAAATAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 12 0.52
21 7 0.30
22 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTATTTTAAATATAAAAATA
Found at i:958418 original size:23 final size:22
Alignment explanation
Indices: 958388--958433 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
958378 AAATAAGACA
*
958388 TAAATAATTTA-TTAATACATTT
1 TAAATAATATATTTAAT-CATTT
958410 TAAAGTAATATATTTAATCATTT
1 TAAA-TAATATATTTAATCATTT
958433 T
1 T
958434 TTTTCTATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 12 0.57
24 5 0.24
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (22 bp):
TAAATAATATATTTAATCATTT
Found at i:958773 original size:8 final size:8
Alignment explanation
Indices: 958749--958798 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
958739 AATAAAAAAT
*
958749 TATTTTTA
1 TATTTATA
958757 TA-TTA-A
1 TATTTATA
958763 TATTTATA
1 TATTTATA
*
958771 TATTTTTA
1 TATTTATA
*
958779 TAATTA-A
1 TATTTATA
958786 TATTTATA
1 TATTTATA
958794 TATTT
1 TATTT
958799 TTTAAAATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
6 3 0.09
7 11 0.32
8 20 0.59
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATTTATA
Found at i:958784 original size:23 final size:22
Alignment explanation
Indices: 958749--958800 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 22
958739 AATAAAAAAT
958749 TATTTTTATATTAATATTTATA
1 TATTTTTATATTAATATTTATA
958771 TATTTTTATAATTAATATTTATA
1 TATTTTTAT-ATTAATATTTATA
958794 TATTTTT
1 TATTTTT
958801 TAAAATATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 9 0.31
23 20 0.69
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTTTTATATTAATATTTATA
Found at i:958855 original size:20 final size:20
Alignment explanation
Indices: 958810--958857 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
958800 TTAAAATATC
958810 AAAATATAATCTAAATTAAAT
1 AAAATATAA-CTAAATTAAAT
*
958831 -TAATATAA-TAAATTAAAT
1 AAAATATAACTAAATTAAAT
958849 AAAAATATA
1 -AAAATATA
958858 TTTAAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 10 0.43
20 13 0.57
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATATAACTAAATTAAAT
Found at i:963280 original size:2 final size:2
Alignment explanation
Indices: 963273--963300 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
963263 GTGTATCCCC
963273 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
963301 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:963305 original size:2 final size:2
Alignment explanation
Indices: 963300--963344 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
963290 TCTCTCTCTC
963300 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
963342 TA T
1 TA T
963345 GAGAAGGGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:963781 original size:2 final size:2
Alignment explanation
Indices: 963776--963806 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
963766 TCTCTCTCTC
963776 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 T
963807 GAGAAGGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:964614 original size:2 final size:2
Alignment explanation
Indices: 964609--964650 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
964599 TTAATTTAAT
964609 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
964651 AAACCTGGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:965211 original size:3 final size:3
Alignment explanation
Indices: 965203--965239 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
965193 TTTTGATTGC
965203 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
965240 CAAATGGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:967199 original size:13 final size:13
Alignment explanation
Indices: 967181--967205 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
967171 CATAAAGTGT
967181 TGTATCGATACAA
1 TGTATCGATACAA
967194 TGTATCGATACA
1 TGTATCGATACA
967206 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:967203 original size:33 final size:33
Alignment explanation
Indices: 967161--967227 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
967151 TTCAACGATT
967161 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
967194 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
967227 T
1 T
967228 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:967286 original size:13 final size:13
Alignment explanation
Indices: 967268--967295 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
967258 ATTACTCAAA
967268 TGTATCGATACAT
1 TGTATCGATACAT
967281 TGTATCGATACAT
1 TGTATCGATACAT
967294 TG
1 TG
967296 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:967345 original size:52 final size:52
Alignment explanation
Indices: 967301--967452 Score: 250
Period size: 52 Copynumber: 2.9 Consensus size: 52
967291 CATTGATCTT
*
967301 TGTATCGATACATGCAGGCAAGTTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
967353 TGTATCCATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
967405 TGTATCGATACATGTAGGCAAATTTGCCCAGATAGTGTATCGATACAT
1 TGTATCGATACATGCAGGCAAATTTGCCCAG--A-TGTATCGATACAT
967453 GCAGGCAAAT
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
52 79 0.85
54 1 0.01
55 13 0.14
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:970972 original size:29 final size:29
Alignment explanation
Indices: 970940--971001 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
970930 TGAATTTAAA
*
970940 AATAATT-TTACTTATTTTTTTAAAGTTT
1 AATAATTATTACTTATTTTTTTAAAATTT
* *
970968 GAATAATTATTTCTTTTTTTTTTAAAATTT
1 -AATAATTATTACTTATTTTTTTAAAATTT
970998 AATA
1 AATA
971002 TCAAATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (29 bp):
AATAATTATTACTTATTTTTTTAAAATTT
Found at i:971559 original size:23 final size:21
Alignment explanation
Indices: 971523--971564 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
971513 TCATTATCAC
*
971523 TAATTTTTAAATAATAATAAT
1 TAATTTTTAAATAAAAATAAT
971544 TAATTTATTGAAATAAAAATA
1 TAATTT-TT-AAATAAAAATA
971565 TTTTAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 2 0.11
23 10 0.56
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TAATTTTTAAATAAAAATAAT
Found at i:972190 original size:17 final size:18
Alignment explanation
Indices: 972168--972205 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
972158 AGTTGTCTAC
*
972168 TATTATTATT-ATAATAT
1 TATTATTATTAAAAATAT
*
972185 TATTATTTTTAAAAATAT
1 TATTATTATTAAAAATAT
972203 TAT
1 TAT
972206 AAGAGTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTATTATTAAAAATAT
Found at i:975386 original size:20 final size:22
Alignment explanation
Indices: 975349--975393 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
975339 AGATATAGAT
*
975349 AAAATAGATAGATAAAAAATAA
1 AAAATAGATAGATAAAAAAGAA
*
975371 AAAATA-ATA-ATGAAAAAGAA
1 AAAATAGATAGATAAAAAAGAA
975391 AAA
1 AAA
975394 GAAAAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
21 3 0.14
22 6 0.29
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.16
Consensus pattern (22 bp):
AAAATAGATAGATAAAAAAGAA
Found at i:988381 original size:60 final size:60
Alignment explanation
Indices: 988288--988440 Score: 297
Period size: 60 Copynumber: 2.5 Consensus size: 60
988278 ATAAGCTAAT
988288 AACCCTACTAATTCTTTGTTTGGCAGCTGGGAGTTTAATTAATAAAATACAGAGAAAAAA
1 AACCCTACTAATTCTTTGTTTGGCAGCTGGGAGTTTAATTAATAAAATACAGAGAAAAAA
*
988348 AACCCTACTAATTCTTTGTTTGGCAGCTGGGAGTTTAATTAATAAAATACAGAGACAAAA
1 AACCCTACTAATTCTTTGTTTGGCAGCTGGGAGTTTAATTAATAAAATACAGAGAAAAAA
988408 AACCCTACTAATTCTTTGTTTGGCAGCTGGGAG
1 AACCCTACTAATTCTTTGTTTGGCAGCTGGGAG
988441 AAAATGTAGA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 92 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (60 bp):
AACCCTACTAATTCTTTGTTTGGCAGCTGGGAGTTTAATTAATAAAATACAGAGAAAAAA
Found at i:989911 original size:13 final size:13
Alignment explanation
Indices: 989893--989919 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
989883 ACATTATGCT
989893 TTATATCGATACA
1 TTATATCGATACA
989906 TTATATCGATACA
1 TTATATCGATACA
989919 T
1 T
989920 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TTATATCGATACA
Found at i:989931 original size:19 final size:19
Alignment explanation
Indices: 989904--989959 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
989894 TATATCGATA
* *
989904 CATTATATCGATACATGTT
1 CATTGTATCGATACATGCT
*
989923 CATTGTATCGATACATACT
1 CATTGTATCGATACATGCT
989942 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
989960 AAAGTGACAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:991629 original size:3 final size:3
Alignment explanation
Indices: 991614--991648 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
991604 AACTATCAAA
* *
991614 GAT GAT GAA GAT GAT GAT GAT GAT GAT AAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
991649 GGTTGACTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:993212 original size:30 final size:30
Alignment explanation
Indices: 993176--993281 Score: 90
Period size: 30 Copynumber: 3.5 Consensus size: 30
993166 CATTGTTCAT
993176 TGTATCGATACATTCTGGGTTTTATCCAGA
1 TGTATCGATACATTCTGGGTTTTATCCAGA
* * *** * * *
993206 TGTATCGATATATTGTTCATTGTATCGATACA
1 TGTATCGATACATTCTGGGTTTTATC--CAGA
993238 TTGTATCGATACATTCTGGG-TTTA-CCTAGA
1 -TGTATCGATACATTCTGGGTTTTATCC-AGA
993268 TGTATCGATACATT
1 TGTATCGATACATT
993282 TTTCAATGCA
Statistics
Matches: 56, Mismatches: 16, Indels: 9
0.69 0.20 0.11
Matches are distributed among these distances:
29 14 0.25
30 22 0.39
31 1 0.02
32 5 0.09
33 14 0.25
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (30 bp):
TGTATCGATACATTCTGGGTTTTATCCAGA
Found at i:993241 original size:13 final size:13
Alignment explanation
Indices: 993223--993252 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
993213 ATATATTGTT
993223 CATTGTATCGATA
1 CATTGTATCGATA
993236 CATTGTATCGATA
1 CATTGTATCGATA
993249 CATT
1 CATT
993253 CTGGGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:993300 original size:62 final size:63
Alignment explanation
Indices: 993173--993301 Score: 199
Period size: 62 Copynumber: 2.1 Consensus size: 63
993163 ATACATTGTT
* * *
993173 CATTGTATCGATACATTCTGGGTTTTATCCAGATGTATCGATATATTGTTCATTGTATCGATA
1 CATTGTATCGATACATTCTGGGTTTTATCCAGATGTATCGATACATTGTTCAATGCATCGATA
*
993236 CATTGTATCGATACATTCTGGG-TTTA-CCTAGATGTATCGATACATTTTTCAATGCATCGATA
1 CATTGTATCGATACATTCTGGGTTTTATCC-AGATGTATCGATACATTGTTCAATGCATCGATA
993298 CATT
1 CATT
993302 CAGGCATTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
61 2 0.03
62 37 0.61
63 22 0.36
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (63 bp):
CATTGTATCGATACATTCTGGGTTTTATCCAGATGTATCGATACATTGTTCAATGCATCGATA
Found at i:994769 original size:1 final size:1
Alignment explanation
Indices: 994763--994820 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
994753 ACATTGCTTT
* * * * * * *
994763 AAAAAAAATAAAACAAAACAAAACAAAAAAACAAAAAAAATAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
994821 GAGAAAAGAA
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.88, C:0.07, G:0.02, T:0.03
Consensus pattern (1 bp):
A
Found at i:994785 original size:10 final size:9
Alignment explanation
Indices: 994763--994820 Score: 59
Period size: 9 Copynumber: 6.6 Consensus size: 9
994753 ACATTGCTTT
994763 AAAAA-AAA
1 AAAAACAAA
*
994771 TAAAACAAA
1 AAAAACAAA
994780 ACAAAAC-AA
1 A-AAAACAAA
994789 AAAAACAAA
1 AAAAACAAA
*
994798 AAAAATAAA
1 AAAAACAAA
994807 AAAAA-AGAA
1 AAAAACA-AA
994816 AAAAA
1 AAAAA
994821 GAGAAAAGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
8 10 0.23
9 28 0.65
10 5 0.12
ACGTcount: A:0.88, C:0.07, G:0.02, T:0.03
Consensus pattern (9 bp):
AAAAACAAA
Found at i:994793 original size:18 final size:17
Alignment explanation
Indices: 994763--994819 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
994753 ACATTGCTTT
*
994763 AAAAAA-AATAAAACAA
1 AAAAAACAAAAAAACAA
994779 AACAAAACAAAAAAACAA
1 AA-AAAACAAAAAAACAA
*
994797 AAAAAATAAAAAAA-AA
1 AAAAAACAAAAAAACAA
994813 GAAAAAA
1 -AAAAAA
994820 AGAGAAAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
16 4 0.11
17 21 0.58
18 11 0.31
ACGTcount: A:0.88, C:0.07, G:0.02, T:0.04
Consensus pattern (17 bp):
AAAAAACAAAAAAACAA
Found at i:994819 original size:19 final size:20
Alignment explanation
Indices: 994787--994835 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
994777 AAAACAAAAC
* *
994787 AAAAAAACAAAAAAA-ATAA
1 AAAAAAAGAAAAAAAGAGAA
994806 AAAAAAAGAAAAAAAGAGAA
1 AAAAAAAGAAAAAAAGAGAA
*
994826 AAGAAAAGAA
1 AAAAAAAGAA
994836 CCTACTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.86, C:0.02, G:0.10, T:0.02
Consensus pattern (20 bp):
AAAAAAAGAAAAAAAGAGAA
Found at i:994835 original size:10 final size:9
Alignment explanation
Indices: 994787--994835 Score: 53
Period size: 10 Copynumber: 5.1 Consensus size: 9
994777 AAAACAAAAC
*
994787 AAAAAAACA
1 AAAAAAAGA
*
994796 AAAAAAATAA
1 AAAAAAA-GA
994806 AAAAAAAGA
1 AAAAAAAGA
994815 AAAAAAGAGA
1 AAAAAA-AGA
994825 AAAGAAAAGA
1 AAA-AAAAGA
994835 A
1 A
994836 CCTACTTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 14 0.40
10 18 0.51
11 3 0.09
ACGTcount: A:0.86, C:0.02, G:0.10, T:0.02
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:996043 original size:61 final size:62
Alignment explanation
Indices: 995912--996060 Score: 183
Period size: 61 Copynumber: 2.4 Consensus size: 62
995902 AGGATGCCTT
* * * * * *
995912 TTAAAGCCCACACAAGTTAGTGGCACTTTTCTAGTCCTAAAAAAGTAGGACATCTTTTCCTT
1 TTAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTAAAAAAGCAGGACACCTTCTCCTC
* * * ***
995974 TTAAAGCCCACACAGGTTGGTGGCACCTTTC-GGTCCTCAAAAAGCAGGGTGCCTTCTCCTC
1 TTAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTAAAAAAGCAGGACACCTTCTCCTC
996035 TTAAAGCCCACACAAGTTGGTGGCAC
1 TTAAAGCCCACACAAGTTGGTGGCAC
996061 TTCCCAATCC
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
61 46 0.62
62 28 0.38
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (62 bp):
TTAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTAAAAAAGCAGGACACCTTCTCCTC
Found at i:996072 original size:61 final size:60
Alignment explanation
Indices: 995912--996084 Score: 175
Period size: 61 Copynumber: 2.8 Consensus size: 60
995902 AGGATGCCTT
* * * * * * *
995912 TTAAAGCCCACACAAGTTAGTGGCACTTTTCTAGTCCTAAAAAAGTAGGACATCTTTTCCTT
1 TTAAAGCCCACACAAGTTGGTGGCAC--TTCCAGTCCTCAAAAAGCAGGACACCTTCTCCTC
* * * ***
995974 TTAAAGCCCACACAGGTTGGTGGCACCTTTCGGTCCTCAAAAAGCAGGGTGCCTTCTCCTC
1 TTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAAAGCAGGACACCTTCTCCTC
* *
996035 TTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGAC
1 TTAAAGCCCACACAAGTTGGTGGCACTT-CCAGTCCTCAAAAAGCAGGAC
996085 GCTCTCTTCT
Statistics
Matches: 89, Mismatches: 20, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
60 3 0.03
61 62 0.70
62 23 0.26
63 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (60 bp):
TTAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAAAGCAGGACACCTTCTCCTC
Found at i:996269 original size:210 final size:211
Alignment explanation
Indices: 995784--996295 Score: 642
Period size: 217 Copynumber: 2.4 Consensus size: 211
995774 TCCTTTCACT
* * * * *
995784 TTTCAATCCTCAAATAGCAAGATGCCTTCTCTTTTTAAAGCCCACACAAGTTAGTGGCACTTTCT
1 TTTCAGTCCTCAAA-AACAGGATGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCAC-TTCC
* * *
995849 AGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCATCCTTTAGTCCTCAAAGAGCAGGATGCCTTTT
64 AGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTC
* *
995914 AAAGCCCACACAAGTTAGTGGCACTTTTCTAGTCCTAAAAAAGTAGGACATCTTTTCCTTTTAAA
129 AAAGCCCACACAAGTGAGTGGCACTTTTCTAGTCCTAAAAAAGTAGGA-ATC--TGCCTTTTAAA
*
995979 GCCCACACAGGTTGGTGGCACC
191 GCCCACACAAGTTGGTGGCA-C
* * * *
996001 TTTCGGTCCTCAAAAAGCAGGGTGCCTTCTCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 TTTCAGTCCTCAAAAA-CAGGATGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTT-CC
* * *
996066 AATCCTCAAAGAGCAGGACGCTCTCTTCTTTCACCCTTTAGTCCTCAAAGTGCAGGACGCCTTTC
64 AGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTC
* * *
996131 AAAGCCCACACCAGCTGA-TGGCA-TTTTCTAGTCCTCAAAGAGTAGG-A-C-GCCTTTTAAAGC
129 AAAGCCCACACAAG-TGAGTGGCACTTTTCTAGTCCTAAAAAAGTAGGAATCTGCCTTTTAAAGC
996191 CCACACAAGTTGGTGGCAC
193 CCACACAAGTTGGTGGCAC
*
996210 TTTCCAGTCCTCAAAGAACAGGATGCCATT-TCTTTTTAAAGCCCACACAAGCTGGTGGCACCTT
1 TTT-CAGTCCTCAAA-AACAGGATGCC-TTCTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CTT
* *
996274 -CAGTCCTCAAAAAGTAGGACGC
62 CCAGTCCTCAAAGAGCAGGACGC
996296 CTTTTCCTTT
Statistics
Matches: 259, Mismatches: 29, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
209 23 0.09
210 73 0.28
211 7 0.03
213 1 0.00
214 1 0.00
216 24 0.09
217 128 0.49
218 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (211 bp):
TTTCAGTCCTCAAAAACAGGATGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCAG
TCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAA
AGCCCACACAAGTGAGTGGCACTTTTCTAGTCCTAAAAAAGTAGGAATCTGCCTTTTAAAGCCCA
CACAAGTTGGTGGCAC
Found at i:996306 original size:61 final size:61
Alignment explanation
Indices: 996105--996552 Score: 476
Period size: 61 Copynumber: 7.5 Consensus size: 61
996095 TTCACCCTTT
* * * *
996105 AGTCCTCAAAGTGCAGGACGCC-TTTC-----AAAGCCCACACCAGCTGATGGCA-TTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
* *
996159 TAGTCCTCAAAGAGTAGGACG-C----C-TTTTAAAGCCCACACAAGTTGGTGGCACTTTCC
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
* * * * *
996215 AGTCCTCAAAGAACAGGATGCCATTTCTTTTTAAAGCCCACACAAGCTGGTGGCAC-CTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
* * *
996275 AGTCCTCAAAAAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
* * * * * *
996336 ATTCCTCAAGGGGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGATGGCACTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
* ** * *
996397 TAGACCTCAAAGAGCAGGACATCTTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTT-
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCT-TTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTC
* * * *
996460 AGTCCTCAAAGAGCAGGACGGCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
* *
996521 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTT
996553 CTCCTTTGCC
Statistics
Matches: 330, Mismatches: 47, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
51 1 0.00
54 1 0.00
55 55 0.17
56 5 0.02
60 57 0.17
61 138 0.42
62 43 0.13
63 25 0.08
64 5 0.02
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
Found at i:996326 original size:121 final size:122
Alignment explanation
Indices: 996101--996552 Score: 497
Period size: 124 Copynumber: 3.8 Consensus size: 122
996091 TTCTTTCACC
* *
996101 CTTT-AGTCCTCAAAGTGCAGGACGCC-TTTC-----AAAGCCCACACCAGCTGATGGCA-TTTT
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGCTGATGGCACTTTT
*
996158 CTAGTCCTCAAAGAGTAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCA
66 CTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
996209 CTTTCCAGTCCTCAAAGAACAGGATGCCATTTCTTTTTAAAGCCCACACAAGCTGGTGGCAC-CT
1 CTTT-CAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGCTGATGGCACTTT
* *
996273 TC-AGTCCTCAAAAAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
65 TCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
996330 CTTTTCATTCCTCAAGGGGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGATGGCACTTT
1 C-TTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGCTGATGGCACTTT
* * * * *
996395 TCTAGACCTCAAAGAGCAGGACATCTTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCA
65 TCTAGTCCTCAAAGAGCAGGAC-GCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
996454 CCTTTTAGTCCTCAAAGAGCAGGACGGCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTT
1 -CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGCTGATGGCACTTT
*
996519 T-TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
65 TCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
996553 CTCCTTTGCC
Statistics
Matches: 284, Mismatches: 40, Indels: 26
0.81 0.11 0.07
Matches are distributed among these distances:
108 4 0.01
110 19 0.07
111 4 0.01
115 19 0.07
116 24 0.08
121 77 0.27
122 16 0.06
123 34 0.12
124 86 0.30
125 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (122 bp):
CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGCTGATGGCACTTTT
CTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:996510 original size:185 final size:182
Alignment explanation
Indices: 996125--996552 Score: 512
Period size: 185 Copynumber: 2.4 Consensus size: 182
996115 GTGCAGGACG
* * * * *
996125 CCTTTCAAAGCCCACACCAGCTGATGGCA-TTTTCTAGTCCTCAAAGAGTAGGACG------CCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCCT
* * **
996183 TTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAACAGGATGCCATTTCTTTTTA
65 TTTAAAGCCCACACAAGTTGATGGCACTTTCCAGACCTCAAAGAACAGGACACCATTTCTTTTTA
*
996248 AAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGTAGGACGCCTTTT
130 AAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACGCCTTTT
* * * *
996301 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCATTCCTCAAGGGGCAGGACGCTTTTTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTT
* * * * *
996366 TTAAAGCCCACACAAGTTGATGGCACTTTTCTAGACCTCAAAGAGCAGGACATCTTTTTTCTTTT
66 TTAAAGCCCACACAAGTTGATGGCAC-TTTCCAGACCTCAAAGAACAGGACACCATTTCT-TTTT
* * * * *
996431 AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGGCTTTT
129 AAAGCCCACACAAGCTGGTGGCACC-TTCAGTCCTCAAAAAGCAGGACGCCTTTT
* * *
996486 -CTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCT
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCT
996550 TTT
65 TTT
996553 CTCCTTTGCC
Statistics
Matches: 211, Mismatches: 30, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
176 41 0.19
177 5 0.02
182 29 0.14
183 25 0.12
184 32 0.15
185 79 0.37
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (182 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTT
TTAAAGCCCACACAAGTTGATGGCACTTTCCAGACCTCAAAGAACAGGACACCATTTCTTTTTAA
AGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACGCCTTTT
Found at i:996572 original size:37 final size:36
Alignment explanation
Indices: 996531--996601 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 36
996521 AGTCCTCAAA
996531 GAGCAGGATGCCTTTTCCTTTTCTCCTTTGCCCTCTT
1 GAGCAGGATGCCTTTTCCTTTT-TCCTTTGCCCTCTT
* *
996568 GAGCAGGATGCCTTTTTCTTTTTCCTTTGTCCTC
1 GAGCAGGATGCCTTTTCCTTTTTCCTTTGCCCTC
996602 AAAGAGTAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 11 0.34
37 21 0.66
ACGTcount: A:0.08, C:0.30, G:0.17, T:0.45
Consensus pattern (36 bp):
GAGCAGGATGCCTTTTCCTTTTTCCTTTGCCCTCTT
Found at i:996717 original size:41 final size:41
Alignment explanation
Indices: 996585--996900 Score: 204
Period size: 41 Copynumber: 7.8 Consensus size: 41
996575 ATGCCTTTTT
* * * *
996585 CTTTTTCCTTTGTCCTCAAAGAGTAGGACACATTTCATTTTC
1 CTTTTTCCTTTGTCCTCAAAGAGCATGACGCATTT-AATTTC
* * * * **
996627 TTCTTTTCCATTTTGTCCTCGAAGAGCATGATGCTTTTTTTTTC
1 CT-TTTTCC--TTTGTCCTCAAAGAGCATGACGCATTTAATTTC
* * *
996671 TTTTTTCCTCTGTCCTCAAAGAGCAAGACGCACTTT-ATTTC
1 CTTTTTCCTTTGTCCTCAAAGAGCATGACGCA-TTTAATTTC
** * * *
996712 CTTTTT--TTCCTTCT-ATAG-G-ATG-CAC-TTT-ATTCTC
1 CTTTTTCCTTTGTCCTCAAAGAGCATGACGCATTTAATT-TC
*
996746 CTTTTTCCTTTGTCCTCAGAA-AGCATGACACATTTAATTTC
1 CTTTTTCCTTTGTCCTCA-AAGAGCATGACGCATTTAATTTC
* * * *
996787 CTTTTTCCTTTGTCTTCAAAGGGCAAGATGCATTTAATTTC
1 CTTTTTCCTTTGTCCTCAAAGAGCATGACGCATTTAATTTC
* * * *
996828 CTTTTTTCCTTAGTCCCCAAAGAGCATGACCCATTTCATTCTC
1 C-TTTTTCCTTTGTCCTCAAAGAGCATGACGCATTTAATT-TC
** *
996871 C-TTTTCCTTAATCCTCAAAGAGCAGGACGC
1 CTTTTTCCTTTGTCCTCAAAGAGCATGACGC
996901 CTCCTTCCTT
Statistics
Matches: 214, Mismatches: 43, Indels: 35
0.73 0.15 0.12
Matches are distributed among these distances:
33 6 0.03
34 8 0.04
35 2 0.01
36 7 0.03
37 2 0.01
38 5 0.02
39 7 0.03
40 5 0.02
41 92 0.43
42 37 0.17
43 15 0.07
44 7 0.03
45 21 0.10
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (41 bp):
CTTTTTCCTTTGTCCTCAAAGAGCATGACGCATTTAATTTC
Found at i:996889 original size:83 final size:83
Alignment explanation
Indices: 996730--996890 Score: 195
Period size: 83 Copynumber: 1.9 Consensus size: 83
996720 CCTTCTATAG
* *
996730 GATGCACTTTATTCTCCTTTTTCCTTTGTCCTCAGAAAGCATGACACATTTAATTTCCTTTTTCC
1 GATGCACTTTATTCTCCTTTTTCCTTAGTCCCCAGAAAGCATGACACATTTAATTTCCTTTTTCC
** *
996795 TTTGTCTTCAAAGGGCAA
66 TTAATCCTCAAAGGGCAA
* *
996813 GATGCA-TTTAATT-TCCTTTTTTCCTTAGTCCCCA-AAGAGCATGACCCATTTCATTCTCC-TT
1 GATGCACTTT-ATTCTCC-TTTTTCCTTAGTCCCCAGAA-AGCATGACACATTTAATT-TCCTTT
996874 TTCCTTAATCCTCAAAG
62 TTCCTTAATCCTCAAAG
996891 AGCAGGACGC
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
82 8 0.12
83 56 0.84
84 3 0.04
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.41
Consensus pattern (83 bp):
GATGCACTTTATTCTCCTTTTTCCTTAGTCCCCAGAAAGCATGACACATTTAATTTCCTTTTTCC
TTAATCCTCAAAGGGCAA
Found at i:997510 original size:13 final size:13
Alignment explanation
Indices: 997494--997519 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
997484 ATACATTGTT
997494 CATTGTATCGATA
1 CATTGTATCGATA
997507 CATTGTATCGATA
1 CATTGTATCGATA
997520 TATTCAGGCA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Done.